发布时间：2015-09-21 12:53:11 阅读次数：
王希胤简介
华北理工大学教授、博士生导师、基因组学与计算生物学研究中心主任、生命科学学院院长；河北省自然科学基金项目评阅专家组成员；省杰出青年基金获得者，教育厅新世纪人才支持计划学者；“三三三”学者；省“百人计划”学者。
乔治亚大学植物基因组作图实验室副研究教授（Associate Research Professor），领导生物信息学研究小组。
国际计算生物学学会会员（ISCB)，国际分子进化学会会员（SMBE)；国际棉花基因组计划成员；知名国际学术刊物
学习经历: 1995年大学毕业于吉林大学数学系，获理学学士学位（数学）；2005年研究生毕业于北京大学生命科学学院，获理学博士学位（生物化学与分子生物学专业，生物信息学方向）。
工作经历: 1995年参加工作，任河北理工大学理学院助教；2000年晋升为讲师，2005年晋升为副教授；2006年被聘为特聘教授；2009年晋升为教授；2006年2月至2009年12月在美国乔治亚大学作博士后研究，后任研究员；2008年开始筹建河北理工（联合）大学基因组学与计算生物学研究中心。先后讲授多门数学、统计学、生物信息学、基因组学前沿讲座和生物进化理论等课程。
主要作品：发表在
主持的科研项目：现正在主持国家自然基金面上项目2项，结题1项，河北省百人计划项目1项，杰出青年项目1项，河北省教育厅百名跨世纪优秀人才项目1项。主持美国自然科学基金项目项目1项。在研经费600余万元。
主要研究工作和贡献：
生物信息学：把数学、统计学、计算科学、生物学等多个学科紧密结合，开发分析基因组、转录组学的大型数据的算法、软件和数据库；发表了植物基因共线性分析的软件和数据库，被世界上近100个国家研究人员广泛引用和下载，成为植物基因组学分析重要研究平台，并受到美国自然科学基金先后2个项目的资助。比较和进化基因组学：在棉花、高粱、白菜、油菜、苷蓝、西红柿、桑树等多个植物基因组测序的大型国际合作项目中，任生物信息学和比较基因组学研究的首席科学家（PI）；关于植物（特别是经济作物）基因组多倍化、DNA非正常重组和基因置换、基因组不稳定性和大规模重排的机制、植物古代基因组重构、重复基因的进化机制、基因家族（Ｃ4光合作用基因、抗病基因、开花基因）的功能演化等方面发表了一系列重要研究成果，被广泛引用。通过深入的生物信息学和比较基因组学分析和创新性研究，先后指出国际上不同研究组在解读水稻（2005年）、土豆及茄科植物（2012年）、棉花（2012年）等基因组，在多倍化的定性和规模上的错误，为国际植物学领域所重视。主要作品发表在
学术兼职
国际计算生物学学会会员（ISCB)国际分子进化学会会员（SMBE)；知名国际学术刊物
学术报告
2008-2013年(除2011年外)，每年应邀在国际动物和植物基因组学大会发表学术报告:
特邀报告：2008 年1 月, San Diego, CA, USA. Plant and Animal Genome Conference XVI,
报告题目：“Exploration Of Concerted Evolution Between Paralogous Rice Genes Suggests Recurrent Illegitimate DNA Recombinations”
特邀报告：2009 年1 月, San Diego, CA, USA. Plant and Animal Genome Conference XVII,
报告题目：“A Plant Genome Duplication Database (PGDD) for Plant Comparative Genomics”
特邀报告：2010 年1 月, San Diego, CA, USA. Plant and Animal Genome Conference XVIII,
报告题目：“Paleopolyploidy from a viewpoint of the first physical map of Brassica oleracea”
特邀报告：2012 年1 月, San Diego, CA, USA. Plant and Animal Genome Conference XX,
报告题目：“Interrelated Evolution of Two Grass Chromosomes Through Illegitimate Recombination, Resulting in Homoeologous Chromosomal Stratification”
特邀报告：2013 年1 月, San Diego, CA, USA. Plant and Animal Genome Conference XXI,
报告题目：“Two consecutive whole-genome triplications and the formation of Solanaceae genomes”
工作计划
-简要概括：
题组以重要经济作物为研究对象，以重要的生物学和农学问题为核心，基于基因组信息学分析方法和工具，进行作物群体遗传学分析和比较、进化和统计基因组学分析，研究基因组不同尺度（宏观和微观、多物种和多种群体水平）的进化规律，构建作物基因组学分析的研究平台，在基因组学理论水平上深化对植物进化、发育和培育的认识，为农业生产实践提供重要的基础科研支撑，争取在基因组学研究上在国际上取得一定影响力。
-研究目标：
作物群体水平的大数据集，结合计算机软件、数学和统计学方法和模型构建，开发生物信息学分析的方法和工具，建设作物基因组学分析平台；具体地，将开发新一代的比较基因组学分析工具和数据库，如开发分析多倍化造成的复杂基因组结构的方法和软件，开发支持同一或多种相关作物多种群体的分析方法和平台，建设基于基因位置共线性的基因同源关系数据库，建设包含所有已测序的经济作物基因组进化和细胞核型变化的数据库；同时，利用这些方法、软件和平台，对水稻等重要经济作物的基因组数据进行深入分析。
-研究内容：
（1）开发分析多倍化造成的复杂基因组结构的方法和软件。反复的基因组多倍化造成了植物基因的复杂结构，现有软件不能很好解构，拟基于基因共线性，开发软件用于作物基因组结构分析，生成同源基因加倍和系统发育的层级关系图，这将成为作物基因组分析基础性平台的重要组成部分；以现有多个较好拼接的基因为参照，利用基因共线性，对新测序的基因组进行初步分析，并结合基因组的遗传图等信息，发现新测序基因组分析的可能错误，从而指导基因组拼接工作（初步方法已在棉花基因组测序拼接中成功应用）。
（2）开发支持同一或多种相关作物多种群体的分析方法和平台。结合多种群体多种数据类型的基因组学分析方法，与已有的本物种参照和近缘物种基因组进行联合分析，开发新的基因组大数据分析的计算和统计方法，并构建软件流程，从而支撑多种群体为数据分析。
（3）建设基于基因位置共线性的基因同源关系数据库。以上述研究平台分析依托，分析所有已测序的经济作物及其亲缘物种的基因组，分析基因组内和基因组间的基因共线性，展示基因组在基因水平上的改变（如基因丢失、转移、插入等），特别是生成基因间的由于多次物种分歧、基因组加倍而形成的层级同源关系，把相关结果导入构建的数据库。
（4）建设包含所有已测序的经济作物基因组大尺度进化和细胞核型变化的数据库。基于上述基因组共线性分析，可以探索基因组大尺度水平上的变化，如染色体DNA倒位、易位、染色体臂丢失、染色体合并等，并最终造成细胞核型变化，本课题组拟重构多种作物的基因组重构历史，并建设数据库。
（5）利用上述方法、软件和平台，对水稻等重要经济作物已有的和合作课题组获取的基因组学数据进行深入分析，探索基因组不同尺度的进化规律，回答重要的农学和生物学问题，如多倍化对作物基因组结构的短期和长期影响、人类驯化对基因组的影响、基因家族受多倍化作用和不基因家族对作物发育不同贡献等重要科学问题。
发表论文 (citation # 5842 by May 26, 2015)
1. Wang X, Guo H, Wang J, Liu T, Lei T, Lee T, Li J, Tang H, Paterson AH. Evidence of a decaploid ancestor of cotton and characterization of wide-spread genomic fractionation through multiple genome alignment.New phytologist (In revision).
2. Wang X, Wang J, Guo H, Lee T, Liu T, Jin D, Paterson AH. Multiple genome alignment spanning major Poaceae lineages reveals heterogeneous evolutionary rates and alters inferred dates for key events in grass evolution.Molecular Plant. 2015.
3. Wang X, Wang Z, Guo H, Zhang L, Wang L, Li J, Jin D, Paterson AH. Telomere-centric genome repatterning determines recurring chromosome number reductions during the evolution of eukaryotes.New Phytologist. 2015. (citation # 1)
4. Boulos Chalhoub, France Denoeud, Shengyi, Liu, Yongming Zhou, Isobel A. P. Parkin, Haibao Tang, Xiyin Wang, Julien Chiquet, Harry Belcram, Chaobo Tong, Birgits Samans, Corinne Da Silva, Margot Corréa, Jérémy Just, Cyril Falentin, Chu Shin Koh, Isabelle Clainche, Maria Bernard, Pascal Bento, Benjamin Noel, Karine Labadie, Adriana Alberti, Mathieu Charles, Dominique Arnaud, Hui Guo, Christian Daviaud, Salman Alamery, Kamel Jabbari, Meixia Zhao, Patrick E. Edger, Houda Chelaifa, David Tack, Gilles Lassalle, , Imen Mestiri, Marie-Christine Le Paslier, Guangyi Fan, Victor Renaud, Philippe E. Bayer, Sahana Manoli, Tae-ho Lee, Vinh Ha Dinh Thi, Smahcoane Chalabi, Quiang Hu, Chuchuan Fan, Reece Tollenaere, Guangyi Fan, Yunhai Lu, Christophe Battail, Jinxiong Shen, Christine H. D. Sidebottom, Xinfa Wang, Aurélie Canaguier, Aurélie Chauveau, Aurélie Bérard, Gwéna?lle Deniot, Mei Guan, Zhongsong Liu, Fengming Sun, Yong Pyo, Lim, Eric, Lyons, Christopher D. Town, Ian Bancroft, Xiaowu Wang, Jinling Meng, Jianxin Ma, J. Chris Pires, Graham J. King, Dominique Brunel, Régine Delourme, Michel Renard, Jean-Marc Aury, Keith L. Adams, Jacqueline Batley, Rod Snowdon, Jorg Tost, Dave Edwards, Wei Hua?, Andrew G. Sharpe§, Andrew H. Paterson, Chunyun Guan, Patrick Wincker. Early allopolyploid evolution in the post-neolithic Brassica napus oilseed genome.Science. 2014. (In second review).(Xiyin Wang is the PI of comparative genomics research) (citation # 39)
5. Kim C*, Wang X*, Lee TH, Jakob K, Lee GJ, Paterson AH: Comparative Analysis of Miscanthus and Saccharum Reveals a Shared Whole-Genome Duplication but Different Evolutionary Fates.Plant Cell 2014.(co-first-author) (citation # 5)
6. Parkin IA, Koh C, Tang H, Robinson SJ, Kagale S, Clarke WE, Town CD, Nixon J, Krishnakumar V, Bidwell SL, et al: Transcriptome and methylome profiling reveals relics of genome dominance in the mesopolyploid Brassica oleracea.Genome Biol 2014, 15:R77. (citation 12)
7. Guo H, Wang X, Gundlach H, Mayer KF, Peterson DG, Scheffler BE, Chee PW, Paterson AH: Extensive and Biased Intergenomic Non-Reciprocal DNA Exchanges Shaped a Nascent Polyploid Genome, Gossypium (Cotton).Genetics 2014. (citation # 2)
8. Liu S, Liu Y, Yang X, Tong C, Edwards D, Parkin IA, Zhao M, Ma J, Yu J, Huang S, et al: The Brassica oleracea genome reveals the asymmetrical evolution of polyploid genomes.Nat Commun 2014, 5:3930.(Xiyin Wang is the PI of comparative genomics research) (citation # 40)
9. Lee TH, Guo H, Wang X, Kim C, Paterson AH: SNPhylo: a pipeline to construct a phylogenetic tree from huge SNP data.BMC Genomics 2014, 15:162. (citation # 4)
10. Renny-Byfield S, Gallagher JP, Grover CE, Szadkowski E, Page JT, Udall JA, Wang X, Paterson AH, Wendel JF: Ancient gene duplicates in Gossypium (cotton) exhibit near-complete expression divergence.Genome Biol Evol 2014, 6:559-571. (citation # 5)
11.He N, Zhang C, Qi X, Zhao S, Tao Y, Yang G, Lee TH, Wang X, Cai Q, Li D, et al:Draft genome sequence of the mulberry tree Morus notabilis.Nat Commun 2013, 4:2445.(Xiyin Wang is the PI of comparative genomics research) (citation # 30)
12. Wang Z, Zhang D, Wang X, Tan X, Guo H, Paterson AH: A whole-genome DNA marker map for cotton based on the D-genome sequence of Gossypium raimondii L.G3 (Bethesda) 2013, 3:1759-1767. (citation # 14)
13. Guo H, Lee TH, Wang X, Paterson AH: Function relaxation followed by diversifying selection after whole-genome duplication in flowering plants.Plant Physiol 2013, 162:769-778. (citation # 18)
14. Zhang D, Guo H, Kim C, Lee TH, Li J, Robertson J, Wang X, Wang Z, Paterson AH: CSGRqtl, a comparative quantitative trait locus database for Saccharinae grasses.Plant Physiol 2013, 161:594-599. (citation # 6)
15. Wang Y, Wang X, Lee TH, Mansoor S, Paterson AH: Gene body methylation shows distinct patterns associated with different gene origins and duplication modes and has a heterogeneous relationship with gene expression in Oryza sativa (rice).New Phytol 2013, 198:274-283. (citation # 11)
16. Lee TH, Tang H, Wang X, Paterson AH: PGDD: a database of gene and genome duplication in plants.Nucleic Acids Res 2013, 41:D1152-1158. (citation # 58)
17.Paterson AH, Wendel JF, Gundlach H, Guo H, Jenkins J, Jin D, Llewellyn D, Showmaker KC, Shu S, Udall J, et al: Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.Nature 2012, 492:423-427.(Xiyin Wang is the PI of comparative genomics research) (citation # 194)
18. The Tomato Genome Sequencing Project Consortium. The genomes that make tomatoes. 2012. Nature. (Wang. X. is a PI and group leader of comparative genomics research, Cover paper) (citation # 633)
19. Wang Y, Wang X, Paterson AH: Genome and gene duplications and gene expression divergence: a view from plants.Ann N Y Acad Sci 2012, 1256:1-14. (citation # 45)
20. Wang Y, Tang H, Debarry JD, Tan X, Li J, Wang X, Lee TH, Jin H, Marler B, Guo H, et al: MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity.Nucleic Acids Res 2012, 40:e49. (citation # 78)
21. Wang Y, Wang X, Tang H, Tan X, Ficklin SP, Feltus FA, Paterson AH: Modes of gene duplication contribute differently to genetic novelty and redundancy, but show parallels across divergent angiosperms.PLoS One 2011, 6:e28150. (citation # 38)
22. Wang X, Torres MJ, Pierce G, Lemke C, Nelson LK, Yuksel B, Bowers JE, Marler B, Xiao Y, Lin L, et al: A physical map of Brassica oleracea shows complexity of chromosomal changes following recursive paleopolyploidizations.BMC Genomics 2011, 12:470. (citation # 10)
23.Wang X, Wang H, Wang J, Sun R, Wu J, Liu S, Bai Y, Mun JH, Bancroft I, Cheng F, et al: The genome of the mesopolyploid crop species Brassica rapa.Nat Genet 2011, 43:1035-1039.(Xiyin Wang is the PI of comparative genomics research) (citation number 557)
24. Ratnaparkhe MB*, Wang X*, Li J, Compton RO, Rainville LK, Lemke C, Kim C, Tang H, Paterson AH: Comparative analysis of peanut NBS-LRR gene clusters suggests evolutionary innovation among duplicated domains and erosion of gene microsynteny.New Phytol 2011, 192:164-178.(co-first-authorship) (citation # 17)
25. Lin L, Tang H, Compton RO, Lemke C, Rainville LK, Wang X, Rong J, Rana MK, Paterson AH: Comparative analysis of Gossypium and Vitis genomes indicates genome duplication specific to the Gossypium lineage.Genomics 2011, 97:313-320. (citation # 10)
26. Wang X, Tang H, Paterson AH: Seventy million years of concerted evolution of a homoeologous chromosome pair, in parallel, in major Poaceae lineages.Plant Cell 2011, 23:27-37. (citation # 38)
27. Lin L, Pierce GJ, Bowers JE, Estill JC, Compton RO, Rainville LK, Kim C, Lemke C, Rong J, Tang H, et al: A draft physical map of a D-genome cotton species (Gossypium raimondii).BMC Genomics 2010, 11:395. (citation # 35)
28. Wang, X., and Paterson, A.H. Gene conversion in plant genome with an Emphasis on genes duplicated by polyploidization. Genes. 2011. (citation # 12)
29. Paterson AH, Freeling M, Tang H, Wang X: Insights from the comparison of plant genome sequences.Annu Rev Plant Biol 2010, 61:349-372. (citation #112)
30. Tang H, Bowers JE, Wang X, Paterson AH: Angiosperm genome comparisons reveal early polyploidy in the monocot lineage.Proc Natl Acad Sci U S A 2010, 107:472-477. (citation # 112)
31. Wang X, Gowik U, Tang H, Bowers JE, Westhoff P, Paterson AH: Comparative genomic analysis of C4 photosynthetic pathway evolution in grasses.Genome Biol 2009, 10:R68. (citation # 69)
32. Wang X, Tang H, Bowers JE, Paterson AH: Comparative inference of illegitimate recombination between rice and sorghum duplicated genes produced by polyploidization.Genome Res 2009, 19:1026-1032. (citation # 43)
33. Paterson AH, Bowers JE, Bruggmann R, Dubchak I, Grimwood J, Gundlach H, Haberer G, Hellsten U, Mitros T, Poliakov A, Wang. X.et al: The Sorghum bicolor genome and the diversification of grasses.Nature 2009, 457:551-556.(citation # 1267)
34. Paterson AH, Bowers JE, Feltus FA, Tang H, Lin L, Wang X: Comparative genomics of grasses promises a bountiful harvest.Plant Physiol 2009, 149:125-131. (citation # 38)
35. Lyons E, Pedersen B, Kane J, Alam M, Ming R, Tang H, Wang X, Bowers J, Paterson A, Lisch D, Freeling M: Finding and comparing syntenic regions among Arabidopsis and the outgroups papaya, poplar, and grape: CoGe with rosids.Plant Physiol 2008, 148:1772-1781. (citation # 125)
36. Tang H, Wang X, Bowers JE, Ming R, Alam M, Paterson AH: Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps.Genome Res 2008, 18:1944-1954. (citation # 218)
37. Tang H, Bowers JE, Wang X, Ming R, Alam M, Paterson AH: Synteny and collinearity in plant genomes.Science 2008, 320:486-488 (citation #326)
38. Ming R, Hou S, Feng Y, Yu Q, Dionne-Laporte A, Saw JH, Senin P, Wang W, Ly BV, Lewis KL, et al: The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus).Nature 2008, 452:991-996. (citation # 571)
39. Wang X, Tang H, Bowers JE, Feltus FA, Paterson AH: Extensive concerted evolution of rice paralogs and the road to regaining independence.Genetics 2007, 177:1753-1763. (citation # 64)
40. Wang X, Shi X, Li Z, Zhu Q, Kong L, Tang W, Ge S, Luo J: Statistical inference of chromosomal homology based on gene colinearity and applications to Arabidopsis and rice.BMC Bioinformatics 2006, 7:447. (citation # 55)
41. Shi X*, Wang X*, Li Z, Zhu Q, Tang W, Ge S, Luo J: Nucleotide substitution pattern in rice paralogues: implication for negative correlation between the synonymous substitution rate and codon usage bias.Gene 2006, 376:199-206.(co-first-authorship) (citation # 10)
42. Wang X, Shi X, Hao B, Ge S, Luo J: Duplication and DNA segmental loss in the rice genome: implications for diploidization.New Phytol 2005, 165:937-946. (citation # 224)
43. Yu J, Wang J, Lin W, Li S, Li H, Zhou J, Ni P, Dong W, Hu S, Zeng C, et al: The Genomes of Oryza sativa: a history of duplications.PLoS Biol 2005, 3:e38. (citation # 671)
44. Wang X, Shi X, Hao B: The transfer RNA genes in Oryza sativa L. ssp. indica.Sci China C Life Sci 2002, 45:504-511. (citation # 14)
45. Shi X, Wang X, Li Z, Zhu Q, Yang J, Ge S, Luo J: Evidence that natural selection is the primary cause of the GC content variation in rice genes.Journal of Integrative Plant Biology 2007.(co-first-authorship) (citation # 8)
46. Wang X, Shi XL, Hao B: The tRNA and rRNA genes in the Oryza sativa genome.Acta Genetics Sinica 2004, 31:7. (citation # 3)
Book chapters
47. Wang, X., and Paterson, A.H. Comparative genomic analysis of C4 photosynthesis pathway evolution in grasses. In book the Genetics and Genomics of the Saccharinae, focusing on Sorghum, Saccharum (sugarcae), and Miscanthus, edited by Andrew H. Paterson, to be published by Springer company. (Invited book chapter, http://www.springer.com/series/7397?detailsPage=titles)
48. Wang, X., and Paterson, A.H. Gene synteny and colinearity in cereal plant genomics. In book: Cereal Genomics, edited by Gupta, Pushendra Kumar and Varshney, R.K., to be published by Springer company. (Invited book chapter, http://www.springer.com/biomed/human+genetics/book/978-1-4020-2358-3)
49. Paterson, A.H., Wang, X., Li, J., Tang, H. Ancient and recent polyploidy in monocots, In book: The Evolution of Land Plants, Edited by Soltis, D. and Soltis, P, to be published by Springer company. (Invited book chapter)
50. Wang, X., Guo, H., Wang, J. Insights into the common ancestor of cereals. In book: Genomes of Herbaceous Land Plants, Edited by Paterson, AH., to be published by Elsevier Limited. (Invited book chapter)
