赌博app

性别:  男

职称:  教授

学历:  博士

电子邮件:  [email protected]

导师类型:  博士生导师

学科方向: 

071001-植物学
0710Z1-生物信息学
0713-生态学

研究方向

进化生物学与生态基因组学

个人经历

2004.09 — 2008.06  中山大学，生态学专业，获理学学士学位，中山大学优秀毕业生；

2008.09 — 2013.06  中山大学，生物化学与分子生物学专业，导师施苏华教授，获理学博士学位，教育部博士研究生学术新人奖；

2013.08 — 2015.12  中山大学，赌博app ，博士后，合作导师吴仲义教授；

2016.01 — 2018.12  中山大学，赌博app ，特聘研究员；

2019.01 — 2024.03  中山大学，赌博app ，副教授；

2024.04  至今            中山大学，赌博app ，教授。
 

讲授课程

《遗传学》

《生物统计学》

《微观生态学综合实验》

《遗传学讨论课》

《群体遗传学》

《生命伦理学》

学术成就

       在物种形成理论和基因组适应性进化研究领域产出了一系列重要成果，在National Science Review、Nature Ecology & Evolution、Nature Communications、Plant Biotechnology Journal、Molecular Biology and Evolution、New Phytologist等国际一流期刊发表研究论文40余篇。主持省杰出青年项目和国家级项目多个，入选国家重大人才工程。

       发表在Nature Ecology & Evolution的研究论文(He et al., 2022)是首个以同资源种团(ecological guild)为研究对象开展的大规模生态基因组学研究，重建了涵盖全球红树物种的系统发育关系，首次界定红树植物的27次独立起源事件，并发现全球气候变化导致了红树物种极低的遗传多样性，红树植物在海平面快速变化时期经历了种群规模急剧减少和破碎分化过程。发表在National Science Review的研究论文(He et al., 2019)提出并验证了一种全新的物种形成理论MIM Model，发现海平面变化导致的间断性基因流是促进物种形成的一种有效机制，并推动印度-西太平洋区域成为全球生物多样性热点区域。此研究成功地挑战了过去七十年来解释物种形成的标准模型的地位，获得国际进化生物学权威认可，被誉为对物种形成研究领域的重要贡献(Rieseberg, 2019 Natl. Sci. Rev.)。论文被ESI热点论文和高被引论文数据库收录。发表在PLoS Genetics的研究论文(He et al., 2011)，从群体基因组水平解决了学术界长期争议的模式物种水稻两个亚种是单起源还是多起源的问题。该成果一经发表就受到广泛关注，纽约时报、Discover等媒体进行了报道，被Nature、Cell等期刊引用百余次。

承担课题

       主持国家自然科学基金青年科学基金项目1项和面上项目2项、中国博士后科学基金面上资助和特别资助项目各1项、广东省基础与应用基础研究基金面上项目和杰出青年项目各1项，以主要参与者参加国家重点重大项目3项。

论文专著

Selected Publications

Shaohua Xu#, Shao Shao#, Xiao Feng, Sen Li, Lingjie Zhang, Weihong Wu, Min Liu, Miles E. Tracy, Cairong Zhong, Zixiao Guo, Chung-I Wu, Suhua Shi*, Ziwen He*. Adaptation in unstable environments and global gene losses: small but stable gene networks by the May–Wigner theory. Molecular Biology and Evolution, 2024, 41(4):msae059.

Xiao Feng#, Qipian Chen#, Weihong Wu, Jiexin Wang, Guohong Li, Shaohua Xu, Shao Shao, Min Liu, Cairong Zhong, Chung-I Wu, Suhua Shi*, Ziwen He*. Genomic evidence for rediploidization and adaptive evolution following the whole-genome triplication. Nature Communications, 2024, 15:1635.

Weihong Wu#, Xiao Feng#, Nan Wang, Shao Shao, Min Liu, Fa Si, Linhao Chen, Chuanfeng Jin, Shaohua Xu, Zixiao Guo, Cairong Zhong, Suhua Shi, Ziwen He*. Genomic analysis of Nypa fruticans elucidates its intertidal adaptations and early palm evolution. Journal of Integrative Plant Biology, 2024, 66(4):824-843.

Yuan Wang, Yulong Li, Weihong Wu, Shao Shao, Qi Fang, Shaohua Xu, Zixiao Guo, Suhua Shi, Ziwen He*. The evolution history of an allotetraploid mangrove tree analysed with a new tool Allo4D. Plant Biotechnology Journal, 2023, doi:10.1111/pbi.14281.

Xiao Feng, Guohong Li, Weihong Wu, Haomin Lyu, Jiexin Wang, Cong Liu, Cairong Zhong, Suhua Shi*, Ziwen He*. Expansion and adaptive evolution of the WRKY transcription factor family in Avicennia mangrove trees. Marine Life Science & Technology, 2023, 5(2):155-168.

Shaohua Xu, Zixiao Guo, Xiao Feng, Shao Shao, Yuchen Yang, Jianfang Li, Cairong Zhong, Ziwen He*, Suhua Shi*. Where whole-genome duplication is most beneficial: Adaptation of mangroves to a wide salinity range between land and sea. Molecular Ecology, 2023, 32(2):460-475.

Xinfeng Wang#, Ziwen He#*, Zixiao Guo#, Ming Yang, Shaohua Xu, Qipian Chen, Shao Shao, Sen Li, Cairong Zhong, Norman C Duke, Suhua Shi*. Extensive gene flow in secondary sympatry after allopatric speciation. National Science Review, 2022, 9(12):nwac280.

Ning Sun#, Liandong Yang#, Fei Tian#, Honghui Zeng#, Ziwen He*, Kai Zhao*, Cheng Wang, Minghui Meng, Chenguang Feng, Chengchi Fang, Wenqi Lv, Jing Bo, Yongtao Tang, Xiaoni Gan, Zuogang Peng, Yiyu Chen*, Shunping He*. Sympatric or micro-allopatric speciation in a glacial lake? Genomic islands support neither. National Science Review, 2022, 9(12):nwac291.

Ziwen He#, Xiao Feng#, Qipian Chen#, Liangwei Li#, Sen Li, Kai Han, Zixiao Guo, Jiayan Wang, Min Liu, Chengcheng Shi, Shaohua Xu, Shao Shao, Xin Liu, Xiaomeng Mao, Wei Xie, Xinfeng Wang, Rufan Zhang, Guohong Li, Weihong Wu, Zheng Zheng, Cairong Zhong, Norman C. Duke, David E. Boufford, Guangyi Fan, Chung-I Wu, Robert E. Ricklefs, Suhua Shi*. Evolution of coastal forests based on a full set of mangrove genomes. Nature Ecology & Evolution, 2022, 6(6):738-749.

Qipian Chen, Hao Yang, Xiao Feng, Qingjian Chen, Suhua Shi*, Chung-I Wu*, Ziwen He*. Two decades of suspect evidence for adaptive molecular evolution – Negative selection confounding positive selection signals. National Science Review, 2022, 9(5):nwab217.

Xiao Feng#, Guohong Li#, Shaohua Xu, Weihong Wu, Qipian Chen, Shao Shao, Min Liu, Nan Wang, Cairong Zhong, Ziwen He*, Suhua Shi. Genomic insights into molecular adaptation to intertidal environments in the mangrove Aegiceras corniculatum. New Phytologist, 2021, 231:2346-2358.

Shaohua Xu, Jiayan Wang, Zixiao Guo, Ziwen He*, Suhua Shi*. Genomic convergence in the adaptation to extreme environments. Plant Communications, 2020, 1(6):100117.

Xinfeng Wang#, Ziwen He#, Suhua Shi*, Chung-I Wu*. Genes and speciation: is it time to abandon the biological species concept? National Science Review, 2020, 7(8):1387-1397.

Ziwen He#, Shaohua Xu#, Zhang Zhang#, Wuxia Guo, Haomin Lyu, Cairong Zhong, David E Boufford, Norman C Duke, The International Mangrove Consortium, Suhua Shi*. Convergent adaptation of the genomes of woody plants at the land–sea interface. National Science Review, 2020, 7(6):978-993.

Ziwen He#, Shaohua Xu#, Suhua Shi*. Adaptive convergence at the genomic level—prevalent, uncommon or very rare? National Science Review, 2020, 7(6):947-951.

Xiao Feng#, Shaohua Xu#, Jianfang Li#, Yuchen Yang, Qipian Chen, Haomin Lyu, Cairong Zhong, Ziwen He*, Suhua Shi*. Molecular adaptation to salinity fluctuation in tropical intertidal environments of a mangrove tree Sonneratia alba. BMC Plant Biology, 2020, 20:178.

Qingjian Chen, Ziwen He, Ao Lan, Xu Shen, Haijun Wen*, Chung-I Wu*. Molecular evolution in large steps—codon substitutions under positive selection. Molecular Biology and Evolution, 2019, 36(9):1862-1873.

Ziwen He, Xinnian Li, Ming Yang, Xinfeng Wang, Cairong Zhong, Norman C Duke, Chung-I Wu*, Suhua Shi*. Speciation with gene flow via cycles of isolation and migration: Insights from multiple mangrove taxa. National Science Review, 2019, 6(2):275-288.

Zixiao Guo#, Xinnian Li#, Ziwen He#, Yuchen Yang, Wenqing Wang, Cairong Zhong, Anthony J. Greenberg, Chung-I Wu, Norman C. Duke, Suhua Shi*. Extremely low genetic diversity across mangrove taxa reflects past sea level changes and hints at poor future responses. Global Change Biology, 2018, 24(4):1741-1748.

Haomin Lyu#, Xinnian Li#, Zixiao Guo, Ziwen He*, Suhua Shi. De novo assembly and annotation of the Avicennia officinalis L. transcriptome. Marine Genomics, 2018, 39:3-6.

Haomin Lyu, Ziwen He, Chung-I Wu, Suhua Shi*. Convergent adaptive evolution in marginal environments: unloading transposable elements as a common strategy among mangrove genomes, New Phytologist, 2018, 217:428-438.

Shaohua Xu#, Ziwen He#, Zixiao Guo, Zhang Zhang, Gerald J. Wyckoff, Anthony Greenberg, Chung-I Wu*, Suhua Shi*. Genome-wide convergence during evolution of mangroves from woody plants. Molecular Biology and Evolution, 2017, 34(4):1008-1015.

Shaohua Xu#, Ziwen He#, Zhang Zhang#, Zixiao Guo#, Wuxia Guo, Haomin Lyu, Jianfang Li, Ming Yang, Zhenglin Du, Yelin Huang, Renchao Zhou, Cairong Zhong, David E. Boufford, Manuel Lerdau, Chung-I Wu, Norman C. Duke, The International Mangrove Consortium, Suhua Shi*. The origin, diversification and adaptation of a major mangrove clade (Rhizophoreae) revealed by whole-genome sequencing. National Science Review, 2017, 4(5):721-734.

Ming Yang#, Ziwen He#, Yelin Huang, Lu Lu, Yubin Yan, Lan Hong, Hao Shen, Ying Liu, Qiang Guo, Lu Jiang, Yanwu Zhang, Anthony J. Greenberg, Renchao Zhou, Xuejun Ge, Chung‐I Wu*, Suhua Shi*. The emergence of the hyperinvasive vine, Mikania micrantha (Asteraceae), via admixture and founder events inferred from population transcriptomics. Molecular Ecology, 2017, 26(13):3405-3423.

Ming Yang, Ziwen He, Suhua Shi*, Chung-I Wu*. Can genomic data alone tell us whether speciation happened with gene flow? Molecular Ecology, 2017, 26(11):2845-2849.

Zhang Zhang#, Ziwen He#, Shaohua Xu, Xinnian Li, Wuxia Guo, Yuchen Yang, Cairong Zhong, Renchao Zhou*, Suhua Shi*. Transcriptome analyses provide insights into the phylogeny and adaptive evolution of the mangrove fern genus Acrostichum. Scientific Reports, 2016, 6:35634.

Ziwen He#, Zhang Zhang#, Wuxia Guo, Ying Zhang, Renchao Zhou, Suhua Shi*. De novo assembly of coding sequences of the mangrove palm (Nypa fruticans) using RNA-seq and discovery of whole-genome duplications in the ancestor of palms. PLoS One, 2015, 10(12):e0145385.

Ziwen He, Xinnian Li, Shaoping Ling, Yun-Xin Fu, Eric Hungate, Suhua Shi*, Chung-I Wu*. Estimating DNA polymorphism from next generation sequencing data with high error rate by dual sequencing applications. BMC Genomics, 2013, 14(1):535.

Ziwen He#, Weiwei Zhai#, Haijun Wen#, Tian Tang, Yu Wang, Xuemei Lu, Anthony J. Greenberg, Richard R. Hudson, Chung-I Wu*, Suhua Shi*. Two evolutionary histories in the genome of rice: the roles of domestication genes. PLoS Genetics, 2011, 7(6):e1002100.

# co-first author    * corresponding author