Ya-Ping Zhang - Publications#

1. Liu YH, Wang L, Xu T, Guo XM, Li Y, Yin TT, Yang HC, Hu Y, Adeola AC, Sanke OJ, Otecko NO, Wang M, Ma YP, Charles OS, Sinding MHS, Gopalakrishnan S, Samaniego JA, Hansen AJ, Fernandes C, Gaubert P, Budd J, Dawuda PM, Rueness EK, Jiang LB, Zhai WW, Gilbert MTP, Peng MS, Qi XP, Wang GD, Zhang YP. Whole-Genome Sequencing of African Dogs Provides Insights into Adaptations against Tropical Parasites. Molecular Biology and Evolution, 2018, 35:287-298.

2. Peng MS, Xu WF, Song JJ, Chen X, Sulaiman X, Cai LH, Liu HQ, Wu SF, Gao Y, Abdulloevich NT, Afanasevna ME, Ibrohimovich KB, Chen X, Yang WK, Wu M, Li GM, Yang XY, Rakha A, Yao YG, Upur H, Zhang YP. Mitochondrial genomes uncover the maternal history of the Pamir populations. European Journal of Human Genetics, 2018, 26:124-136.

3. Wang GD, Zhang BL, Zhou WW, Li YX, Jin JQ, Shao Y, Yang HC, Liu YH, Yan F, Chen HM, Jing L, Gao F, Zhang YG, Li HP, Mao BY, Murphy RW, Wake DB, Zhang YP, Che J. Selection and environmental adaptation along a path to speciation in the Tibetan frog Nanorana parkeri. Proceedings of the National Academy of Sciences of the United States of America, 2018, 115:E5056-E5065.

4. Wu DD, Ding XD, Wang S, Wojcik JM, Zhang Y, Tokarska M, Li Y, Wang MS, Faruque O, Nielsen R, Zhang Q, Zhang YP. Pervasive introgression facilitated domestication and adaptation in the Bos species complex. Nature Ecology & Evolution, 2018, 2:1139-1145.

5. Xu HB, Li YX, Li Y, Otecko NO, Zhang YP, Mao BY, Wu DD. Origin of new genes after zygotic genome activation in vertebrate. Journal of Molecular Cell Biology, 2018, 10:139-146.

6. Yan F, Lu JC, Zhang BL, Yuan ZY, Zhao HP, Huang S, Wei G, Mi X, Zou DH, Xu W, Chen S, Wang J, Xie F, Wu MY, Xiao HB, Liang ZQ, Jin JQ, Wu SF, Xu CS, Tapley B, Turvey ST, Papenfuss TJ, Cunningham AA, Murphy RW, Zhang YP, Che J. The Chinese giant salamander exemplifies the hidden extinction of cryptic species. Current Biology, 2018, 28:R590-R592.

7. Yang XY, Dai SS, Liu HQ, Peng MS, Zhang YP. The uncertainty of population relationship and divergence time inferred by the multiple sequentially Markovian coalescent model. Journal of Human Genetics, 2018, 63:775-777.

8. Zeng L, Ming C, Li Y, Su LY, Su YH, Otecko NO, Dalecky A, Donnellan S, Aplin K, Liu XH, Song Y, Zhang ZB, Esmailizadeh A, Sohrabi SS, Nanaei HA, Liu HQ, Wang MS, Atteynine SA, Rocamora G, Brescia F, Morand S, Irwin DM, Peng MS, Yao YG, Li HP, Wu DD, Zhang YP. Out of Southern East Asia of the brown rat revealed by large-scale genome sequencing. Molecular Biology and Evolution, 2018, 35:149-158.

9. Adeola AC, Oluwole OO, Oladele BM, Olorungbounmi TO, Boladuro B, Olaogun SC, Nneji LM, Sanke OJ, Dawuda PM, Omitogun OG, Frantz L, Murphy RW, Xie HB, Peng MS, Zhang YP. Analysis of the genetic variation in mitochondrial DNA, Y-chromosome sequences, and MC1R sheds light on the ancestry of Nigerian indigenous pigs. Genetics Selection Evolution, 2017, 49:52.

10. Adeola AC, Ommeh SC, Song JJ, Olaogun SC, Sanke OJ, Yin TT, Wang GD, Wu SF, Zhou ZY, Lichoti JK, Agwanda BR, Dawuda PM, Murphy RW, Peng MS, Zhang YP. A cryptic mitochondrial DNA link between North European and West African dogs. Journal of Genetics and Genomics, 2017, 44:163-170.

11. Brennan IG, Bauer AM, Van Tri N, Wang YY, Wang WZ, Zhang YP, Murphy RW. Barcoding utility in a mega-diverse, cross-continental genus: keeping pace with Cyrtodactylus geckos. Scientific Reports, 2017, 7:5592.

12. Chen JM, Zhou WW, Poyarkov NA, Stuart BL, Brown RM, Lathrop A, Wang YY, Yuan ZY, Jiang K, Hou M, Chen HM, Suwannapoom C, Nguyen SN, Duong TV, Papenfuss TJ, Murphy RW, Zhang YP, Che J. A novel multilocus phylogenetic estimation reveals unrecognized diversity in Asian horned toads, genus Megophrys sensu lato (Anura: Megophryidae). Molecular Phylogenetics and Evolution, 2017, 106:28-43.

13. Hirimuthugoda NY, Adeola AC, Perera PWA, Chen X, Gunawardena WWDA, Gunawardana HGTN, Yin TT, Wang MS, Li GM, Ding ZL, Wang WZ, Xie HB, Peng MS, Zhang YP. Sri Lankan pig ancestry revealed by mitochondrial DNA, Y-chromosome, and MC1R. Animal Genetics, 2017, 48:622-623.

14. Li Y, Wang MS, Otecko NO, Wang W, Shi P, Wu DD, Zhang YP. Hypoxia potentially promotes Tibetan longevity. Cell Research, 2017, 27:302-305.

15. Nguyen SN, Nguyen VDH, Nguyen TQ, Le NTT, Nguyen LT, Vo BD, Vindum JV, Murphy RW, Che J, Zhang YP. A new color pattern of the Bungarus candidus complex (Squamata: Elapidae) from Vietnam based on morphological and molecular data. Zootaxa, 2017, 4268:563-572.

16. Wang MS, Otecko NO, Wang S, Wu DD, Yang MM, Xu Y, Murphy RW, Peng MS, Zhang YP. An Evolutionary Genomic Perspective on the Breeding of Dwarf Chickens. Molecular Biology and Evolution, 2017, 34(12):3081-3088.

17. Wang MS, Zeng Y, Wang X, Nie WH, Wang JH, Su WT, Otecko NO, Xiong ZJ, Wang S, Qu KX, Yan SQ, Yang MM, Wang W, Dong Y, Wu DD, Zhang YP. Draft genome of the gayal, Bos frontalis. Giga Science, 2017, 6(11):1-7.

18. Wang YM, Xu HB, Wang MS, Otecko NO, Ye LQ, Wu DD, Zhang YP. Annotating long intergenic non-coding RNAs under artificial selection during chicken domestication. Bmc Evolutionary Biology, 2017, 17:192.

19. Yang HC, Wang GD, Wang M, Ma YP, Yin TT, Fan RX, Wu H, Zhong L, Irwin DM, Zhai WW, Zhang YP. The origin of chow chows in the light of the East Asian breeds. Bmc Genomics, 2017, 18:174.

20. Zeng L, Ming C, Li Y, Su LY, Su YH, Otecko NO, Liu HQ, Wang MS, Yao YG, Li HP, Wu DD, Zhang YP. Rapid evolution of genes involved in learning and energy metabolism for domestication of the laboratory rat. Molecular Biology and Evolution, 2017, 34(12):3148-3153.

21. Zhao H, Liu F, Wu SL, Yang L, Zhang YP, Li CP. Ultrasensitive electrochemical detection of Dicer1 3' UTR for the fast analysis of alternative cleavage and polyadenylation. Nanoscale, 2017, 9:4272-4282.

22. Zhao H, Wang SQ, Guo LX, Du YL, Liu LL, Ma TF, Otecko NO, Li CP, Zhang YP. Fixed differences in the 3' UTR of buffalo PRNP gene provide binding sites for miRNAs post-transcriptional regulation. Oncotarget, 2017, 8:46006-46019.

23. Zhou ZY, Li AM, Otecko NO, Liu YH, Irwin DM, Wang L, Adeola AC, Zhang JY, Xie HB, Zhang YP. PigVar: a database of pig variations and positive selection signatures. Database-the Journal of Biological Databases and Curation, 2017, 1-10.

24. Kader A, Li Y, Dong KZ, Irwin DM, Zhao QJ, He XH, Liu JF, Pu YB, Gorkhali NA, Liu XX, Jiang L, Li XC, Guan WJ, Zhang YP, Wu DD, Ma YH. Population variation reveals independent selection toward small body size in Chinese Debao pony. Genome Biology and Evolution, 2016, 8:42-50.

25. Klaus S, Morley RJ, Plath M, Zhang YP, Li JT. Biotic interchange between the Indian subcontinent and mainland Asia through time. Nature Communications, 2016, 7.

26. Li HP, Xiang-Yu JG, Dai GY, Gu ZL, Ming C, Yang ZF, Ryder OA, Li WH, Fu YX, Zhang YP. Large numbers of vertebrates began rapid population decline in the late 19th century. Proceedings of the National Academy of Sciences of the United States of America, 2016, 113:14079-14084.

27. Liu SJ, Luo J, Chai J, Ren L, Zhou Y, Huang F, Liu XC, Chen YB, Zhang C, Tao M, Lu B, Zhou W, Lin GL, Mai C, Yuan S, Wang J, Li T, Qin QB, Feng H, Luo KK, Xiao J, Zhong H, Zhao RR, Duan W, Song ZY, Wang YQ, Wang J, Zhong L, Wang L, Ding ZL, Du ZL, Lu XM, Gao Y, Murphy RW, Liu Y, Meyer A, Zhang YP. Genomic incompatibilities in the diploid and tetraploid offspring of the goldfish × common carp cross. Proceedings of the National Academy of Sciences of the United States of America, 2016, 113:1327-1332.

28. Lü MD, Han XM, Ma YF, Irwin DM, Gao Y, Deng JK, Adeola AC, Xie HB, Zhang YP. Genetic variations associated with six-white-point coat pigmentation in Diannan small-ear pigs. Scientific Reports, 2016, 6:27534.

29. Peng MS, Wu F, Murphy RW, Yang XJ, Zhang YP. An ancient record of an avian hybrid and the potential uses of art in ecology and conservation. Ibis, 2016, 158:444-445.

30. Shen QK, Sulaiman X, Yao YG, Peng MS, Zhang YP. Was ADH1B under selection in European populations? American Journal of Human Genetics, 2016, 99:1217-1219.

31. Song JJ, Wang WZ, Otecko NO, Peng MS, Zhang YP. Reconciling the conflicts between mitochondrial DNA haplogroup trees of Canis lupus. Forensic Science International- Genetics, 2016, 23:83-85.

32. Wang GD, Peng MS, Yang HC, Savolainen P, Zhang YP. Questioning the evidence for a Central Asian domestication origin of dogs. Proceedings of the National Academy of Sciences of the United States of America, 2016, 113:E2554-E2555.

33. Wang GD, Zhai WW, Yang HC, Wang L, Zhong L, Liu YH, Fan RX, Yin TT, Zhu CL, Poyarkov AD, Irwin DM, Hytonen MK, Lohi H, Wu CI, Savolainen P, Zhang YP. Out of southern East Asia: the natural history of domestic dogs across the world. Cell Research, 2016, 26:21-33.

34. Wang MS, Huo YX, Li Y, Otecko NO, Su LY, Xu HB, Wu SF, Peng MS, Liu HQ, Zeng L, Irwin DM, Yao YG, Wu DD, Zhang YP. Comparative population genomics reveals genetic basis underlying body size of domestic chickens. Journal of Molecular Cell Biology, 2016, 8:542-552.

35. Wang MS, He-Chuan Yang HC, Otecko NO, Wu DD, Zhang YP. Olfactory genes in Tibetan wild boar. Nature Genetics. 2016, 48:972-973.

36. Wang MS, Zhang RW, Su LY, Li Y, Peng MS, Liu HQ, Zeng L, Irwin DM, Du JL, Yao YG, Wu DD, Zhang YP. Positive selection rather than relaxation of functional constraint drives the evolution of vision during chicken domestication. Cell Research, 2016, 26:556-573.

37. Wang YY, He K, Fan L, Wang YS, Wu SF, Murphy RW, Wang WZ, Zhang YP. DNA barcoding reveals commercial fraud related to yak jerky sold in China. Science China-Life Sciences, 2016, 59:106-108.

38. Wu H, Liu YH, Wang GD, Yang CT, Otecko NO, Liu F, Wu SF, Wang L, Yu L, Zhang YP. Identifying molecular signatures of hypoxia adaptation from sex chromosomes: A case for Tibetan Mastiff based on analyses of X chromosome. Scientific Reports, 2016, 6.

39. Yang Y, Zhou TC, Liu YY, Li X, Wang WX, Irwin DM, Zhang YP. Identification of HNF4A mutation p.T130I and HNF1A mutations p.I27L and p.S487N in a Han Chinese family with early-onset maternally inherited type 2 diabetes. Journal of Diabetes Research, 2016.

40. Yu L, Wang GD, Ruan J, Chen YB, Yang CP, Cao X, Wu H, Liu YH, Du ZL, Wang XP, Yang J, Cheng SC, Zhong L, Wang L, Wang X, Hu JY, Fang L, Bai B, Wang KL, Yuan N, Wu SF, Li BG, Zhang JG, Yang YQ, Zhang CL, Long YC, Li HS, Yang JY, Irwin DM, Ryder OA, Li Y, Wu CI, Zhang YP. Genomic analysis of snub-nosed monkeys (Rhinopithecus) identifies genes and processes related to high-altitude adaptation. Nature Genetics. 2016, 48(8):947-955.

41. Yuan ZY, Zhou WW, Chen X, Poyarkov NA, Chen HM, Jang-Liaw NH, Chou WH, Matzke NJ, Iizuka K, Min MS, Kuzmin SL, Zhang YP, Cannatella DC, Hillis DM, Che J. Spatiotemporal Diversification of the True Frogs (Genus Rana): A historical framework for a widely studied group of model organisms. Systematic Biology, 2016, 65:824-842.

42. Adeola AC, Ommeh SC, Murphy RW, Wu SF, Peng MS, Zhang YP. Mitochondrial DNA variation of Nigerian domestic helmeted guinea fowl. Animal Genetics, 2015, 46:576-579.

43. Bai B, Zhao WM, Tang BX, Wang YQ, Wang L, Zhang Z, Yang HC, Liu YH, Zhu JW, Irwin DM, Wang GD, Zhang YP. DoGSD: the dog and wolf genome SNP database. Nucleic Acids Research, 2015, 43:D777-D783.

44. Cao X, Sun YB, Irwin DM, Wang GD, Zhang YP. Nocturnal to diurnal transition in the common ancestor of haplorrhines: evidence from genomic-scan for positively selected genes. Journal of Genetics and Genomics, 2015, 42:33-37.

45. Fan RX, Liu F, Wu H, Wu SF, Zhu CL, Li Y, Wang GD, Zhang YP. A positive correlation between elevated altitude and frequency of mutant alleles at the EPAS1 and HBB Loci in Chinese indigenous dogs. Journal of Genetics and Genomics, 2015, 42:173-177.

46. Geng XF, Wei H, Shang HT, Zhou MH, Chen B, Zhang FC, Zang XY, Li PF, Sun JY, Che J, Zhang YP, Xu CS. Proteomic analysis of the skin of Chinese giant salamander (Andrias davidianus). Journal of Proteomics, 2015, 119:196-208.

47. Li YC, Wang HW, Tian JY, Liu LN, Yang LQ, Zhu CL, Wu SF, Kong QP, Zhang YP. Ancient inland human dispersals from Myanmar into interior East Asia since the Late Pleistocene. Scientific Reports, 2015, 5.

48. Liu HQ, Wei JK, Li B, Wang MS, Wu RQ, Rizak JD, Zhong L, Wang L, Xu FQ, Shen YY, Hu XT, Zhang YP. Divergence of dim-light vision among bats (order: Chiroptera) as estimated by molecular and electrophysiological methods. Scientific Reports, 2015, 5.

49. Liu LL, Zhao H, Ma TF, Ge F, Chen CS, Zhang YP. Identification of valid reference genes for the normalization of RT-qPCR expression studies in human breast cancer cell lines treated with and without transient transfection. PLoS One, 2015, 10.

50. Palanichamy MG, Mitra B, Zhang CL, Debnath M, Li GM, Wang HW, Agrawal S, Chaudhuri TK, Zhang YP. West Eurasian mtDNA lineages in India: an insight into the spread of the Dravidian language and the origins of the caste system. Human Genetics, 2015, 134:637-647.

51. Peng MS, Fan L, Shi NN, Ning T, Yao YG, Murphy RW, Wang WZ, Zhang YP. DomeTree: a canonical toolkit for mitochondrial DNA analyses in domesticated animals. Molecular Ecology Resources, 2015, 15:1238-1242.

52. Peng MS, Shi NN, Yao YG, Zhang YP. Caveats about interpretation of ancient chicken mtDNAs from northern China. Proceedings of the National Academy of Sciences of the United States of America, 2015, 112:E1970-E1971.

53. Shao Y, Li JX, Ge RL, Zhong L, Irwin DM, Murphy RW, Zhang YP. Genetic adaptations of the plateau zokor in high-elevation burrows. Scientific Reports, 2015, 5.

54. Shao Y, Wang LJ, Zhong L, Hong ML, Chen HM, Murphy RW, Wu DD, Zhang YP, Che J. Transcriptomes reveal the genetic mechanisms underlying ionic regulatory adaptations to salt in the crab-eating frog. Scientific Reports, 2015, 5.

55. Song B, Cheng SF, Sun YB, Zhong X, Jin JQ, Guan R, Murphy RW, Che J, Zhang YP, Liu X. A genome draft of the legless anguid lizard, Ophisaurus gracilis. GigaScience, 2015, 4.

56. Sun YB, Xiong ZJ, Xiang XY, Liu SP, Zhou WW, Tu XL, Zhong L, Wang L, Wu DD, Zhang BL, Zhu CL, Yang MM, Chen HM, Li F, Zhou L, Feng SH, Huang C, Zhang GJ, Irwin D, Hillis DM, Murphy RW, Yang HM, Che J, Wang J, Zhang YP. Whole-genome sequence of the Tibetan frog Nanorana parkeri and the comparative evolution of tetrapod genomes. Proceedings of the National Academy of Sciences of the United States of America, 2015, 112:E1257-E1262.

57. Wang MS, Li Y, Peng MS, Zhong L, Wang ZJ, Li QY, Tu XL, Dong Y, Zhu CL, Wang L, Yang MM, Wu SF, Miao YW, Liu JP, Irwin DM, Wang W, Wu DD, Zhang YP. Genomic analyses reveal potential independent adaptation to high altitude in Tibetan chickens. Molecular Biology and Evolution, 2015, 32:1880-1889.

58. Wu DD, Ye LQ, Li Y, Sun YB, Shao Y, Chen CY, Zhu Z, Zhong L, Wang L, Irwin DM, Zhang YE, Zhang YP. Integrative analyses of RNA editing, alternative splicing, and expression of young genes in human brain transcriptome by deep RNA sequencing. Journal of Molecular Cell Biology, 2015, 7:314-325.

59. Zhao H, Du YL, Chen SM, Qing LL, Wang XY, Huang JF, Wu DD, Zhang YP. The prion protein gene polymorphisms associated with bovine spongiform encephalopathy susceptibility differ significantly between cattle and buffalo. Infection Genetics and Evolution, 2015, 36:531-538.

60. Zhou TC, Sha T, Irwin DM, Zhang YP. Complete mitochondrial genome of the Indian peafowl (Pavo cristatus), with phylogenetic analysis in phasianidae. Mitochondrial DNA, 2015, 26:912-913.

61. Zhou ZY, Li AM, Wang LG, Irwin DM, Liu YH, Xu D, Han XM, Wang L, Wu SF, Wang LX, Xie HB, Zhang YP. DNA methylation signatures of long intergenic noncoding RNAs in porcine adipose and muscle tissues. Scientific Reports, 2015, 5.

62. Cao X, Irwin DM, Liu YH, Cheng LG, Wang L, Wang GD, Zhang YP. Balancing selection on CDH2 may be related to the behavioral features of the Belgian malinois. PLoS One, 2014, 9.

63. Gao JJ, Pan XR, Hu J, Ma L, Wu JM, Shao YL, Ai SM, Liu SQ, Barton SA, Woodruff RC, Zhang YP, Fu YX. Pattern of mutation rates in the germline of Drosophila melanogaster males from a large-scale mutation screening experiment. G3-Genes Genomes Genetics, 2014, 4:1503-1514.

64. Guo MH, Wu WJ, Fan L, Peng MS, Yang JK, Zhang W, Hao F, Xie HF, Xiang LH, Zheng M, Guo YN, Song QH, Tu CX, Zhong H, Fan WG, Shi YJ, Cao P, Feng LY, Na M, Pang Q, Yang XY, Yang C, Zou X, He L, Zhang YP. No association between Y chromosomal haplogroups and severe acne in the Han Chinese population. Journal of Human Genetics, 2014, 59:475-476.

65. He L, Wu WJ, Yang JK, Cheng H, Zuo XB, Lai W, Gao TW, Ma CL, Luo N, Huang JQ, Lu FY, Liu YQ, Huang YJ, Lu QJ, Zhang HL, Wang L, Wang WZ, Wang MM, Xiao SX, Sun Q, Li CY, Bai YP, Li H, Zhou ZC, Zhou FS, Chen G, Liang B, Qi J, Yang XY, Yang T, Zheng X, Sun LD, Zhang XJ, Zhang YP. Two new susceptibility loci 1q24.2 and 11p11.2 confer risk to severe acne. Nature Communications, 2014, 5.

66. He L, Wu WJ, Zuo XB, Sun LD, Yang JK, Qi J, Feng JQ, Zhang XJ, Zhang YP. Two new susceptibility loci 1q24.2 and 11p11.2 confer risk to severe acne. Journal of Dermatology, 2014, 41:32-32.

67. Li Y, Wang GD, Wang MS, Irwin DM, Wu DD, Zhang YP. Domestication of the dog from the wolf was promoted by enhanced excitatory synaptic plasticity: a hypothesis. Genome Biology and Evolution, 2014, 6:3115-3121.

68. Li Y, Wu DD, Boyko AR, Wang GD, Wu SF, Irwin DM, Zhang YP. Population variation revealed high-altitude adaptation of Tibetan mastiffs. Molecular Biology and Evolution, 2014, 31:1200-1205.

69. Liu HQ, Li Y, Irwin DM, Zhang YP, Wu DD. Integrative analysis of young genes, positively selected genes and lncRNAs in the development of Drosophila melanogaster. BMC Evolutionary Biology, 2014, 14.

70. Liu J, Wang XP, Cho S, Lim BK, Irwin DM, Ryder OA, Zhang YP, Yu L. Evolutionary and functional novelty of pancreatic ribonuclease: a study of Musteloidea (order Carnivora). Scientific Reports, 2014, 4.

71. Luo J, Gao Y, Ma W, Bi XY, Wang SY, Wang J, Wang YQ, Chai J, Du R, Wu SF, Meyer A, Zan RG, Xiao H, Murphy RW, Zhang YP. Tempo and mode of recurrent polyploidization in the Carassius auratus species complex (Cypriniformes, Cyprinidae). Heredity, 2014, 112:415-427.

72. Ma W, Zhu ZH, Bi XY, Murphy RW, Wang SY, Gao Y, Xiao H, Zhang YP, Luo J. Allopolyploidization is not so simple: evidence from the origin of the tribe Cyprinini (Teleostei: Cypriniformes). Current Molecular Medicine, 2014, 14:1331-1338.

73. Nguyen SN, Yang JX, Le TNT, Nguyen LT, Orlov NL, Hoang CV, Nguyen TQ, Jin JQ, Rao DQ, Hoang TN, Che J, Murphy RW, Zhang YP. DNA barcoding of Vietnamese bent-toed geckos (Squamata: Gekkonidae: Cyrtodactylus) and the description of a new species. Zootaxa, 2014, 3784:48-66.

74. Ning T, Li J, Lin K, Xiao H, Wylie S, Hua S, Li H, Zhang YP. Complex evolutionary patterns revealed by mitochondrial genomes of the domestic horse. Current Molecular Medicine, 2014, 14:1286-1298.

75. Palanichamy MG, Mitra B, Debnath M, Agrawal S, Chaudhuri TK, Zhang YP. Tamil merchant in ancient Mesopotamia. PLoS One, 2014, 9.

76. Peng LF, Lu CH, Huang S, Guo P, Zhang YP. A new species of the genus Thermophis (Serpentes: Colubridae) from Shangri-La, northern Yunnan, China, with a proposal for an eclectic rule for species delimitation. Asian Herpetological Research, 2014, 5:228-239.

77. Peng MS, He JD, Fan L, Liu J, Adeola AC, Wu SF, Murphy RW, Yao YG, Zhang YP. Retrieving Y chromosomal haplogroup trees using GWAS data. European Journal of Human Genetics, 2014, 22.

78. Qu KX, He ZX, Hao RJ, Zhang JC, Huang BZ, Zan LS, Zhang YP. A new high-frequency allele of the BM2113 locus in the Yunnan mithun population. Genetics and Molecular Research, 2014, 13:2155-2159.

79. Shen YY, Dai K, Cao X, Murphy RW, Shen XJ, Zhang YP. The updated phylogenies of the phasianidae based on combined data of nuclear and mitochondrial DNA. PLoS One, 2014, 9.

80. Shi NN, Fan L, Yao YG, Peng MS, Zhang YP. Mitochondrial genomes of domestic animals need scrutiny. Molecular Ecology, 2014, 23:5393-5397.

81. Wang GD, Fan RX, Zhai WW, Liu F, Wang L, Zhong L, Wu H, Yang HC, Wu SF, Zhu CL, Li Y, Gao Y, Ge RL, Wu CI, Zhang YP. Genetic convergence in the adaptation of dogs and humans to the high-altitude environment of the Tibetan Plateau. Genome Biology and Evolution, 2014, 6:2122-2128.

82. Wang GD, Xie HB, Peng MS, Irwin D, Zhang YP. Domestication genomics: evidence from animals. Annual Review of Animal Biosciences, Vol 2, 2014, 2:65-84.

83. Wang SQ, Zhao H, Zhang YP. Advances in research on Shadoo, shadow of prion protein. Chinese Science Bulletin, 2014, 59:821-827.

84. Wu DD, Wang X, Li Y, Zeng L, Irwin DM, Zhang YP. "Out of pollen" hypothesis for origin of new genes in flowering plants: study from Arabidopsis thaliana. Genome Biology and Evolution, 2014, 6:2822-2829.

85. Xiao J, Zhong H, Zhou Y, Yu F, Gao Y, Luo YJ, Tang ZY, Guo ZB, Guo EY, Gan X, Zhang M, Zhang YP. Identification and characterization of MicroRNAs in ovary and testis of Nile tilapia (Oreochromis niloticus) by using Solexa sequencing technology. PLoS One, 2014, 9.

86. Yang JK, Gong YY, Xie L, Yang Y, Xu LY, Zhang YP. Association study of promoter polymorphisms in the CETP gene with longevity in the Han Chinese population. Molecular Biology Reports, 2014, 41:325-329.

87. Yang JK, Wu WJ, He L, Zhang YP. Genotype-phenotype correlations in severe acne in a Han Chinese population. Dermatology, 2014, 229:210-214.

88. Yang JK, Wu WJ, Qi J, He L, Zhang YP. TNF-308 G/A Polymorphism and risk of acne vulgaris: a meta-analysis. PLoS One, 2014, 9.

89. Zhang W, Tang JS, Zhang AM, Peng MS, Xie HB, Tan LW, Xu L, Zhang YP, Chen XG, Yao YG. A matrilineal genetic legacy from the last glacial maximum confers susceptibility to schizophrenia in Han Chinese. Journal of Genetics and Genomics, 2014, 41:397-407.

90. Zhong L, Tang J, Kong QP, Sun C, Zhou WP, Yang M, Yao YG, Zhang YP. Reappraising the relationship between mitochondrial DNA variant m.16189T > C and Type 2 diabetes mellitus in East Asian populations. Current Molecular Medicine, 2014, 14:1273-1278.

91. Zhou TC, Shen XJ, Irwin DM, Shen YY, Zhang YP. Mitogenomic analyses propose positive selection in mitochondrial genes for high-altitude adaptation in galliform birds. Mitochondrion, 2014, 18:70-75.

92. Zhou WW, Zhang BL, Chen HM, Jin JQ, Yang JX, Wang YY, Jiang K, Murphy RW, Zhang YP, Che J. DNA barcodes and species distribution models evaluate threats of global climate changes to genetic diversity: a case study from Nanorana parkeri (Anura: Dicroglossidae). PLoS One, 2014, 9.

93. Zhou ZY, Li AM, Adeola AC, Liu YH, Irwin DM, Xie HB, Zhang YP. Genome-wide identification of long intergenic noncoding RNA genes and their potential association with domestication in pigs. Genome Biology and Evolution, 2014, 6:1387-1392.

94. Dong Y, Xie M, Jiang Y, Xiao NQ, Du XY, Zhang WG, Tosser-Klopp G, Wang JH, Yang S, Liang J, Chen WB, Chen J, Zeng P, Hou Y, Bian C, Pan SK, Li YX, Liu X, Wang WL, Servin B, Sayre B, Zhu B, Sweeney D, Moore R, Nie WH, Shen YY, Zhao RP, Zhang GJ, Li JQ, Faraut T, Womack J, Zhang YP, Kijas J, Cockett N, Xu X, Zhao SH, Wang J, Wang W. Sequencing and automated whole-genome optical mapping of the genome of a domestic goat (Capra hircus). Nature Biotechnology, 2013, 31:135-141.

95. Ge RL, Cai QL, Shen YY, San A, Ma L, Zhang Y, Yi X, Chen Y, Yang LF, Huang Y, He RJ, Hui YY, Hao MR, Li Y, Wang B, Ou XH, Xu JH, Zhang YF, Wu K, Geng CY, Zhou WP, Zhou TC, Irwin DM, Yang YZ, Ying L, Bao HH, Kim J, Larkin DM, Ma J, Lewin HA, Xing JC, Platt RN, Ray DA, Auvil L, Capitanu B, Zhang XF, Zhang GJ, Murphy RW, Wang J, Zhang YP, Wang J. Draft genome sequence of the Tibetan antelope. Nature Communications, 2013, 4.

96. Li JT, Li Y, Klaus S, Rao DQ, Hillis DM, Zhang YP. Diversification of rhacophorid frogs provides evidence for accelerated faunal exchange between India and Eurasia during the Oligocene. Proceedings of the National Academy of Sciences of the United States of America, 2013, 110:3441-3446.

97. Li Y, vonHoldt BM, Reynolds A, Boyko AR, Wayne RK, Wu DD, Zhang YP. Artificial selection on brain-expressed genes during the domestication of dog. Molecular Biology and Evolution, 2013, 30:1867-1876.

98. Murphy RW, Crawford AJ, Bauer AM, Che J, Donnellan SC, Fritz U, Haddad CFB, Nagy ZT, Poyarkov NA, Vences M, Wang WZ, Zhang YP. Cold Code: the global initiative to DNA barcode amphibians and nonavian reptiles. Molecular Ecology Resources, 2013, 13:161-167.

99. Sun YB, Zhou WP, Liu HQ, Irwin DM, Shen YY, Zhang YP. Genome-wide scans for candidate genes involved in the aquatic adaptation of dolphins. Genome Biology and Evolution, 2013, 5:130-139.

100. Wang GD, Zhai WW, Yang HC, Fan RX, Cao X, Zhong L, Wang L, Liu F, Wu H, Cheng LG, Poyarkov AD, Poyarkov NA, Tang SS, Zhao WM, Gao Y, Lv XM, Irwin DM, Savolainen P, Wu CI, Zhang YP. The genomics of selection in dogs and the parallel evolution between dogs and humans. Nature Communications, 2013, 4.

101. Yan F, Zhou WW, Zhao HT, Yuan ZY, Wang YY, Jiang K, Jin JQ, Murphy RW, Che J, Zhang YP. Geological events play a larger role than Pleistocene climatic fluctuations in driving the genetic structure of Quasipaa boulengeri (Anura: Dicroglossidae). Molecular Ecology, 2013, 22:1120-1133.

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