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Items: 1 to 50 of 183

1.

Genetic basis of ruminant headgear and rapid antler regeneration.

Wang Y, Zhang C, Wang N, Li Z, Heller R, Liu R, Zhao Y, Han J, Pan X, Zheng Z, Dai X, Chen C, Dou M, Peng S, Chen X, Liu J, Li M, Wang K, Liu C, Lin Z, Chen L, Hao F, Zhu W, Song C, Zhao C, Zheng C, Wang J, Hu S, Li C, Yang H, Jiang L, Li G, Liu M, Sonstegard TS, Zhang G, Jiang Y, Wang W, Qiu Q.

Science. 2019 Jun 21;364(6446). pii: eaav6335. doi: 10.1126/science.aav6335.

PMID:
31221830
2.

Chickspress: a resource for chicken gene expression.

McCarthy FM, Pendarvis K, Cooksey AM, Gresham CR, Bomhoff M, Davey S, Lyons E, Sonstegard TS, Bridges SM, Burgess SC.

Database (Oxford). 2019 Jan 1;2019. pii: baz058. doi: 10.1093/database/baz058.

3.

Deciphering the patterns of genetic admixture and diversity in southern European cattle using genome-wide SNPs.

Upadhyay M, Bortoluzzi C, Barbato M, Ajmone-Marsan P, Colli L, Ginja C, Sonstegard TS, Bosse M, Lenstra JA, Groenen MAM, Crooijmans RPMA.

Evol Appl. 2019 Feb 8;12(5):951-963. doi: 10.1111/eva.12770. eCollection 2019 Jun.

4.

Comparison of gene editing versus conventional breeding to introgress the POLLED allele into the US dairy cattle population.

Mueller ML, Cole JB, Sonstegard TS, Van Eenennaam AL.

J Dairy Sci. 2019 May;102(5):4215-4226. doi: 10.3168/jds.2018-15892. Epub 2019 Mar 7.

5.

Genome changes due to artificial selection in U.S. Holstein cattle.

Ma L, Sonstegard TS, Cole JB, VanTassell CP, Wiggans GR, Crooker BA, Tan C, Prakapenka D, Liu GE, Da Y.

BMC Genomics. 2019 Feb 11;20(1):128. doi: 10.1186/s12864-019-5459-x.

6.

Computational detection and experimental validation of segmental duplications and associated copy number variations in water buffalo ( Bubalus bubalis ).

Liu S, Kang X, Catacchio CR, Liu M, Fang L, Schroeder SG, Li W, Rosen BD, Iamartino D, Iannuzzi L, Sonstegard TS, Van Tassell CP, Ventura M, Low WY, Williams JL, Bickhart DM, Liu GE.

Funct Integr Genomics. 2019 May;19(3):409-419. doi: 10.1007/s10142-019-00657-4. Epub 2019 Feb 7.

PMID:
30734132
7.

Association of Copy Number Variation at Intron 3 of HMGA2 With Navel Length in Bos indicus.

Aguiar TS, Torrecilha RBP, Milanesi M, Utsunomiya ATH, Trigo BB, Tijjani A, Musa HH, Lopes FL, Ajmone-Marsan P, Carvalheiro R, Neves HHR, do Carmo AS, Hanotte O, Sonstegard TS, Garcia JF, Utsunomiya YT.

Front Genet. 2018 Dec 7;9:627. doi: 10.3389/fgene.2018.00627. eCollection 2018.

8.

AdaptMap: exploring goat diversity and adaptation.

Stella A, Nicolazzi EL, Van Tassell CP, Rothschild MF, Colli L, Rosen BD, Sonstegard TS, Crepaldi P, Tosser-Klopp G, Joost S; AdaptMap Consortium.

Genet Sel Evol. 2018 Nov 19;50(1):61. doi: 10.1186/s12711-018-0427-5. No abstract available.

9.

Genome-wide SNP profiling of worldwide goat populations reveals strong partitioning of diversity and highlights post-domestication migration routes.

Colli L, Milanesi M, Talenti A, Bertolini F, Chen M, Crisà A, Daly KG, Del Corvo M, Guldbrandtsen B, Lenstra JA, Rosen BD, Vajana E, Catillo G, Joost S, Nicolazzi EL, Rochat E, Rothschild MF, Servin B, Sonstegard TS, Steri R, Van Tassell CP, Ajmone-Marsan P, Crepaldi P, Stella A; AdaptMap Consortium.

Genet Sel Evol. 2018 Nov 19;50(1):58. doi: 10.1186/s12711-018-0422-x.

10.

Signatures of selection and environmental adaptation across the goat genome post-domestication.

Bertolini F, Servin B, Talenti A, Rochat E, Kim ES, Oget C, Palhière I, Crisà A, Catillo G, Steri R, Amills M, Colli L, Marras G, Milanesi M, Nicolazzi E, Rosen BD, Van Tassell CP, Guldbrandtsen B, Sonstegard TS, Tosser-Klopp G, Stella A, Rothschild MF, Joost S, Crepaldi P; AdaptMap consortium.

Genet Sel Evol. 2018 Nov 19;50(1):57. doi: 10.1186/s12711-018-0421-y.

11.

Combining Landscape Genomics and Ecological Modelling to Investigate Local Adaptation of Indigenous Ugandan Cattle to East Coast Fever.

Vajana E, Barbato M, Colli L, Milanesi M, Rochat E, Fabrizi E, Mukasa C, Del Corvo M, Masembe C, Muwanika VB, Kabi F, Sonstegard TS, Huson HJ, Negrini R; NextGen Consortium, Joost S, Ajmone-Marsan P.

Front Genet. 2018 Oct 3;9:385. doi: 10.3389/fgene.2018.00385. eCollection 2018.

12.

Genome-wide scan reveals divergent selection among taurine and zebu cattle populations from different regions.

Edea Z, Dadi H, Dessie T, Uzzaman MR, Rothschild MF, Kim ES, Sonstegard TS, Kim KS.

Anim Genet. 2018 Dec;49(6):550-563. doi: 10.1111/age.12724. Epub 2018 Sep 23.

PMID:
30246258
13.

Convergent Evolution of Slick Coat in Cattle through Truncation Mutations in the Prolactin Receptor.

Porto-Neto LR, Bickhart DM, Landaeta-Hernandez AJ, Utsunomiya YT, Pagan M, Jimenez E, Hansen PJ, Dikmen S, Schroeder SG, Kim ES, Sun J, Crespo E, Amati N, Cole JB, Null DJ, Garcia JF, Reverter A, Barendse W, Sonstegard TS.

Front Genet. 2018 Feb 23;9:57. doi: 10.3389/fgene.2018.00057. eCollection 2018.

14.

A PLAG1 mutation contributed to stature recovery in modern cattle.

Utsunomiya YT, Milanesi M, Utsunomiya ATH, Torrecilha RBP, Kim ES, Costa MS, Aguiar TS, Schroeder S, do Carmo AS, Carvalheiro R, Neves HHR, Padula RCM, Sussai TS, Zavarez LB, Cipriano RS, Caminhas MMT, Hambrecht G, Colli L, Eufemi E, Ajmone-Marsan P, Cesana D, Sannazaro M, Buora M, Morgante M, Liu G, Bickhart D, Van Tassell CP, Sölkner J, Sonstegard TS, Garcia JF.

Sci Rep. 2017 Dec 7;7(1):17140. doi: 10.1038/s41598-017-17127-1.

15.

Design and validation of a 90K SNP genotyping assay for the water buffalo (Bubalus bubalis).

Iamartino D, Nicolazzi EL, Van Tassell CP, Reecy JM, Fritz-Waters ER, Koltes JE, Biffani S, Sonstegard TS, Schroeder SG, Ajmone-Marsan P, Negrini R, Pasquariello R, Ramelli P, Coletta A, Garcia JF, Ali A, Ramunno L, Cosenza G, de Oliveira DAA, Drummond MG, Bastianetto E, Davassi A, Pirani A, Brew F, Williams JL.

PLoS One. 2017 Oct 5;12(10):e0185220. doi: 10.1371/journal.pone.0185220. eCollection 2017.

16.

Whole genome structural analysis of Caribbean hair sheep reveals quantitative link to West African ancestry.

Spangler GL, Rosen BD, Ilori MB, Hanotte O, Kim ES, Sonstegard TS, Burke JM, Morgan JLM, Notter DR, Van Tassell CP.

PLoS One. 2017 Jun 29;12(6):e0179021. doi: 10.1371/journal.pone.0179021. eCollection 2017.

17.

Single-molecule sequencing and chromatin conformation capture enable de novo reference assembly of the domestic goat genome.

Bickhart DM, Rosen BD, Koren S, Sayre BL, Hastie AR, Chan S, Lee J, Lam ET, Liachko I, Sullivan ST, Burton JN, Huson HJ, Nystrom JC, Kelley CM, Hutchison JL, Zhou Y, Sun J, Crisà A, Ponce de León FA, Schwartz JC, Hammond JA, Waldbieser GC, Schroeder SG, Liu GE, Dunham MJ, Shendure J, Sonstegard TS, Phillippy AM, Van Tassell CP, Smith TP.

Nat Genet. 2017 Apr;49(4):643-650. doi: 10.1038/ng.3802. Epub 2017 Mar 6.

18.

Genome-Wide microRNA Binding Site Variation between Extinct Wild Aurochs and Modern Cattle Identifies Candidate microRNA-Regulated Domestication Genes.

Braud M, Magee DA, Park SD, Sonstegard TS, Waters SM, MacHugh DE, Spillane C.

Front Genet. 2017 Jan 31;8:3. doi: 10.3389/fgene.2017.00003. eCollection 2017.

19.

Systematic Profiling of Short Tandem Repeats in the Cattle Genome.

Xu L, Haasl RJ, Sun J, Zhou Y, Bickhart DM, Li J, Song J, Sonstegard TS, Van Tassell CP, Lewin HA, Liu GE.

Genome Biol Evol. 2017 Jan 1;9(1):20-31. doi: 10.1093/gbe/evw256.

20.

Elucidating the genetic basis of an oligogenic birth defect using whole genome sequence data in a non-model organism, Bubalus bubalis.

Whitacre LK, Hoff JL, Schnabel RD, Albarella S, Ciotola F, Peretti V, Strozzi F, Ferrandi C, Ramunno L, Sonstegard TS, Williams JL, Taylor JF, Decker JE.

Sci Rep. 2017 Jan 3;7:39719. doi: 10.1038/srep39719.

21.

Genomic Selection in Dairy Cattle: The USDA Experience.

Wiggans GR, Cole JB, Hubbard SM, Sonstegard TS.

Annu Rev Anim Biosci. 2017 Feb 8;5:309-327. doi: 10.1146/annurev-animal-021815-111422. Epub 2016 Nov 16. Review.

PMID:
27860491
22.

Reduced representation bisulphite sequencing of ten bovine somatic tissues reveals DNA methylation patterns and their impacts on gene expression.

Zhou Y, Xu L, Bickhart DM, Abdel Hay EH, Schroeder SG, Connor EE, Alexander LJ, Sonstegard TS, Van Tassell CP, Chen H, Liu GE.

BMC Genomics. 2016 Oct 6;17(1):779.

23.

Pleiotropic Genes Affecting Carcass Traits in Bos indicus (Nellore) Cattle Are Modulators of Growth.

G T Pereira A, Utsunomiya YT, Milanesi M, Torrecilha RB, Carmo AS, Neves HH, Carvalheiro R, Ajmone-Marsan P, Sonstegard TS, Sölkner J, Contreras-Castillo CJ, Garcia JF.

PLoS One. 2016 Jul 13;11(7):e0158165. doi: 10.1371/journal.pone.0158165. eCollection 2016.

24.

Comparative analyses across cattle genders and breeds reveal the pitfalls caused by false positive and lineage-differential copy number variations.

Zhou Y, Utsunomiya YT, Xu L, Hay el HA, Bickhart DM, Sonstegard TS, Van Tassell CP, Garcia JF, Liu GE.

Sci Rep. 2016 Jul 6;6:29219. doi: 10.1038/srep29219.

25.

Identification of a nonsense mutation in APAF1 that is likely causal for a decrease in reproductive efficiency in Holstein dairy cattle.

Adams HA, Sonstegard TS, VanRaden PM, Null DJ, Van Tassell CP, Larkin DM, Lewin HA.

J Dairy Sci. 2016 Aug;99(8):6693-6701. doi: 10.3168/jds.2015-10517. Epub 2016 Jun 8.

26.

Genome-wide CNV analysis reveals variants associated with growth traits in Bos indicus.

Zhou Y, Utsunomiya YT, Xu L, Hay el HA, Bickhart DM, Alexandre PA, Rosen BD, Schroeder SG, Carvalheiro R, de Rezende Neves HH, Sonstegard TS, Van Tassell CP, Ferraz JB, Fukumasu H, Garcia JF, Liu GE.

BMC Genomics. 2016 Jun 1;17:419. doi: 10.1186/s12864-016-2461-4.

27.

Integrated metabolomic and transcriptome analyses reveal finishing forage affects metabolic pathways related to beef quality and animal welfare.

Carrillo JA, He Y, Li Y, Liu J, Erdman RA, Sonstegard TS, Song J.

Sci Rep. 2016 May 17;6:25948. doi: 10.1038/srep25948.

28.

Genomic Regions Associated with Sheep Resistance to Gastrointestinal Nematodes.

Benavides MV, Sonstegard TS, Van Tassell C.

Trends Parasitol. 2016 Jun;32(6):470-480. doi: 10.1016/j.pt.2016.03.007. Epub 2016 May 13. Review.

PMID:
27183838
29.

Production of hornless dairy cattle from genome-edited cell lines.

Carlson DF, Lancto CA, Zang B, Kim ES, Walton M, Oldeschulte D, Seabury C, Sonstegard TS, Fahrenkrug SC.

Nat Biotechnol. 2016 May 6;34(5):479-81. doi: 10.1038/nbt.3560. No abstract available.

PMID:
27153274
30.

Diversity and population-genetic properties of copy number variations and multicopy genes in cattle.

Bickhart DM, Xu L, Hutchison JL, Cole JB, Null DJ, Schroeder SG, Song J, Garcia JF, Sonstegard TS, Van Tassell CP, Schnabel RD, Taylor JF, Lewin HA, Liu GE.

DNA Res. 2016 Jun;23(3):253-62. doi: 10.1093/dnares/dsw013. Epub 2016 Apr 15.

31.

Increasing the number of single nucleotide polymorphisms used in genomic evaluation of dairy cattle.

Wiggans GR, Cooper TA, VanRaden PM, Van Tassell CP, Bickhart DM, Sonstegard TS.

J Dairy Sci. 2016 Jun;99(6):4504-4511. doi: 10.3168/jds.2015-10456. Epub 2016 Mar 31.

32.

Population-genetic properties of differentiated copy number variations in cattle.

Xu L, Hou Y, Bickhart DM, Zhou Y, Hay el HA, Song J, Sonstegard TS, Van Tassell CP, Liu GE.

Sci Rep. 2016 Mar 23;6:23161. doi: 10.1038/srep23161.

33.

What's in your next-generation sequence data? An exploration of unmapped DNA and RNA sequence reads from the bovine reference individual.

Whitacre LK, Tizioto PC, Kim J, Sonstegard TS, Schroeder SG, Alexander LJ, Medrano JF, Schnabel RD, Taylor JF, Decker JE.

BMC Genomics. 2015 Dec 29;16:1114. doi: 10.1186/s12864-015-2313-7.

34.

Genome sequencing of the extinct Eurasian wild aurochs, Bos primigenius, illuminates the phylogeography and evolution of cattle.

Park SD, Magee DA, McGettigan PA, Teasdale MD, Edwards CJ, Lohan AJ, Murphy A, Braud M, Donoghue MT, Liu Y, Chamberlain AT, Rue-Albrecht K, Schroeder S, Spillane C, Tai S, Bradley DG, Sonstegard TS, Loftus BJ, MacHugh DE.

Genome Biol. 2015 Oct 26;16:234. doi: 10.1186/s13059-015-0790-2.

35.

MicroRNA expression profiles of bovine milk exosomes in response to Staphylococcus aureus infection.

Sun J, Aswath K, Schroeder SG, Lippolis JD, Reinhardt TA, Sonstegard TS.

BMC Genomics. 2015 Oct 16;16:806. doi: 10.1186/s12864-015-2044-9.

36.

Genome-Wide Scan for Visceral Leishmaniasis in Mixed-Breed Dogs Identifies Candidate Genes Involved in T Helper Cells and Macrophage Signaling.

Utsunomiya YT, Ribeiro ÉS, Quintal AP, Sangalli JR, Gazola VR, Paula HB, Trinconi CM, Lima VM, Perri SH, Taylor JF, Schnabel RD, Sonstegard TS, Garcia JF, Nunes CM.

PLoS One. 2015 Sep 8;10(9):e0136749. doi: 10.1371/journal.pone.0136749. eCollection 2015.

37.

The Relationship between Runs of Homozygosity and Inbreeding in Jersey Cattle under Selection.

Kim ES, Sonstegard TS, Van Tassell CP, Wiggans G, Rothschild MF.

PLoS One. 2015 Jul 8;10(7):e0129967. doi: 10.1371/journal.pone.0129967. eCollection 2015.

38.

Evidence of Bos javanicus x Bos indicus hybridization and major QTLs for birth weight in Indonesian Peranakan Ongole cattle.

Hartati H, Utsunomiya YT, Sonstegard TS, Garcia JF, Jakaria J, Muladno M.

BMC Genet. 2015 Jul 4;16:75. doi: 10.1186/s12863-015-0229-5.

39.

Low levels of taurine introgression in the current Brazilian Nelore and Gir indicine cattle populations.

O'Brien AM, Höller D, Boison SA, Milanesi M, Bomba L, Utsunomiya YT, Carvalheiro R, Neves HH, da Silva MV, VanTassell CP, Sonstegard TS, Mészáros G, Ajmone-Marsan P, Garcia F, Sölkner J.

Genet Sel Evol. 2015 Apr 17;47:31. doi: 10.1186/s12711-015-0109-5.

40.

Recent artificial selection in U.S. Jersey cattle impacts autozygosity levels of specific genomic regions.

Kim ES, Sonstegard TS, Rothschild MF.

BMC Genomics. 2015 Apr 16;16:302. doi: 10.1186/s12864-015-1500-x.

41.

Detection of quantitative trait loci for mineral content of Nelore longissimus dorsi muscle.

Tizioto PC, Taylor JF, Decker JE, Gromboni CF, Mudadu MA, Schnabel RD, Coutinho LL, Mourão GB, Oliveira PS, Souza MM, Reecy JM, Nassu RT, Bressani FA, Tholon P, Sonstegard TS, Alencar MM, Tullio RR, Nogueira AR, Regitano LC.

Genet Sel Evol. 2015 Mar 11;47:15. doi: 10.1186/s12711-014-0083-3.

42.

Identification of novel loci associated with gastrointestinal parasite resistance in a Red Maasai x Dorper backcross population.

Benavides MV, Sonstegard TS, Kemp S, Mugambi JM, Gibson JP, Baker RL, Hanotte O, Marshall K, Van Tassell C.

PLoS One. 2015 Apr 13;10(4):e0122797. doi: 10.1371/journal.pone.0122797. eCollection 2015.

43.

Genome-wide scan of gastrointestinal nematode resistance in closed Angus population selected for minimized influence of MHC.

Kim ES, Sonstegard TS, da Silva MV, Gasbarre LC, Van Tassell CP.

PLoS One. 2015 Mar 24;10(3):e0119380. doi: 10.1371/journal.pone.0119380. eCollection 2015.

44.

Genomic data as the "hitchhiker's guide" to cattle adaptation: tracking the milestones of past selection in the bovine genome.

Utsunomiya YT, Pérez O'Brien AM, Sonstegard TS, Sölkner J, Garcia JF.

Front Genet. 2015 Feb 10;6:36. doi: 10.3389/fgene.2015.00036. eCollection 2015. Review.

45.

Altered microRNA expression in bovine skeletal muscle with age.

Sun J, Sonstegard TS, Li C, Huang Y, Li Z, Lan X, Zhang C, Lei C, Zhao X, Chen H.

Anim Genet. 2015 Jun;46(3):227-38. doi: 10.1111/age.12272. Epub 2015 Feb 20.

PMID:
25703017
46.

Assessment of autozygosity in Nellore cows (Bos indicus) through high-density SNP genotypes.

Zavarez LB, Utsunomiya YT, Carmo AS, Neves HH, Carvalheiro R, Ferenčaković M, Pérez O'Brien AM, Curik I, Cole JB, Van Tassell CP, da Silva MV, Sonstegard TS, Sölkner J, Garcia JF.

Front Genet. 2015 Jan 29;6:5. doi: 10.3389/fgene.2015.00005. eCollection 2015.

47.

RAPTR-SV: a hybrid method for the detection of structural variants.

Bickhart DM, Hutchison JL, Xu L, Schnabel RD, Taylor JF, Reecy JM, Schroeder S, Van Tassell CP, Sonstegard TS, Liu GE.

Bioinformatics. 2015 Jul 1;31(13):2084-90. doi: 10.1093/bioinformatics/btv086. Epub 2015 Feb 16.

PMID:
25686638
48.

Genomic signatures reveal new evidences for selection of important traits in domestic cattle.

Xu L, Bickhart DM, Cole JB, Schroeder SG, Song J, Tassell CP, Sonstegard TS, Liu GE.

Mol Biol Evol. 2015 Mar;32(3):711-25. doi: 10.1093/molbev/msu333. Epub 2014 Nov 26.

49.

Genome-wide candidate regions for selective sweeps revealed through massive parallel sequencing of DNA across ten turkey populations.

Aslam ML, Bastiaansen JW, Megens HJ, Crooijmans RP, Nasreen F, Blomberg le A, Van Tassell CP, Sonstegard TS, Schroeder SG, Groenen MA, Long JA.

BMC Genet. 2014 Nov 25;15:117. doi: 10.1186/s12863-014-0117-4.

50.

The genetic architecture of climatic adaptation of tropical cattle.

Porto-Neto LR, Reverter A, Prayaga KC, Chan EK, Johnston DJ, Hawken RJ, Fordyce G, Garcia JF, Sonstegard TS, Bolormaa S, Goddard ME, Burrow HM, Henshall JM, Lehnert SA, Barendse W.

PLoS One. 2014 Nov 24;9(11):e113284. doi: 10.1371/journal.pone.0113284. eCollection 2014.

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