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The Macaque Genotype And Phenotype Resource (mGAP)

National Nonhuman Primate DNA Bank

BALDR – BCR Assignment of Lineage by De novo Reconstruction

Ancestry Informative Marker and Genetic Management Panels for Rhesus Macaque

Genetic Management of Nonhuman Primate Colonies

Publications by GGWG Members

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2020

Cole SA, Laviada-Molina HA, Serres-Perales JM, Rodriguez-Ayala E, Bastarrachea RA
The COVID-19 Pandemic during the Time of the Diabetes Pandemic: Likely Fraternal Twins?
Pathogens. 2020 May 19;9(5). pii: pathogens9050389. doi:10.3390/pathogens9050389. 2020.

Johnson AL, Peterson SM, Terry MML, Ferguson B, Colgin LM, Lewis AD
Spontaneous KRT5 Gene Mutation in Rhesus Macaques (Macaca mulatta): A NovelNonhuman Primate Model of Epidermolysis Bullosa Simplex.
Vet Pathol. 2020 Feb 25:300985819900354. doi: 10.1177/0300985819900354. 2020.

Mavigner M, Habib J, Deleage C, Rosen E, Mattingly C, Bricker K, Kashuba A, Amblard F, Schinazi RF, Lawson B, Vanderford TH, Jean S, Cohen J, McGary C, Paiardini M, Wood MP, Sodora DL, Silvestri G, Estes J, Chahroudi A
Correction for Mavigner et al., 'Simian Immunodeficiency Virus Persistence inCellular and Anatomic Reservoirs in Antiretroviral Therapy-Suppressed Infant Rhesus Macaques'.
J Virol. 2020 Mar 31;94(8). pii: 94/8/e01742-19. doi: 10.1128/JVI.01742-19. Print2020 Mar 31. 2020.

Raper J, Kovacs-Balint Z, Mavigner M, Gumber S, Burke MW, Habib J, Mattingly C, Fair D, Earl E, Feczko E, Styner M, Jean SM, Cohen JK, Suthar MS, Sanchez MM, Alvarado MC, Chahroudi A
Long-term alterations in brain and behavior after postnatal Zika virus infection in infant macaques.
Nat Commun. 2020 May 21;11(1):2534. doi: 10.1038/s41467-020-16320-7. 2020.

Shortreed CG, Wiseman RW, Karl JA, Bussan HE, Baker DA, Prall TM, Haj AK, Moreno GK, Penedo MCT, O'Connor DH
Characterization of 100 extended major histocompatibility complex haplotypes inIndonesian cynomolgus macaques.
Immunogenetics. 2020 Feb 29. pii: 10.1007/s00251-020-01159-5. doi:10.1007/s00251-020-01159-5. 2020.

Zhang X, Hutchins SD, Blough BE, Vallender EJ
In Vitro Effects of Ligand Bias on Primate Mu Opioid Receptor DownstreamSignaling.
Int J Mol Sci. 2020 Jun 3;21(11). pii: ijms21113999. doi: 10.3390/ijms21113999. 2020.

2019

Abbott DH, Rogers J, Dumesic DA, Levine JE
Naturally Occurring and Experimentally Induced Rhesus Macaque Models forPolycystic Ovary Syndrome: Translational Gateways to Clinical Application.
Med Sci (Basel). 2019 Nov 27;7(12). pii: medsci7120107. doi:10.3390/medsci7120107. 2019.

Ackerley CG, Billingsley JM, Tharp G, Amancha PK, Tangpricha V, Smith SA, Amara R, Bosinger S, Kelley C
Transgender Women on Feminizing Hormone Therapy Demonstrate a Distinct RectalMucosal Transcriptome from Cisgender Men.
AIDS Res Hum Retroviruses. 2020 Jul 1. doi: 10.1089/AID.2020.0061. 2020.

Aid M, Ram DR, Bosinger SE, Barouch DH, Reeves RK
Delineation and Modulation of the Natural Killer Cell Transcriptome in RhesusMacaques During ZIKV and SIV Infections.
Front Cell Infect Microbiol. 2020 Apr 29;10:194. doi: 10.3389/fcimb.2020.00194.eCollection 2020. 2020.

Bimber BN, Yan MY, Peterson SM, Ferguson B
mGAP: the macaque genotype and phenotype resource, a framework for accessing and interpreting macaque variant data, and identifying new models of human disease.
BMC Genomics. 2019 Mar 6;20(1):176. doi: 10.1186/s12864-019-5559-7. 2019.

Brown CJ, Mtui D, Oswald BP, Van Leuven JT, Vallender EJ, Schultz-Darken N, Ross CN, Tardif SD, Austad SN, Forney LJ
Comparative genomics of Bifidobacterium species isolated from marmosets andhumans.
Am J Primatol. 2019 May 6:e983. doi: 10.1002/ajp.22983. 2019.

Carbone L, Davis BA, Fei SS, White A, Nevonen KA, Takahashi D, Vinson A, True C, Roberts CT Jr, Varlamov O
Synergistic Effects of Hyperandrogenemia and Obesogenic Western-style Diet onTranscription and DNA Methylation in Visceral Adipose Tissue of Nonhuman Primates.
Sci Rep. 2019 Dec 17;9(1):19232. doi: 10.1038/s41598-019-55291-8. 2019.

Caskey JR, Wiseman RW, Karl JA, Baker DA, Lee T, Maddox RJ, Raveendran M, Harris RA, Hu J, Muzny DM, Rogers J, O'Connor DH
MHC genotyping from rhesus macaque exome sequences.
Immunogenetics. 2019 Sep;71(8-9):531-544. doi: 10.1007/s00251-019-01125-w. Epub2019 Jul 18. 2019.

Cirelli KM, Carnathan DG, Nogal B, Martin JT, Rodriguez OL, Upadhyay AA, Enemuo CA, Gebru EH, Choe Y, Viviano F, Nakao C, Pauthner MG, Reiss S, Cottrell CA, Smith ML, Bastidas R, Gibson W, Wolabaugh AN, Melo MB, Cossette B, Kumar V, Patel NB, Tokatlian T, Menis S, Kulp DW, Burton DR, Murrell B, Schief WR, Bosinger SE, Ward AB, Watson CT, Silvestri G, Irvine DJ, Crotty S
Slow Delivery Immunization Enhances HIV Neutralizing Antibody and Germinal CenterResponses via Modulation of Immunodominance.
Cell. 2019 May 16;177(5):1153-1171.e28. doi: 10.1016/j.cell.2019.04.012. Epub2019 May 9. 2019.

Cordy RJ, Patrapuvich R, Lili LN, Cabrera-Mora M, Chien JT, Tharp GK, Khadka M, Meyer EV, Lapp SA, Joyner CJ, Garcia A, Banton S, Tran V, Luvira V, Rungin S, Saeseu T, Rachaphaew N, Pakala SB, DeBarry JD, Kissinger JC, Ortlund EA, Bosinger SE, Barnwell JW, Jones DP, Uppal K, Li S, Sattabongkot J, Moreno A, Galinski MR
Distinct amino acid and lipid perturbations characterize acute versus chronicmalaria.
JCI Insight. 2019 May 2;4(9). pii: 125156. doi: 10.1172/jci.insight.125156.eCollection 2019 May 2. 2019.

Cuzon Carlson VC, Ford MM, Carlson TL, Lomniczi A, Grant KA, Ferguson B, Cervera-Juanes RP
Modulation of Gpr39, a G-protein coupled receptor associated with alcohol use in non-human primates, curbs ethanol intake in mice.
Neuropsychopharmacology. 2019 May;44(6):1103-1113. doi:10.1038/s41386-018-0308-1. Epub 2019 Jan 5. 2019.

Ezzelarab MB, Perez-Gutierrez A, Humar A, Wijkstrom M, Zahorchak AF, Lu-Casto L, Wang YC, Wiseman RW, Minervini M, Thomson AW
Preliminary assessment of the feasibility of autologous myeloid-derivedsuppressor cell infusion in non-human primate kidney transplantation.
Transpl Immunol. 2019 Oct;56:101225. doi: 10.1016/j.trim.2019.101225. Epub 2019Jul 19. 2019.

Hagan T, Cortese M, Rouphael N, Boudreau C, Linde C, Maddur MS, Das J, Wang H, Guthmiller J, Zheng NY, Huang M, Uphadhyay AA, Gardinassi L, Petitdemange C, McCullough MP, Johnson SJ, Gill K, Cervasi B, Zou J, Bretin A, Hahn M, Gewirtz AT, Bosinger SE, Wilson PC, Li S, Alter G, Khurana S, Golding H, Pulendran B
Antibiotics-Driven Gut Microbiome Perturbation Alters Immunity to Vaccines inHumans.
Cell. 2019 Sep 5;178(6):1313-1328.e13. doi: 10.1016/j.cell.2019.08.010. 2019.

Haj AK, Arbanas JM, Yamniuk AP, Karl JA, Bussan HE, Drinkwater KY, Graham ME, Ericsen AJ, Prall TM, Moore K, Cheng L, Gao M, Graziano RF, Loffredo JT, Wiseman RW, O'Connor DH
Characterization of Mauritian Cynomolgus Macaque FcgammaR Alleles Using Long-ReadSequencing.
J Immunol. 2019 Jan 1;202(1):151-159. doi: 10.4049/jimmunol.1800843. Epub 2018Dec 10. 2019.

Kanthaswamy S, Oldt RF, Montes M, Falak A
Comparing two commercial domestic dog (Canis familiaris) STR genotyping kits for forensic identity calculations in a mixed-breed dog population sample.
Anim Genet. 2019 Feb;50(1):105-111. doi: 10.1111/age.12758. Epub 2018 Dec 28. 2019.

Kanthaswamy S, Oldt RF, Said R, Grijalva J, Falak A, Jensen A, Vizor C, Houghton P, Bunlungsup S, Malaivijitnond S, Smith DG
Partial sequence analyses of exon 7 of the ABO locus of cynomolgus (Macacafascicularis) and rhesus (M. mulatta) macaques: Indeterminate phenotypes show the presence of the O blood group.
HLA. 2019 Aug 25. doi: 10.1111/tan.13675. 2019.

Keller MJ, Wood L, Billingsley JM, Ray LL, Goymer J, Sinclair S, McGinn AP, Marzinke MA, Frank B, Srinivasan S, Liu C, Atrio JM, Espinoza L, Mugo N, Spiegel HML, Anderson PL, Fredricks DN, Hendrix CW, Marrazzo J, Bosinger SE, Herold BC
Tenofovir disoproxil fumarate intravaginal ring for HIV pre-exposure prophylaxis in sexually active women: a phase 1, single-blind, randomised, controlled trial.
Lancet HIV. 2019 Aug;6(8):e498-e508. doi: 10.1016/S2352-3018(19)30145-6. Epub2019 Jul 15. 2019.

Leung ET, Raboin MJ, McKelvey J, Graham A, Lewis A, Prongay K, Cohen AM, Vinson A
Modelling disease risk for amyloid A (AA) amyloidosis in non-human primates usingmachine learning.
Amyloid. 2019 Sep;26(3):139-147. doi: 10.1080/13506129.2019.1625038. Epub 2019Jun 18. 2019.

Mavigner M, Habib J, Deleage C, Rosen E, Mattingly C, Bricker K, Kashuba A, Amblard F, Schinazi RF, Lawson B, Vanderford TH, Jean S, Cohen J, McGary C, Paiardini M, Wood MP, Sodora DL, Silvestri G, Estes J, Chahroudi A
Correction for Mavigner et al., 'Simian Immunodeficiency Virus Persistence inCellular and Anatomic Reservoirs in Antiretroviral Therapy-Suppressed Infant Rhesus Macaques'.
J Virol. 2019 Jan 17;93(3). pii: 93/3/e01814-18. doi: 10.1128/JVI.01814-18. Print2019 Feb 1. 2019.

Mavigner M, Zanoni M, Tharp GK, Habib J, Mattingly CR, Lichterfeld M, Nega MT, Vanderford TH, Bosinger SE, Chahroudi A
Pharmacological modulation of the Wnt/beta-catenin pathway inhibits proliferationand promotes differentiation of long-lived memory CD4(+) T-cells in ART-suppressed SIV-infected macaques.
J Virol. 2019 Oct 16. pii: JVI.01094-19. doi: 10.1128/JVI.01094-19. 2019.

McBrien JB, Mavigner M, Franchitti L, Smith SA, White E, Tharp GK, Walum H, Busman-Sahay K, Aguilera-Sandoval CR, Thayer WO, Spagnuolo RA, Kovarova M, Wahl A, Cervasi B, Margolis DM, Vanderford TH, Carnathan DG, Paiardini M, Lifson JD, Lee JH, Safrit JT, Bosinger SE, Estes JD, Derdeyn CA, Garcia JV, Kulpa DA, Chahroudi A, Silvestri G
Author Correction: Robust and persistent reactivation of SIV and HIV by N-803 anddepletion of CD8(+) cells.
Nature. 2020 Feb 4. pii: 10.1038/s41586-020-2002-9. doi:10.1038/s41586-020-2002-9. 2020.

McBrien JB, Mavigner M, Franchitti L, Smith SA, White E, Tharp GK, Walum H, Busman-Suhay K, Aguilera-Sandoval CR, Thayer WO, Spagnuolo RA, Kovarova M, Wahl A, Cervasi B, Margolis DM, Vanderford TH, Carnathan DG, Paiardini M, Lifson JD, Lee JH, Safrit JT, Bosinger SE, Estes JD, Derdeyn CA, Garcia JV, Kulpa DA, Chahroudi A, Silvestri G
Robust and persistent reactivation of SIV and HIV by N-803 and depletion ofCD8(+) cells.
Nature. 2020 Jan 22. pii: 10.1038/s41586-020-1946-0. doi:10.1038/s41586-020-1946-0. 2020.

Moshiri A, Chen R, Kim S, Harris RA, Li Y, Raveendran M, Davis S, Liang Q, Pomerantz O, Wang J, Garzel L, Cameron A, Yiu G, Stout JT, Huang Y, Murphy CJ, Roberts J, Gopalakrishna KN, Boyd K, Artemyev NO, Rogers J, Thomasy SM
A nonhuman primate model of inherited retinal disease.
J Clin Invest. 2019 Feb 1;129(2):863-874. doi: 10.1172/JCI123980. Epub 2019 Jan22. 2019.

Nixon CC, Mavigner M, Sampey GC, Brooks AD, Spagnuolo RA, Irlbeck DM, Mattingly C, Ho PT, Schoof N, Cammon CG, Tharp GK, Kanke M, Wang Z, Cleary RA, Upadhyay AA, De C, Wills SR, Falcinelli SD, Galardi C, Walum H, Schramm NJ, Deutsch J, Lifson JD, Fennessey CM, Keele BF, Jean S, Maguire S, Liao B, Browne EP, Ferris RG, Brehm JH, Favre D, Vanderford TH, Bosinger SE, Jones CD, Routy JP, Archin NM, Margolis DM, Wahl A, Dunham RM, Silvestri G, Chahroudi A, Garcia JV
Systemic HIV and SIV latency reversal via non-canonical NF-kappaB signalling invivo.
Nature. 2020 Jan 22. pii: 10.1038/s41586-020-1951-3. doi:10.1038/s41586-020-1951-3. 2020.

O'Neal JT, Upadhyay AA, Wolabaugh A, Patel NB, Bosinger SE, Suthar MS
West Nile Virus-Inclusive Single-Cell RNA Sequencing Reveals Heterogeneity in theType I Interferon Response within Single Cells.
J Virol. 2019 Mar 5;93(6). pii: JVI.01778-18. doi: 10.1128/JVI.01778-18. Print2019 Mar 15. 2019.

Oldt RF, Kanthaswamy S, Montes M, Schumann L, Grijalva J, Bunlungsup S, Houghton P, Smith DG, Malaivijitnond S
Population genetics of the ABO locus within the rhesus (Macaca mulatta) andcynomolgus (M. fascicularis) macaque hybrid zone.
Int J Immunogenet. 2019 Feb;46(1):38-48. doi: 10.1111/iji.12405. Epub 2018 Nov 2. 2019.

Oldt RF, Kanthaswamy S
Expanded CODIS STR allele frequencies - Evidence for the irrelevance ofrace-based DNA databases.
Leg Med (Tokyo). 2019 Nov 16;42:101642. doi: 10.1016/j.legalmed.2019.101642. 2019.

Peterson SM, McGill TJ, Puthussery T, Stoddard J, Renner L, Lewis AD, Colgin LMA, Gayet J, Wang X, Prongay K, Cullin C, Dozier B, Ferguson B, Neuringer M
Bardet-Biedl Syndrome in rhesus macaques: A nonhuman primate model of retinitispigmentosa.
Exp Eye Res. 2019 Oct 4:107825. doi: 10.1016/j.exer.2019.107825. 2019.

Pu XA, Young AP, Kubisch HM
Production of Transgenic Mice by Pronuclear Microinjection.
Methods Mol Biol. 2019;1874:17-41. doi: 10.1007/978-1-4939-8831-0_2. 2019.

Raboin MJ, Letaw J, Mitchell AD, Toffey D, McKelvey J, Roberts CT Jr, Curran JE, Vinson A
Genetic Architecture of Human Obesity Traits in the Rhesus Macaque.
Obesity (Silver Spring). 2019 Mar;27(3):479-488. doi: 10.1002/oby.22392. Epub2019 Feb 11. 2019.

Robinson JA, Belsare S, Birnbaum S, Newman DE, Chan J, Glenn JP, Ferguson B, Cox LA, Wall JD
Analysis of 100 high-coverage genomes from a pedigreed captive baboon colony.
Genome Res. 2019 May;29(5):848-856. doi: 10.1101/gr.247122.118. Epub 2019 Mar 29. 2019.

Rodriguez Stewart RM, Berry JTL, Berger AK, Yoon SB, Hirsch AL, Guberman JA, Patel NB, Tharp GK, Bosinger SE, Mainou BA
Enhanced Killing of Triple-Negative Breast Cancer Cells by Reassortant Reovirusand Topoisomerase Inhibitors.
J Virol. 2019 Sep 11. pii: JVI.01411-19. doi: 10.1128/JVI.01411-19. 2019.

Rogers J, Raveendran M, Harris RA, Mailund T, Leppala K, Athanasiadis G, Schierup MH, Cheng J, Munch K, Walker JA, Konkel MK, Jordan V, Steely CJ, Beckstrom TO, Bergey C, Burrell A, Schrempf D, Noll A, Kothe M, Kopp GH, Liu Y, Murali S, Billis K, Martin FJ, Muffato M, Cox L, Else J, Disotell T, Muzny DM, Phillips-Conroy J, Aken B, Eichler EE, Marques-Bonet T, Kosiol C, Batzer MA, Hahn MW, Tung J, Zinner D, Roos C, Jolly CJ, Gibbs RA, Worley KC
The comparative genomics and complex population history of Papio baboons.
Sci Adv. 2019 Jan 30;5(1):eaau6947. doi: 10.1126/sciadv.aau6947. eCollection 2019Jan. 2019.

Shytaj IL, Lucic B, Forcato M, Penzo C, Billingsley J, Laketa V, Bosinger S, Stanic M, Gregoretti F, Antonelli L, Oliva G, Frese CK, Trifunovic A, Galy B, Eibl C, Silvestri G, Bicciato S, Savarino A, Lusic M
Alterations of redox and iron metabolism accompany the development of HIVlatency.
EMBO J. 2020 Mar 11:e102209. doi: 10.15252/embj.2019102209. 2020.

Vallender EJ
Genetics of human brain evolution.
Prog Brain Res. 2019;250:3-39. doi: 10.1016/bs.pbr.2019.01.003. Epub 2019 Feb 26. 2019.

Yan MY, Ferguson B, Bimber BN
VariantQC: a visual quality control report for variant evaluation.
Bioinformatics. 2019 Jul 16. pii: 5532508. doi: 10.1093/bioinformatics/btz560. 2019.

Zhang X, Yasuda K, Gilmore RA, Westmoreland SV, Platt DM, Miller GM, Vallender EJ
Alcohol-induced changes in the gut microbiome and metabolome of rhesus macaques.
Psychopharmacology (Berl). 2019 May;236(5):1531-1544. doi:10.1007/s00213-019-05217-z. Epub 2019 Mar 22. 2019.

2018

Aliota MT, Dudley DM, Newman CM, Weger-Lucarelli J, Stewart LM, Koenig MR, Breitbach ME, Weiler AM, Semler MR, Barry GL, Zarbock KR, Haj AK, Moriarty RV, Mohns MS, Mohr EL, Venturi V, Schultz-Darken N, Peterson E, Newton W, Schotzko ML, Simmons HA, Mejia A, Hayes JM, Capuano S, Davenport MP, Friedrich TC, Ebel GD, O'Connor SL, O'Connor DH
Molecularly barcoded Zika virus libraries to probe in vivo evolutionary dynamics.
PLoS Pathog. 2018 Mar; 14(3): e1006964.

Banerjee P, Ries M, Janaka SK, Grandea AG, Wiseman R, O'Connor DH, Golos TG, Evans DT
Diversification of Bw4 Specificity and Recognition of a Nonclassical MHC Class I Molecule Implicated in Maternal-Fetal Tolerance by Killer Cell Ig-like Receptors of the Rhesus Macaque.
Journal of immunology (Baltimore, Md. : 1950) 2018 Nov; 201(9): 2776-2786.

Bosinger SE, Tharp GK, Patel NB, Zhao C, Payne TL, Dietz Ostergaard S, Butler K, Ellis S, Johnson RL, Kersh EN, McNicholl JM, Vishwanathan SA
Progestin-based contraception regimens modulate expression of putative HIV risk factors in the vaginal epithelium of pig-tailed Macaques.
Am. J. Reprod. Immunol. 2018 Aug; (): e13029.

Carnathan D, Lawson B, Yu J, Patel K, Billingsley JM, Tharp GK, Delmas OM, Dawoud R, Wilkinson P, Nicolette C, Cameron MJ, Sekaly RP, Bosinger SE, Silvestri G, Vanderford TH
Reduced chronic lymphocyte activation following Interferon-α blockade in the acute phase of SIV infection in rhesus macaques.
J. Virol. 2018 Feb; (): .

Chen S, Bastarrachea RA, Shen JS, Laviada-Nagel A, Rodriguez-Ayala E, Nava-Gonzalez EJ, Huang P, DeFronzo RA, Kent JW, Grayburn PA
Ectopic BAT mUCP-1 overexpression in SKM by delivering a BMP7/PRDM16/PGC-1a gene cocktail or single PRMD16 using non-viral UTMD gene therapy.
Gene Ther. 2018 Aug; (): .

Day GQ, Ng J, Oldt RF, Houghton PW, Smith DG, Kanthaswamy S
DNA-based Determination of Ancestry in Cynomolgus Macaques (Macaca fascicularis).
Journal of the American Association for Laboratory Animal Science : JAALAS 2018 Sep; 57(5): 432-442.

Dudley DM, Van Rompay KK, Coffey LL, Ardeshir A, Keesler RI, Bliss-Moreau E, Grigsby PL, Steinbach RJ, Hirsch AJ, MacAllister RP, Pecoraro HL, Colgin LM, Hodge T, Streblow DN, Tardif S, Patterson JL, Tamhankar M, Seferovic M, Aagaard KM, Martín CS, Chiu CY, Panganiban AT, Veazey RS, Wang X, Maness NJ, Gilbert MH, Bohm RP, Adams Waldorf KM, Gale M, Rajagopal L, Hotchkiss CE, Mohr EL, Capuano SV, Simmons HA, Mejia A, Friedrich TC, Golos TG, O'Connor DH
Miscarriage and stillbirth following maternal Zika virus infection in nonhuman primates.
Nat. Med. 2018 Jul; (): .

Ellis-Connell AL, Balgeman AJ, Zarbock KR, Barry G, Weiler A, Egan JO, Jeng EK, Friedrich T, Miller JS, Haase AT, Schacker TW, Wong HC, Rakasz E, O'Connor SL
ALT-803 Transiently Reduces Simian Immunodeficiency Virus Replication in the Absence of Antiretroviral Treatment.
J. Virol. 2018 Feb; 92(3): .

Ellis-Connell AL, Kannal NM, Balgeman AJ, O'Connor SL
Characterization of major histocompatibility complex-related molecule 1 sequence variants in non-human primates.
Immunogenetics 2018 Oct; (): .

Havenar-Daughton C, Sarkar A, Kulp DW, Toy L, Hu X, Deresa I, Kalyuzhniy O, Kaushik K, Upadhyay AA, Menis S, Landais E, Cao L, Diedrich JK, Kumar S, Schiffner T, Reiss SM, Seumois G, Yates JR, Paulson JC, Bosinger SE, Wilson IA, Schief WR, Crotty S
The human naive B cell repertoire contains distinct subclasses for a germline-targeting HIV-1 vaccine immunogen.
Science translational medicine 2018 Jul; 10(448): .

Huot N, Bosinger SE, Paiardini M, Reeves RK, Müller-Trutwin M
Lymph Node Cellular and Viral Dynamics in Natural Hosts and Impact for HIV Cure Strategies.
Frontiers in immunology 2018 05; 9(): 780.

Joas S, Parrish EH, Gnanadurai CW, Lump E, Stürzel CM, Parrish NF, Learn GH, Sauermann U, Neumann B, Rensing KM, Fuchs D, Billingsley JM, Bosinger SE, Silvestri G, Apetrei C, Huot N, Garcia-Tellez T, Müller-Trutwin M, Hotter D, Sauter D, Stahl-Hennig C, Hahn BH, Kirchhoff F
Species-specific host factors rather than virus-intrinsic virulence determine primate lentiviral pathogenicity.
Nat Commun 2018 Apr; 9(1): 1371.

Joganic JL, Willmore KE, Richtsmeier JT, Weiss KM, Mahaney MC, Rogers J, Cheverud JM
Additive genetic variation in the craniofacial skeleton of baboons (genus Papio) and its relationship to body and cranial size.
Am. J. Phys. Anthropol. 2018 Feb; 165(2): 269-285.

Kanthaswamy S, Bales KL
Evaluating the genetic status of a closed colony of titi monkeys (Callicebus cupreus) using multigenerational pedigrees.
J. Med. Primatol. 2018 Feb; (): .

Kanthaswamy S, Ng J, Oldt RF, Phillippi-Falkenstein K, Kubisch HM
SNP-based genetic characterization of the Tulane National Primate Research Center's conventional and specific pathogen-free rhesus macaque (Macaca mulatta) populations.
J. Med. Primatol. 2018 Feb; 47(1): 29-34.

Kanthaswamy S, Oldt RF, Ng J, Smith DG, Martínez MI, Sariol CA
Determination of major histocompatibility class I and class II genetic composition of the Caribbean Primate Center specific pathogen-free rhesus macaque (Macaca mulatta) colony based on massively parallel sequencing.
J. Med. Primatol. 2018 Jul; (): .

Kumar NA, McBrien JB, Carnathan DG, Mavigner M, Mattingly C, White ER, Viviano F, Bosinger SE, Chahroudi A, Silvestri G, Chahroudi A, Silvestri G, Paiardini M, Vanderford TH
Antibody-Mediated CD4 Depletion Induces Homeostatic CD4⁺ T Cell Proliferation without Detectable Virus Reactivation in Antiretroviral Therapy-Treated Simian Immunodeficiency Virus-Infected Macaques.
Journal of virology 2018 Nov; 92(22): .

Magnani DM, Rogers TF, Maness NJ, Grubaugh ND, Beutler N, Bailey VK, Gonzalez-Nieto L, Gutman MJ, Pedreño-Lopez N, Kwal JM, Ricciardi MJ, Myers TA, Julander JG, Bohm RP, Gilbert MH, Schiro F, Aye PP, Blair RV, Martins MA, Falkenstein KP, Kaur A, Curry CL, Kallas EG, Desrosiers RC, Goldschmidt-Clermont PJ, Whitehead SS, Andersen KG, Bonaldo MC, Lackner AA, Panganiban AT, Burton DR, Watkins DI
Fetal demise and failed antibody therapy during Zika virus infection of pregnant macaques.
Nat Commun 2018 Apr; 9(1): 1624.

Mandal P, Feng Y, Lyons JD, Berger SB, Otani S, DeLaney A, Tharp GK, Maner-Smith K, Burd EM, Schaeffer M, Hoffman S, Capriotti C, Roback L, Young CB, Liang Z, Ortlund EA, DiPaolo NC, Bosinger S, Bertin J, Gough PJ, Brodsky IE, Coopersmith CM, Shayakhmetov DM, Mocarski ES
Caspase-8 Collaborates with Caspase-11 to Drive Tissue Damage and Execution of Endotoxic Shock.
Immunity 2018 Jul; 49(1): 42-55.e6.

Mavigner M, Raper J, Kovacs-Balint Z, Gumber S, O'Neal JT, Bhaumik SK, Zhang X, Habib J, Mattingly C, McDonald CE, Avanzato V, Burke MW, Magnani DM, Bailey VK, Watkins DI, Vanderford TH, Fair D, Earl E, Feczko E, Styner M, Jean SM, Cohen JK, Silvestri G, Johnson RP, O'Connor DH, Wrammert J, Suthar MS, Sanchez MM, Alvarado MC, Chahroudi A
Postnatal Zika virus infection is associated with persistent abnormalities in brain structure, function, and behavior in infant macaques.
Sci Transl Med 2018 Apr; 10(435): .

McBride JL, Neuringer M, Ferguson B, Kohama SG, Tagge IJ, Zweig RC, Renner LM, McGill TJ, Stoddard J, Peterson S, Su W, Sherman LS, Domire JS, Ducore RM, Colgin LM, Lewis AD
Discovery of a CLN7 model of Batten disease in non-human primates.
Neurobiology of disease 2018 Jul; 119(): .

Mohr EL, Block LN, Newman CM, Stewart LM, Koenig M, Semler M, Breitbach ME, Teixeira LBC, Zeng X, Weiler AM, Barry GL, Thoong TH, Wiepz GJ, Dudley DM, Simmons HA, Mejia A, Morgan TK, Salamat MS, Kohn S, Antony KM, Aliota MT, Mohns MS, Hayes JM, Schultz-Darken N, Schotzko ML, Peterson E, Capuano S, Osorio JE, O'Connor SL, Friedrich TC, O'Connor DH, Golos TG
Ocular and uteroplacental pathology in a macaque pregnancy with congenital Zika virus infection.
PLoS ONE 2018 ; 13(1): e0190617.

Morgan RA, Karl JA, Bussan HE, Heimbruch KE, O'Connor DH, Dudley DM
Restricted MHC class I A locus diversity in olive and hybrid olive/yellow baboons from the Southwest National Primate Research Center.
Immunogenetics 2018 Mar; (): .

Mylvaganam GH, Chea LS, Tharp GK, Hicks S, Velu V, Iyer SS, Deleage C, Estes JD, Bosinger SE, Freeman GJ, Ahmed R, Amara RR
Combination anti-PD-1 and antiretroviral therapy provides therapeutic benefit against SIV.
JCI Insight 2018 Sep; 3(18): .

Ng J, Oldt RF, Kanthaswamy S
Assessing the FBI's Native American STR database for random match probability calculations.
Leg Med (Tokyo) 2018 Jan; 30(): 52-55.

Nganou-Makamdop K, Billingsley JM, Yaffe Z, O'Connor G, Tharp GK, Ransier A, Laboune F, Matus-Nicodemos R, Lerner A, Gharu L, Robertson JM, Ford ML, Schlapschy M, Kuhn N, Lensch A, Lifson J, Nason M, Skerra A, Schreiber G, Bosinger SE, Douek DC
Type I IFN signaling blockade by a PASylated antagonist during chronic SIV infection suppresses specific inflammatory pathways but does not alter T cell activation or virus replication.
PLoS Pathog. 2018 Aug; 14(8): e1007246.

Oldt RF, Kanthaswamy S, Montes M, Schumann L, Grijalva J, Bunlungsup S, Houghton P, Smith DG, Malaivijitnond S
Population genetics of the ABO locus within the rhesus (Macaca mulatta) and cynomolgus (M. fascicularis) macaque hybrid zone.
Int. J. Immunogenet. 2018 Nov; (): .

Palesch D, Bosinger SE, Mavigner M, Billingsley JM, Carnathan D, Paiardini M, Chahroudi A, Vanderford T, Silvestri G
Short-term pIFN-α2a treatment does not significantly reduce the viral reservoir of SIV-infected, ART-treated rhesus macaques.
Journal of virology 2018 May; (): .

Palesch D, Bosinger SE, Tharp GK, Vanderford TH, Paiardini M, Chahroudi A, Johnson ZP, Kirchhoff F, Hahn BH, Norgren RB, Patel NB, Sodora DL, Dawoud RA, Stewart CB, Seepo SM, Harris RA, Liu Y, Raveendran M, Han Y, English A, Thomas GWC, Hahn MW, Pipes L, Mason CE, Muzny DM, Gibbs RA, Sauter D, Worley K, Rogers J, Silvestri G
Sooty mangabey genome sequence provides insight into AIDS resistance in a natural SIV host.
Nature 2018 Jan; 553(7686): 77-81.

Rodgers MA, Ameel C, Ellis-Connell AL, Balgeman AJ, Maiello P, Barry GL, Friedrich TC, Klein E, O'Connor SL, Scanga CA
Pre-existing SIV Infection Increases Susceptibility to Tuberculosis in Mauritian Cynomolgus Macaques.
Infection and immunity 2018 Sep; (): .

Sutton MS, Ellis-Connell A, Moriarty RV, Balgeman AJ, Gellerup D, Barry G, Weiler AM, Friedrich TC, O'Connor SL
Acute-phase CD4+ T cell responses targeting invariant viral regions are associated with control of live-attenuated simian immunodeficiency virus.
Journal of virology 2018 Aug; (): .

Thomas GWC, Wang RJ, Puri A, Harris RA, Raveendran M, Hughes DST, Murali SC, Williams LE, Doddapaneni H, Muzny DM, Gibbs RA, Abee CR, Galinski MR, Worley KC, Rogers J, Radivojac P, Hahn MW
Reproductive Longevity Predicts Mutation Rates in Primates.
Current biology : CB 2018 Oct; 28(19): 3193-3197.e5.

Upadhyay AA, Kauffman RC, Wolabaugh AN, Cho A, Patel NB, Reiss SM, Havenar-Daughton C, Dawoud RA, Tharp GK, Sanz I, Pulendran B, Crotty S, Lee FE, Wrammert J, Bosinger SE
BALDR: a computational pipeline for paired heavy and light chain immunoglobulin reconstruction in single-cell RNA-seq data.
Genome Med 2018 Mar; 10(1): 20.

Weger-Lucarelli J, Garcia SM, Rückert C, Byas A, O'Connor SL, Aliota MT, Friedrich TC, O'Connor DH, Ebel GD
Using barcoded Zika virus to assess virus population structure in vitro and in Aedes aegypti mosquitoes.
Virology 2018 Jun; 521(): 138-148.

Wu HL, Wiseman RW, Hughes CM, Webb GM, Abdulhaqq SA, Bimber BN, Hammond KB, Reed JS, Gao L, Burwitz BJ, Greene JM, Ferrer F, Legasse AW, Axthelm MK, Park BS, Brackenridge S, Maness NJ, McMichael AJ, Picker LJ, O'Connor DH, Hansen SG, Sacha JB
The Role of MHC-E in T Cell Immunity Is Conserved among Humans, Rhesus Macaques, and Cynomolgus Macaques.
J. Immunol. 2018 01; 200(1): 49-60.

2017

Aliota MT, Bassit L, Bradrick SS, Cox B, Garcia-Blanco MA, Gavegnano C, Friedrich TC, Golos TG, Griffin DE, Haddow AD, Kallas EG, Kitron U, Lecuit M, Magnani DM, Marrs C, Mercer N, McSweegan E, Ng LFP, O'Connor DH, Osorio JE, Ribeiro GS, Ricciardi M, Rossi SL, Saade G, Schinazi RF, Schott-Lerner GO, Shan C, Shi PY, Watkins DI, Vasilakis N, Weaver SC.
Zika in the Americas, year 2: What have we learned? What gaps remain? A report from the Global Virus Network.
Antiviral Res. 2017 Aug; 144(): 223-246.

Bailey AL, Buechler CR, Matson DR, Peterson EJ, Brunner KG, Mohns MS, Breitbach M, Stewart LM, Ericsen AJ, Newman CM, Koenig MR, Mohr E, Tan J, Capuano S, Simmons HA, Yang DT, O'Connor DH.
Pegivirus avoids immune recognition but does not attenuate acute-phase disease in a macaque model of HIV infection.
PLoS Pathog. 2017 Oct; 13(10): e1006692.

Bimber BN, Ramakrishnan R, Cervera-Juanes R, Madhira R, Peterson SM, Norgren RB, Ferguson B.
Whole genome sequencing predicts novel human disease models in rhesus macaques.
Genomics 2017 Jul; 109(3-4): 214-220.

Buechler CR, Bailey AL, Lauck M, Heffron A, Johnson JC, Campos Lawson C, Rogers J, Kuhn JH, O'Connor DH.
Genome Sequence of a Novel Kunsagivirus (Picornaviridae: Kunsagivirus) from a Wild Baboon (Papio cynocephalus).
Genome Announc 2017 May; 5(18): .

Buechler CR, Bailey AL, Weiler AM, Barry GL, Breitbach ME, Stewart LM, Jasinska AJ, Freimer NB, Apetrei C, Phillips-Conroy JE, Jolly CJ, Rogers J, Friedrich TC, O'Connor DH.
Seroprevalence of Zika Virus in Wild African Green Monkeys and Baboons.
mSphere 2017 03; 2(2): .

Bunlungsup S, Kanthaswamy S, Oldt RF, Smith DG, Houghton P, Hamada Y, Malaivijitnond S.
Genetic analysis of samples from wild populations opens new perspectives on hybridization between long-tailed (Macaca fascicularis) and rhesus macaques (Macaca mulatta).
Am. J. Primatol. 2017 Dec; 79(12): .

Burwitz BJ, Wu HL, Abdulhaqq S, Shriver-Munsch C, Swanson T, Legasse AW, Hammond KB, Junell SL, Reed JS, Bimber BN, Greene JM, Webb GM, Northrup M, Laub W, Kievit P, MacAllister R, Axthelm MK, Ducore R, Lewis A, Colgin LMA, Hobbs T, Martin LD, Ferguson B, Thomas CR, Panoskaltsis-Mortari A, Meyers G, Stanton JJ, Maziarz RT, Sacha JB.
Allogeneic stem cell transplantation in fully MHC-matched Mauritian cynomolgus macaques recapitulates diverse human clinical outcomes.
Nat Commun 2017 Nov; 8(1): 1418.

Cervera-Juanes R, Wilhelm LJ, Park B, Grant KA, Ferguson B.
Alcohol-dose-dependent DNA methylation and expression in the nucleus accumbens identifies coordinated regulation of synaptic genes.
Transl Psychiatry 2017 Jan; 7(1): e994.

Chandler CM, Follett ME, Porter NJ, Liang KY, Vallender EJ, Miller GM, Rowlett JK, Platt DM
Persistent negative effects of alcohol drinking on aspects of novelty-directed behavior in male rhesus macaques.
Alcohol 2017 Sep; 63(): 19-26.

Cox LA, Olivier M, Spradling-Reeves K, Karere GM, Comuzzie AG, VandeBerg JL.
Nonhuman Primates and Translational Research-Cardiovascular Disease.
ILAR J 2017 Dec; 58(2): 235-250.

Dudley DM, Newman CM, Lalli J, Stewart LM, Koenig MR, Weiler AM, Semler MR, Barry GL, Zarbock KR, Mohns MS, Breitbach ME, Schultz-Darken N, Peterson E, Newton W, Mohr EL, Capuano Iii S, Osorio JE, O'Connor SL, O'Connor DH, Friedrich TC, Aliota MT.
Infection via mosquito bite alters Zika virus tissue tropism and replication kinetics in rhesus macaques.
Nat Commun 2017 Dec; 8(1): 2096.

Ellis A, Balgeman A, Rodgers M, Updike C, Tomko J, Maiello P, Scanga CA, O'Connor SL.
Characterization of T Cells Specific for CFP-10 and ESAT-6 in Mycobacterium tuberculosis-Infected Mauritian Cynomolgus Macaques.
Infect. Immun. 2017 Apr; 85(4): .

Holman N, Weinfurter JT, Harsla TR, Wiseman RW, Belli AJ, Michaels AJ, Reimann KA, DeMars RI, Reynolds MR.
Isolation of a monoclonal antibody from a phage display library binding the rhesus macaque MHC class I allomorph Mamu-A1*001.
PLoS ONE 2017 ; 12(7): e0179039.

Kanthaswamy S, Ng J, Oldt RF, Phillippi-Falkenstein K, Kubisch HM.
SNP-based genetic characterization of the Tulane National Primate Research Center's conventional and specific pathogen-free rhesus macaque (Macaca mulatta) populations.
J. Med. Primatol. 2017 Jun; (): .

Karl JA, Graham ME, Wiseman RW, Heimbruch KE, Gieger SM, Doxiadis GG, Bontrop RE, O'Connor DH.
Major histocompatibility complex haplotyping and long-amplicon allele discovery in cynomolgus macaques from Chinese breeding facilities.
Immunogenetics 2017 Apr; 69(4): 211-229.

Kasturi SP, Kozlowski PA, Nakaya HI, Burger MC, Russo P, Pham M, Kovalenkov Y, Silveira EL, Havenar-Daughton C, Burton SL, Kilgore KM, Johnson MJ, Nabi R, Legere T, Sher ZJ, Chen X, Amara RR, Hunter E, Bosinger SE, Spearman P, Crotty S, Villinger F, Derdeyn CA, Wrammert J, Pulendran B.
Adjuvanting a Simian Immunodeficiency Virus Vaccine with Toll-Like Receptor Ligands Encapsulated in Nanoparticles Induces Persistent Antibody Responses and Enhanced Protection in TRIM5α Restrictive Macaques.
J. Virol. 2017 Feb; 91(4): .

Lewis HC, Chinnadurai R, Bosinger SE, Galipeau J.
The IDO inhibitor 1-methyl tryptophan activates the aryl hydrocarbon receptor response in mesenchymal stromal cells.
Oncotarget 2017 Nov; 8(54): 91914-91927.

Mahaney MC, Karere GM, Rainwater DL, Voruganti VS, Dick EJ, Owston MA, Rice KS, Cox LA, Comuzzie AG, VandeBerg JL.
Diet-induced early-stage atherosclerosis in baboons: Lipoproteins, atherogenesis, and arterial compliance.
J. Med. Primatol. 2017 Jun; (): .

Moncla LH, Weiler AM, Barry G, Weinfurter JT, Dinis JM, Charlier O, Lauck M, Bailey AL, Wahl-Jensen V, Nelson CW, Johnson JC, Caì Y, Goldberg TL, O'Connor DH, Jahrling PB, Kuhn JH, Friedrich TC.
Within-Host Evolution of Simian Arteriviruses in Crab-Eating Macaques.
J. Virol. 2017 Feb; 91(4): .

Mylvaganam GH, Rios D, Abdelaal HM, Iyer S, Tharp G, Mavinger M, Hicks S, Chahroudi A, Ahmed R, Bosinger SE, Williams IR, Skinner PJ, Velu V, Amara RR.
Dynamics of SIV-specific CXCR5+ CD8 T cells during chronic SIV infection.
Proc. Natl. Acad. Sci. U.S.A. 2017 02; 114(8): 1976-1981.

Newman CM, Dudley DM, Aliota MT, Weiler AM, Barry GL, Mohns MS, Breitbach ME, Stewart LM, Buechler CR, Graham ME, Post J, Schultz-Darken N, Peterson E, Newton W, Mohr EL, Capuano S, O'Connor DH, Friedrich TC.
Oropharyngeal mucosal transmission of Zika virus in rhesus macaques.
Nat Commun 2017 08; 8(1): 169.

Newman C, Friedrich TC, O'Connor DH.
Macaque monkeys in Zika virus research: 1947-present.
Curr Opin Virol 2017 Aug; 25(): 34-40.

Nguyen SM, Antony KM, Dudley DM, Kohn S, Simmons HA, Wolfe B, Salamat MS, Teixeira LBC, Wiepz GJ, Thoong TH, Aliota MT, Weiler AM, Barry GL, Weisgrau KL, Vosler LJ, Mohns MS, Breitbach ME, Stewart LM, Rasheed MN, Newman CM, Graham ME, Wieben OE, Turski PA, Johnson KM, Post J, Hayes JM, Schultz-Darken N, Schotzko ML, Eudailey JA, Permar SR, Rakasz EG, Mohr EL, Capuano S, Tarantal AF, Osorio JE, O'Connor SL, Friedrich TC, O'Connor DH, Golos TG.
Highly efficient maternal-fetal Zika virus transmission in pregnant rhesus macaques.
PLoS Pathog. 2017 May; 13(5): e1006378.

Prall TM, Graham ME, Karl JA, Wiseman RW, Ericsen AJ, Raveendran M, Alan Harris R, Muzny DM, Gibbs RA, Rogers J, O'Connor DH.
Improved full-length killer cell immunoglobulin-like receptor transcript discovery in Mauritian cynomolgus macaques.
Immunogenetics 2017 May; 69(5): 325-339.

Proffitt JM, Glenn J, Cesnik AJ, Jadhav A, Shortreed MR, Smith LM, Kavanagh K, Cox LA, Olivier M.
Proteomics in non-human primates: utilizing RNA-Seq data to improve protein identification by mass spectrometry in vervet monkeys.
BMC Genomics 2017 Nov; 18(1): 877.

Ries M, Reynolds MR, Bashkueva K, Crosno K, Capuano S, Prall TM, Wiseman R, O'Connor DH, Rakasz EG, Uno H, Lifson JD, Evans DT.
KIR3DL01 upregulation on gut natural killer cells in response to SIV infection of KIR- and MHC class I-defined rhesus macaques.
PLoS Pathog. 2017 Jul; 13(7): e1006506.

Semler MR, Wiseman RW, Karl JA, Graham ME, Gieger SM, O'Connor DH.
Novel full-length major histocompatibility complex class I allele discovery and haplotype definition in pig-tailed macaques.
Immunogenetics 2017 Nov; (): .

Shorey-Kendrick LE, McEvoy CT, Ferguson B, Burchard J, Park BS, Gao L, Vuylsteke BH, Milner KF, Morris CD, Spindel ER.
Vitamin C Prevents Offspring DNA Methylation Changes Associated with Maternal Smoking in Pregnancy.
Am. J. Respir. Crit. Care Med. 2017 Sep; 196(6): 745-755.

Short JD, Tavakoli S, Nguyen HN, Carrera A, Farnen C, Cox LA, Asmis R.
Dyslipidemic Diet-Induced Monocyte "Priming" and Dysfunction in Non-Human Primates Is Triggered by Elevated Plasma Cholesterol and Accompanied by Altered Histone Acetylation.
Front Immunol 2017 ; 8(): 958.

Sinclair C, Bommakanti G, Gardinassi L, Loebbermann J, Johnson MJ, Hakimpour P, Hagan T, Benitez L, Todor A, Machiah D, Oriss T, Ray A, Bosinger S, Ravindran R, Li S, Pulendran B.
mTOR regulates metabolic adaptation of APCs in the lung and controls the outcome of allergic inflammation.
Science 2017 09; 357(6355): 1014-1021.

Spradling-Reeves KD, Shade RE, Haywood JR, Cox LA.
Primate response to angiotensin infusion and high sodium intake differ by sodium lithium countertransport phenotype.
J Am Soc Hypertens 2017 Mar; 11(3): 178-184.

Sweeney CG, Rando JM, Panas HN, Miller GM, Platt DM, Vallender EJ.
Convergent Balancing Selection on the Mu-Opioid Receptor in Primates.
Mol. Biol. Evol. 2017 Jul; 34(7): 1629-1643.

Vallender EJ, Goswami DB, Shinday NM, Westmoreland SV, Yao WD, Rowlett JK.
Transcriptomic profiling of the ventral tegmental area and nucleus accumbens in rhesus macaques following long-term cocaine self-administration.
Drug Alcohol Depend 2017 Jun; 175(): 9-23.

Wu HL, Wiseman RW, Hughes CM, Webb GM, Abdulhaqq SA, Bimber BN, Hammond KB, Reed JS, Gao L, Burwitz BJ, Greene JM, Ferrer F, Legasse AW, Axthelm MK, Park BS, Brackenridge S, Maness NJ, McMichael AJ, Picker LJ, O'Connor DH, Hansen SG, Sacha JB.
The Role of MHC-E in T Cell Immunity Is Conserved among Humans, Rhesus Macaques, and Cynomolgus Macaques.
J. Immunol. 2018 Jan; 200(1): 49-60.

Zhang X, Kanthaswamy S, Trask JS, Ng J, Oldt RF, Mankowski JL, Adams RJ, Smith DG.
Genetic Characterization of a Captive Colony of Pigtailed Macaques (Macaca nemestrina).
J. Am. Assoc. Lab. Anim. Sci. 2017 Jul; 56(4): 390-395.

Zhang X, Meng Y, Houghton P, Liu M, Kanthaswamy S, Oldt R, Ng J, Trask JS, Huang R, Singh B, Du H, Smith DG.
Ancestry, Plasmodium cynomolgi prevalence and rhesus macaque admixture in cynomolgus macaques (Macaca fascicularis) bred for export in Chinese breeding farms.
J. Med. Primatol. 2017 Apr; 46(2): 31-41.

2016

Aliota MT, Dudley DM, Newman CM, Mohr EL, Gellerup DD, Breitbach ME, Buechler CR, Rasheed MN, Mohns MS, Weiler AM, Barry GL, Weisgrau KL, Eudailey JA, Rakasz EG, Vosler LJ, Post J, Capuano S, Golos TG, Permar SR, Osorio JE, Friedrich TC, O'Connor SL, O'Connor DH.
Heterologous Protection against Asian Zika Virus Challenge in Rhesus Macaques.
PLoS Negl Trop Dis 2016 Dec; 10(12): e0005168.

Arias JF, Colomer-Lluch M, von Bredow B, Greene JM, MacDonald J, O'Connor DH, Serra-Moreno R, Evans DT.
Tetherin Antagonism by HIV-1 Group M Nef Proteins.
J. Virol. 2016 Sep; (): .

Atkinson EG, Rogers J, Cheverud JM.
Evolutionary and developmental implications of asymmetric brain folding in a large primate pedigree.
Evolution 2016 Mar; 70(3): 707-15.

Ayala VI, Trivett MT, Coren LV, Jain S, Bohn PS, Wiseman RW, O'Connor DH, Ohlen C, Ott DE.
A novel SIV gag-specific CD4(+)T-cell clone suppresses SIVmac239 replication in CD4(+)T cells revealing the interplay between antiviral effector cells and their infected targets.
Virology 2016 Jun; 493(): 100-12.

Bailey AL, Lauck M, Ghai RR, Nelson CW, Heimbruch K, Hughes AL, Goldberg TL, Kuhn JH, Jasinska AJ, Freimer NB, Apetrei C, O'Connor DH.
Arteriviruses, Pegiviruses, and Lentiviruses Are Common among Wild African Monkeys.
J. Virol. 2016 Aug; 90(15): 6724-37.

Bakken TE, Miller JA, Ding SL, Sunkin SM, Smith KA, Ng L, Szafer A, Dalley RA, Royall JJ, Lemon T, Shapouri S, Aiona K, Arnold J, Bennett JL, Bertagnolli D, Bickley K, Boe A, Brouner K, Butler S, Byrnes E, Caldejon S, Carey A, Cate S, Chapin M, Chen J, Dee N, Desta T, Dolbeare TA, Dotson N, Ebbert A, Fulfs E, Gee G, Gilbert TL, Goldy J, Gourley L, Gregor B, Gu G, Hall J, Haradon Z, Haynor DR, Hejazinia N, Hoerder-Suabedissen A, Howard R, Jochim J, Kinnunen M, Kriedberg A, Kuan CL, Lau C, Lee CK, Lee F, Luong L, Mastan N, May R, Melchor J, Mosqueda N, Mott E, Ngo K, Nyhus J, Oldre A, Olson E, Parente J, Parker PD, Parry S, Pendergraft J, Potekhina L, Reding M, Riley ZL, Roberts T, Rogers B, Roll K, Rosen D, Sandman D, Sarreal M, Shapovalova N, Shi S, Sjoquist N, Sodt AJ, Townsend R, Velasquez L, Wagley U, Wakeman WB, White C, Bennett C, Wu J, Young R, Youngstrom BL, Wohnoutka P, Gibbs RA, Rogers J, Hohmann JG, Hawrylycz MJ, Hevner RF, Molnár Z, Phillips JW, Dang C, Jones AR, Amaral DG, Bernard A, Lein ES.
A comprehensive transcriptional map of primate brain development.
Nature 2016 07; 535(7612): 367-75.

Band VI, Crispell EK, Napier BA, Herrera CM, Tharp GK, Vavikolanu K, Pohl J, Read TD, Bosinger SE, Trent MS, Burd EM, Weiss DS.
Antibiotic failure mediated by a resistant subpopulation in Enterobacter cloacae.
Nat Microbiol 2016 May; 1(6): 16053.

Bimber BN, Raboin MJ, Letaw J, Nevonen KA, Spindel JE, McCouch SR, Cervera-Juanes R, Spindel E, Carbone L, Ferguson B, Vinson A.
Whole-genome characterization in pedigreed non-human primates using genotyping-by-sequencing (GBS) and imputation.
BMC Genomics 2016 Aug; 17(): 676.

Blair TC, Manoharan M, Rawlings-Rhea SD, Tagge I, Kohama SG, Hollister-Smith J, Ferguson B, Woltjer RL, Frederick MC, Pollaro J, Rooney WD, Sherman LS, Bourdette DN, Wong SW.
Immunopathology of Japanese macaque encephalomyelitis is similar to multiple sclerosis.
J. Neuroimmunol. 2016 Feb; 291(): 1-10.

Calascibetta F, Micci L, Carnathan D, Lawson B, Vanderford TH, Bosinger SE, Easley K, Chahroudi A, Mackel J, Keele BF, Long S, Lifson J, Paiardini M, Silvestri G.
Antiretroviral Therapy in Simian Immunodeficiency Virus-Infected Sooty Mangabeys: Implications for AIDS Pathogenesis.
J. Virol. 2016 Aug; 90(16): 7541-51.

Cartwright EK, Spicer L, Smith SA, Lee D, Fast R, Paganini S, Lawson BO, Nega M, Easley K, Schmitz JE, Bosinger SE, Paiardini M, Chahroudi A, Vanderford TH, Estes JD, Lifson JD, Derdeyn CA, Silvestri G.
CD8(+) Lymphocytes Are Required for Maintaining Viral Suppression in SIV-Infected Macaques Treated with Short-Term Antiretroviral Therapy.
Immunity 2016 Sep; 45(3): 656-68.

Cervera-Juanes R, Wilhelm LJ, Park B, Grant KA, Ferguson B.
Genome-wide analysis of the nucleus accumbens identifies DNA methylation signals differentiating low/binge from heavy alcohol drinking.
Alcohol 2016 Nov; (): .

Cervera-Juanes R, Wilhem LJ, Park B, Lee R, Locke J, Helms C, Gonzales S, Wand G, Jones SR, Grant KA, Ferguson B.
MAOA expression predicts vulnerability for alcohol use.
Mol. Psychiatry 2016 Apr; 21(4): 472-9.

Dudley DM, Aliota MT, Mohr EL, Weiler AM, Lehrer-Brey G, Weisgrau KL, Mohns MS, Breitbach ME, Rasheed MN, Newman CM, Gellerup DD, Moncla LH, Post J, Schultz-Darken N, Schotzko ML, Hayes JM, Eudailey JA, Moody MA, Permar SR, O'Connor SL, Rakasz EG, Simmons HA, Capuano S, Golos TG, Osorio JE, Friedrich TC, O'Connor DH.
A rhesus macaque model of Asian-lineage Zika virus infection.
Nat Commun 2016 Jun; 7(): 12204.

Ericsen AJ, Lauck M, Mohns MS, DiNapoli SR, Mutschler JP, Greene JM, Weinfurter JT, Lehrer-Brey G, Prall TM, Gieger SM, Buechler CR, Crosno KA, Peterson EJ, Reynolds MR, Wiseman RW, Burwitz BJ, Estes JD, Sacha JB, Friedrich TC, Brenchley JM, O'Connor DH.
Microbial Translocation and Inflammation Occur in Hyperacute Immunodeficiency Virus Infection and Compromise Host Control of Virus Replication.
PLoS Pathog. 2016 Dec; 12(12): e1006048.

Ezzelarab MB, Raich-Regue D, Lu L, Zahorchak AF, Perez-Gutierrez A, Humar A, Wijkstrom M, Minervini M, Wiseman RW, Cooper DK, Morelli AE, Thomson AW.
Renal Allograft Survival in Nonhuman Primates Infused With Donor Antigen-Pulsed Autologous Regulatory Dendritic Cells.
Am. J. Transplant. 2016 Dec; (): .

Ezzelarab MB, Zhang H, Guo H, Lu L, Zahorchak AF, Wiseman RW, Nalesnik MA, Bhama JK, Cooper DK, Thomson AW.
Regulatory T Cell Infusion Can Enhance Memory T Cell and Alloantibody Responses in Lymphodepleted Nonhuman Primate Heart Allograft Recipients.
Am. J. Transplant. 2016 Jul; 16(7): 1999-2015.

Fourie NH, Brown JL, Jolly CJ, Phillips-Conroy JE, Rogers J, Bernstein RM.
Sources of variation in hair cortisol in wild and captive non-human primates.
Zoology (Jena). 2016 Apr;119(2):119-25. doi: 10.1016/j.zool.2016.01.001. Epub 2016 Feb 2.

Hasan MK, Feeroz MM, Jones-Engel L, Engel GA, Akhtar S, Kanthaswamy S, Smith DG.
Performing monkeys of Bangladesh: characterizing their source and genetic variation.
Primates 2016 Apr; 57(2): 221-30.

Higgins PB, Shade RE, Rodríguez-Sánchez IP, Garcia-Forey M, Tejero ME, Voruganti VS, Cole SA, Comuzzie AG, Folli F.
Central GIP signaling stimulates peripheral GIP release and promotes insulin and pancreatic polypeptide secretion in nonhuman primates.
Am. J. Physiol. Endocrinol. Metab. 2016 Oct; 311(4): E661-E670.

Holmes RS, Spradling-Reeves KD, Cox LA.
Evolution of Vertebrate Solute Carrier Family 9B Genes and Proteins (SLC9B): Evidence for a Marsupial Origin for Testis Specific SLC9B1 from an Ancestral Vertebrate SLC9B2 Gene.
J Phylogenetics Evol Biol 2016 Aug; 4(3): .

Jacobson JM, Bosinger SE, Kang M, Belaunzaran-Zamudio P, Matining RM, Wilson CC, Flexner C, Clagett B, Plants J, Read S, Purdue L, Myers L, Boone L, Tebas P, Kumar P, Clifford D, Douek D, Silvestri G, Landay AL, Lederman MM.
The Effect of Chloroquine on Immune Activation and Interferon Signatures Associated with HIV-1.
AIDS Res. Hum. Retroviruses 2016 Jul; 32(7): 636-47.

Kallas EG, O'Connor DH.
Real-Time Sharing of Zika Virus Data in an Interconnected World.
JAMA Pediatr 2016 Jul; 170(7): 633-4.

Kanthaswamy S, Ng J, Broatch J, Short J, Roberts J.
Mitigating Chinese-Indian rhesus macaque (Macaca mulatta) hybridity at the California National Primate Research Center (CNPRC).
J. Med. Primatol. 2016 Jul; (): .

Kuhn JH, Lauck M, Bailey AL, Shchetinin AM, Vishnevskaya TV, Bào Y, Ng TF, LeBreton M, Schneider BS, Gillis A, Tamoufe U, Diffo Jle D, Takuo JM, Kondov NO, Coffey LL, Wolfe ND, Delwart E, Clawson AN, Postnikova E, Bollinger L, Lackemeyer MG, Radoshitzky SR, Palacios G, Wada J, Shevtsova ZV, Jahrling PB, Lapin BA, Deriabin PG, Dunowska M, Alkhovsky SV, Rogers J, Friedrich TC, O'Connor DH, Goldberg TL.
Reorganization and expansion of the nidoviral family Arteriviridae.
Arch. Virol. 2016 Mar; 161(3): 755-68.

Ladner JT, Wiley MR, Beitzel B, Auguste AJ, Dupuis AP, Lindquist ME, Sibley SD, Kota KP, Fetterer D, Eastwood G, Kimmel D, Prieto K, Guzman H, Aliota MT, Reyes D, Brueggemann EE, St John L, Hyeroba D, Lauck M, Friedrich TC, O'Connor DH, Gestole MC, Cazares LH, Popov VL, Castro-Llanos F, Kochel TJ, Kenny T, White B, Ward MD, Loaiza JR, Goldberg TL, Weaver SC, Kramer LD, Tesh RB, Palacios G.
A Multicomponent Animal Virus Isolated from Mosquitoes.
Cell Host Microbe 2016 Sep; 20(3): 357-367.

Nakaya HI, Clutterbuck E, Kazmin D, Wang L, Cortese M, Bosinger SE, Patel NB, Zak DE, Aderem A, Dong T, Del Giudice G, Rappuoli R, Cerundolo V, Pollard AJ, Pulendran B, Siegrist CA.
Systems biology of immunity to MF59-adjuvanted versus nonadjuvanted trivalent seasonal influenza vaccines in early childhood.
Proc. Natl. Acad. Sci. U.S.A. 2016 Feb; 113(7): 1853-8.

Pardee K, Green AA, Takahashi MK, Braff D, Lambert G, Lee JW, Ferrante T, Ma D, Donghia N, Fan M, Daringer NM, Bosch I, Dudley DM, O'Connor DH, Gehrke L, Collins JJ.
Rapid, Low-Cost Detection of Zika Virus Using Programmable Biomolecular Components.
Cell 2016 May; 165(5): 1255-66.

Peng X, Li SS, Gilbert PB, Geraghty DE, Katze MG.
FCGR2C Polymorphisms Associated with HIV-1 Vaccine Protection Are Linked to Altered Gene Expression of Fc-γ Receptors in Human B Cells.
PLoS ONE 2016 03; 11(3): e0152425.

Raper J, Bosinger S, Johnson Z, Tharp G, Moran SP, Chan AW.
Increased irritability, anxiety, and immune reactivity in transgenic Huntington's disease monkeys.
Brain Behav. Immun. 2016 Nov; 58(): 181-190.

Reader JR, Canfield DR, Lane JF, Kanthaswamy S, Ardeshir A, Allen AM, Tarara RP.
Left Ventricular Hypertrophy in Rhesus Macaques (Macaca mulatta) at the California National Primate Research Center (1992-2014).
Comp. Med. 2016 Apr; 66(2): 162-9.

Simons ND, Ruiz-Lopez MJ, Chapman CA, Goldberg TL, Karl JA, Wiseman RW, Bohn PS, O'Connor DH, Ting N.
Rapid Identification of Major Histocompatibility Complex Class I Haplotypes Using Deep Sequencing in an Endangered Old World Monkey.
Conserv Genet Resour 2016 Mar; 8(1): 23-26.

Sutton MS, Burns CM, Weiler AM, Balgeman AJ, Braasch A, Lehrer-Brey G, Friedrich TC, O'Connor SL.
Vaccination with Live Attenuated Simian Immunodeficiency Virus (SIV) Protects from Mucosal, but Not Necessarily Intravenous, Challenge with a Minimally Heterologous SIV.
J. Virol. 2016 Jun; 90(12): 5541-8.

Tisoncik-Go J, Gasper DJ, Kyle JE, Eisfeld AJ, Selinger C, Hatta M, Morrison J, Korth MJ, Zink EM, Kim YM, Schepmoes AA, Nicora CD, Purvine SO, Weitz KK, Peng X, Green RR, Tilton SC, Webb-Robertson BJ, Waters KM, Metz TO, Smith RD, Kawaoka Y, Suresh M, Josset L, Katze MG.
Integrated Omics Analysis of Pathogenic Host Responses during Pandemic H1N1 Influenza Virus Infection: The Crucial Role of Lipid Metabolism.
Cell Host Microbe 2016 Feb; 19(2): 254-66.

Wahl-Jensen V, Johnson JC, Lauck M, Weinfurter JT, Moncla LH, Weiler AM, Charlier O, Rojas O, Byrum R, Ragland DR, Huzella L, Zommer E, Cohen M, Bernbaum JG, Caì Y, Sanford HB, Mazur S, Johnson RF, Qin J, Palacios GF, Bailey AL, Jahrling PB, Goldberg TL, O'Connor DH, Friedrich TC, Kuhn JH.
Divergent Simian Arteriviruses Cause Simian Hemorrhagic Fever of Differing Severities in Macaques.
MBio 2016 Feb; 7(1): e02009-15.

Wall JD, Schlebusch SA, Alberts SC, Cox LA, Snyder-Mackler N, Nevonen KA, Carbone L, Tung J.
Genomewide ancestry and divergence patterns from low-coverage sequencing data reveal a complex history of admixture in wild baboons.
Mol. Ecol. 2016 Jul; 25(14): 3469-83.

Xu J, Xu F, Letaw JH, Park BS, Searles RP, Ferguson BM.
Anti-Müllerian hormone is produced heterogeneously in primate preantral follicles and is a potential biomarker for follicle growth and oocyte maturation in vitro.
J. Assist. Reprod. Genet. 2016 Dec; 33(12): 1665-1675.

Xue C, Raveendran M, Harris RA, Fawcett GL, Liu X, White S, Dahdouli M, Rio Deiros D, Below JE, Salerno W, Cox L, Fan G, Ferguson B, Horvath J, Johnson Z, Kanthaswamy S, Kubisch HM, Liu D, Platt M, Smith DG, Sun B, Vallender EJ, Wang F, Wiseman RW, Chen R, Muzny DM, Gibbs RA, Yu F, Rogers J.
The population genomics of rhesus macaques (Macaca mulatta) based on whole-genome sequences.
Genome Res. 2016 Dec; 26(12): 1651-1662.

Yang ZW, Jiang YH, Ma C, Silvestri G, Bosinger SE, Li BL, Jong A, Zhou YH, Huang SH.
Coexpression Network Analysis of Benign and Malignant Phenotypes of SIV-Infected Sooty Mangabey and Rhesus Macaque.
PLoS ONE 2016 ; 11(6): e0156170.

Yú SQ, Caì Y, Lyons C, Johnson RF, Postnikova E, Mazur S, Johnson JC, Radoshitzky SR, Bailey AL, Lauck M, Goldberg TL, O'Connor DH, Jahrling PB, Friedrich TC, Kuhn JH.
Specific Detection of Two Divergent Simian Arteriviruses Using RNAscope In Situ Hybridization.
PLoS ONE 2016 03; 11(3): e0151313.

Zhdanova IV, Rogers J, González-Martínez J, Farrer LA.
The ticking clock of Cayo Santiago macaques and its implications for understanding human circadian rhythm disorders.
Am J Primatol. 2016 Jan;78(1):117-26. doi: 10.1002/ajp.22413. Epub 2015 May 1.

2015

Atkinson EG, Rogers J, Mahaney MC, Cox LA, Cheverud JM.
Cortical Folding of the Primate Brain: An Interdisciplinary Examination of the Genetic Architecture, Modularity, and Evolvability of a Significant Neurological Trait in Pedigreed Baboons (Genus Papio).
Genetics 2015 Jun; 200(2): 651-65.

Bailey AL, Lauck M, Mohns M, Peterson EJ, Beheler K, Brunner KG, Crosno K, Mejia A, Mutschler J, Gehrke M, Greene J, Ericsen AJ, Weiler A, Lehrer-Brey G, Friedrich TC, Sibley SD, Kallas EG, Capuano S, Rogers J, Goldberg TL, Simmons HA, O'Connor DH.
Durable sequence stability and bone marrow tropism in a macaque model of human pegivirus infection.
Sci Transl Med 2015 Sep; 7(305): 305ra144.

Bailey AL, Lauck M, Sibley SD, Friedrich TC, Kuhn JH, Freimer NB, Jasinska AJ, Phillips-Conroy JE, Jolly CJ, Marx PA, Apetrei C, Rogers J, Goldberg TL, O'Connor DH.
Zoonotic Potential of Simian Arteriviruses.
J. Virol. 2015 Nov; 90(2): 630-5.

Bialas KM, Tanaka T, Tran D, Varner V, Cisneros De La Rosa E, Chiuppesi F, Wussow F, Kattenhorn L, Macri S, Kunz EL, Estroff JA, Kirchherr J, Yue Y, Fan Q, Lauck M, O'Connor DH, Hall AH, Xavier A, Diamond DJ, Barry PA, Kaur A, Permar SR.
Maternal CD4+ T cells protect against severe congenital cytomegalovirus disease in a novel nonhuman primate model of placental cytomegalovirus transmission.
Proc. Natl. Acad. Sci. U.S.A. 2015 Nov; 112(44): 13645-50.

Bosinger SE, Utay NS.
Type I interferon: understanding its role in HIV pathogenesis and therapy.
Curr HIV/AIDS Rep 2015 Mar; 12(1): 41-53.

Breed MW, Elser SE, Torben W, Jordan AP, Aye PP, Midkiff C, Schiro F, Sugimoto C, Alvarez-Hernandez X, Blair RV, Somasunderam A, Utay NS, Kuroda MJ, Pahar B, Wiseman RW, O'Connor DH, LaBranche CC, Montefiori DC, Marsh M, Li Y, Piatak M, Lifson JD, Keele BF, Fultz PN, Lackner AA, Hoxie JA.
Elite Control, Gut CD4 T Cell Sparing, and Enhanced Mucosal T Cell Responses in Macaca nemestrina Infected by a Simian Immunodeficiency Virus Lacking a gp41 Trafficking Motif.
J. Virol. 2015 Oct; 89(20): 10156-75.

Caì Y, Postnikova EN, Bernbaum JG, Yú SQ, Mazur S, Deiuliis NM, Radoshitzky SR, Lackemeyer MG, McCluskey A, Robinson PJ, Haucke V, Wahl-Jensen V, Bailey AL, Lauck M, Friedrich TC, O'Connor DH, Goldberg TL, Jahrling PB, Kuhn JH.
Simian hemorrhagic fever virus cell entry is dependent on CD163 and uses a clathrin-mediated endocytosis-like pathway.
J. Virol. 2015 Jan; 89(1): 844-56.

Chowdhury A, Del Rio Estrada PM, Del Rio PM, Tharp GK, Trible RP, Amara RR, Chahroudi A, Reyes-Teran G, Bosinger SE, Silvestri G.
Decreased T Follicular Regulatory Cell/T Follicular Helper Cell (TFH) in Simian Immunodeficiency Virus-Infected Rhesus Macaques May Contribute to Accumulation of TFH in Chronic Infection.
J. Immunol. 2015 Oct; 195(7): 3237-47.

Chowdhury A, Hayes TL, Bosinger SE, Lawson BO, Vanderford T, Schmitz JE, Paiardini M, Betts M, Chahroudi A, Estes JD, Silvestri G.
Differential Impact of In Vivo CD8+ T Lymphocyte Depletion in Controller versus Progressor Simian Immunodeficiency Virus-Infected Macaques.
J. Virol. 2015 Sep; 89(17): 8677-86.

Fox AS, Oler JA, Shackman AJ, Shelton SE, Raveendran M, McKay DR, Converse AK, Alexander A, Davidson RJ, Blangero J, Rogers J, Kalin NH.
Intergenerational neural mediators of early-life anxious temperament.
Proc. Natl. Acad. Sci. U.S.A. 2015 Jul; 112(29): 9118-22.

Furlan SN, Watkins B, Tkachev V, Flynn R, Cooley S, Ramakrishnan S, Singh K, Giver C, Hamby K, Stempora L, Garrett A, Chen J, Betz KM, Ziegler CG, Tharp GK, Bosinger SE, Promislow DE, Miller JS, Waller EK, Blazar BR, Kean LS.
Transcriptome analysis of GVHD reveals aurora kinase A as a targetable pathway for disease prevention.
Sci Transl Med 2015 Nov; 7(315): 315ra191.

Gellerup DD, Balgeman AJ, Nelson CW, Ericsen AJ, Scarlotta M, Hughes AL, O'Connor SL.
Conditional Immune Escape during Chronic Simian Immunodeficiency Virus Infection.
J. Virol. 2015 Oct; 90(1): 545-52.

Heimbruch KE, Karl JA, Wiseman RW, Dudley DM, Johnson Z, Kaur A, O'Connor DH.
Novel MHC class I full-length allele and haplotype characterization in sooty mangabeys.
Immunogenetics 2015 Aug; 67(8): 437-45.

Johnson Z, Brent L, Alvarenga JC, Comuzzie AG, Shelledy W, Ramirez S, Cox L, Mahaney MC, Huang YY, Mann JJ, Kaplan JR, Rogers J.
Genetic influences on response to novel objects and dimensions of personality in Papio baboons.
Behav. Genet. 2015 Mar; 45(2): 215-27.

Laston SL, Voruganti VS, Haack K, Shah VO, Bobelu A, Bobelu J, Ghahate D, Harford AM, Paine SS, Tentori F, Cole SA, MacCluer JW, Comuzzie AG, Zager PG.
Genetics of kidney disease and related cardiometabolic phenotypes in Zuni Indians: the Zuni Kidney Project.
Front Genet 2015 ; 6(): 6.

Lauck M, Bailey AL, Andersen KG, Goldberg TL, Sabeti PC, O'Connor DH.
GB virus C coinfections in west African Ebola patients.
J. Virol. 2015 Feb; 89(4): 2425-9.

Mendoza A, Ng J, Bales KL, Mendoza SP, George DA, Smith DG, Kanthaswamy S.
Population genetics of the California National Primate Research Center's (CNPRC) captive Callicebus cupreus colony.
Primates 2015 Jan; 56(1): 37-44.

Micci L, Ryan ES, Fromentin R, Bosinger SE, Harper JL, He T, Paganini S, Easley KA, Chahroudi A, Benne C, Gumber S, McGary CS, Rogers KA, Deleage C, Lucero C, Byrareddy SN, Apetrei C, Estes JD, Lifson JD, Piatak M, Chomont N, Villinger F, Silvestri G, Brenchley JM, Paiardini M.
Interleukin-21 combined with ART reduces inflammation and viral reservoir in SIV-infected macaques.
J. Clin. Invest. 2015 Dec; 125(12): 4497-513.

Mir KD, Mavigner M, Wang C, Paiardini M, Sodora DL, Chahroudi AM, Bosinger SE, Silvestri G.
Reduced Simian Immunodeficiency Virus Replication in Macrophages of Sooty Mangabeys Is Associated with Increased Expression of Host Restriction Factors.
J. Virol. 2015 Oct; 89(20): 10136-44.

Mohns MS, Greene JM, Cain BT, Pham NH, Gostick E, Price DA, O'Connor DH.
Expansion of Simian Immunodeficiency Virus (SIV)-Specific CD8 T Cell Lines from SIV-Naive Mauritian Cynomolgus Macaques for Adoptive Transfer.
J. Virol. 2015 Oct; 89(19): 9748-57.

Mothé BR, Lindestam Arlehamn CS, Dow C, Dillon MB, Wiseman RW, Bohn P, Karl J, Golden NA, Gilpin T, Foreman TW, Rodgers MA, Mehra S, Scriba TJ, Flynn JL, Kaushal D, O'Connor DH, Sette A.
The TB-specific CD4(+) T cell immune repertoire in both cynomolgus and rhesus macaques largely overlap with humans.
Tuberculosis (Edinb) 2015 Dec; 95(6): 722-35.

Mou Z, Hyde TM, Lipska BK, Martinowich K, Wei P, Ong CJ, Hunter LA, Palaguachi GI, Morgun E, Teng R, Lai C, Condarco TA, Demidowich AP, Krause AJ, Marshall LJ, Haack K, Voruganti VS, Cole SA, Butte NF, Comuzzie AG, Nalls MA, Zonderman AB, Singleton AB, Evans MK, Martin B, Maudsley S, Tsao JW, Kleinman JE, Yanovski JA, Han JC.
Human Obesity Associated with an Intronic SNP in the Brain-Derived Neurotrophic Factor Locus.
Cell Rep 2015 Nov; 13(6): 1073-1080.

Ng J, Fass JN, Durbin-Johnson B, Smith DG, Kanthaswamy S.
Identifying rhesus macaque gene orthologs using heterospecific human CNV probes.
Genom Data 2015 Dec; 6(): 202-7.

Ng J, Trask JS, Houghton P, Smith DG, Kanthaswamy S.
Use of genome-wide heterospecific single-nucleotide polymorphisms to estimate linkage disequilibrium in rhesus and cynomolgus macaques.
Comp. Med. 2015 Feb; 65(1): 62-9.

Ng J, Trask JS, Smith DG, Kanthaswamy S.
Heterospecific SNP diversity in humans and rhesus macaque (Macaca mulatta).
J. Med. Primatol. 2015 Aug; 44(4): 194-201.

Peng X, Thierry-Mieg J, Thierry-Mieg D, Nishida A, Pipes L, Bozinoski M, Thomas MJ, Kelly S, Weiss JM, Raveendran M, Muzny D, Gibbs RA, Rogers J, Schroth GP, Katze MG, Mason CE.
Tissue-specific transcriptome sequencing analysis expands the non-human primate reference transcriptome resource (NHPRTR).
Nucleic Acids Res. 2015 Jan; 43(Database issue): D737-42.

Pereira SP, Oliveira PJ, Tavares LC, Moreno AJ, Cox LA, Nathanielsz PW, Nijland MJ.
Effects of moderate global maternal nutrient reduction on fetal baboon renal mitochondrial gene expression at 0.9 gestation.
Am. J. Physiol. Renal Physiol. 2015 Jun; 308(11): F1217-28.

Qu Y, Frazer LC, O'Connell CM, Tarantal AF, Andrews CW, O'Connor SL, Russell AN, Sullivan JE, Poston TB, Vallejo AN, Darville T.
Comparable Genital Tract Infection, Pathology, and Immunity in Rhesus Macaques Inoculated with Wild-Type or Plasmid-Deficient Chlamydia trachomatis Serovar D.
Infect. Immun. 2015 Oct; 83(10): 4056-67.

Velazquez VM, Uebelhoer LS, Thapa M, Ibegbu CC, Courtney C, Bosinger SE, Magliocca JF, Adams AB, Kirk AD, Knechtle SJ, Kalman D, Suthar MS, Grakoui A.
Systems biological analyses reveal the hepatitis C virus (HCV)-specific regulation of hematopoietic development.
Hepatology 2015 Mar; 61(3): 843-56.

Vinson A, Raboin MJ.
A Practical Approach for Designing Breeding Groups to Maximize Genetic Diversity in a Large Colony of Captive Rhesus Macaques (Macaca mulatta).
J. Am. Assoc. Lab. Anim. Sci. 2015 Nov; 54(6): 700-7.

Warren WC, Jasinska AJ, García-Pérez R, Svardal H, Tomlinson C, Rocchi M, Archidiacono N, Capozzi O, Minx P, Montague MJ, Kyung K, Hillier LW, Kremitzki M, Graves T, Chiang C, Hughes J, Tran N, Huang Y, Ramensky V, Choi OW, Jung YJ, Schmitt CA, Juretic N, Wasserscheid J, Turner TR, Wiseman RW, Tuscher JJ, Karl JA, Schmitz JE, Zahn R, O'Connor DH, Redmond E, Nisbett A, Jacquelin B, Müller-Trutwin MC, Brenchley JM, Dione M, Antonio M, Schroth GP, Kaplan JR, Jorgensen MJ, Thomas GW, Hahn MW, Raney BJ, Aken B, Nag R, Schmitz J, Churakov G, Noll A, Stanyon R, Webb D, Thibaud-Nissen F, Nordborg M, Marques-Bonet T, Dewar K, Weinstock GM, Wilson RK, Freimer NB.
The genome of the vervet (Chlorocebus aethiops sabaeus).
Genome Res. 2015 Dec; 25(12): 1921-33.

Weir RK, Forghany R, Smith SE, Patterson PH, McAllister AK, Schumann CM, Bauman MD.
Preliminary evidence of neuropathology in nonhuman primates prenatally exposed to maternal immune activation.
Brain Behav. Immun. 2015 Aug; 48(): 139-46.

Westbrook CJ, Karl JA, Wiseman RW, Mate S, Koroleva G, Garcia K, Sanchez-Lockhart M, O'Connor DH, Palacios G.
No assembly required: Full-length MHC class I allele discovery by PacBio circular consensus sequencing.
Hum. Immunol. 2015 Dec; 76(12): 891-6.

Yasuda K, Oh K, Ren B, Tickle TL, Franzosa EA, Wachtman LM, Miller AD, Westmoreland SV, Mansfield KG, Vallender EJ, Miller GM, Rowlett JK, Gevers D, Huttenhower C, Morgan XC.
Biogeography of the intestinal mucosal and lumenal microbiome in the rhesus macaque.
Cell Host Microbe 2015 Mar; 17(3): 385-91.

Yuan B, Liu P, Gupta A, Beck CR, Tejomurtula A, Campbell IM, Gambin T, Simmons AD, Withers MA, Harris RA, Rogers J, Schwartz DC, Lupski JR
Comparative Genomic Analyses of the Human NPHP1 Locus Reveal Complex Genomic Architecture and Its Regional Evolution in Primates.
PLoS Genet. 2015 Dec 7;11(12):e1005686. doi: 10.1371/journal.pgen.1005686. eCollection 2015 Dec.

2014

Ackermann RR, Schroeder L, Rogers J, Cheverud JM.
Further evidence for phenotypic signatures of hybridization in descendant baboon populations.
J. Hum. Evol. 2014 Nov; 76(): 54-62.

Bailey AL, Lauck M, Sibley SD, Pecotte J, Rice K, Weny G, Tumukunde A, Hyeroba D, Greene J, Correll M, Gleicher M, Friedrich TC, Jahrling PB, Kuhn JH, Goldberg TL, Rogers J, O'Connor DH.
Two novel simian arteriviruses in captive and wild baboons (Papio spp.).
J. Virol. 2014 Nov; 88(22): 13231-9.

Bailey AL, Lauck M, Weiler A, Sibley SD, Dinis JM, Bergman Z, Nelson CW, Correll M, Gleicher M, Hyeroba D, Tumukunde A, Weny G, Chapman C, Kuhn JH, Hughes AL, Friedrich TC, Goldberg TL, O'Connor DH.
High genetic diversity and adaptive potential of two simian hemorrhagic fever viruses in a wild primate population.
PLoS ONE 2014 03; 9(3): e90714.

Bermejo-Martin JF, Martín-Loeches I, Bosinger S.
Inflammation and infection in critical care medicine.
Mediators Inflamm. 2014 ; 2014(): 456256.

Burwitz BJ, Reed JS, Hammond KB, Ohme MA, Planer SL, Legasse AW, Ericsen AJ, Richter Y, Golomb G, Sacha JB.
Technical advance: liposomal alendronate depletes monocytes and macrophages in the nonhuman primate model of human disease.
J. Leukoc. Biol. 2014 Sep; 96(3): 491-501.

Burwitz BJ, Wu HL, Reed JS, Hammond KB, Newman LP, Bimber BN, Nimiyongskul FA, Leon EJ, Maness NJ, Friedrich TC, Yokoyama M, Sato H, Matano T, O'Connor DH, Sacha JB.
Tertiary mutations stabilize CD8+ T lymphocyte escape-associated compensatory mutations following transmission of simian immunodeficiency virus.
J. Virol. 2014 Mar; 88(6): 3598-604.

Carbone L, Harris RA, Gnerre S, Veeramah KR, Lorente-Galdos B, Huddleston J, Meyer TJ, Herrero J, Roos C, Aken B, Anaclerio F, Archidiacono N, Baker C, Barrell D, Batzer MA, Beal K, Blancher A, Bohrson CL, Brameier M, Campbell MS, Capozzi O, Casola C, Chiatante G, Cree A, Damert A, de Jong PJ, Dumas L, Fernandez-Callejo M, Flicek P, Fuchs NV, Gut I, Gut M, Hahn MW, Hernandez-Rodriguez J, Hillier LW, Hubley R, Ianc B, Izsvák Z, Jablonski NG, Johnstone LM, Karimpour-Fard A, Konkel MK, Kostka D, Lazar NH, Lee SL, Lewis LR, Liu Y, Locke DP, Mallick S, Mendez FL, Muffato M, Nazareth LV, Nevonen KA, O'Bleness M, Ochis C, Odom DT, Pollard KS, Quilez J, Reich D, Rocchi M, Schumann GG, Searle S, Sikela JM, Skollar G, Smit A, Sonmez K, ten Hallers B, Terhune E, Thomas GW, Ullmer B, Ventura M, Walker JA, Wall JD, Walter L, Ward MC, Wheelan SJ, Whelan CW, White S, Wilhelm LJ, Woerner AE, Yandell M, Zhu B, Hammer MF, Marques-Bonet T, Eichler EE, Fulton L, Fronick C, Muzny DM, Warren WC, Worley KC, Rogers J, Wilson RK, Gibbs RA.
Gibbon genome and the fast karyotype evolution of small apes.
Nature 2014 Sep; 513(7517): 195-201.

Cartwright EK, McGary CS, Cervasi B, Micci L, Lawson B, Elliott ST, Collman RG, Bosinger SE, Paiardini M, Vanderford TH, Chahroudi A, Silvestri G.
Divergent CD4+ T memory stem cell dynamics in pathogenic and nonpathogenic simian immunodeficiency virus infections.
J. Immunol. 2014 May; 192(10): 4666-73.

Earla R, Kumar S, Wang L, Bosinger S, Li J, Shah A, Gangwani M, Nookala A, Liu X, Cao L, Jackson A, Silverstein PS, Fox HS, Li W, Kumar A.
Enhanced methamphetamine metabolism in rhesus macaque as compared with human: an analysis using a novel method of liquid chromatography with tandem mass spectrometry, kinetic study, and substrate docking.
Drug Metab. Dispos. 2014 Dec; 42(12): 2097-108.

Ericsen AJ, Starrett GJ, Greene JM, Lauck M, Raveendran M, Deiros DR, Mohns MS, Vince N, Cain BT, Pham NH, Weinfurter JT, Bailey AL, Budde ML, Wiseman RW, Gibbs R, Muzny D, Friedrich TC, Rogers J, O'Connor DH.
Whole genome sequencing of SIV-infected macaques identifies candidate loci that may contribute to host control of virus replication.
Genome Biol. 2014 Nov; 15(11): 478.

Fawcett GL, Dettmer AM, Kay D, Raveendran M, Higley JD, Ryan ND, Cameron JL, Rogers J.
Quantitative Genetics of Response to Novelty and Other Stimuli by Infant Rhesus Macaques (Macaca mulatta) Across Three Behavioral Assessments.
Int. J. Primatol. 2014 Feb; 35(1): 325-339.

Goldberg TL, Gendron-Fitzpatrick A, Deering KM, Wallace RS, Clyde VL, Lauck M, Rosen GE, Bennett AJ, Greiner EC, O'Connor DH.
Fatal metacestode infection in Bornean orangutan caused by unknown Versteria species.
Emerging Infect. Dis. 2014 Jan; 20(1): 109-13.

Gooneratne SL, Alinejad-Rokny H, Ebrahimi D, Bohn PS, Wiseman RW, O'Connor DH, Davenport MP, Kent SJ.
Linking pig-tailed macaque major histocompatibility complex class I haplotypes and cytotoxic T lymphocyte escape mutations in simian immunodeficiency virus infection.
J. Virol. 2014 Dec; 88(24): 14310-25.

Greene JM, Weiler AM, Reynolds MR, Cain BT, Pham NH, Ericsen AJ, Peterson EJ, Crosno K, Brunner K, Friedrich TC, O'Connor DH.
Rapid, repeated, low-dose challenges with SIVmac239 infect animals in a condensed challenge window.
Retrovirology 2014 Aug; 11(): 66.

Harris RA, Tardif SD, Vinar T, Wildman DE, Rutherford JN, Rogers J, Worley KC, Aagaard KM.
Evolutionary genetics and implications of small size and twinning in callitrichine primates.
Proc. Natl. Acad. Sci. U.S.A. 2014 Jan; 111(4): 1467-72.

Hasan MK, Feeroz MM, Jones-Engel L, Engel GA, Kanthaswamy S, Smith DG.
Diversity and molecular phylogeny of mitochondrial DNA of rhesus macaques (Macaca mulatta) in Bangladesh.
Am. J. Primatol. 2014 Nov; 76(11): 1094-104.

Haus T, Ferguson B, Rogers J, Doxiadis G, Certa U, Rose NJ, Teepe R, Weinbauer GF, Roos C.
Genome typing of nonhuman primate models: implications for biomedical research.
Trends Genet. 2014 Nov; 30(11): 482-7.

Kanthaswamy S, Elfenbein HA, Ardeshir A, Ng J, Hyde D, Smith DG, Lerche N.
Familial aggregation of chronic diarrhea disease (CDD) in rhesus macaques (Macaca mulatta).
Am. J. Primatol. 2014 Mar; 76(3): 262-70.

Kanthaswamy S, Johnson Z, Trask JS, Smith DG, Ramakrishnan R, Bahk J, Ng J, Wiseman R, Kubisch HM, Vallender EJ, Rogers J, Ferguson B.
Development and validation of a SNP-based assay for inferring the genetic ancestry of rhesus macaques (Macaca mulatta).
Am. J. Primatol. 2014 Nov; 76(11): 1105-13.

Kanthaswamy S, Reader R, Tarara R, Oslund K, Allen M, Ng J, Grinberg C, Hyde D, Glenn DG, Lerche N.
Large scale pedigree analysis leads to evidence for founder effects of Hypertrophic Cardiomyopathy in Rhesus Macaques (Macaca mulatta).
J. Med. Primatol. 2014 Aug; 43(4): 288-291.

Karl JA, Heimbruch KE, Vriezen CE, Mironczuk CJ, Dudley DM, Wiseman RW, O'Connor DH.
Survey of major histocompatibility complex class II diversity in pig-tailed macaques.
Immunogenetics 2014 Nov; 66(11): 613-23.

Klatt NR, Bosinger SE, Peck M, Richert-Spuhler LE, Heigele A, Gile JP, Patel N, Taaffe J, Julg B, Camerini D, Torti C, Martin JN, Deeks SG, Sinclair E, Hecht FM, Lederman MM, Paiardini M, Kirchhoff F, Brenchley JM, Hunt PW, Silvestri G.
Limited HIV infection of central memory and stem cell memory CD4+ T cells is associated with lack of progression in viremic individuals.
PLoS Pathog. 2014 Aug; 10(8): e1004345.

Lauck M, Palacios G, Wiley MR, L Y, Fāng Y, Lackemeyer MG, Caì Y, Bailey AL, Postnikova E, Radoshitzky SR, Johnson RF, Alkhovsky SV, Deriabin PG, Friedrich TC, Goldberg TL, Jahrling PB, O'Connor DH, Kuhn JH.
Genome Sequences of Simian Hemorrhagic Fever Virus Variant NIH LVR42-0/M6941 Isolates (Arteriviridae: Arterivirus).
Genome Announc 2014 Oct; 2(5): .

Lauck M, Switzer WM, Sibley SD, Hyeroba D, Tumukunde A, Weny G, Shankar A, Greene JM, Ericsen AJ, Zheng H, Ting N, Chapman CA, Friedrich TC, Goldberg TL, O'Connor DH.
Discovery and full genome characterization of a new SIV lineage infecting red-tailed guenons (Cercopithecus ascanius schmidti) in Kibale National Park, Uganda.
Retrovirology 2014 Jul; 11(): 55.

Marmoset Genome Sequencing and Analysis Consortium  
The common marmoset genome provides insight into primate biology and evolution.
Nature genetics 2014 Aug; 46(8): 850-7.

Monteys AM, Spengler RM, Dufour BD, Wilson MS, Oakley CK, Sowada MJ, McBride JL, Davidson BL.
Single nucleotide seed modification restores in vivo tolerability of a toxic artificial miRNA sequence in the mouse brain.
Nucleic Acids Res. 2014 Dec; 42(21): 13315-27.

Mubiru JN, Yang AS, Olsen C, Nayak S, Livi CB, Dick EJ, Owston M, Garcia-Forey M, Shade RE, Rogers J.
Analysis of prostate-specific antigen transcripts in chimpanzees, cynomolgus monkeys, baboons, and African green monkeys.
PLoS ONE 2014 04; 9(4): e94522.

Ogawa LM, Vallender EJ.
Genetic substructure in cynomolgus macaques (Macaca fascicularis) on the island of Mauritius.
BMC Genomics 2014 Aug; 15(): 748.

Ogawa LM, Vallender EJ.
Evolutionary conservation in genes underlying human psychiatric disorders.
Front Hum Neurosci 2014 ; 8(): 283.

Peng X, Alföldi J, Gori K, Eisfeld AJ, Tyler SR, Tisoncik-Go J, Brawand D, Law GL, Skunca N, Hatta M, Gasper DJ, Kelly SM, Chang J, Thomas MJ, Johnson J, Berlin AM, Lara M, Russell P, Swofford R, Turner-Maier J, Young S, Hourlier T, Aken B, Searle S, Sun X, Yi Y, Suresh M, Tumpey TM, Siepel A, Wisely SM, Dessimoz C, Kawaoka Y, Birren BW, Lindblad-Toh K, Di Palma F, Engelhardt JF, Palermo RE, Katze MG.
The draft genome sequence of the ferret (Mustela putorius furo) facilitates study of human respiratory disease.
Nat. Biotechnol. 2014 Dec; 32(12): 1250-5.

Peng X, Pipes L, Xiong H, Green RR, Jones DC, Ruzzo WL, Schroth GP, Mason CE, Palermo RE, Katze MG.
Assessment and improvement of Indian-origin rhesus macaque and Mauritian-origin cynomolgus macaque genome annotations using deep transcriptome sequencing data.
J. Med. Primatol. 2014 Oct; 43(5): 317-28.

Phillips KA, Bales KL, Capitanio JP, Conley A, Czoty PW, 't Hart BA, Hopkins WD, Hu SL, Miller LA, Nader MA, Nathanielsz PW, Rogers J, Shively CA, Voytko ML.
Why primate models matter.
Am. J. Primatol. 2014 Sep; 76(9): 801-27.

Rogers J, Gibbs RA.
Comparative primate genomics: emerging patterns of genome content and dynamics.
Nat Rev Genet. 2014 May;15(5):347-59. doi: 10.1038/nrg3707. Epub 2014 Apr 8.

Ross CT, Weise JA, Bonnar S, Nolin D, Satkoski Trask J, Smith DG, Ferguson B, Ha J, Kubisch HM, Vinson A, Kanthaswamy S.
An empirical comparison of short tandem repeats (STRs) and single nucleotide polymorphisms (SNPs) for relatedness estimation in Chinese rhesus macaques (Macaca mulatta).
Am. J. Primatol. 2014 Apr; 76(4): 313-24.

Sandler NG, Bosinger SE, Estes JD, Zhu RT, Tharp GK, Boritz E, Levin D, Wijeyesinghe S, Makamdop KN, del Prete GQ, Hill BJ, Timmer JK, Reiss E, Yarden G, Darko S, Contijoch E, Todd JP, Silvestri G, Nason M, Norgren RB, Keele BF, Rao S, Langer JA, Lifson JD, Schreiber G, Douek DC.
Type I interferon responses in rhesus macaques prevent SIV infection and slow disease progression.
Nature 2014 Jul; 511(7511): 601-5.

Schafer JL, Colantonio AD, Neidermyer WJ, Dudley DM, Connole M, O'Connor DH, Evans DT.
KIR3DL01 recognition of Bw4 ligands in the rhesus macaque: maintenance of Bw4 specificity since the divergence of apes and Old World monkeys.
J. Immunol. 2014 Feb; 192(4): 1907-17.

Sibley SD, Lauck M, Bailey AL, Hyeroba D, Tumukunde A, Weny G, Chapman CA, O'Connor DH, Goldberg TL, Friedrich TC.
Discovery and characterization of distinct simian pegiviruses in three wild African Old World monkey species.
PLoS ONE 2014 06; 9(2): e98569.

Tackney J, Cawthon RM, Coxworth JE, Hawkes K.
Blood cell telomere lengths and shortening rates of chimpanzee and human females.
Am. J. Hum. Biol. 2014 06; 26(4): 452-60.

Vallender EJ.
Bringing non-human primate research into the post-genomic era: how monkeys are teaching us about elite controllers of HIV/AIDS.
Genome Biol. 2014 Nov; 15(11): 507.

Ward JM, Buslov AM, Vallender EJ.
Twinning and survivorship of captive common marmosets (Callithrix jacchus) and cotton-top tamarins (Saguinus oedipus).
J. Am. Assoc. Lab. Anim. Sci. 2014 Jan; 53(1): 7-11.

Welander J, Andreasson A, Juhlin CC, Wiseman RW, Bäckdahl M, Höög A, Larsson C, Gimm O, Söderkvist P.
Rare germline mutations identified by targeted next-generation sequencing of susceptibility genes in pheochromocytoma and paraganglioma.
J. Clin. Endocrinol. Metab. 2014 Jul; 99(7): E1352-60.

Zimin AV, Cornish AS, Maudhoo MD, Gibbs RM, Zhang X, Pandey S, Meehan DT, Wipfler K, Bosinger SE, Johnson ZP, Tharp GK, Marçais G, Roberts M, Ferguson B, Fox HS, Treangen T, Salzberg SL, Yorke JA, Norgren RB.
A new rhesus macaque assembly and annotation for next-generation sequencing analyses.
Biol. Direct 2014 Oct; 9(1): 20.

2013

Bosinger SE, Jochems SP, Folkner KA, Hayes TL, Klatt NR, Silvestri G.
Transcriptional profiling of experimental CD8(+) lymphocyte depletion in rhesus macaques infected with simian immunodeficiency virus SIVmac239.
J. Virol. 2013 Jan; 87(1): 433-43.

Bosinger SE, Johnson ZP, Folkner KA, Patel N, Hashempour T, Jochems SP, Del Rio Estrada PM, Paiardini M, Lin R, Vanderford TH, Hiscott J, Silvestri G.
Intact type I Interferon production and IRF7 function in sooty mangabeys.
PLoS Pathog. 2013 09; 9(8): e1003597.

Cain BT, Pham NH, Budde ML, Greene JM, Weinfurter JT, Scarlotta M, Harris M, Chin E, O'Connor SL, Friedrich TC, O'Connor DH.
T cell response specificity and magnitude against SIVmac239 are not concordant in major histocompatibility complex-matched animals.
Retrovirology 2013 Oct; 10(): 116.

Cox LA, Comuzzie AG, Havill LM, Karere GM, Spradling KD, Mahaney MC, Nathanielsz PW, Nicolella DP, Shade RE, Voruganti S, VandeBerg JL.
Baboons as a model to study genetics and epigenetics of human disease.
ILAR J 2013 10; 54(2): 106-21.

Cox LA, Li C, Glenn JP, Lange K, Spradling KD, Nathanielsz PW, Jansson T.
Expression of the placental transcriptome in maternal nutrient reduction in baboons is dependent on fetal sex.
J. Nutr. 2013 Nov; 143(11): 1698-708.

Del Prete GQ, Scarlotta M, Newman L, Reid C, Parodi LM, Roser JD, Oswald K, Marx PA, Miller CJ, Desrosiers RC, Barouch DH, Pal R, Piatak M, Chertova E, Giavedoni LD, O'Connor DH, Lifson JD, Keele BF.
Comparative characterization of transfection- and infection-derived simian immunodeficiency virus challenge stocks for in vivo nonhuman primate studies.
J. Virol. 2013 Apr; 87(8): 4584-95.

Goswami DB, Ogawa LM, Ward JM, Miller GM, Vallender EJ.
Large-scale polymorphism discovery in macaque G-protein coupled receptors.
BMC Genomics 2013 Oct; 14(): 703.

Greene JM, Lhost JJ, Hines PJ, Scarlotta M, Harris M, Burwitz BJ, Budde ML, Dudley DM, Pham N, Cain B, Mac Nair CE, Weiker MK, O'Connor SL, Friedrich TC, O'Connor DH.
Adoptive transfer of lymphocytes isolated from simian immunodeficiency virus SIVmac239Δnef-vaccinated macaques does not affect acute-phase viral loads but may reduce chronic-phase viral loads in major histocompatibility complex-matched recipients.
J. Virol. 2013 Jul; 87(13): 7382-92.

Jiang J, Kanthaswamy S, Capitanio JP.
Degree of Chinese ancestry affects behavioral characteristics of infant rhesus macaques (Macaca mulatta).
J. Med. Primatol. 2013 Feb; 42(1): 20-7.

Johnson CE, Premasuthan A, Satkoski Trask J, Kanthaswamy S.
Species identification of Cannabis sativa using real-time quantitative PCR (qPCR).
J. Forensic Sci. 2013 Mar; 58(2): 486-90.

Kanthaswamy S, Ng J, Ross CT, Trask JS, Smith DG, Buffalo VS, Fass JN, Lin D.
Identifying human-rhesus macaque gene orthologs using heterospecific SNP probes.
Genomics 2013 Jan; 101(1): 30-7.

Karere GM, Glenn JP, Birnbaum S, Hafizi S, Rainwater DL, Mahaney MC, VandeBerg JL, Cox LA.
Identification of candidate genes encoding an LDL-C QTL in baboons.
J. Lipid Res. 2013 Jul; 54(7): 1776-85.

Karl JA, Bohn PS, Wiseman RW, Nimityongskul FA, Lank SM, Starrett GJ, O'Connor DH.
Major histocompatibility complex class I haplotype diversity in Chinese rhesus macaques.
G3 (Bethesda) 2013 Jul; 3(7): 1195-201.

Kurupati R, Tuyishime S, Kossenkov AV, Sazanovich M, Haut LH, Lasaro MO, Ratcliffe SJ, Bosinger SE, Carnathan DG, Lewis M, Showe LC, Silvestri G, Ertl HC.
Correlates of relative resistance against low-dose rectal simian immunodeficiency virus challenges in peripheral blood mononuclear cells of vaccinated rhesus macaques.
J. Leukoc. Biol. 2013 Mar; 93(3): 437-48.

Lauck M, Sibley SD, Hyeroba D, Tumukunde A, Weny G, Chapman CA, Ting N, Switzer WM, Kuhn JH, Friedrich TC, O'Connor DH, Goldberg TL.
Exceptional simian hemorrhagic fever virus diversity in a wild African primate community.
J. Virol. 2013 Jan; 87(1): 688-91.

Lauck M, Switzer WM, Sibley SD, Hyeroba D, Tumukunde A, Weny G, Taylor B, Shankar A, Ting N, Chapman CA, Friedrich TC, Goldberg TL, O'Connor DH.
Discovery and full genome characterization of two highly divergent simian immunodeficiency viruses infecting black-and-white colobus monkeys (Colobus guereza) in Kibale National Park, Uganda.
Retrovirology 2013 Oct; 10(): 107.

Lynch LJ, Sullivan KA, Vallender EJ, Rowlett JK, Platt DM, Miller GM.
Trace amine associated receptor 1 modulates behavioral effects of ethanol.
Subst Abuse 2013 07; 7(): 117-26.

Maloyan A, Muralimanoharan S, Huffman S, Cox LA, Nathanielsz PW, Myatt L, Nijland MJ.
Identification and comparative analyses of myocardial miRNAs involved in the fetal response to maternal obesity.
Physiol. Genomics 2013 Oct; 45(19): 889-900.

Moser AB, Hey J, Dranchak PK, Karaman MW, Zhao J, Cox LA, Ryder OA, Hacia JG.
Diverse captive non-human primates with phytanic acid-deficient diets rich in plant products have substantial phytanic acid levels in their red blood cells.
Lipids Health Dis 2013 Feb; 12(): 10.

Pipes L, Li S, Bozinoski M, Palermo R, Peng X, Blood P, Kelly S, Weiss JM, Thierry-Mieg J, Thierry-Mieg D, Zumbo P, Chen R, Schroth GP, Mason CE, Katze MG.
The non-human primate reference transcriptome resource (NHPRTR) for comparative functional genomics.
Nucleic Acids Res. 2013 Jan; 41(Database issue): D906-14.

Rogers J.
In transition: primate genomics at a time of rapid change.
ILAR J. 2013;54(2):224-33. doi: 10.1093/ilar/ilt042.

Satkoski Trask J, George D, Houghton P, Kanthaswamy S, Smith DG.
Population and landscape genetics of an introduced species (M. fascicularis) on the island of Mauritius.
PLoS ONE 2013 01; 8(1): e53001.

Satkoski Trask JA, Garnica WT, Smith DG, Houghton P, Lerche N, Kanthaswamy S.
Single-nucleotide polymorphisms reveal patterns of allele sharing across the species boundary between rhesus (Macaca mulatta) and cynomolgus (M. fascicularis) macaques.
Am. J. Primatol. 2013 Feb; 75(2): 135-44.

Silveira EL, Fogg MH, Leskowitz RM, Ertl HC, Wiseman RW, O'Connor DH, Lieberman P, Wang F, Villinger F.
Therapeutic vaccination against the rhesus lymphocryptovirus EBNA-1 homologue, rhEBNA-1, elicits T cell responses to novel epitopes in rhesus macaques.
J. Virol. 2013 Dec; 87(24): 13904-10.

Spradling KD, Glenn JP, Garcia R, Shade RE, Cox LA.
The baboon kidney transcriptome: analysis of transcript sequence, splice variants, and abundance.
PLoS ONE 2013 05; 8(4): e57563.

Vallender EJ, Miller GM.
Nonhuman primate models in the genomic era: a paradigm shift.
ILAR J 2013 10; 54(2): 154-65.

Vallender EJ.
How brains are built: genetics and evolution.
Brain Behav. Evol. 2013 04; 81(2): 71-3.

Vinson A, Mitchell AD, Toffey D, Silver J, Raboin MJ.
Sex-specific heritability of spontaneous lipid levels in an extended pedigree of Indian-origin rhesus macaques (Macaca mulatta).
PLoS ONE 2013 08; 8(8): e72241.

Vinson A, Prongay K, Ferguson B.
The value of extended pedigrees for next-generation analysis of complex disease in the rhesus macaque.
ILAR J 2013 10; 54(2): 91-105.

Walsh AD, Bimber BN, Das A, Piaskowski SM, Rakasz EG, Bean AT, Mudd PA, Ericsen AJ, Wilson NA, Hughes AL, O'Connor DH, Maness NJ.
Acute phase CD8+ T lymphocytes against alternate reading frame epitopes select for rapid viral escape during SIV infection.
PLoS ONE 2013 05; 8(5): e61383.

Wilker PR, Dinis JM, Starrett G, Imai M, Hatta M, Nelson CW, O'Connor DH, Hughes AL, Neumann G, Kawaoka Y, Friedrich TC.
Selection on haemagglutinin imposes a bottleneck during mammalian transmission of reassortant H5N1 influenza viruses.
Nat Commun 2013 10; 4(): 2636.

2012

Bakken TE, Roddey JC, Djurovic S, Akshoomoff N, Amaral DG, Bloss CS, Casey BJ, Chang L, Ernst TM, Gruen JR, Jernigan TL, Kaufmann WE, Kenet T, Kennedy DN, Kuperman JM, Murray SS, Sowell ER, Rimol LM, Mattingsdal M, Melle I, Agartz I, Andreassen OA, Schork NJ, Dale AM, , , Weiner M, Aisen P, Petersen R, Jack CR, Jagust W, Trojanowki JQ, Toga AW, Beckett L, Green RC, Saykin AJ, Morris J, Liu E, Montine T, Gamst A, Thomas RG, Donohue M, Walter S, Gessert D, Sather T, Harvey D, Kornak J, Dale A, Bernstein M, Felmlee J, Fox N, Thompson P, Schuff N, Alexander G, DeCarli C, Bandy D, Koeppe RA, Foster N, Reiman EM, Chen K, Mathis C, Cairns NJ, Taylor-Reinwald L, Trojanowki JQ, Shaw L, Lee VM, Korecka M, Crawford K, Neu S, Foroud TM, Potkin S, Shen L, Kachaturian Z, Frank R, Snyder PJ, Molchan S, Kaye J, Quinn J, Lind B, Dolen S, Schneider LS, Pawluczyk S, Spann BM, Brewer J, Vanderswag H, Heidebrink JL, Lord JL, Johnson K, Doody RS, Villanueva-Meyer J, Chowdhury M, Stern Y, Honig LS, Bell KL, Morris JC, Ances B, Carroll M, Leon S, Mintun MA, Schneider S, Marson D, Griffith R, Clark D, Grossman H, Mitsis E, Romirowsky A, deToledo-Morrell L, Shah RC, Duara R, Varon D, Roberts P, Albert M, Onyike C, Kielb S, Rusinek H, de Leon MJ, Glodzik L, De Santi S, Doraiswamy PM, Petrella JR, Coleman RE, Arnold SE, Karlawish JH, Wolk D, Smith CD, Jicha G, Hardy P, Lopez OL, Oakley M, Simpson DM, Porsteinsson AP, Goldstein BS, Martin K, Makino KM, Ismail MS, Brand C, Mulnard RA, Thai G, Mc-Adams-Ortiz C, Womack K, Mathews D, Quiceno M, Diaz-Arrastia R, King R, Weiner M, Martin-Cook K, DeVous M, Levey AI, Lah JJ, Cellar JS, Burns JM, Anderson HS, Swerdlow RH, Apostolova L, Lu PH, Bartzokis G, Silverman DH, Graff-Radford NR, Parfitt F, Johnson H, Farlow MR, Hake AM, Matthews BR, Herring S, van Dyck CH, Carson RE, MacAvoy MG, Chertkow H, Bergman H, Hosein C, Black S, Stefanovic B, Caldwell C, Ging-Yuek , Hsiung R, Feldman H, Mudge B, Assaly M, Kertesz A, Rogers J, Trost D, Bernick C, Munic D, Kerwin D, Mesulam MM, Lipowski K, Wu CK, Johnson N, Sadowsky C, Martinez W, Villena T, Turner RS, Johnson K, Reynolds B, Sperling RA, Johnson KA, Marshall G, Frey M, Yesavage J, Taylor JL, Lane B, Rosen A, Tinklenberg J, Sabbagh M, Belden C, Jacobson S, Kowall N, Killiany R, Budson AE, Norbash A, Johnson PL, Obisesan TO, Wolday S, Bwayo SK, Lerner A, Hudson L, Ogrocki P, Fletcher E, Carmichael O, Olichney J, Kittur S, Borrie M, Lee TY, Bartha R, Johnson S, Asthana S, Carlsson CM, Potkin SG, Preda A, Nguyen D, Tariot P, Fleisher A, Reeder S, Bates V, Capote H, Rainka M, Scharre DW, Kataki M, Zimmerman EA, Celmins D, Brown AD, Pearlson GD, Blank K, Anderson K, Santulli RB, Schwartz ES, Sink KM, Williamson JD, Garg P, Watkins F, Ott BR, Querfurth H, Tremont G, Salloway S, Malloy P, Correia S, Rosen HJ, Miller BL, Mintzer J, Longmire CF, Spicer K, Finger E, Rachinsky I, Drost D, Jernigan T, McCabe C, Grant E, Ernst T, Kuperman J, Chung Y, Murray S, Bloss C, Darst B, Pritchett L, Saito A, Amaral D, DiNino M, Eyngorina B, Sowell E, Houston S, Soderberg L, Kaufmann W, van Zijl P, Rizzo-Busack H, Javid M, Mehta N, Ruberry E, Powers A, Rosen B, Gebhard N, Manigan H, Frazier J, Kennedy D, Yakutis L, Hill M, Gruen J, Bosson-Heenan J, Carlson H.
Association of common genetic variants in GPCPD1 with scaling of visual cortical surface area in humans.
Proc. Natl. Acad. Sci. U.S.A. 2012 Mar; 109(10): 3985-90.

Becker EA, Burns CM, León EJ, Rajabojan S, Friedman R, Friedrich TC, O'Connor SL, Hughes AL.
Experimental analysis of sources of error in evolutionary studies based on Roche/454 pyrosequencing of viral genomes.
Genome Biol Evol 2012 04; 4(4): 457-65.

Bosinger SE, Jacquelin B, Benecke A, Silvestri G, Müller-Trutwin M.
Systems biology of natural simian immunodeficiency virus infections.
Curr Opin HIV AIDS 2012 Jan; 7(1): 71-8.

Budde ML, Greene JM, Chin EN, Ericsen AJ, Scarlotta M, Cain BT, Pham NH, Becker EA, Harris M, Weinfurter JT, O'Connor SL, Piatak M, Lifson JD, Gostick E, Price DA, Friedrich TC, O'Connor DH.
Specific CD8+ T cell responses correlate with control of simian immunodeficiency virus replication in Mauritian cynomolgus macaques.
J. Virol. 2012 Jul; 86(14): 7596-604.

Chahroudi A, Bosinger SE, Vanderford TH, Paiardini M, Silvestri G.
Natural SIV hosts: showing AIDS the door.
Science 2012 Mar; 335(6073): 1188-93.

Dyavar Shetty R, Velu V, Titanji K, Bosinger SE, Freeman GJ, Silvestri G, Amara RR.
PD-1 blockade during chronic SIV infection reduces hyperimmune activation and microbial translocation in rhesus macaques.
J. Clin. Invest. 2012 May; 122(5): 1712-6.

Ferguson B, Hunter JE, Luty J, Street SL, Woodall A, Grant KA.
Genetic load is associated with hypothalamic-pituitary-adrenal axis dysregulation in macaques.
Genes Brain Behav. 2012 Nov; 11(8): 949-57.

Greene JM, Chin EN, Budde ML, Lhost JJ, Hines PJ, Burwitz BJ, Broman KW, Nelson JE, Friedrich TC, O'Connor DH.
Ex vivo SIV-specific CD8 T cell responses in heterozygous animals are primarily directed against peptides presented by a single MHC haplotype.
PLoS ONE 2012 08; 7(8): e43690.

Holmes RS, Cox LA.
Comparative studies of glycosylphosphatidylinositol-anchored high-density lipoprotein-binding protein 1: evidence for a eutherian mammalian origin for the GPIHBP1 gene from an LY6-like gene.
3 Biotech 2012 Mar; 2(1): 37-52.

Hughes AL, Becker EA, Lauck M, Karl JA, Braasch AT, O'Connor DH, O'Connor SL.
SIV genome-wide pyrosequencing provides a comprehensive and unbiased view of variation within and outside CD8 T lymphocyte epitopes.
PLoS ONE 2012 10; 7(10): e47818.

Jin X, He M, Ferguson B, Meng Y, Ouyang L, Ren J, Mailund T, Sun F, Sun L, Shen J, Zhuo M, Song L, Wang J, Ling F, Zhu Y, Hvilsom C, Siegismund H, Liu X, Gong Z, Ji F, Wang X, Liu B, Zhang Y, Hou J, Wang J, Zhao H, Wang Y, Fang X, Zhang G, Wang J, Zhang X, Schierup MH, Du H, Wang J, Wang X.
An effort to use human-based exome capture methods to analyze chimpanzee and macaque exomes.
PLoS ONE 2012 07; 7(7): e40637.

Johnson ZP, Eady RD, Ahmad SF, Agravat S, Morris T, Else J, Lank SM, Wiseman RW, O'Connor DH, Penedo MC, Larsen CP, Kean LS.
Immunogenetic Management Software: a new tool for visualization and analysis of complex immunogenetic datasets.
Immunogenetics 2012 Apr; 64(4): 329-36.

Jones DC, Ruzzo WL, Peng X, Katze MG.
A new approach to bias correction in RNA-Seq.
Bioinformatics 2012 Apr; 28(7): 921-8.

Jones DC, Ruzzo WL, Peng X, Katze MG.
Compression of next-generation sequencing reads aided by highly efficient de novo assembly.
Nucleic Acids Res. 2012 Dec; 40(22): e171.

Kanthaswamy S, Ng J, Penedo MC, Ward T, Smith DG, Ha JC.
Population genetics of the Washington National Primate Research Center's (WaNPRC) captive pigtailed macaque (Macaca nemestrina) population.
Am. J. Primatol. 2012 Nov; 74(11): 1017-27.

Karere GM, Glenn JP, VandeBerg JL, Cox LA.
Differential microRNA response to a high-cholesterol, high-fat diet in livers of low and high LDL-C baboons.
BMC Genomics 2012 Jul; 13(): 320.

Kubisch HM, Falkenstein KP, Deroche CB, Franke DE.
Reproductive efficiency of captive Chinese- and Indian-origin rhesus macaque (Macaca mulatta) females.
Am. J. Primatol. 2012 Feb; 74(2): 174-84.

Lank SM, Golbach BA, Creager HM, Wiseman RW, Keskin DB, Reinherz EL, Brusic V, O'Connor DH.
Ultra-high resolution HLA genotyping and allele discovery by highly multiplexed cDNA amplicon pyrosequencing.
BMC Genomics 2012 Aug; 13(): 378.

Lomniczi A, Garcia-Rudaz C, Ramakrishnan R, Wilmot B, Khouangsathiene S, Ferguson B, Dissen GA, Ojeda SR.
A single-nucleotide polymorphism in the EAP1 gene is associated with amenorrhea/oligomenorrhea in nonhuman primates.
Endocrinology 2012 Jan; 153(1): 339-49.

Mao P, Gallagher P, Nedungadi S, Manczak M, Shirendeb UP, Kohama SG, Ferguson B, Park BS, Reddy PH.
Mitochondrial DNA deletions and differential mitochondrial DNA content in Rhesus monkeys: implications for aging.
Biochim. Biophys. Acta 2012 Feb; 1822(2): 111-9.

Mir KD, Bosinger SE, Gasper M, Ho O, Else JG, Brenchley JM, Kelvin DJ, Silvestri G, Hu SL, Sodora DL.
Simian immunodeficiency virus-induced alterations in monocyte production of tumor necrosis factor alpha contribute to reduced immune activation in sooty mangabeys.
J. Virol. 2012 Jul; 86(14): 7605-15.

Mubiru JN, Cavazos N, Hemmat P, Garcia-Forey M, Shade RE, Rogers J.
Androgen receptor CAG repeat polymorphism in males of six non-human primate species.
J. Med. Primatol. 2012 Feb; 41(1): 67-70.

Mubiru JN, Garcia-Forey M, Cavazos N, Hemmat P, Dick EJ, Owston MA, Bauer CA, Shade RE, Rogers J.
Serum prostate specific antigen changes in cynomolgus monkeys (Macaca fascicularis) on a high sugar high fat diet.
Prostate 2012 Apr; 72(5): 469-75.

Mudd PA, Ericsen AJ, Burwitz BJ, Wilson NA, O'Connor DH, Hughes AL, Watkins DI.
Escape from CD8(+) T cell responses in Mamu-B*00801(+) macaques differentiates progressors from elite controllers.
J. Immunol. 2012 Apr; 188(7): 3364-70.

Mudd PA, Martins MA, Ericsen AJ, Tully DC, Power KA, Bean AT, Piaskowski SM, Duan L, Seese A, Gladden AD, Weisgrau KL, Furlott JR, Kim YI, Veloso de Santana MG, Rakasz E, Capuano S, Wilson NA, Bonaldo MC, Galler R, Allison DB, Piatak M, Haase AT, Lifson JD, Allen TM, Watkins DI.
Vaccine-induced CD8+ T cells control AIDS virus replication.
Nature 2012 Nov; 491(7422): 129-33.

Northcott CA, Glenn JP, Shade RE, Kammerer CM, Hinojosa-Laborde C, Fink GD, Haywood JR, Cox LA.
A custom rat and baboon hypertension gene array to compare experimental models.
Exp. Biol. Med. (Maywood) 2012 Jan; 237(1): 99-110.

O'Connor SL, Becker EA, Weinfurter JT, Chin EN, Budde ML, Gostick E, Correll M, Gleicher M, Hughes AL, Price DA, Friedrich TC, O'Connor DH.
Conditional CD8+ T cell escape during acute simian immunodeficiency virus infection.
J. Virol. 2012 Jan; 86(1): 605-9.

Phillips KA, Rogers J, Barrett EA, Glahn DC, Kochunov P.
Genetic contributions to the midsagittal area of the corpus callosum.
Twin Res Hum Genet 2012 Jun; 15(3): 315-23.

Premasuthan A, Ng J, Kanthaswamy S, Trask JS, Houghton P, Farkas T, Sestak K, Smith DG.
Molecular ABO phenotyping in cynomolgus macaques using real-time quantitative PCR.
Tissue Antigens 2012 Oct; 80(4): 363-7.

Rogers J, Raveendran M, Fawcett GL, Fox AS, Shelton SE, Oler JA, Cheverud J, Muzny DM, Gibbs RA, Davidson RJ, Kalin NH.
CRHR1 genotypes, neural circuits and the diathesis for anxiety and depression.
Mol Psychiatry. 2013 Jun;18(6):700-7. doi: 10.1038/mp.2012.152. Epub 2012 Nov 13.

Rout N, Greene J, Yue S, O'Connor D, Johnson RP, Else JG, Exley MA, Kaur A.
Loss of effector and anti-inflammatory natural killer T lymphocyte function in pathogenic simian immunodeficiency virus infection.
PLoS Pathog. 2012 Sep; 8(9): e1002928.

Shi Q, Cox LA, Hodara V, Wang XL, VandeBerg JL.
Repertoire of endothelial progenitor cells mobilized by femoral artery ligation: a nonhuman primate study.
J. Cell. Mol. Med. 2012 Sep; 16(9): 2060-73.

Sweeney CG, Curran E, Westmoreland SV, Mansfield KG, Vallender EJ.
Quantitative molecular assessment of chimerism across tissues in marmosets and tamarins.
BMC Genomics 2012 Mar; 13(): 98.

Sweeney C, Ward J, Vallender EJ.
Naturally occurring, physiologically normal, primate chimeras.
Chimerism ; 3(2): 43-4.

Taaffe JE, Bosinger SE, Del Prete GQ, Else JG, Ratcliffe S, Ward CD, Migone T, Paiardini M, Silvestri G.
CCR5 blockade is well tolerated and induces changes in the tissue distribution of CCR5+ and CD25+ T cells in healthy, SIV-uninfected rhesus macaques.
J. Med. Primatol. 2012 Feb; 41(1): 24-42.

Vallender EJ.
Genetic correlates of the evolving primate brain.
Prog. Brain Res. 2012 ; 195(): 27-44.

Vanderford TH, Slichter C, Rogers KA, Lawson BO, Obaede R, Else J, Villinger F, Bosinger SE, Silvestri G.
Treatment of SIV-infected sooty mangabeys with a type-I IFN agonist results in decreased virus replication without inducing hyperimmune activation.
Blood 2012 Jun; 119(24): 5750-7.

Ward JM, Vallender EJ.
The resurgence and genetic implications of New World primates in biomedical research.
Trends Genet. 2012 Dec; 28(12): 586-91.

Yuan Q, Zhou Z, Lindell SG, Higley JD, Ferguson B, Thompson RC, Lopez JF, Suomi SJ, Baghal B, Baker M, Mash DC, Barr CS, Goldman D.
The rhesus macaque is three times as diverse but more closely equivalent in damaging coding variation as compared to the human.
BMC Genet. 2012 Jun; 13(): 52.

2011

Antonow-Schlorke I, Schwab M, Cox LA, Li C, Stuchlik K, Witte OW, Nathanielsz PW, McDonald TJ.
Vulnerability of the fetal primate brain to moderate reduction in maternal global nutrient availability.
Proc. Natl. Acad. Sci. U.S.A. 2011 Feb; 108(7): 3011-6.

Barr A, Premasuthan A, Satkoski J, Smith DG, George D, Kanthaswamy S.
A rapid quantitative real-time PCR-based DNA quantification assay coupled with species--assignment capabilities for two hybridizing Macaca species.
Folia Primatol. 2011 10; 82(2): 71-80.

Belisle SE, Yin J, Shedlock DJ, Dai A, Yan J, Hirao L, Kutzler MA, Lewis MG, Andersen H, Lank SM, Karl JA, O'Connor DH, Khan A, Sardesai N, Chang J, Aicher L, Palermo RE, Weiner DB, Katze MG, Boyer J.
Long-term programming of antigen-specific immunity from gene expression signatures in the PBMC of rhesus macaques immunized with an SIV DNA vaccine.
PLoS ONE 2011 06; 6(6): e19681.

Bosinger SE, Sodora DL, Silvestri G.
Generalized immune activation and innate immune responses in simian immunodeficiency virus infection.
Curr Opin HIV AIDS 2011 Sep; 6(5): 411-8.

Budde ML, Lhost JJ, Burwitz BJ, Becker EA, Burns CM, O'Connor SL, Karl JA, Wiseman RW, Bimber BN, Zhang GL, Hildebrand W, Brusic V, O'Connor DH.
Transcriptionally abundant major histocompatibility complex class I alleles are fundamental to nonhuman primate simian immunodeficiency virus-specific CD8+ T cell responses.
J. Virol. 2011 Apr; 85(7): 3250-61.

Burwitz BJ, Ende Z, Sudolcan B, Reynolds MR, Greene JM, Bimber BN, Almeida JR, Kurniawan M, Venturi V, Gostick E, Wiseman RW, Douek DC, Price DA, O'Connor DH.
Simian immunodeficiency virus SIVmac239Deltanef vaccination elicits different Tat28-35SL8-specific CD8+ T-cell clonotypes compared to a DNA prime/adenovirus type 5 boost regimen in rhesus macaques.
J. Virol. 2011 Apr; 85(7): 3683-9.

Burwitz BJ, Sacha JB, Reed JS, Newman LP, Norante FA, Bimber BN, Wilson NA, Watkins DI, O'Connor DH.
Pyrosequencing reveals restricted patterns of CD8+ T cell escape-associated compensatory mutations in simian immunodeficiency virus.
J. Virol. 2011 Dec; 85(24): 13088-96.

Chang ST, Sova P, Peng X, Weiss J, Law GL, Palermo RE, Katze MG.
Next-generation sequencing reveals HIV-1-mediated suppression of T cell activation and RNA processing and regulation of noncoding RNA expression in a CD4+ T cell line.
MBio 2011 09; 2(5): .

Colantonio AD, Bimber BN, Neidermyer WJ, Reeves RK, Alter G, Altfeld M, Johnson RP, Carrington M, O'Connor DH, Evans DT.
KIR polymorphisms modulate peptide-dependent binding to an MHC class I ligand with a Bw6 motif.
PLoS Pathog. 2011 Mar; 7(3): e1001316.

Creager HM, Becker EA, Sandman KK, Karl JA, Lank SM, Bimber BN, Wiseman RW, Hughes AL, O'Connor SL, O'Connor DH.
Characterization of full-length MHC class II sequences in Indonesian and Vietnamese cynomolgus macaques.
Immunogenetics 2011 Sep; 63(9): 611-8.

Dietrich EA, Brennan G, Ferguson B, Wiseman RW, O'Connor D, Hu SL.
Variable prevalence and functional diversity of the antiretroviral restriction factor TRIMCyp in Macaca fascicularis.
J. Virol. 2011 Oct; 85(19): 9956-63.

Fawcett GL, Raveendran M, Deiros DR, Chen D, Yu F, Harris RA, Ren Y, Muzny DM, Reid JG, Wheeler DA, Worley KC, Shelton SE, Kalin NH, Milosavljevic A, Gibbs R, Rogers J.
Characterization of single-nucleotide variation in Indian-origin rhesus macaques (Macaca mulatta).
BMC Genomics 2011 Jun; 12(): 311.

Gokcumen O, Babb PL, Iskow RC, Zhu Q, Shi X, Mills RE, Ionita-Laza I, Vallender EJ, Clark AG, Johnson WE, Lee C.
Refinement of primate copy number variation hotspots identifies candidate genomic regions evolving under positive selection.
Genome Biol. 2011 10; 12(5): R52.

Greene JM, Wiseman RW, Lank SM, Bimber BN, Karl JA, Burwitz BJ, Lhost JJ, Hawkins OE, Kunstman KJ, Broman KW, Wolinsky SM, Hildebrand WH, O'Connor DH.
Differential MHC class I expression in distinct leukocyte subsets.
BMC Immunol. 2011 Jul; 12(): 39.

Holmes RS, Cox LA.
Comparative Structures and Evolution of Vertebrate Carboxyl Ester Lipase (CEL) Genes and Proteins with a Major Role in Reverse Cholesterol Transport.
Cholesterol 2011 12; 2011(): 781643.

Holmes RS, Vandeberg JL, Cox LA.
Vertebrate endothelial lipase: comparative studies of an ancient gene and protein in vertebrate evolution.
Genetica 2011 Mar; 139(3): 291-304.

Holmes RS, Vandeberg JL, Cox LA.
Comparative studies of vertebrate lipoprotein lipase: a key enzyme of very low density lipoprotein metabolism.
Comp. Biochem. Physiol. Part D Genomics Proteomics 2011 Jun; 6(2): 224-34.

Holmes RS, Vandeberg JL, Cox LA.
Vertebrate hepatic lipase genes and proteins: a review supported by bioinformatic studies.
Open Access Bioinformatics 2011 Apr; 2011(3): 85-95.

Holmes RS, Vandeberg JL, Cox LA.
Genomics and proteomics of vertebrate cholesterol ester lipase (LIPA) and cholesterol 25-hydroxylase (CH25H).
3 Biotech 2011 Sep; 1(2): 99-109.

Kamat A, Nijland MJ, McDonald TJ, Cox LA, Nathanielsz PW, Li C.
Moderate global reduction in maternal nutrition has differential stage of gestation specific effects on {beta}1- and {beta}2-adrenergic receptors in the fetal baboon liver.
Reprod Sci 2011 Apr; 18(4): 398-405.

Kanthaswamy S, Clarke PM, Kou A, Malladi V, Trask JS, Smith DG.
Association between hybrid status and reproductive success of captive male and female rhesus macaques (Macaca mulatta) at the California National Primate Research Center (CNPRC).
Am. J. Primatol. 2011 Jul; 73(7): 671-8.

Kwa S, Kannanganat S, Nigam P, Siddiqui M, Shetty RD, Armstrong W, Ansari A, Bosinger SE, Silvestri G, Amara RR.
Plasmacytoid dendritic cells are recruited to the colorectum and contribute to immune activation during pathogenic SIV infection in rhesus macaques.
Blood 2011 Sep; 118(10): 2763-73.

Lauck M, Hyeroba D, Tumukunde A, Weny G, Lank SM, Chapman CA, O'Connor DH, Friedrich TC, Goldberg TL.
Novel, divergent simian hemorrhagic fever viruses in a wild Ugandan red colobus monkey discovered using direct pyrosequencing.
PLoS ONE 2011 Apr; 6(4): e19056.

Malhi RS, Trask JS, Shattuck M, Johnson J, Chakraborty D, Kanthaswamy S, Ramakrishnan U, Smith DG.
Genotyping single nucleotide polymorphisms (SNPs) across species in Old World Monkeys.
Am. J. Primatol. 2011 Oct; 73(10): 1031-40.

Malhotra R, Hu L, Song W, Brill I, Mulenga J, Allen S, Hunter E, Shrestha S, Tang J, Kaslow RA.
Association of chemokine receptor gene (CCR2-CCR5) haplotypes with acquisition and control of HIV-1 infection in Zambians.
Retrovirology 2011 Mar; 8(): 22.

Miley DD, Baumgartner MH, Cheverud JM, Roseman CC, Rogers J, McLeod DE, Reyes E, Hildebolt CF.
Heritability of alveolar bone loss from periodontal disease in a baboon population: a pilot study.
J. Periodontol. 2011 Apr; 82(4): 575-80.

Moreland AJ, Guethlein LA, Reeves RK, Broman KW, Johnson RP, Parham P, O'Connor DH, Bimber BN.
Characterization of killer immunoglobulin-like receptor genetics and comprehensive genotyping by pyrosequencing in rhesus macaques.
BMC Genomics 2011 Jun; 12(): 295.

Mubiru JN, Garcia-Forey M, Higgins PB, Hemmat P, Cavazos NE, Dick EJ, Owston MA, Bauer CA, Shade RE, Comuzzie AG, Rogers J.
A preliminary report on the feeding of cynomolgus monkeys (Macaca fascicularis) with a high-sugar high-fat diet for 33 weeks.
J. Med. Primatol. 2011 Oct; 40(5): 335-41.

Mudd PA, Ericsen AJ, Walsh AD, León EJ, Wilson NA, Maness NJ, Friedrich TC, Watkins DI.
CD8+ T cell escape mutations in simian immunodeficiency virus SIVmac239 cause fitness defects in vivo, and many revert after transmission.
J. Virol. 2011 Dec; 85(23): 12804-10.

Paiardini M, Cervasi B, Reyes-Aviles E, Micci L, Ortiz AM, Chahroudi A, Vinton C, Gordon SN, Bosinger SE, Francella N, Hallberg PL, Cramer E, Schlub T, Chan ML, Riddick NE, Collman RG, Apetrei C, Pandrea I, Else J, Munch J, Kirchhoff F, Davenport MP, Brenchley JM, Silvestri G.
Low levels of SIV infection in sooty mangabey central memory CD⁴⁺ T cells are associated with limited CCR5 expression.
Nat. Med. 2011 Jun; 17(7): 830-6.

Patterson LJ, Daltabuit-Test M, Xiao P, Zhao J, Hu W, Wille-Reece U, Brocca-Cofano E, Kalyanaraman VS, Kalisz I, Whitney S, Lee EM, Pal R, Montefiori DC, Dandekar S, Seder R, Roederer M, Wiseman RW, Hirsch V, Robert-Guroff M.
Rapid SIV Env-specific mucosal and serum antibody induction augments cellular immunity in protecting immunized, elite-controller macaques against high dose heterologous SIV challenge.
Virology 2011 Mar; 411(1): 87-102.

Peng X, Gralinski L, Ferris MT, Frieman MB, Thomas MJ, Proll S, Korth MJ, Tisoncik JR, Heise M, Luo S, Schroth GP, Tumpey TM, Li C, Kawaoka Y, Baric RS, Katze MG.
Integrative deep sequencing of the mouse lung transcriptome reveals differential expression of diverse classes of small RNAs in response to respiratory virus infection.
MBio 2011 11; 2(6): .

Premasuthan A, Kanthaswamy S, Satkoski J, Smith DG.
A simple multiplex polymerase chain reaction to determine ABO blood types of rhesus macaques (Macaca mulatta).
Tissue Antigens 2011 Jun; 77(6): 584-8.

Rotger M, Dalmau J, Rauch A, McLaren P, Bosinger SE, Martinez R, Sandler NG, Roque A, Liebner J, Battegay M, Bernasconi E, Descombes P, Erkizia I, Fellay J, Hirschel B, Miró JM, Palou E, Hoffmann M, Massanella M, Blanco J, Woods M, Günthard HF, de Bakker P, Douek DC, Silvestri G, Martinez-Picado J, Telenti A.
Comparative transcriptomics of extreme phenotypes of human HIV-1 infection and SIV infection in sooty mangabey and rhesus macaque.
J. Clin. Invest. 2011 Jun; 121(6): 2391-400.

Song W, He D, Brill I, Malhotra R, Mulenga J, Allen S, Hunter E, Tang J, Kaslow RA.
Disparate associations of HLA class I markers with HIV-1 acquisition and control of viremia in an African population.
PLoS ONE 2011 08; 6(8): e23469.

Szabó CA, Kochunov P, Knape KD, McCoy KJ, Leland MM, Lancaster JL, Fox PT, Williams JT, Rogers J.
Cortical sulcal areas in baboons (Papio hamadryas spp.) with generalized interictal epileptic discharges on scalp EEG.
Epilepsy Res. 2011 Feb; 93(2-3): 91-5.

Trask JS, Garnica WT, Kanthaswamy S, Malhi RS, Smith DG.
4040 SNPs for genomic analysis in the rhesus macaque (Macaca mulatta).
Genomics 2011 Nov; 98(5): 352-8.

Trask JS, Garnica WT, Malhi RS, Kanthaswamy S, Smith DG.
High-throughput single-nucleotide polymorphism discovery and the search for candidate genes for long-term SIVmac nonprogression in Chinese rhesus macaques (Macaca mulatta).
J. Med. Primatol. 2011 Aug; 40(4): 224-32.

Vallender EJ.
Expanding whole exome resequencing into non-human primates.
Genome Biol. 2011 Sep; 12(9): R87.

Vinson A, Curran JE, Johnson MP, Dyer TD, Moses EK, Blangero J, Cox LA, Rogers J, Havill LM, Vandeberg JL, Mahaney MC.
Genetical genomics of Th1 and Th2 immune response in a baboon model of atherosclerosis risk factors.
Atherosclerosis 2011 Aug; 217(2): 387-94.

Vojnov L, Martins MA, Almeida JR, Ende Z, Rakasz EG, Reynolds MR, Leon EJ, Weisgrau KL, Burwitz BJ, Folkvord JM, de Santana MG, Neves PC, Connick E, Skinner PJ, Gostick E, O'Connor DH, Wilson NA, Bonaldo MC, Galler R, Price DA, Douek DC, Watkins DI.
GagCM9-specific CD8+ T cells expressing limited public TCR clonotypes do not suppress SIV replication in vivo.
PLoS ONE 2011 09; 6(8): e23515.

Waleh N, McCurnin DC, Yoder BA, Shaul PW, Clyman RI.
Patent ductus arteriosus ligation alters pulmonary gene expression in preterm baboons.
Pediatr. Res. 2011 Mar; 69(3): 212-6.

Westmoreland SV, Annamalai L, Lentz MR, Ratai EM, Assaf B, Boisvert K, Huynh T, Vallender EJ, Miller GM, Madras BK, Gonzalez RG.
Growth-associated protein-43 and ephrin B3 induction in the brain of adult SIV-infected rhesus macaques.
J. Neurovirol. 2011 Oct; 17(5): 455-68.

2010

Larsen CP, Page A, Linzie KH, Russell M, Deane T, Stempora L, Strobert E, Penedo MC, Ward T, Wiseman R, O'Connor D, Miller W, Sen S, Singh K, Kean LS.
An MHC-defined primate model reveals significant rejection of bone marrow after mixed chimerism induction despite full MHC matching.
Am. J. Transplant. 2010 Nov; 10(11): 2396-409.

Oler JA, Fox AS, Shelton SE, Rogers J, Dyer TD, Davidson RJ, Shelledy W, Oakes TR, Blangero J, Kalin NH.
Amygdalar and hippocampal substrates of anxious temperament differ in their heritability.
Nature 2010 Aug; 466(7308): 864-8.

Vallender EJ.
Comparative genetic approaches to the evolution of human brain and behavior.
Am. J. Hum. Biol. 2010 12; 23(1): 53-64.

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