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Principal Investigator
Details of the Faculty or Staff
Name  
 Peng Shi
Title  
  
Highest Education 
   Ph.D
Address  
 Kunming Institute of Zoology, Chinese Academy of Sciences No.21 Qingsong Road, Kunming , Yunnan 650201 P.R.China
Phone  
   +86 871 68125408
Zip Code  
   650201
Fax  
   +86 871 68125408
E-mail  
   ship@mail.kiz.ac.cn

Education and Appointments：

Education

1999.9-2004.7 Ph.D. in Zoology , Laboratory of Molecular Evolution and Genome Diversity , Kunming Institute of Zoology , CAS.

Thesis: Molecular Mechanism of Adaptive Evolution in

Mammals：Bitter Taste Receptor Gene and Vomeronasal

Receptor 1 Gene Analyses.

Advisor: Dr. Ya-ping Zhang

1992.9-1996.7 B.S. in Biochemistry , Department of Biology , Xiamen University , Xiamen , Fujian , China.

EMPLOYMENT

2008.8- Professor , Head of Laboratory of Evolutionary & Functional Genomics , Kunming Institute of Zoology , CAS

2007.1-2008.7 Research Scientist , Department of Molecular Genetics , German Institute of Human Nutrition

2004.10-2006.12 Postdoctoral Research Fellow , Department of Ecology and Evolutionary Biology , University of Michigan.

Research Interests：

1. Molecular mechanism of adaptation to various environments in animals. We study the genotype-phenotype relationship at the genomic level under the guidance of natural selection theory , while combining multiple advanced techniques including NGS , bioinformatics and functional assays , etc.

2. Novel disease-related gene identification and the etiopathogenesis study. Through genomic analyses using non model organisms , we try to aid the comprehensive understanding of the etiopathogenesis in human longevity , cardiovascular diseases and tumors from a different angle.

PROFESSIONAL SERVICES

Reviewer:
Trends in Genetics , PNAS , Genome Research , PLoS Genetics , Molecular Biology and Evolution , Genome Biology and Evolution , PLoS One , Mammalian Genome , Journal of Molecular Evolution , Gene , Genome , Genetica , Acta Genetica Sinica , Hereditas(Beijing) , Zoological Research.

Public Services：

Honors：

Selected Publication：

First author：

  1. Shi , P# , Zhang , JZ*Comparative genomic analysis identifies an evolutionary shift of vomeronasal receptor gene repertoires in the vertebrate transition from water to land , Genome Research, 17(2) , pp 166-174 , 2007/2 , (5-Year IF=13.795) , 2007.02.23
  2. Shi , P# , Bakewell , M # , Zhang , JZ*Did brain-specific genes evolve faster in humans than in chimpanzees? , Trends in Genetics , 22(11):608-13 , 2006/11 , (5-Year IF=10.401) , 2006.11.10
  3. Shi , P # , Yu , L , Fu , YX , Huang , JF , Zhang , KQ , Zhang , YP*Evolutionary implications of avian infectious Bronchitis Virus (AIBV) analysis , Cell Research , 16(3) , pp 323-327 , 2006/3 , (5-Year IF=14.331) , 2006.03.24
  4. Shi , P# , Zhang , JZ *Contrasting modes of evolution between vertebrate sweet/umami receptor genes and bitter receptor genes , Molecular Biology and Evolution , 23(2) , pp 292-300 , 2006/2 , (5-Year IF=14.558) , 2006.02.23
  5. Yang , H# , Zhang , YP , Zhang , JZ , Shi P#Composition and evolution of the V2r vorneronasal receptor gene repertoire in mice and rats , Genomics , 86(3):306-15 , 2005/9 , (5-Year IF=3.246) , 2005.05.10
  6. Shi , P# , Bielawski , JP , Yang , H , Zhang , YP , *Adaptive diversification of vomeronasal receptor 1 genes in rodents , Journal of Molecular Evolution , 60(5):566-76. , 2005/5 , (5-Year IF=1.875). , 2005.05.06
  7. Grus , WE# , Shi , P# , Zhang , YP , Zhang , JZ , Dramatic variation of the vomeronasal pheromone receptor gene repertoire among five orders of placental and marsupial mammals , Proceedings of the National Academy of Sciences of the United States of America , (5-Year IF=10.414) , 2005.04.19
  8. Shi , P# , Zhang , JZ , Yang , H , Zhang , YP * Adaptive diversification of bitter taste receptor genes in mammalian evolution , Molecular Biology and Evolution , 20(5) , pp 805-814 , 2003/5 , (5-Year IF=14.558)
  9. Shi , P# , Lu , XM , Luo , HR , Xiang-Yu , JG , Zhang , YP*Melanocortin-1 receptor gene variants in four Chinese ethnic populations , Cell Research , 11(1) , pp 81-84 , 2001/3 , (5-Year IF=14.331) , 2001.03.30

Corresponding author：

  1. Tu Q, Hao J, Zhou X, Yan L, Dai H, Sun B, Yang D, An S, Lv L, Jiao B, Chen C, Lai R, Shi P*, Zhao X*, CDKN2B Deletion is Essential for Pancreatic Cancer Development Instead of Unmeaningful Co-deletion Due to Juxtaposition to CDKN2A,(2017), 1–11 Oncogene, (5-Year IF=7.272), 2017.9.11
  2. Li YY# , Liu Z#* , Qi FY , Zhou X , Shi P*Functional effects of a retained ancestral polymorphism in prestin , Molecular Biology and Evolution , 34(1):88-92 , 2017/1 , (5-Year IF=14.558) , 2016.10.15
  3. Zhang ZG# , Xu DM# , Wang L# , Hao JJ , Wang JF , Zhou X , Wang WW , QiuQ , Huang XiD , Zhou JW , Long RJ * , Zhao FQ * , Shi P*Convergent Evolution of Rumen Microbiomes in High-Altitude Mammals , Current Biology , 26(14):1873-9 , 2016/7 , (5-Year IF=9.704) , 2016.7.25
  4. Liu Z# , Qi FY , Zhou X , Ren HQ , Shi P*Parallel Sites Implicate Functional Convergence of the Hearing Gene Prestin among Echolocating Mammals , Molecular Biology and Evolution , 31(9):2415-24 , 2014/9 , (5-Year IF=14.558) , 2014 .9.01
  5. Zhang ZG# , Geng JW # , Tang XD , Fan H , Xu JC , Wen XJ , Ma ZS *Shi P* , Spatial heterogeneity and co-occurrence patterns of human mucosal-associated intestinal microbiota , The ISME Journal , 8(4):881-93 , 2014/4 , (5-Year IF=10.728) , 2014.4.01
  6. Mu D # , Yang H , Zhu JW , Liu FL , Tian RR , Zheng HY , Han JB , Shi P* , Zheng YT , *Independent Birth of a Novel TRIMCyp in Tupaia belangeri with a Divergent Function from Its Paralog TRIM5 , Molecular Biology and Evolution , 31(11):2985-97 , 2014/11 , (5-Year IF=14.558) , 2014.11.01
  7. Liu Z# , Wang W , Zhang TZ , Li GH , He K , Huang JF , Jiang XL , Murphy RW , Shi P *Repeated functional convergent effects of Na(V)1.7 on acid insensitivity in hibernating mammals , Proceedings of the Royal Society B: Biological Sciences , (5-Year IF=5.417) 2014.2.7
  8. Wu T # , Zhang ZG # , Liu B , Hou DZ , Liang Y , Zhang J* , Shi P*Gut microbiota dysbiosis and bacterial community assembly associated withcholesterol gallstones in large-scale study , BMC Genomics , 2013/10 , 14:669 , (5-Year IF=4.284) , 2013.10.1
  9. Zhang ZG #* , Zhai HQ# , Geng JW# * , Yu R , Ren HQ , Fan H , Shi P*Large scale survey of gut microbiota associated with MHE Via 16S rRNA-based pyrosequen , American Journal of Gastroenterology , 108(10):1601-11 , 2013/10 , (5-Year IF=10.429) , 2013.10.30
  10. Gao TX , Li N , Zhang YP , #Shi P*The complete mitochondrial genome of Japanese sandeel Ammodytes personatus (Perciformes , Ammodytidae): Rare structure in control region compared , Mitochondrial DNA , 24(4):320-2 , 2013/8 , (5-Year IF=3.672) , 2013.8.01
  11. Qiu , Q# , Zhang , G# , Ma , T# , Qian , W# , Wang , J# , Ye , Z# , (40-coauthor) , ShiP* , WangJ* , LiuJ* , The yak genome and adaptation to life at high altitude , Nature Genetics , 44(8) , pp946-949 , 2012/7 , (5-Year IF=31.694) , 2012.07.27
  12. Liu , Z# , Li , G , Huang , J , Murphy , RW , Shi P*Hearing Aid for Vertebrates via Multiple Episodic Adaptive Events on Prestin Genes , Molecular Biology and Evolution , 29(9) , pp2187-2197 , 2012/9 , (5-Year IF=14.558) , 2012.09.28
  13. Liu , Z# , Li , S# , Wang , W , Xu , D , Murphy , RW , Shi P*ParallelEvolution of KCNQ4 in Echolocating Bats , PLoS One , 6(10) , p e26618 , 2011/10(5-Year IF=3.394). , 2011.10.07
  14. Zhang , ZG# , Ye , ZQ , Yu , L , Shi P* Phylogenomic reconstruction of lactic acid bacteria: an update , BMC Evolutionary Biology , 11(1) , p1 , 2011/1 , (5-Year IF=3.628) , 2011.01.01
  15. Yang , H # , Shi P*Molecular and evolutionary analyses of formyl peptide receptors suggest the absence of VNO-specific FPRs in primates , Journal of Genetics and Genomics 37(12) pp 771-778 , 2010/12 , (5-Year IF=3.236) , 2010.12.24
  16. Wang , GD# , Zhu , ZH , Zhang , YP , Shi P*More Functional V1R Genes Occur in Nest-Living and Nocturnal Terricolous Mammals , Genome Biology and Evolution , Vol 2 , pp 277-283 , 2010 , (5-Year IF=4.008) , 2010.07.12
  17. Li , J# , Yang , H , Li , JR , Li , HP , Ning , T , Pan , XR , Shi P * , Zhang , YP , Artificial selection of the melanocortin receptor 1 gene in Chinese domestic pigs during domestication , Heredity , 105(3):274-81 , 2010/9 , (5-Year IF=3.953) , 2010.02.24
  18. Shen YY# , Sun YB , Zhang YP* , Shi P *Relaxation of selective constraints on avian mitochondrial DNA following the degeneration of flight ability , Genome Research , 19(10) , pp 1760-1765 , 2009/10 , (5-Year IF=13.795) , , 2009.10.15
  19. Wang , GD# , Zhu , ZH , Zhang , YP , ShiP* Comparative genomic analysisreveals more functional nasal chemoreceptors in nocturnal mammals than in diurnal mammals , Chinese Science Bulletin , 55(34) , pp 3901-3910 , 2010 , (5-YearIF=1.738) , 2010.12.29
  20. 祁飞燕 # , 施鹏*脊椎动物附肢发育及进化机制的研究进展,科学通报2016.11.20 , （32）：3413~3420
  21. 施鹏* , 胡玲玲#Smallest bitter taste receptor (T2Rs) gene repertoire in carnivores , Zoological Research , 2013.4.10
  22. 施鹏* , 胡玲玲#Latest advances on the studies of function and evolution of bitter taste receptor gene (T2R) family., Chinese Science Bulletin 2010, 54(17):2472-2482

Co-Author：

  1. Lang F, Li X, Zheng W, Li Z, Lu D, Chen G, Gong D, Yang L, Fu J, Shi P, Zhou J*, CTCF prevents genomic instability by promoting homologous recombination-directed DNA double-strand break repair, Proceedings of the National Academy of Sciences. (5-Year IF=10.414), DOI: 10.1073/pnas.1704076114, 2017.9.25
  2. Li Y# , Liu Z # , Zhang JZ*, Shi P The hearing gene Prestin unites echolocating bats and whales , Current Biology , 20(2):R55-6, 2010/1(5-Year IF=9.704) , 2010.01.26
  3. Smadja , C* , Butlin , RK , Robertson , HM , # Shi , PLarge Gene Family Expansions and Adaptive Evolution for Odorant and Gustatory Receptors in the Pea Aphid , Acyrthosiphon pisum , Molecular Biology and Evolution , 26(9) , pp 2073-2086 , 2009/9 , (5-Year IF=14.558) , 2009.09.18
  4. Grus , WE* , Zhang , JZ , #Shi , P Largest vertebrate vomeronasal type 1 receptor gene repertoire in the semiaquatic platypus , Molecular Biology and Evolution , 24(10) , pp 2153-2157 , 2007/10 , (5-Year IF=14.558) , 2007.10.26
  5. Bakewell , M# , Zhang JZ* , Shi , P More genes underwent positive selection in chimpanzee evolution than in human evolution , Proceedings of the National Academy of Sciences of the United States of America , (5-Year IF=10.414) , 2007.05.01
  6. Li , G* , Wang , YQ , #Shi , P Evolutionary dynamics of the ABCA chromosome 17q24 cluster genes in vertebrates , Genomics , 89(3):385-91 , 2007/3 (5-Year IF=3.246) , 2007.03.22
  7. Li , Y# , Ye , C , Zou , XJ , Xiao , R , Gong , YY , Zhang , YP * , Shi , P Independent origin of the growth hormone gene family in New World monkeys and Old World monkeys/hominoids , Journal of Molecular Endocrinology , 35(2):399-409 , 2005/10 , (5-Year IF=3.609) , 2005.11.08
  8. Ye , C# , Li , Y , , Zhang , YP* , Shi , P Molecular evolution of growth hormone gene family in old world monkeys and hominoids , Gene , 350(2) , pp183-192 , 2005/5 , (5-Year IF=2.266). , 2005.05.30
  9. Gu , Z# , Zhang , Y , Shi , P , Zhang , YP* , Zhu , D , Li , H , Comparison of avian myostatin genes , Animal Genetics , 35(6):470-2.2014/12 , (5-Year IF=1.973) , 2004.12.17
  10. Chen , DY# , Wen , DC , Zhang , YP* , Sun , QY , Han , ZM , Liu , ZH , , L Shi , P , JS , Xiangyu , JG , Lian , L , Kou , ZH , Wu , YQ , Chen , YC , Wang , PY , Zhang , HM , In terspecies implantation and mitochondria fate of panda-rabbit cloned embryos , Biology of Reproduction , 67(2) , pp637-642 , 2002 (5-Year IF=3.714). , 2002.08.29
  11. Ding , B# , Xiangyu , JG , Zhang , YP , Chen , DY , Sun , QY , Li , Shi , P*GP , Wang , MK , Liu , YL , Kang , L , Han , ZM , Song , XF , Li , JS , Chen , YC , Microsatel lite DNA analysis proves nucleus of interspecies reconstructed blastocyst coming from that of donor giant panda , Chinese Science Bulletin , 45(20) , pp 1883-1885 , 2000/10 , (5-Year IF=1.738) , 2000.10.27

Invited book chapter:

  1. Behrens M , St？hler F , Shi P , Bufe B , and Meyerhof W. 2009. Taste: Topics in Chemical Biology. In: the Wiley Encyclopedia of Chemical Biology.
  2. Shi P#. and Zhang J Extraordinary diversity of chemosensory receptor gene repertoires among vertebrates. 2009. Chemosensory Systems in Mammals , Fishes , and Insects. W. Meyerhof & S. Korsching , eds. , Springer

Supported Projects：

1. National Natural Science Foundation of China (30930015) to P. S. (2010.1-2013.12) ￥1.79 Million.

2. National Natural Science Foundation of China (31325013) to P. S. (2014.1-2017.12) ￥3.2 Million.

3. Key Research Programof the Chinese Academy of Sciences (KJZD-EW-L07)to P. S. (2013.1-2015.12) ￥3.5 Million.

4. Strategic Priority Research Program of the Chinese Academy of Sciences (XDB13000000) to P. S. (2014.6-2019.5) ￥6.5 Million.

Research Assistants:

Dr. Hui Yang (from Emory University , USA)

Dr. Zhi-gang Zhang (from Yunnan University , China)

Dr. Junjun Hao (from Shanghai University , China)

Dr. Dongming Xu(from University of Chinese Academy of Sciences)

Technicians:

Rui Yu

Xin Zhou

Xingtong Li

Yangan Huang

Finance Assistant:

Yang Zhang

PhD students:

Jie Luo , Zhizhong Zheng , Tao Zhang , Yuanyuan Li , Lei Zhu , Qi Liu

Master students:

Yuanting Guo , Jie Chen , Qunfu Wu , Lili Yang , Menglong Lei , Wanzhi Cai，Jing Bai
 
 
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