植物分子系统学，植物DNA条形码，被子植物系统发育基因组学

   

071001-植物学

植物多样性与基因组学
植物多样性演化与分子进化

2004-09--2007-06   中国科学院昆明植物研究所   博士
2001-09--2004-07   云南农业大学   硕士
1990-09--1993-06   怀化学院   学生

   

2021-01~现在, 中国科学院昆明植物研究所, 研究员
2016-01~2020-12,中国科学院昆明植物研究所, 项目研究员
2011-01~2015-12,中国科学院昆明植物研究所, 高级工程师
2007-07~2010-12,中国科学院昆明植物研究所, 助理研究员
1993-07~2001-08,湖南省冷水江市毛易中学, 教师

   

（1） 被子植物及其关键类群的分子系统发育和演化, 一等奖, 省级, 2023
（2） 中国植物DNA条形码研究, 二等奖, 省级, 2017

（ 1 ） 一种基于二叉树的植物数据存储、鉴定方法及系统, 发明专利, 2020, 专利号: CN111984646A

（ 2 ） 一种基于二代测序的植物叶绿体全基因组组装成环方法, 发明专利, 2019, 专利号: CN109411014A

（ 3 ） 一种使用叶绿体DNA条形码对罂粟的鉴定方法, 发明专利, 2018, 专利号: CN108396070A

（ 4 ） 高度降解样本中植物性DNA的检测引物, 专利授权, 2018, 专利号: CN108018339A

（ 5 ） 分子生物学整合实验台, 实用新型, 2013, 专利号: CN203303986U

   

[1] Zhao, Lei, Zhou, Wei, He, Jun, Li, DeZhu, Li, HongTao. Positive selection and relaxed purifying selection contribute to rapid evolution of male-biased genes in a dioecious flowering plant. eLife[J]. 2024, 第 5 作者  通讯作者  2023(12): https://elifesciences.org/articles/89941.
[2] zhaolei, zhouwei, hejun, lidezhu, lihongtao. Positive selection and relaxed purifying selection contribute to rapid evolution of male-biased genes in a dioecious flowering plant. eLife[J]. 2024, 第 11 作者2023(12): https://elifesciences.org/articles/89941.
[3] Zhang, Le, Huang, YiWei, Huang, JiaLin, Ya, JiDong, Zhe, MengQing, Zeng, ChunXia, Zhang, ZhiRong, Zhang, ShiBao, Li, DeZhu, Li, HongTao, Yang, JunBo. DNA barcoding of Cymbidium by genome skimming: Call for next-generation nuclear barcodes. MOLECULAR ECOLOGY RESOURCES[J]. 2023, 第 10 作者  通讯作者  23(2): 424-439, 
[4] Zhao, Lei, Yang, YingYing, Qu, XiaoJian, Ma, Hong, Hu, Yi, Li, HongTao, Yi, TingShuang, Li, DeZhu. Phylotranscriptomic analyses reveal multiple whole-genome duplication events, the history of diversification and adaptations in the Araceae. ANNALS OF BOTANY[J]. 2023, 第 6 作者131(1): 199-214, http://dx.doi.org/10.1093/aob/mcac062.
[5] CenGuo, YangLuo, LianMingGao, TingShuangYi, HongTaoLi, JunBoYang, DeZhuLi. Phylogenomics and the flowering plant tree of life. Journal of Integrative Plant Biology[J]. 2023, 65(2): 299-323, https://www.jipb.net/EN/10.1111/jipb.13415.
[6] Yu, Ying, Li, HongTao, Wu, YuHuan, Li, DeZhu. Correlation Analysis Reveals an Important Role of GC Content in Accumulation of Deletion Mutations in the Coding Region of Angiosperm Plastomes. JOURNAL OF MOLECULAR EVOLUTION[J]. 2021, 第 2 作者89(1-2): 73-80, http://dx.doi.org/10.1007/s00239-020-09987-5.
[7] Wu, Hong, Ma, PengFei, Li, HongTao, Hu, GuoXiong, Li, DeZhu. Comparative plastomic analysis and insights into the phylogeny of Salvia (Lamiaceae). PLANT DIVERSITY[J]. 2021, 第 3 作者43(1): 15-26, http://dx.doi.org/10.1016/j.pld.2020.07.004.
[8] Li, HongTao, Luo, Yang, Gan, Lu, Ma, PengFei, Gao, LianMing, Yang, JunBo, Cai, Jie, Gitzendanner, Matthew A, Fritsch, Peter W, Zhang, Ting, Jin, JianJun, Zeng, ChunXia, Wang, Hong, Yu, WenBin, Zhang, Rong, van der Bank, Michelle, Olmstead, Richard G, Hollingsworth, Peter M, Chase, Mark W, Soltis, Douglas E, Soltis, Pamela S, Yi, TingShuang, Li, DeZhu. Plastid phylogenomic insights into relationships of all flowering plant families. BMC BIOLOGY[J]. 2021, 第 1 作者19(1): http://dx.doi.org/10.1186/s12915-021-01166-2.
[9] Lu, Muyang, Gao, Lianming, Li, Hongtao, He, Fangliang. The patterns of vascular plant discoveries in China. ECOLOGY AND EVOLUTION[J]. 2021, 第 3 作者11(18): 12378-12388, http://dx.doi.org/10.1002/ece3.7971.
[10] Li, HongTao, Yi, TingShuang, Gao, LianMing, Ma, PengFei, Zhang, Ting, Yang, JunBo, Gitzendanner, Matthew A, Fritsch, Peter W, Cai, Jie, Luo, Yang, Wang, Hong, van der Bank, Michelle, Zhang, ShuDong, Wang, QingFeng, Wang, Jian, Zhang, ZhiRong, Fu, ChaoNan, Yang, Jing, Hollingsworth, Peter M, Chase, Mark W, Soltis, Douglas E, Soltis, Pamela S, Li, DeZhu. Origin of angiosperms and the puzzle of the Jurassic gap. NATURE PLANTS[J]. 2019, 第 1 作者5(5): 461-470, http://dx.doi.org/10.1038/s41477-019-0421-0.
[11] Yao, Gang, Jin, JianJun, Li, HongTao, Yang, JunBo, Mandala, Venkata Shiva, Croley, Matthew, Mostow, Rebecca, Douglas, Norman A, Chase, Mark W, Christenhusz, Maarten J M, Soltis, Douglas E, Soltis, Pamela S, Smith, Stephen A, Brockington, Samuel F, Moore, Michael J, Yi, TingShuang, Li, DeZhu. Plastid phylogenomic insights into the evolution of Caryophyllales. MOLECULAR PHYLOGENETICS AND EVOLUTION[J]. 2019, 第 3 作者134: 74-86, http://dx.doi.org/10.1016/j.ympev.2018.12.023.
[12] Meng, Jing, Li, Xuepei, Li, Hongtao, Yang, Junbo, Wang, Hong, He, Jun. Comparative Analysis of the Complete Chloroplast Genomes of Four Aconitum Medicinal Species. MOLECULES[J]. 2018, 第 3 作者23(5): https://doaj.org/article/06e0236a629b48a29dc2b29e557cff8a.
[13] Zhang, ShuDong, Jin, JianJun, Chen, SiYun, Chase, Mark W, Soltis, Douglas E, Li, HongTao, Yang, JunBo, Li, DeZhu, Yi, TingShuang. Diversification of Rosaceae since the Late Cretaceous based on plastid phylogenomics. NEW PHYTOLOGIST[J]. 2017, 第 6 作者214(3): 1355-1367, http://dx.doi.org/10.1111/nph.14461.
[14] Fu, ChaoNan, Li, HongTao, Milne, Richard, Zhang, Ting, Ma, PengFei, Yang, Jing, Li, DeZhu, Gao, LianMing. Comparative analyses of plastid genomes from fourteen Cornales species: inferences for phylogenetic relationships and genome evolution. BMC GENOMICS[J]. 2017, 第 2 作者18(1): http://dx.doi.org/10.1186/s12864-017-4319-9.
[15] Luo, Yang, Ma, PengFei, Li, HongTao, Yang, JunBo, Wang, Hong, Li, DeZhu. Plastid Phylogenomic Analyses Resolve Tofieldiaceae as the Root of the Early Diverging Monocot Order Alismatales. GENOME BIOLOGY AND EVOLUTION[J]. 2016, 第 3 作者8(3): 932-945, http://dx.doi.org/10.1093/gbe/evv260.
[16] Zhang, Ting, Zeng, ChunXia, Yang, JunBo, Li, HongTao, Li, DeZhu. Fifteen novel universal primer pairs for sequencing whole chloroplast genomes and a primer pair for nuclear ribosomal DNAs. JOURNAL OF SYSTEMATICS AND EVOLUTION[J]. 2016, 第 4 作者  通讯作者  54(3): 219-227, http://dx.doi.org/10.1111/jse.12197.
[17] Khan, Sehroon, Nadir, Sadia, Wang, Xuewen, Khan, Afsar, Xu, Jianchu, Li, Meng, Tao, Lihong, Khan, Siraj, Karunarathna, Samantha C. Using in silico techniques: Isolation and characterization of an insect cuticle-degrading-protease gene from Beauveria bassiana. MICROBIAL PATHOGENESIS[J]. 2016, 97: 189-197, http://dx.doi.org/10.1016/j.micpath.2016.05.024.
[18] Cai, Jie, Ma, PengFei, Li, HongTao, Li, DeZhu. Complete Plastid Genome Sequencing of Four Tilia Species (Malvaceae): A Comparative Analysis and Phylogenetic Implications. PLOS ONE[J]. 2015, 第 3 作者10(11): https://doaj.org/article/825e1c4c0bb140418205843245d68762.
[19] Yang, JunBo, Li, DeZhu, Li, HongTao. Highly effective sequencing whole chloroplast genomes of angiosperms by nine novel universal primer pairs. MOLECULARECOLOGYRESOURCES[J]. 2014, 第 3 作者  通讯作者  14(5): 1024-1031, http://dx.doi.org/10.1111/1755-0998.12251.
[20] Zhao, YinHe, LarsonRabin, Zachary, Wang, GuoYing, Moeller, Michael, Li, ChengYun, Zhang, JinPeng, Li, HongTao, Li, DeZhu. Developmental Genetics of the Perianthless Flowers and Bracts of a Paleoherb Species, Saururus chinensis. PLOS ONE[J]. 2013, 第 7 作者8(1): http://dx.doi.org/10.1371/journal.pone.0053019.
[21] Yang, JunBo, Tang, Min, Li, HongTao, Zhang, ZhiRong, Li, DeZhu. Complete chloroplast genome of the genus Cymbidium: lights into the species identification, phylogenetic implications and population genetic analyses. BMC EVOLUTIONARY BIOLOGY[J]. 2013, 第 3 作者  通讯作者  13: http://dx.doi.org/10.1186/1471-2148-13-84.
[22] Yang, JunBo, Yang, ShiXiong, Li, HongTao, Yang, Jing, Li, DeZhu. Comparative Chloroplast Genomes of Camellia Species. PLOS ONE[J]. 2013, 第 3 作者  通讯作者  8(8): https://doaj.org/article/8edb243c4c794848bb0f6580a623d781.
[23] lihongtao. Genetic Information and Technologies Related to iFlora. Plant Diversity and Resourcues[J]. 2012, 第 1 作者
[24] LingZhang, HongTaoLi, LianMingGao, JunBoYang, DeZhuLi, CharlesHCannon, JinChen, andQingJunLi. Phylogeny and Evolution of Bracts and Bracteoles in Tacca (Dioscoreaceae). Journal of Integrative Plant Biology[J]. 2011, 53(11): 901-911, https://www.jipb.net/EN/10.1111/j.1744-7909.2011.01076.x.
[25] Huang, JiaLin, Zeng, ChunXia, Li, HongTao, Yang, JunBo. ISOLATION AND CHARACTERIZATION OF 15 MICROSATELLITE MARKERS FROM THE SPRING ORCHID (CYMBIDIUM GOERINGII) (ORCHIDACEAE). AMERICAN JOURNAL OF BOTANY[J]. 2011, 第 3 作者98(4): E76-E77, http://www.irgrid.ac.cn/handle/1471x/431901.
[26] Li, DeZhu, Gao, LianMing, Li, HongTao, Wang, Hong, Xue-Jun Ge, Jian-Quan Liu, Zhi-Duan Chen, Shi-Liang Zhou, Shi-Lin Chen, Jun-Bo Yang, Cheng-Xin Fu, Chun-Xia Zeng, Hai-Fei Yan, Ying-Jie Zhu, Yong-Shuai Sun, Si-Yun Chen, Lei Zhao, Kun Wang, Tuo Yang and Guang-Wen Duan. Comparative analysis of a large dataset indicates that internal transcribed spacer (ITS) should be incorporated into the core barcode for seed plants. PNAS ( PROC NATL ACAD SCI U S A)[J]. 2011, 第 3 作者108(X): 19641-19646, http://ir.xtbg.org.cn/handle/353005/1809.
[27] Li, HongTao, Wang, Hong, Yang, JunBo, Li, DeZhu. Genetic diversity of the traditional Chinese medicinal plant Ypsilandra thibetica (Melanthiaceae): Applications for conservation. BIOCHEMICAL SYSTEMATICS AND ECOLOGY[J]. 2011, 第 1 作者39(4-6): 425-433, http://dx.doi.org/10.1016/j.bse.2011.06.004.
[28] Li, HongTao, Yang, JunBo, Li, DeZhu, Moeller, Michael, Shah, Amin. A molecular phylogenetic study of Hemsleya (Cucurbitaceae) based on ITS, rpl16, trnH-psbA, and trnL DNA sequences. PLANT SYSTEMATICS AND EVOLUTION[J]. 2010, 第 1 作者285(1-2): 23-32, https://www.webofscience.com/wos/woscc/full-record/WOS:000275658900003.
[29] Lu, Lu, Fritsch, Peter W, Wang, Hong, Li, HongTao, Li, DeZhu, Chen, JianQun. Pollen morphology of Gaultheria L. and related genera of subfamily Vaccinioideae: Taxonomic and evolutionary significance. REVIEW OF PALAEOBOTANY AND PALYNOLOGY[J]. 2009, 第 4 作者154(1-4): 106-123, https://www.webofscience.com/wos/woscc/full-record/WOS:000265353800009.
[30] Yang, JunBo, Li, HongTao, Li, DeZhu, Liu, Jie, Gao, LianMing. Isolation and Characterization of Microsatellite Markers in the Endangered Species Taxus wallichiana Using the FIASCO Method. HORTSCIENCE[J]. 2009, 第 2 作者44(7): 2043-2045, http://dx.doi.org/10.21273/HORTSCI.44.7.2043.
[31] Yang, JunBo, Yang, Jing, Li, HongTao, Zhao, Yu, Yang, ShiXiong. Isolation and characterization of 15 microsatellite markers from wild tea plant (Camellia taliensis) using FIASCO method. CONSERVATION GENETICS[J]. 2009, 第 3 作者10(5): 1621-1623, http://www.irgrid.ac.cn/handle/1471x/431952.
[32] Shah, Amin, Li, DeZhu, Gao, LianMing, Li, HongTao, Moeller, Michael. Genetic diversity within and among populations of the endangered species Taxus fuana (Taxaceae) from Pakistan and implications for its conservation. BIOCHEMICAL SYSTEMATICS AND ECOLOGY[J]. 2008, 第 4 作者36(3): 183-193, http://dx.doi.org/10.1016/j.bse.2007.09.012.
[33] Li, HongTao, Li, DeZhu. Systematic position of Gomphogyne (Cucurbitaceae) inferred from ITS, rpl16 and trnS-trnR DNA sequences. JOURNAL OF SYSTEMATICS AND EVOLUTION[J]. 2008, 第 1 作者46(4): 595-599, https://www.webofscience.com/wos/woscc/full-record/WOS:000257723400016.
[34] Li, HongTao, Yang, JunBo, Li, DeZhu. Hemsleya kunmingensis (Cucurbitaceae), a new species from China. ANNALES BOTANICI FENNICI[J]. 2007, 第 1 作者44(6): 485-491, https://www.webofscience.com/wos/woscc/full-record/WOS:000252762600008.
[35] Zhang, JingLi, Zhang, ChangQin, Gao, LianMing, Yang, JunBo, Li, HongTao. Natural hybridization origin of Rhododendron agastum (Ericaceae) in Yunnan, China: inferred from morphological and molecular evidence. JOURNAL OF PLANT RESEARCH[J]. 2007, 第 5 作者120(3): 457-463, http://ir.kib.ac.cn/handle/151853/24972.
[36] Zhang, Ling, Li, QingJun, Li, HongTao, Chen, Jin, Li, DeZhu. Genetic diversity and geographic differentiation in Tacca chantrieri (Taccaceae): an autonomous selfing plant with showy floral display. ANNALS OF BOTANY[J]. 2006, 第 3 作者98(2): 449-457, http://dx.doi.org/10.1093/aob/mcl123.
[37] yangjunbo, lihongtao. The Application of Four DNA Sequences to Studying Molecular Phylogeny of Camellia (Theaceae). Acta Botanica Yunnanica[J]. 2006, 第 2 作者

（1） 云南重要天然药物分子鉴定, Molecular Identification of Important Medicinal Materials in Yunnan, 科学出版社, 2024-05, 第 其他 作者

   

（ 1 ） 我国轻纺用野生纤维植物资源及纤维特征数据库的构建, 负责人, 国家任务, 2020-01--2024-11
（ 2 ） 植物种质资源基因组数据公共服务平台的构建, 负责人, 中国科学院计划, 2017-01--2021-12
（ 3 ） 重要野生植物种质资源信息共享与iFlora应用服务, 负责人, 国家任务, 2019-01--2024-12
（ 4 ） 油渣果种质资源的收集、评价与发掘, 负责人, 国家任务, 2016-01--2019-12
（ 5 ） 中国科学院关键技术人才, 负责人, 中国科学院计划, 2017-01--2019-12
（ 6 ） 中国常见高等植物DNA条形码数据库公共服务平台建设, 负责人, 中国科学院计划, 2017-01--2018-12
（ 7 ） 雪胆属(Hemsleya Cogn.)的系统重建与分类学修订, 负责人, 国家任务, 2012-01--2015-12
（ 8 ） DNA条形码基础数据采集和标准化2, 负责人, 国家任务, 2013-07--2018-06
（ 9 ） 被子植物系统发育基因组学, 负责人, 中国科学院计划, 2022-01--2026-12
（ 10 ） 生物种质资源数据库和服务体系创建, 负责人, 地方任务, 2021-09--2024-08
（ 11 ） 种质资源管理数据库及共享平台构建, 负责人, 地方任务, 2021-08--2024-07
（ 12 ） 被子植物科级水平系统发育重建与冲突解析, 负责人, 国家任务, 2024-01--2027-12
（ 13 ） 珍稀濒危野生植物AI训练样本库构建与模型测试, 负责人, 国家任务, 2023-01--2024-12

现指导学生

秦汉韬  博士研究生  071001-植物学  

彭臻  硕士研究生  086000-生物与医药  

陈颖  硕士研究生  086000-生物与医药