研究成果 | 主持的重要科研项目: 迄今共主持或参加中国科技部“973”项目、重点研发计划、国家自然科学基金会(NSFC)、中国科学院、瑞典国际科学基金会(IFS)、联合国粮农组织、美国自然科学基金会(NSF)、美国国家卫生研究院(NIH)、国家农业部、中国科学院、云南省、海南省等国际、国家和省部级科研项目30多个。 (1)瑞典国际科学基金会(C/2738-1,2):中国野生稻的收集、调查和遗传多样性与保护生物学研究(1997.8-2002.12),2.4万美元,已顺利结题。 (2) 联合国粮农组织国际植物遗传资源研究所(IPGRI):利用SSR评价中国普通野生稻的群体遗传结构及其原生境保护的研究(1999.5-2002.5),1.5万美元,已顺利结题。 (3)国家自然科学基金(30025005):颗粒野生稻的群体遗传结构和濒危机制的研究(1998.1-2001.12),12.5万,已顺利结题。 (4) 中国博士后管理委员会项目:亚洲栽培稻及其野生近缘植物基于遗传图谱的遗传多样性研究(1997.8-1999.9),4万,已顺利结题。 (5)中国科学院“九五”重大项目(KZ951-B1-102):中国药用野生稻的遗传多样性和保护生物学研究(“中国重要珍稀濒危植物的保护生物学研究”子专题,1998.6-2002.12),4万,项目主持人为洪德元院士和葛颂研究员,本人为子课题主持人, 已顺利结题。 (6)中国科学院知识创新工程方向性重点项目(KSCX2-YW-N-029):重要野生禾本科植物的比较基因组学和重要功能基因的研究(2007.1-2009.12),130万,已顺利结题。 (7)国家科技部“973 ”项目(2007CB815701):重要栽培植物的人工选择与基因组进化(2007.1-2012.12),60万,子专题负责人,已顺利结题。 (8)中国科学院昆明植物研究所 “百人计划” 引进人才启动项目(51O602511121):栽培稻及野生近缘植物的进化与比较功能基因组学研究(2007.1-2010.12),73万,已顺利结题。 (9)中国科学院昆明植物研究所创新三期领域前沿重点项目(672705232515):云南大叶茶的种质资源与基因组学的初步研究(2008.1-2012.12),80万,已顺利结题。 (10)云南省自然科学基金重点项目(2008CC016):云南大叶茶的起源及其重要品质相关基因的比较功能基因组学研究(2009.1-2011.12),45 万,已顺利结题。 (11)中国科学院“百人计划”择优支持项目:云南大叶茶、云南山茶花和油茶的比较功能基因组学与种质资源的初步研究(2009.1-2011.12),200万,已顺利结题。 (12)云南省高端科技人才引进项目(20080A009):云南大叶茶重要品质相关 基因的比较功能基因组学研究(2009.1-2011.12),300万,已顺利结题。 (13)云南省海外高层次人才引进项目:云南大叶茶重要品质相关基因的比较功能基因组学研究(2009.1-2011.12),100万,已顺利结题。 (14)国家自然科学基金NSFC-云南联合基金项目(U0936603):油茶、云南大叶茶和云南山茶种质资源的保护和比较功能基因组学研究”(2010.1-2013.12),185万,已顺利结题。 (15)云南省自然科学基金重点项目:云南普通野生稻种质资源和基因组学的初步研究(2011.1-2013.12),40万,已顺利结题。 (16)云南省农业创新行动计划:云南大叶茶种质资源保护和基因组学研究(2011.1-2015.12),180万,已顺利结题。 (17)昆明理工大学领军人才启动项目(2012.1-2016.12):三七种质资源与基因组学研究, 800 万,已顺利结题。 (18)云南省农业创新行动计划:橡胶树种质资源保护和基因组学研究(2014.1-2016.12),500万,已顺利结题。 (19)国家“万人计划科技创新领军人才” 项目,2017-2019,80万,已顺利结题。 (20)华南农业大学领军人才启动项目,2016.10-2021.10,500万,已顺利结题。 (21)国家自然科学基金 NSFC-云南省联合基金项目(U1902205):基于代谢组学与全基因组关联分析解析云南三七重要农艺性状与代谢化合物及其优异种质资源的发掘利用,2020.01.01-2023.12.31,228万,已顺利结题。 (22)海南大学领军人才启动项目(2021.11-2025.11):200万 (23)海南省水稻产业体系野生稻保护与共享利用岗位科学家(2023.11-2024.12):25万,已顺利结题。 (24)海南省科技人才创新项目“滚动支持”项目(KJRC2025B05):利用油茶泛基因组构建与整合组学研究解析热带油茶脂肪酸生物合成基因组学基础,2025.9-2027.9, 200万,执行中。 论文发表: (* 为通讯联系人) 在 Nature(1),Science(2),PNAS(2), Molecular Plant(5), Trends in Genetics,Genome Biology, Plant Physiology, PLoS Genetics,Genetics,Molecular Ecology (2),Theoretical and Applied Genetics(2)等刊物上公开发表论文139篇,迄今引用6,700多次。 139 Wei Li, Zhe Xu, Aneela Nijabat, and Li-zhi Gao*. Full-length transcriptome atlas of Panax vietnamensis var. fuscidiscus reveals novel genes and alternative splicing in tissue-specific biosynthesis of ocotillol-type saponins. https://www.biorxiv.org/content/10.64898/2026.01.19.700240v1 138 Hui-fang Li, Shuang-feng Dai, Tian-long Fang, and Li-zhi Gao*. An Integrative Phylogenomic Framework Quantifies the Dominant Role of Introgression in Phylogenetic Discordance among Diploid Oryza Species. https://www.biorxiv.org/cgi/content/short/2026.02.01.702050v1 137 Yun Zhang, Richard S. Taylor, LiPing Zhang, Philip Donoghue, and Li-Zhi Gao*. Evolutionary Dynamics and Mechanisms of the MIRNA-Mediated Gene Regulatory System in Oryza. https://www.biorxiv.org/content/10.64898/2026.01.18.700148v2 136 Wei Li, Yiduo Wang, Fugang Wei, Gao Xiong, Zhongjian Chen, and Li-zhi Gao*. Tissue- and Age-Specific Transcriptomic and Metabolomic Analysis Reveals Regulatory Mechanisms of Ginsenoside Biosynthesis in Panax notoginseng. https://www.biorxiv.org/cgi/content/short/2026.03.02.708933v1 135 Fen Zhang, Li-zhi Gao*. Short repeats rewrite plant mitochondrial evolution: Genomic expansion and hybridization signatures in a taxonomically complex radiation. https://www.biorxiv.org/cgi/content/short/2026.03.16.711854v1 134 Y Huang, F Zhang, LZ Gao* The complete mitochondrial genome sequences of Phlebopus portentosus and Leccinum extremiorientale (Boletales; Boletinellaceae: Phlebopus; Leccinum). Mitochondrial DNA Part B 2025 10 (7), 606-609 133 Tian, J.; Gao, L.-Z. * Evolutionary Dynamics and Expression Divergence of the MADS-Box Gene Family During Recent Speciation of AA-Genome Oryza Species. Plants 2025, 14, 379. https://doi.org/10.3390/plants14030379 132 Zhang, F.; Ling, L.-Z.; Gao, L.-Z. * Genome-Wide Dissection of Selection on microRNA Target Genes Involved in Rice Flower Development. Plants 2024, 13, 3281. https://doi.org/10.3390/plants13233281 131 Zhang, F., Feng, Ly., Lin, Pf., Jia, Jj., Gao, L.-Z.* Chromosome-scale genome assembly of oil-tea tree Camellia crapnelliana. Sci Data 11, 599 (2024). https://doi.org/10.1038/s41597-024-03459-x 130 Zhu, X.-G.,Hutang, G.-R., Gao, L.-Z.* Ancient Duplication and Lineage-Specific Transposition Determine Evolutionary Trajectory of ERF Subfamily across Angiosperms. Int. J. Mol. Sci. 2024, 25, 3941. https://doi.org/10.3390/ijms25073941 129 Feng, L.-Y.; Lin, P.-F.; Xu, R.-J.; Kang, H.-Q.; and Gao, L.-Z.*. 2023. Comparative genomic analysis of Asian cultivated rice and its wild progenitor (Oryza rufipogon) has revealed evolutionary innovation of the pentatricopeptide repeat gene family through gene duplication. Int. J. Mol. Sci. 24(22), 16313; https://doi.org/10.3390/ijms242216313 128 Zhang, F.; Kang, H. and Gao L-Z*. 2023. Complete mitochondrial genome assembly of an upland wild rice species, Oryza granulata and comparative mitochondrial genomic analyses of the genus Oryza. Life, 13, 2114. https://doi.org/10.3390/life13112114 127 Cui Lu, Li-Zhi Gao and Qun-Jie Zhang. 2022. A high-quality genome assembly of the mitochondrial genome of the oil-tea tree Camellia gigantocarpa (Theaceae). Diversity, 14, 850 126 Hutang G-R, Tong Y, Zhu X-G and Gao L-Z*. 2023. Genome size variation and polyploidy prevalence in the genus Eragrostis are associated with the global dispersal in arid area. Front. Plant Sci. 14:1066925.doi:10.3389/fpls.2023.1066925 125 Gaofeng Cui, Yun Li, Xin Yi, Jieyu Wang, Peifan Lin, Cui Lu, Qunjie Zhang, Lizhi Gao*, and Guohua Zhong*. 2023. Meliaceae genomes provide insights into wood development and limonoids biosynthesis. Plant Biotechnology Journal, 1–17 124 Dai S-f, Zhu X-g, Hutang G-r, Li J-y, Tian J-q, Jiang X-h, Zhang D, Li-zhi Gao*. 2022. Genome Size Variation and Evolution Driven by Transposable Elements in the Genus Oryza. Front. Plant Sci. 13:921937. doi: 10.3389/fpls.2022.921937 123 Jing Zhang, Yan Wang, Tao Chen, Qing Chen, Lei Wang, Zhen-shan Liu, Hao Wang, Rui Xie, Wen He, Ming Li, Cong-li Liu, Shao-feng Yang,Meng-yao Li, Yuan-xiu Lin, Yun-ting Zhang, Yong Zhang, Ya Luo, Hao-ru Tang, Li-zhi Gao*, Xiao-rong Wang*. 2021. Evolution of Rosaceae Plastomes Highlights Unique Cerasus Diversification and Independent Origins of Fruiting Cherry. Frontiers in Plant Science. DOI: 10.3389/fpls.2021.736053 122 Xin Peng, Win Tun, Shuang-feng Dai, Jia-yue Li, Qun-jie Zhang, Guo-ying Yin,Jinmi Yoon, Lae-hyeon Cho, Gynheung An, Li-zhi Gao*. 2021. Genome-Wide Analysis of CCT Transcript Factors to Identify Genes Contributing to Photoperiodic Flowering in Oryza rufipogon. Frontiers in Plant Science DOI: 10.3389/fpls.2021.736419 121 Li-Ying Feng, Li-Zhi Gao*. 2021. Characterization of chloroplast genome of Eleusine coracana, a highly adaptable cereal crop with high nutritional reputation. Mitochondrial DNA Part B 6(10):2816-2818 120 Li-Ying Feng,Chao Shi, Li-Zhi Gao*. 2021. The complete chloroplast genome sequence of Bromus catharticus Vahl. (Poaceae). Mitochondrial DNA Part B 6(10):2825-2827 119 Li-Ying Feng,Chao Shi, Li-Zhi Gao*. 2021. The complete chloroplast genome sequence of Arundo formosana Hack. (Poaceae). Mitochondrial DNA Part B 6(10):2819-2821 118 Li-Ying Feng, Li-zhi Gao*. 2021. Characterization of the chloroplast genome sequence of Bonia amplexicaulis (L.C.Chia, H.L.Fung & Y.L.Yang) N.H.Xia (Poaceae). Mitochondrial DNA Part B 6 (10):2822-2824. 117 Kui Li, Wenkai Jiang, Yuanyuan Hui, Mengjuan Kong, Li-zhi Gao*, Pengfu Li,*, Shan Lu*. 2021. Gapless indica rice genome reveals synergistic effects of active transposable elements and segmental duplications that promote rice genome evolution. Molecular Plant 14 (10): 1745-1756 DOI: 10.1101/2020.12.24.424264 116 Hong Nan, Yanglei Lin, Xinghua Wang, Li-zhi Gao*. 2021. Comprehensive Genomic Analysis and Expression Profiling of Cysteine-Rich Polycomb-Like Transcription Factor Gene Family in Tea Tree. Horticultural Plant Journal 7 (Suppl 13) DOI: 10.1016/j.hpj.2021.03.001 115 Wei Li, Cong Shi, Kui Li, Qunjie Zhang, Yan Tong, Yun Zhang, Jun Wang, Lynn Clark, Li-zhi Gao*. 2021. Draft genome of the herbaceous bamboo Raddia distichophylla. G3: Genes|Genomes|Genetics 11(2) DOI: 10.1093/g3journal/jkaa049 114Wei Li, Xun-Ge Zhu, Qun-Jie Zhang, Kui Li, Dan Zhang, Cong Shi, Li-Zhi Gao*. 2020. SMRT sequencing generates the chromosome-scale reference genome of tropical fruit mango, Mangifera indica. bioRxiv doi: https://doi.org/10.1101/2020.02.22.960880 113 Nan, H., Lin, YL., Liu, J., Huang H., Li-zhi Gao*. 2020. Genome-wide analysis of the WRKY transcription factor gene family and their response to salt stress in rubber tree. Tropical Plant Biol. https://doi.org/10.1007/s12042-020-09268-x 112 Zhang D, Li W, Chen ZJ, Wei FG, Liu YL, Li-zhi Gao*. 2020. SMRT- and Illumina-based RNA-seq analyses unveil the ginsinoside biosynthesis and transcriptomic complexity in Panax notoginseng. Sci Rep. 2020 Sep 17;10(1):15310. doi: 10.1038/s41598-020-72291-1 111 Wei Li, Fen Zhang, Li-zhi Gao*. 2020. SMRT-based mitochondrial genome of the edible mushroom Morchella conica. Mitochondrial DNA Part B 5(3):3219-3220 110 Li-Ying Feng, Jin Liu, Cheng-Wen Gao, Hai-Bo Wu, Guo-Hua Li and Li-Zhi Gao. 2020. Higher genomic variation in wild than cultivated rubber trees, Hevea brasiliensis, revealed by comparative analyses of chloroplast genomes. Front. Ecol. Evol. | https://doi.org/10.3389/fevo.2020.00237 109 Wei Li, Qun-jie Zhang, Ting Zhu, Yan Tong, Kui Li, Cong Shi, Yun Zhang, Yun-long Liu, Jian-jun Jiang, Yuan Liu, En-hua Xia, Hui Huang, Li-ping Zhang, Dan Zhang, Chao Shi, Wen-kai Jiang, You-jie Zhao, Shu-yan Mao, Jun-ying Jiao, Ping-zhen Xu, Li-li Yang, Li-zhi Gao*. 2020. Draft genomes of two outcrossing wild rice, Oryza rufipogon and O. longistaminata, reveal genomic features associated with mating-system evolution. Plant Direct. DOI: 10.1002/pld3.232 108 Cong Shi, Wei Li, Qun-Jie Zhang, Yun Zhang, Yan Tong, Kui Li, Yun-Long Liu, Li-zhi Gao*. 2020. The draft genome sequence of an upland wild rice species, Oryza granulata. Scientific Data, 7:131 107 Yan Tong, Li-zhi Gao*. 2020. Development and characterization of EST-SSR markers for Camellia reticulata: Camellia reticulata microsatellites Applications in Plant Sciences 8(4): e11348 106 Wei Li, Kui Li, Ying Huang, Cong Shi, Wu-Shu Hu, Yun Zhang, Qun-Jie Zhang, En-Hua Xia, Ge-Ran Hutang, Xun-Ge Zhu, Yun-Long Liu, Yuan Liu, Yan Tong, Ting Zhu, Hui Huang, Dan Zhang, Yuan Zhao, Wen-Kai Jiang, Jie Yuan, Yong-Chao Niu, Cheng-Wen Gao, Li-zhi Gao*. 2020. SMRT sequencing of the Oryza rufipogon genome reveals the genomic basis of rice adaptation. Communications Biology, 3:167 105 Qun-Jie Zhang, Wei Li, Kui Li, Hong Nan, Cong Shi, Yun Zhang, Zhang-Yan Dai, Yang-Lei Lin, Xiao-Lan Yang, Yan Tong, Dan Zhang, Cui Lu, Li-Ying Feng, ChenFeng Wang, Xiao-Xin Liu, Jian-An Huang, Wen-Kai Jiang, Xing-Hua Wang, XingCai Zhang, Evan E. Eichler, Zhong-Hua Liu, Li-zhi Gao*. 2020. The Chromosome-Level Reference Genome of Tea Tree Unveils Recent Bursts of Non-autonomous LTR Retrotransposons to Drive Genome Size Evolution. Molecular Plant. DOI: 10.1016/j.molp.2020.04.009(首次发表的达到染色体水平的小叶茶茶树基因组,发表后被国内外几乎所有重要媒体报道) 104 Hong Nan, Wei L, Yang-lei Lin, Li-zhi Gao*. 2020. Genome-Wide Analysis of WRKY Genes and Their Response to Salt Stress in the Wild Progenitor of Asian Cultivated Rice, Oryza rufipogon. Frontiers in Genetics, 11:359 103 Jin Liu, Cong Shi, Cheng-Cheng Shi, Wei Li, Qun-Jie Zhang, Yun Zhang, Kui Li, Hui-Fang Lu, Chao Shi, Si-Tao Zhu, Zai-Yun Xiao, Hong Nan, Yao Yue, Xun-Ge Zhu, Yu Wu, Xiao-Ning Hong, Guang-Yi Fan, Yan Tong, Dan Zhang, Chang-Li Mao, Yun-Long Liu, Shi-Jie Hao, Wei-Qing Liu, Mei-Qi Lv, Hai-Bin Zhang, Yuan Liu, Ge-Ran Hu-tang, Jin-Peng Wang, Jia-Hao Wang, Ying-Huai Sun, Shu-Bang Ni, Wen-Bin Chen, Xing-Cai Zhang, Yuan-Nian Jiao, Evan E. Eichler, Guo-Hua Li, Xin Liu, Li-Zhi Gao*. 2020. The Chromosome-Based Rubber Tree Genome Provides New Insights into Spurge Genome Evolution and Rubber Biosynthesis. Molecular Plant, 13(2): 336-350(首次发表的达到染色体水平的橡胶树基因组,发表后被国内外几乎所有重要媒体报道) 102 Wei Li, Kui Li, Qun-jie Zhang, Ting Zhu, Yun Zhang, Cong Shi, Yun-long Liu, En-hua Xia, Jian-jun Jiang, Chao Shi, Li-ping Zhang, Hui Huang, Yan Tong, Yuan Liu, Dan Zhang, Yuan Zhao, Wen-kai Jiang, You-jie Zhao, Shu-yan Mao, Jun-ying Jiao, Ping-zhen Xu, Li-li Yang, Guo-ying Yin, Li-zhi Gao. 2020. Improved hybrid denovo genome assembly and annotation of African wild rice, Oryza longistaminata, from Illumina and PacBio sequencing reads. The Plant Genome, e20001 101 Fen Zhang, Wei Li, Cheng-wen Gao, Dan Zhang, Li-zhi Gao*. 2019. Deciphering tea tree chloroplast and mitochondrial genomes of Camellia sinensis var. assamica. Scientific Data, 6:209 100 Li-Zhi Gao*, Yun-Long Liu, Dan Zhang, Wei Li, Ju Gao, Yuan Liu, Kui Li, Chao Shi, Yuan Zhao, You-Jie Zhao, Jun-Ying Jiao, Shu-Yan Mao, Cheng-Wen Gao, Evan E. Eichler. 2019. Evolution of Oryza chloroplast genomes promoted adaptation to diverse ecological habitats. Communications Biology, 3:278 99 Hong Nan, Gao L. Z. *. 2019. Genome-wide analysis of WRKY genes and their response to hormone and mechanic stresses in carrot. Frontiers in Genetics 10:363. doi: 10.3389/fgene.2019.00363 98 You-jun Huang, …,Gao L. Z. , Jian-qin Huang. 2019. The genomes of pecan and Chinese hickory provide insights into Carya evolution and nut nutrition. GigaScience 8(5) 97 Zhong-hua Liu, Gao L. Z., Zong-mao Chen, Xiao-xiong Zeng, Jian-an Huang, Yu-shun Gong, Qin Li, Shuo-qian Liu, Yong Lin , Shu-xian Cai, Sheng Zhang, Li-gui Xiong, Wei Li, Li Zhou, Xinru Wang, Feng-jian Luo, Qun-jie Zhang, Dan Zhang. 2019. Leading progress on genomics, health benefits and utilization of tea resources in China. Nature 556(7742). https://www.nature.com/articles/d42473-019-00032-8(与刘仲华院士和陈宗懋院士共同在Nature上组织了茶叶专刊,受到国内外的高度关注) 96 Hui Huang, Qiuyang Yao, Enhua Xia, and Gao L. Z.*. 2018. Metabolomics and transcriptomics analyses reveal nitrogen influences on the accumulation of flavonoids and amino acids in young shoots of tea plant (Camellia sinensis L.) associated with tea flavor. J. Agric. Food Chem. 66, 9828−9838 95 Junki Lee, Nomar Espinosa Waminal, Hong-Il Choi, Sampath Perumal, Sang-Choon Lee, Van Binh Nguyen, Woojong Jang, Nam-Hoon Kim, Gao L. Z., and Tae-Jin Yang. 2017. Rapid amplification of four retrotransposon families promoted speciation and genome size expansion in the genus Panax. Scientific Reports 7(1). DOI: 10.1038/s41598-017-08194-5 94 Hui Huang, En-Hua Xia, Hai-Bin Zhang, Qiu-Yang Yao, Gao L. Z.*. 2017. De novo transcriptome sequencing of Camellia sasanqua and the analysis of major candidate genes related to floral traits. Plant Physiology and Biochemistry 120: 103-111 93 Xi Du, Qi Zhao, En-Hua Xia, Gao L. Z., Franck Richard, Zhu L. Yang. 2017. Mixed-reproductive strategies, competitive mating-type distribution and life cycle of fourteen black morel species. Scientific Reports 7: 1493 DOI:10.1038/s41598-017-01682-8 92 Jia-huan Xu, Hai-bo Wu, Gao L. Z.*. 2017. The complete chloroplast genome sequence of the threatened trident maple Acer buergerianum (Aceraceae). Mitochondrial DNA Part B 2:1, 273-274, DOI: 10.1080/23802359.2017.1325345 91 Qun-Jie Zhang,Gao L. Z.*. 2017. Rapid and recent evolution of LTR retrotransposons drives rice genome evolution during the speciation of AA- genome Oryza species. G3-Genes Genomes Genetics https://doi.org/10.1534/g3.116.037572(作为一个新的“研究亮点”,Genetics杂志对该工作进行了点评) 90 Wei Li, Yuan Liu, Gao L. Z.*. 2017. The complete chloroplast genome of the endangered wild Musa itinerans (Zingiberales: Musaceae). Conservation Genetics Resources DOI: 10.1007/s12686-017-0737-x 89 Ge-Ran Hutang, Gao L. Z.*. 2017. The complete chloroplast genome sequence of Leersia perrieri of the rice tribe Oryzeae (Poaceae). Conservation Genetics Resources DOI: 10.1007/s12686-017-0729-x 88 En-Hua Xia, Hai-Bin Zhang, Jun Sheng, Kui Li, Qun-Jie Zhang, Changhoon Kim, Yun Zhang, Yuan Liu, Ting Zhu, Wei Li, Hui Huang, Yan Tong, Hong Nan, Cong Shi, Chao Shi, Jian-Jun Jiang, Shu-Yan Mao, Jun-Ying Jiao, Dan Zhang, Yuan Zhao, You-Jie Zhao, Li-Ping Zhang, Ben-Ying Liu, Yue Yu, Sheng-Fu Shao, De-Jiang Ni, Evan E. Eichler, Gao L. Z.*. 2017. The tea tree genome provides insights into tea flavor and independent evolution of caffeine biosynthesis. Molecular Plant (http://dx.doi.org/10.1016/j.molp.2017.04.002)(作为国际上首次破译的茶树基因组,发表后被CCTV(新闻联播)、CNN、BBC、华盛顿邮报等几乎所有国内外重要的新闻媒体报刊的采访、报道或转载;该论文被中国科学技术协会遴选为“优秀期刊论文”;是ESI高被引论文) 87 En-Hua Xia, Da-Rong Yang, Jian-Jun Jiang, Qun-Jie Zhang, Yuan Liu, Yun-Long Liu, Yun Zhang, Hai-Bin Zhang, Cong Shi, Yan Tong, Changhoon Kim, Hua Chen, Yan-Qiong Peng, Yue Yu, Wei Zhang, Evan E. Eichler, Gao L. Z.*. 2017. The caterpillar fungus, Ophiocordyceps sinensis, genome provides insights into highland adaptation of fungal pathogenicity. Scientific Reports 7(1): 1806. doi: 10.1038/s41598-017-01869-z. 86 Dan Zhang, Wei Li, En-hua Xia, Qun-jie Zhang, Yuan Liu, Yun Zhang, Yan Tong, Yuan Zhao, Yong-chao Niu, Jia-huan Xu, Gao L. Z.*. 2017. The medicinal herb Panax notoginseng genome provides insights into ginsenoside biosynthesis and genome evolution. Molecular Plant 10: 903–907(首次发表的人参属三七基因组,发表后被国内外几乎所有重要媒体报道) 85 Fan-chun Zeng, You-Jie Zhao, Que-jie Zhang, Gao L. Z.*. 2017. LTRtype, an efficient tool to predict structurally complex LTR retrotransposon elements and nested insertions. Frontiers in Plant Science 8:402. doi: 10.3389/fpls.2017.00402 84 T Mornkham, PP Wangsomnuk, XC Mo, FO Francisco, Gao L. Z., H Kurzweil. 2016. Development and characterization of novel EST-SSR markers and their application for genetic diversity analysis of Jerusalem artichoke (Helianthus tuberosus L.). Genetics and Molecular Research: GMR doi: 10.4238/gmr15048857 83 Huang J, Zhang C, Zhao X, Fei Z, Wan K, Zhang Xiaoming Pang, Yin X, Bai Y, Sun X, Gao L. Z., Li R, Zhang J, Li X. 2016. The jujube genome provides insights into genome evolution and the domestication of sweetness/acidity taste in fruit trees. PLoS Genetics 12(12): e1006433. doi:10.1371/journal.pgen.1006433 82 Qing-Xia Ding, Jia Liu, Gao L. Z.*. 2016. The complete chloroplast genome of eggplant (Solanum melongena L.). Mitochondrial DNA Part B 1:1, 843-844, DOI: 10.1080/23802359.2016.1186510 81 Cheng-wen Gao, Gao L. Z.*. 2016. The complete chloroplast genome sequence of semi-wild soybean, Glycine gracilis (Fabales: Fabaceae). Conservation Genetics Resources (DOI: 10.1007/s12686-016-0683-z) 80 Cheng-wen Gao, Gao L. Z.*. 2016. The complete chloroplast genome sequence of wild soybean, Glycine soja (Fabales: Fabaceae). Conservation Genetics Resources (DOI: 10.1007/s12686-016-0659-z) 79 Dan Zhang, Yuan Liu, Gao L. Z.*. 2016. The complete chloroplast genome sequence of Phyllostachys heterocycla, a fast-growing non-timber bamboo (Poaceae: Bambusoideae). Conservation Genetics Resources (DOI: 10.1007/s12686-016-0654-4) 78 Shuo Wang, Gao L. Z.*. 2016. Complete chloroplast genome sequence and annotation of the tropical japonica group of Asian cultivated rice (Oryza sativa L.). Genome Announcement 18;4(1). pii: e01703-15. doi: 10.1128/genomeA.01703-15 77 Gao L. Z.*, Dan Zhang, Kui Li, Ju Gao. 2016. The complete plastid genome sequence of the wild-rice Zizania latifolia and comparative chloroplast genomics of the tribe Oryzeae. Frontiers in Ecology and Evolution 4:88. doi: 10.3389/fevo.2016.00088 76 Chao Shi, Shuo Wang, En-Hua Xia, Jian-Jun Jiang, Fan-Chun Zeng, Qiu-Yang Yao, and Gao L. Z.*. 2016. Full transcription of the photosynthetic eukaryote chloroplast genome. Scientific Reports 6 doi:10.1038/srep30135(2016-08-05的【CCTV13】(朝闻天下)以“中科院发现叶绿体基因全转录新机制”为题对该研究成果做了采访报道;发表后被国内外其它重要媒体报道) 75 Gao L. Z.*, Cheng-wen Gao. 2016. Lowered diversity and increased inbreeding depression within peripheral populations of an endangered wild rice Oryza rufipogon. PLoS ONE 11(3): e0150468. doi: 10.1371/journal.pone.0150468 74 Qiu-Yang Yao, Hui Huang, Yan Tong, Gao L. Z.*. 2016. Transcriptome sequencing reveals gene expression profiles of flavonoid and fatty acid biosynthesis pathways and the development of EST-SSR markers in Camellia reticulata (Theaceae). Frontiers in Plant Science doi: 10.3389/fpls.2016.00163 73 En-Hua Xia*, Qiu-Yang Yao*, Hai-Bin Zhang, Jian-Jun Jiang, Li-Ping Zhang, Gao L. Z.*. 2016. CandiSSR: an efficient pipeline used for identifying candidate polymorphic SSRs based on multiple assembled sequences. Frontiers in Plant Science 6:1171. doi: 10.3389/fpls.2015.01171 72 Wang S, Shi C, Zhang YJ, Hu GX, Gao L. Z.*. 2016. Trading away ancient amber's secrets. Science 351(6276):926. doi: 10.1126/science.351.6276.926-a. (发表后被国内外几乎所有重要媒体报道) 71 Ning Wang, Gao L. Z.* 2015. Genome-wide analysis of WRKY family of transcription factors in common bean, Phaseolus vulgaris: chromosomal localization, protein structure, evolution and expression divergence. Plant Gene 5: 22–30 70 Shuo Wang, Gao L. Z.* 2015. Complete chloroplast genome sequence of green foxtail (Setaria viridis), a promising model system for C4 photosynthesis. Mitochondrial DNA: 1-2. DOI:10.3109/19401736.2015.1079867 69 Shuo Wang, Gao L. Z.* 2015. Complete chloroplast genome sequence of an irreplaceable dietary and model crop, foxtail millet (Setaria italica). Mitochondrial DNA: 1-2. DOI: 10.3109/19401736.2015.1089562 68 Shuo Wang, Cheng-wen Gao, Gao L. Z.* 2015. Plastid genome sequence of an ornamental and editable fruit tree of Rosaceae, Prunus mume. Mitochondrial DNA: 1-2. DOI:10.3109/19401736.2015.1089546 67 Jie Zhang, Xiang-dong Liu, Gao L. Z.*. 2015. Methylome of autotetraploid rice revealed DNA methylation variation of transposable elements and their effects on gene expression. Proc Natl Acad Sci USA 112(50): E7022–E7029 (发表后被国内外几乎所有重要媒体报道) 66 Zengjie Han, Wei Li, Yuan Liu, Gao L. Z.* 2015. The complete chloroplast genome of North American ginseng, Panax quinquefolius. Mitochondrial DNA: 1-2. DOI:10.3109/19401736.2015.1066365 65 Dan Zhang, Wei Li, Chengwen Gao, Yuan Liu, Gao L. Z.* 2015. The complete plastid genome sequence of Panax notoginseng and comparative chloroplast genomics of the family Araliaceae. Mitochondrial DNA: 1-2. DOI: 10.3109/19401736.2015.1063131 64 Bang Liu, Gao L. Z.* 2015. The complete chloroplast genome sequence of Cucumis sativus var. Hardwickii, the wild progenitor of cultivated cucumber. Mitochondrial DNA: 1-2. DOI: 10.3109/19401736.2015.1101588 63 Jie Zhang, Dan Zhang, Chao Shi, Ju Gao, Gao L. Z.*. 2015. The complete chloroplast genome sequence of Chikusichloa aquatica (Poaceae: Oryzeae). Mitochondrial DNA: 1-2. DOI:10.3109/19401736.2015.1053058 62 Bang Liu, Xiao-di Hu, Gao L. Z.* 2015. The complete mitochondrial genome of the central chimpanzee, Pan troglodytes troglodytes. Mitochondrial DNA: 1-2. DOI:10.3109/19401736.2015.1053060 61 Hai-Bin Zhang, En-Hua Xia, Hui-Huang, Jian-Jun Jiang, Ben-ying Liu and Gao L. Z.*. 2015. De novo transcriptome assembly of the wild relative of tea tree (Camellia taliensis) and comparative analysis with tea transcriptome identified putative genes associated with tea-quality and stress response. BMC Genomics 16:298 (DOI: 10.1186/s12864-015-1494-4) 60 Qiu-yang Yao, En-hua Xia, Fei-hu Liu, Gao L. Z.* 2015. Genome-wide identification and comparative analysis of expression profiling reveal a rapid expansion and functional divergence of duplicated genes of WRKY gene family in cabbage, Brassica oleracea var. capitata. Gene 557(1):35-42. 59 Qun-jie Zhang, Qun-jie Zhang, Ting Zhu, En-hua Xia, Chao Shi, Yun-long Liu, Yun Zhang, Yuan Liu, Wen-kai Jiang, You-jie Zhao, Shu-yan Mao, Li-ping Zhang, Hui Huang, Jun-ying Jiao, Ping-zhen Xu, Qiu-yang Yao, Fan-chun Zeng, Li-li Yang, Ju Gao, Da-yun Tao, Yue-ju Wang, Jeffery L. Benntzen, Gao L. Z.*. 2014. Rapid diversification of five Oryza AA genomes associated with rice adaptation. Proc Natl Acad Sci USA 111 (46) E4954-E4962 (doi/10.1073/pnas.1418307111)(发表次日被国务院官网列为新闻要闻,被国内外几乎所有重要媒体报道) 58 En-Hua Xia, Jian-Jun Jiang, Li-Ping Zhang, Hui Huang, Hai-Bin Zhang, Gao L. Z.* 2014. Transcriptome analysis of the oil-rich tea plant, Camellia oleifera, reveals candidate genes related to lipid metabolism. PLoS ONE 9(8): e104150. doi:10.1371/journal.pone.0104150 57 Ju Gao, Shuo Wang, Gao L. Z.*. 2014. The complete chloroplast genome sequence of Phyllostachys sulphurea (Poaceae: Bambusoideae). Mitochondrial DNA (doi: 10.3109/19401736.2014.926516) 56 Ju Gao, Kui Li, Gao L. Z.*. 2014. The complete chloroplast genome sequence of Bambusa multiplex (Poaceae: Bambusoideae). Mitochondrial DNA (doi:10.3109/19401736.2014.926515) 55 Hui Huang, Chao Shi, Yuan Liu, Shu-yan Mao, Gao L. Z.*. 2014. Thirteen Camellia chloroplast genome sequences determined by high-throughput sequencing: genome structure and phylogenetic relationships. BMC Evolutionary Biology 14:151 doi:10.1186/1471-2148-14-151 54 Qun-jie Zhang, Gao L.Z.*. 2014. The complete chloroplast genome sequence of desert poplar (Populus euphratica). Mitochondrial DNA (DOI: 10.3109/19401736.2014.913159) 53 Fan-chun Zeng, Cheng-wen Gao, Gao L.Z.*. 2014. The complete chloroplast genome sequence of American bird pepper (Capsicum annuum var. glabriusculum). Mitochondrial DNA (DOI: 10.3109/19401736.2014.913160) 52 Xiao-di Hu, En-hua Xia, Gao L. Z.* 2014. The complete mitochondrial genome of eastern lowland gorilla, Gorilla beringei graueri,and comparative mitochondrial genomics of the Gorilla species. Mitochondrial DNA (doi:10.3109/19401736.2014.953103) 51 Xiao-di Hu, Kui Li, Gao L. Z.* 2014. The complete mitochondrial genome of celebes wild boar, Sus celebensis (Cetartiodactyla: Suina: Suidae) and comparative mitochondrial genomics of the Sus species. Mitochondrial DNA (doi:10.3109/19401736.2014.953099) 50 Xiao-di Hu, Gao L. Z.* 2014. The complete mitochondrial genome of domestic sheep, Ovis aries. Mitochondrial DNA (doi:10.3109/19401736.2014.953076) 49 Chun-yan Wu, Gao L. Z.*. 2013. SNP analysis of six nuclear gene fragments for studying population genetics of Oryza granulata from China. Plant Diversity and Resources 35 (5): 537-546 48 Cheng-wen Gao, Shuo Wang, Gao L. Z.*. 2013. Complete mitochondrial genome of the black flying fox, Pteropus alecto (Chiroptera: Megachiroptera: Pteropodidae). Mitochondrial DNA (doi: 10.3109/19401736.2013.869691) 47 Jian-Jun Jiang, En-Hua Xia, Cheng-Wen Gao, Gao L. Z.*. 2013. The complete mitochondrial genome of the western painted turtle, Chrysemys picta bellii (Chrysemys, Emydidae). Mitochondrial DNA (doi:10.3109/19401736.2013.873900) 46 Xin-chun Mo, Ju Gao, Gao L. Z.*. 2013. Characterization of microsatellite markers and their application to genetic diversity analysis of Brachypodium sylvaticum var. breviglume from Yunnan, China. American Journal of Plant Sciences 4 (7):1427-1434. 45 Shuo Wang, Chao Shi, Gao L. Z.* 2013. Plastid genome sequence of a wild woody oil species, Prinsepia utilis, provides insights into evolutionary and mutational patterns of Rosaceae chloroplast genomes. PLoS ONE 8(9):e73946. doi: 10.1371/journal.pone.0073946. 44 Yan Tong, Chun-Yan Wu, Gao L. Z.* 2013. Characterization of chloroplast microsatellite loci from whole chloroplast genome of Camellia taliensis and their utilization for evaluating genetic diversity of C. reticulata (Theaceae). Biochemical Systematics and Ecology 50: 207–211 43 Jing Wu, Xiu-ying Kong, Chao Shi, Cui-yun jin, Gao L. Z.*, Ji-zeng Jia*. 2013. Dynamic evolution of Rht1 homologous regions in grass genomes. PLoS ONE 8(9):e75544. doi: 10.1371/journal.pone.0075544 42 Hui Huang, Yan Tong, Qun-jie Zhang, Gao L.Z.*. 2013. Genome size variation among and within Camellia species by using flow cytometric analysis and high-throughout genome sequencing. PLoS ONE 8(5): e64981. doi:10.1371/journal.pone.0064981 41 Chao Shi, Yuan Liu, Hui Huang, En-Hua Xia, Hai-Bin Zhang, Gao L.Z.*. 2013. Contradiction between plastid gene transcription and function due to complex posttranscriptional splicing: an exemplary study of ycf15 function and evolution in angiosperms. PLoS ONE 8(3): e59620. doi:10.1371/journal.pone.0059620 40 Zhu T, Xu PZ, Liu JP, Peng S, Mo XC, Gao L. Z.*. 2013. Phylogenetic relationships and genome divergence among AA- genome species of the genus Oryza as revealed by 53 nuclear genes and 16 intergenic regions. Molecular Phylogenetics and Evolution 70: 348–361 39 Wen-kai Jiang, Yun-long Liu, En-hua Xia, Gao L. Z.*. 2013. Prevalent role of gene features in determining evolutionary fates of WGD duplicated genes in flowering plants. Plant Physiology 161: 1844–1861 38 Shi C, Hu N, Huang H, Gao J, Zhao Y-J, Gao L. Z.*. 2012. An improved chloroplast DNA extraction procedure for whole plastid genome sequencing. PLoS ONE 7(2):e31468.doi:10.1371/journal.pone.0031468 37 Gao L. Z. *, Li D., Wu X., Chen W., Huang Z., Wei X.M. 2012. In Situ conservation of wild rice populations: a targeted study of common wild rice Oryza rufipogon from China. American Journal of Plant Sciences 3(7): 854-868 36 Liu Y., Yang S.X., Ji P. Z., Gao L. Z.* 2012. Phylogeography of Camellia taliensis (Theaceae) inferred from chloroplast and nuclear DNA: insights into evolutionary history and conservation. BMC Evolutionary Biology 12:92 doi:10.1186/1471-2148-12-92 35 Zhang Y, Jiang W-k, Gao L. Z.*. 2011. Evolution of microRNA genes in Oryza sativa and Arabidopsis thaliana: an update of the inverted duplication model. PLoS ONE 6(12):e28073.doi:10.1371/journal.pone.0028073 34 Ji, P. Z., Li, H., Gao, L. Z., Zhang, J., Cheng, Z. Q., Huang, X. Q. 2011. ISSR diversity and genetic differentiation of ancient tea (Camellia sinensis var. assamica) plantations from China: implications for precious tea germplasm conservation. Pakistan Journal of Botany 43(1): 281-291 33 Ya-yu Fan,Gao L. Z.*. 2011. A preliminary study on patterns of TE-gene associations in Oryza (Poaceae) and adaptive significance. Plant Diversity 33 (2): 201-208 32 Li Xiao-xiang, Liu Yong, Duan Yong-hong, Wang Shu-hong, Zhan Qing-cai, Sun Gui-hua, Gao L. Z. 2010. Estimation of mating system in natural Oryza rufipogon populations by SSR markers. Chinese Journal of Rice Science 24(6): 601-607 31 Yang Liu, Shi-xiong Yang, Gao L. Z.*. 2010. Comparative study on the chloroplast RPL32-TRNL nucleotide variation within and genetic differentiation among ancient tea plantations of Camellia sinensis var. assamica and C. taliensis (Theaceae) from Yunnan, China. Plant Diversity 32(5): 427-434 30 Gao L. Z.*, Hideki Innan. 2008. Non-independent domestication of the two rice subspecies, Oryza sativa subsp. indica and subsp. japonica, demonstrated by multilocus microsatellites. Genetics 179(2):965-976(作为一个新的“研究亮点”,Genetics杂志对该工作进行了点评) 29 Gao L. Z.*, Hongyan Xu. 2008. Patterns of mutation rate variation at microsatellites: evolutionary insights from comparisons of Asian cultivated rice (Oryza sativa L.) and related species. BMC Evolutionary Biology 8:11doi: 10.1186/1471-2148-8-11 28 Yin-He Zhao, Guo-Ying Wang, Jin-Peng Zhang, Jun-Bo Yang, Sheng Peng, Lian-Ming Gao, Jin-Yong Hu, De-Zhu Li, Gao L. Z. 2006. Expressed Sequence Tags (ESTs) and phylogenetic analysis of floral genes from a paleoherb species, Asarum caudigerum. Annals of Botany 98(1):157-163 27 Gao L. Z.*, Zhang C. H., Jia J. Z., Dong Y. S. 2006. Genetic diversity within Oryza rufipogon germplasms preserved in Chinese field genebanks of wild rice as revealed by microsatellite analysis. Biodiversity and Conservation 15: 4059-4077 26 Gao L. Z.*, Zhang C. H., Chang L. P., Jia J. Z., Qiu Z. En., Dong Y. S. 2005. Microsatellite diversity of Oryza sativa with emphasis on indica-japonica divergence. Genetical Research 85: 1-14 25 Gao L. Z.*, Zhang C. H. 2005. Comparisons of microsatellite variability and population genetic structure of two endangered wild rice species, Oryza rufipogon and O. officinalis, and their conservation implications. 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