張亮生

張亮生

張亮生，福建農林大學海峽聯合研究院教授（特聘）/PI，博士生導師，金山學者青年拔尖人才，福建省高層次境外C類引進人才。2012年獲得復旦大學博士學位，2012年至2013年在賓州州立大學進行博士後研究。近年來以第一作者或通訊作者在Plant Journal、Molecular Plant、Plant Physiology、Critical Reviews in Plant Sciences、New Phytologist等國際著名期刊發表論文19篇，影響因子總和大於90。

基本介紹

  • 中文名：張亮生
  • 外文名：Liangsheng Zhang
  • 國籍：中國
  • 出生日期：1983年11月
  • 職業：科研工作者
  • 畢業院校：復旦大學、上海大學、長江大學
工作經歷,教育經歷,研究方向,研究成果,發表論文,

工作經歷

2015年6月起，福建農林大學基因組與生物技術研究中心，教授、PI；
2013/02–2015/06，同濟大學轉化醫學研究中心，生命科學學院，副研究員；
2012/07–2013/02，賓州州立大學生物系，博士後。

教育經歷

2009/07–2012/07，復旦大學生命科學學院，遺傳學，理學博士，(導師：馬紅教授)
2007/07，清華大學生物信息學暑期學校
2006/08–2009/07，上海大學數學系，理學碩士
2002/09–2006/07，長江大學數學系，理學學士

研究方向

研究方向（Research Interests）：基因組，生物信息，分子進化，園藝植物分子生物學和基因組學
  1. 基因組學：包括從頭組裝基因組和比較基因組
    Genomics, include De novo genome and comparative genomics
  2. 生物信息學：基因組和轉錄組數據分析
    Bioinformatics, RNA-Seqand genome data analysis
  3. 分子進化：基因家族分析和基因功能分化
    Molecular Evolution, Such as gene family evolution and functional divergence of duplicates
  4. 基因功能和性狀基因挖掘
    Large scale discovery important gene and trait genes

研究成果

主要從事植物基因組和生物信息學的研究。研究材料不只是局限於模式植物擬南芥，還拓展到園藝植物，如蝴蝶蘭，石斛和睡蓮等植物，已經有多篇研究工作發表。在植物包括花卉比較基因組學和生物信息學方面取得了優異的研究成果。
1）完成蘭科CAM途徑調控的分子機制和起源研究
申請人對於CAM的相關研究已取得一些前期研究成果，論文發表在The Plant Journal （第一併通訊），Molecular Phylogenetics and Evolution，Scientific Reports。
2）植物基因組與花發育轉錄組及基因家族進化研究
參與了Maca和石斛基因組研究工作，花發育相關基因家族和轉錄組研究等。相關論文發表在Molecular Plant，Scientific Reports，New Phytologist（共同通訊）和Frontiers in Plant Science上（一作）。
3）植物表觀遺傳相關基因家族進化研究
對一些在植物發育和進化過程中重要的基因家族進行了深入研究，不僅澄清了這些基因家族的進化歷史，而且揭示了重複基因對不同的基因及基因家族或亞家族截然不同的貢獻。結果發表在New Phytologist（第一），Plant Physiology（最後通訊）和BMC Evolutionary Biology（最後通訊）上。
4）睡蓮基因組研究
園藝植物基因組被測序的並不多，只有梅花等基因組被測序。本人主持完成了睡蓮基因組測序工作。使用單分子測序技（PacBio>110X）完成了睡蓮基因組（409M）測序工作，Contig N50 達到2.1M，45條序列長度就能覆蓋基因組一半，初步組裝和注釋結果很好。

發表論文

發表論文，參考*通訊作者，#第一作者
2018
1.Shanshan Dong, Chaoxian Zhao, Fei Chen, Yanhui Liu, Shouzhou Zhang, Hong Wu,Liangsheng Zhang* and Yang Liu*The complete mitochondrial genome of the early flowering plant Nymphaea colorata is highly repetitive with low recombination.BMC Genomics2018 DOI：10.1186/s12864-018-4991-4
2. Dong W, Vannozzi Alessandro, Chen F,Zhang L*. MORC domain definition and evolutionary analysis of the MORC gene family in green plants.Genome Biology and Evolution. 2018 Jul 1;10(7):1730-1744. (IF=3.9).
3. Chen F*, Dong W,Zhang L*. realDB: a genome and transcriptome database for red algae.Database. 2018 Jan 1; 2018. doi: 10.1093/database/bay072(IF=3.9).
4. Chen F, Dong W, Zhang J, Guo X, Lin Z, Tang H andZhang L.The sequenced angiosperm genomes and genome databases.Frontiers in Plant Science. 2018 Apr 13;9:418. doi: 10.3389/fpls.2018.00418
5. Fei Chen, Yue Hu, Alessandro Vannozzi, Kangcheng Wu, Hanyang Cai, Yuan Qin, AlisonMullis, Zhenguo Lin* &Liangsheng Zhang*. The WRKY transcription factor family in model plants and crops.Critical Reviews in Plant Sciences. Pages 311-335 | Published online: 05 Mar 2018
6. Wuyun TN#*, Wang L#, Liu H#, Wang X#, Zhang L#, Bennetzen JL, Li T, Yang L, Liu P, Du L, Wang L, Huang M, Qing J, Zhu L, Bao W, Li H, Du Q, Zhu J, Yang H, Yang S, Liu H, Yue H, Hu J, Yu G, Tian Y, Liang F, Hu J, Wang D, Gao R, Li D, Du H. The hardy rubber tree genome provides insights into the evolution of polyisoprene biosynthesis.Mol Plant. 2018 Mar 5;11(3):429-442. doi: 10.1016/j.molp.2017.11.014封面文章
7. Xu M#, Chen Fei#, Qi S,Zhang L,Wu S. Loss or duplication of key regulatory genes coincides with environmental adaptation of the stomatal complex inNymphaea colorataandKalanchoe laxiflora.Hortic Res. 2018 Aug 1;5:42. doi: 10.1038/s41438-018-0048-
8.Klopfenstein DV,Zhang L, Pedersen BS, Ramírez F, Warwick Vesztrocy A, Naldi A, Mungall CJ, Yunes JM, Botvinnik O, Weigel M, Dampier W, Dessimoz C, Flick P, Tang H.GOATOOLS: A Python library for Gene Ontology analyses.Sci Rep. 2018 Jul 18;8(1):10872. doi: 10.1038/s41598-018-28948-z.
9.Ke M, Gao Z, Chen J, Qiu Y,Zhang L, Chen X.Auxin controls circadian flower opening and closure in the waterlily.BMC Plant Biol. 2018 Jul 11;18(1):143. doi: 10.1186/s12870-018-1357-7.
10.Chen F,Zhang L, Lin Z, Cheng ZM.Identification of a novel fused gene family implicates convergent evolution in eukaryotic calcium signaling.BMC Genomics. 2018 Apr 27;19(1):306. doi: 10.1186/s12864-018-4685-y.
11.Liu JP*, Hu J, Liu YH, Yang CP, Zhuang YF, Guo XL, Li YJ,Zhang L*.Transcriptome analysis ofHevea brasiliensisin response to exogenous methyl jasmonate provides novel insights into regulation of jasmonate-elicited rubber biosynthesis.Physiol Mol Biol Plants. 2018 May;24(3):349-358. doi: 10.1007/s12298-018-0529-0. Epub 2018 Apr 13.
12.Liang P, Saqib HSA, Zhang X,Zhang L, Tang H.Single-Base Resolution Map of Evolutionary Constraints and Annotation of Conserved Elements across Major Grass Genomes.Genome Biol Evol. 2018 Feb 1;10(2):473-488. doi: 10.1093/gbe/evy006.
2017
  1. Sun ZC, Zhang LS*, Wang ZJ*Genome-wide analysis of miRNAs in Carya cathayensis.
    BMC Plant Biol. 2017 Nov 29;17(1):228. doi: 10.1186/s12870-017-1180-6.
  2. Fu X, Li J, Tian Y, Quan W, Zhang S, Liu Q, Liang F, Zhu X, Zhang L, Wang D, Hu J Long-read sequence assembly of the firefly Pyrocoelia pectoralis genome.Gigascience. 2017 Nov 24. doi: 10.1093/gigascience/gix11
  3. Chen F, Liu X, Yu C, Chen Y, Tang H, Zhang L* .Water lilies as emerging models for Darwin's abominable mystery.Hortic Res. 2017 Oct 4;4:17051. doi: 10.1038/hortres.2017.51.
  4. Chen F, Zhang X, Liu X,Zhang L*.Evolutionary Analysis of MIKCc-Type MADS-Box Genes in Gymnosperms and Angiosperms.Frontiers in Plant Science. 2017 May 30;8:895. doi: 10.3389/fpls.2017.00895. eCollection 2017.
  5. Chen F,Zhang L, Cheng ZM. The calmodulin fused kinase novel gene family is the major system in plants converting Ca2+ signals to protein phosphorylation responses. Scientific Reports. 2017 Jun 23;7(1):4127. doi: 10.1038/s41598-017-03367-8
  6. Sun Z, Li Z, Huang J, Zheng B, Zhang L*, Wang Z*. Genome-wide comparative analysis of LEAFY promoter sequence in angiosperms. Physiol Mol Biol Plants. 2017 Jan;23(1):23-33. doi: 10.1007/s12298-016-0393-8.
2016
  1. Han Y, Li X, Cheng L, Liu Y, Wang H, Ke D, Yuan H, Zhang L* and Wang L* Genome-Wide Analysis of Soybean JmjC Domain-Containing Proteins Suggests Evolutionary Conservation Following Whole-Genome Duplication.Frontiers in Plant Science, 2016, 7:1800.
  2. Zhang J, Tian Y, Yan L, Zhang G, Wang X, Zeng Y, Zhang J, Ma X, Tan Y, Long N, Wang Y, Ma Y, He Y, Xue Y, Hao S, Yang S, Wang W, Zhang L*, Dong Y*, Chen W*, Sheng J*. Genome of plant maca (Lepidium meyenii) illuminates genomic basis for high altitude adaptation in the central Andes. Molecular Plant.2016 May 9. pii: S1674-2052(16)30053-3. 被《 2016中國植物科學若干領域重要研究進展》 報導）
  3. L Zhang#*, Fei Chen#, GQ Zhang, YQ Zhang, ZG Lin, ZM Cheng*, ZJ Liu*. Origin and mechanism of crassulacean acid metabolism in orchids as implied by comparative transcriptomics and genomics of the carbon fixation pathway. The Plant Journal. 2016 86(2):175-85.被《 2016中國植物科學若干領域重要研究進展》 報導）
  4. Deng H#, Zhang L#, Zhang G, Zheng B, Liu Z, Wang Y, Evolutionary history of PEPC genes in green plants: Implications for the evolution of CAM in orchids, Molecular Phylogenetics and Evolution. 2016, 94(Pt B):559-64 (IF=3.91).被《 2016中國植物科學若干領域重要研究進展》 報導）
  5. Zhang GQ, …….Zhang L†, ……., Liu ZJ. The Dendrobium catenatum Lindl. genome sequence provides insights into polysaccharide synthase, floral development and adaptive evolution.Scientific Reports. 2016, 12;6:19029. (IF=5.58).
  6. Zhong Z, Norvienyeku J, Chen M, Bao J, Lin L, Chen L, Lin Y, Wu X, Cai Z, Zhang Q, Lin X, Hong Y, Huang J, Xu L, Zhang H, Chen L, Tang W, Zheng H, Chen X, Wang Y, Lian B, Zhang L, Tang H, Lu G, Ebbole DJ, Wang B, Wang Z. Directional Selection from Host Plants Is a Major Force Driving Host Specificity in Magnaporthe Species.Scientific Reports. 2016,6;6:25591(IF=5.58)
  7. Deng H#,Zhang L#, Zhang G, Zheng B, Liu Z, Wang Y, Evolutionary history of PEPC genes in green plants: Implications for the evolution of CAM in orchids,Molecular Phylogenetics and Evolution,94:559–564, 2016( IF:3.91)
2015
  1. Tang H, Bomhoff MD, Briones E, Zhang L, Schnable JC, Lyons E5. SynFind: Compiling Syntenic Regions across Any Set of Genomes on Demand. Genome Biology and Evolution.2015, 7(12):3286–3298. (IF=4.23).
  2. Niu B, Wang L,Zhang L,Ren D, Ren R, Copenhaver GP, Ma H, Wang Y. Arabidopsis Cell Division Cycle 20.1 Is Required for Normal Meiotic Spindle Assembly and Chromosome Segregation. Plant Cell. 2015 Dec 15. pii: tpc.15.00834.
  3. Qian S, Yingxiang Wang, Ma H*, Zhang L*. Expansion and functional divergence ofJmjC-containing histone demethylases: significance of duplications in ancestral angiosperms and vertebrates.Plant Physiology,168: 1321-1337, 2015(5 IF:8.04)
  4. Li Q, Zhang N,Zhang L*, Ma H*: Differential evolution of members of the rhomboid gene family with conservative and divergent patterns.New Phytologist206: 368-380, 2015 (IF=7.67).
  5. Zhang L, Wang L, Cui J, Cheng F, Wang YX, Ma H: Analysis ofArabidopsisfloral transcriptome: detection of new florally expressed genes and expansion of Brassicaceae-specific gene families.Frontiers in Plant Science,5: 802, 2015 (IF=3.90)
2014~2012
  1. Zhang L, Zhang Z, Weng Z, Shi W: Substitution Rates of the Internal Genes in the Novel Avian H7N9 Influenza Virus.Clinical Infectious Diseases,57(8):1213-1215,2013. (IF:8.89)
  2. Zhang L*, Zhang Z, Weng Z: Rapid Reassortment of Internal Genes in Avian Influenza A(H7N9) Virus.Clinical Infectious Diseases,57(7):1059-1061,2013.(IF:8.89,引用>18次)
  3. Zhang L, Ma H: Complex evolutionary history and diverse domain organization of SET domain proteins suggestion divergent regulatory interactions.New Phytologist,195:248-263,2012.(IF=7.67)
  4. Lei L, Zhou S, Ma H*,Zhang L*: Expansion and Diversification ofSETDomain Gene Family following Whole-Genome Duplications inPopulus.BMC Evolutionary Biology,12:51, 2012.(IF=3.37)
  5. Dong X, Wang X,Zhang L, Yang Z, Xin X, Wu S, Sun C, Liu J, Yang J, Luo X: Identification and characterization ofOsEBS, a gene involved in enhanced plant biomass and spikelet number in rice.Plant Biotechnology Journal,11(9):1044-1057,2013.(IF:5.75)

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