林忠旭，男，1978年2月出生，教授，博士，研究方向为棉花分子数量遗传学、图位克隆基因及分子标记辅助育种。1996－2000年在casino365sport365作物遗传育种专业学习，获农学学士学位。2000－2005年在植物科学技术学院攻读作物遗传育种博士学位（硕博连读），于2005年毕业，获得农学博士学位。2005年毕业后留校执教，在作物遗传改良国家重点实验室棉花课题组进行研究工作，主要从事棉花分子标记的开发、遗传图谱构建、数量性状定位、图位克隆基因、棉花导入系的构建和分子标记辅助育种。2009年1－8月在美国新墨西哥州立大学从事学术访问，进行棉花功能标记的开发与应用研究。
            
    科学研究：
    主要从事棉花分子标记的相关工作，包括新型分子标记的开发、利用分子标记构建棉花遗传连锁图、重要性状的QTL定位与图位克隆、分子标记辅助育种。目前的研究内容有（1）利用高通量测序技术开发高通量棉花SNP标记，用于构建高密度遗传图谱、QTL定位、全基因组关联分析以及棉花基因组结构和进化研究。（2）陆地棉导入系的构建。利用我们已经构建的高密度分子标记遗传图谱为辅助，从回交后代中筛选含有海岛棉片段的导入系。除此之外，利用四倍体棉花的半野生种达尔文棉、毛棉和黄褐棉作为供体，向陆地棉进行片段导入。利用这些导入系进行棉花重要经济性状QTL定位与分子标记辅助育种。（3）陆地棉全基因组关联分析解析棉花重要性状形成的遗传基础以及骨干亲本的遗传机理。（4）利用特殊遗传材料采用正向遗传学方法精细定位和克隆棉花基因，解析棉花种间杂交机理。
            
    学术兼职：
   Journal of Plant Studies、Advances in Agriculture编委；石河子农业科学研究院特聘专家（2016-2018）；中国农促会专家顾问团的顾问
      

研究生培养：

2012年毕业生：

王夏青：2011年大北农奖学金获得者；2012年校级优秀学位论文，2013年湖北省优秀硕士学位论文

涂建丽：2013年校优硕

2013年毕业生：

陈学梅：2012年国家奖学金获得者；2013-2014学年度校级优秀学位论文；2015年湖北省优秀硕士学位论文

2014年毕业生：

郭欢乐：2013年国家奖学金获得者

2015年毕业生：

王寒涛：2016年华中农业大学优秀博士学位论文

2017年毕业生：

黄  聪：2017年国家奖学金获得者

一、科研论文
    

2017年

1. Dai B, Guo H, Huang C, Ahmed MM and Lin Z*. Identification and characterization of segregation distortion loci on cotton chromosome 18. Front Plant Sci, 2017, 7:2037. IF=3.678

2. Huang C, Nie X, Shen C, You C, Li W, Zhao W, Zhang X* and Lin Z*. Population structure and genetic basis of the agronomic traits of Upland cotton in China revealed by a genome-wide association study using high-density SNPs. Plant Biotechnol J, 2017, 15, 1374-1386. IF =6.305

3. Ahmed MM, Shen C, Khan AQ, Wahid MA, Shaban M and Lin Z*. A comparative genomics approach revealed evolutionary dynamics of microsatellite imperfection and conservation in genus Gossypium. Hereditas, 2017, 154:12. IF=1.632

4. Shen C, Jin X, Zhu D and Lin Z*. Uncovering SNP and indel variations of tetraploid cottons by SLAF-seq. BMC Genomics, 2017, 18:247. IF=3.730

5. Shen C, Li X, Zhang R, Lin Z*. Genome-wide recombination rate variation in a recombination map of cotton. PLoS ONE, 2017, 12(11):e0188682. IF=2.766

6. 沈超，李定国，聂以春，林忠旭*。利用黄褐棉染色体片段导入系定位产量和纤维品质性状QTL。作物学报，2017，43 (12): 1733-1745。

Year 2016

1. Nie X, Huang C, You C, Li W, Zhao W, Shen C, Zhang B, Wang H, Yan Z, Dai B, Wang M, Zhang X and Lin Z*. Genome-wide SSR-based association mapping for fiber quality in nation-wide Upland cotton inbreed cultivars in China. BMC Genomics, 2016,17:352. IF=3.729

2. Liu Y, Peng R, Liu F, Wang X, Cui X, Zhou Z, Wang C, Cai X, Wang Y, Lin Z* and Wang K*. A Gossypium BAC clone contains key repeat components distinguishing sub-genome of allotetraploidy cottons. Mol Cytogenet, 2016, 9:27. IF=1.455

3. Dai B, Guo H, Huang C, Zhang X and Lin Z*. Genomic heterozygosity and hybrid breakdown in cotton (Gossypium): different traits, different effects. BMC Genet, 2016, 17:58. IF=2.266

4. Li X, Jin X, Wang H, Zhang X, and Lin Z*. Structure, evolution, and comparative genomics of tetraploid cotton based on a high-density genetic linkage map. DNA Res, 2016, 23 (3): 283-293. IF=5.404

5. Wang H, Huang C, Zhao W, Dai B, Shen C, Zhang B, Li D*, Lin Z*. Identification of QTL for fiber quality and yield traits using two immortalized backcross populations in Upland cotton. PLoS ONE, 2016, 11(12): e0166970. IF=2.806

Year 2015

1. Nie X, Tu J, Wang B, Zhou X*, Lin Z*. A BIL Population Derived from G. hirsutum and G. barbadense Provides a Resource for Cotton Genetics and Breeding. PLoS ONE, 2015, 10(10): e0141064. IF=3.057

2. 聂新辉，尤春源，鲍健，李晓方，惠慧，刘洪亮，秦江鸿，林忠旭*。基于关联分析的新陆早棉花品种农艺和纤维品质性状优异等位基因挖掘。中国农业科学 2015, 48(15): 2891-2910

3. Chen X, Jin X, Li X, Lin Z*. Genetic mapping and comparative expression analysis of transcription factors in cotton. PLoS ONE, 2015, 10(5): e0126150. IF=3.057

4. Wang H, Jin X, Zhang B, Shen C and Lin Z*. Enrichment of an intraspecific genetic map of Upland cotton by developing markers using parental RAD sequencing. DNA Res, 2015, 22(2), 147-160. IF=5.267

5. Wang H, Huang C, Guo H, Li X, Zhao W, Dai B, Yan Z, Lin Z*. QTL mapping for fiber and yield traits in Upland cotton under multiple environments. PLoS ONE. 2015, 10(6): e0130742. IF=3.057

6. Said JI, Song M, Wang H, Lin Z, Zhang X, Fang DD, Zhang J. A comparative meta-analysis of QTL between intraspecific Gossypium hirsutum and interspecific G. hirsutum × G. barbadense populations. Mol Genet Genomics, 2015, 290:1003-1025. IF=2.622

2014年
1.Hantao Wang, Ximei Li, Wenhui Gao, Xin Jin, Xianlong Zhang, Zhongxu Lin*. Comparison and development of EST–SSRs from two 454 sequencing libraries of Gossypium barbadense. Euphytica, 2014, 198:277–288. (IF=1.385)
2.J.L. Tu, M.J. Zhang, X.Q. Wang, X.L. Zhang and Z.X. Lin*. Genetic dissection of upland cotton (Gossypium hirsutum) cultivars developed in Hubei Province by mapped SSRs. Genet. Mol. Res. 2014, 13 (1): 782-790 (IF=0.775)
3.尤春源，聂新辉，张胜，郭欢乐，王夏青，林忠旭*。新疆彩色棉23个品种指纹图谱的构建及遗传多样性分析。棉花学报，2014，26，（2）：161-170。
4. Gaofeng Ren, Ximei Li, Zhongxu Lin*. Mining, genetic mapping and expression analysis of EST-derived resistance gene homologs (RGHs) in cotton. BMC Plant Biology 2014, 14:203(IF=3.813)
5.聂新辉，尤春源，李晓方，秦江鸿，黄聪，郭欢乐，王夏青，赵文霞，林忠旭*。新陆早棉花品种DNA指纹图谱的构建及遗传多样性分析。作物学报，2014，40 (12): 2104-2117
6.Ximei Li, Wenhui Gao, Huanle Guo, Xianlong Zhang, David D Fang and Zhongxu Lin*. Development of EST-based SNP and InDel markers and their utilization in tetraploid cotton genetic mapping. BMC Genomics 2014, 15: 1046(IF=3.986)
7.CHUANXIANG LIU, DAOJUN YUAN, ZHONGXU LIN*. Construction of an EST-SSR-based interspecific transcriptome linkage map of fibre development in cotton. Journal of Genetics, 2014, 93, 3, 689-697(IF=1.093).

2013年
1.Muhammad Mahmood Ahmed, Huanle Guo, Cong Huang, Xianlong Zhang and Zhongxu Lin*. Selection of core SSR markers for fingerprinting upland cotton cultivars and hybrids. AJCS, 2013, 7(12):1912-1920.
2.Xuemei Chen, Wenhui Gao, Jinfa Zhang, Xianlong Zhang and Zhongxu Lin*. Linkage mapping and expression analysis of miRNAs and their target genes during fiber development in cotton. BMC Genomics 2013, 14:706. (IF=4.04)
3.X.Q. Wang, Y. Yu, W. Li, H.L. Guo, Z.X. Lin*, X.L. Zhang. Association analysis of yield and fiber quality traits in Gossypium barbadense with SSRs and SRAPs. Genet Mol Res, 2013, 12 (3): 3353 – 3362. (IF=0.85)
4.Liu C., Yuan D., Zhang X. and Lin Z*. Isolation, characterization and mapping of genes differentially expressed during fibre development between Gossypium hirsutum and G. barbadense by cDNA-SRAP. J Genet, 2013, 92, 175–181. (IF=1.01)
5.Xiaqing Wang, Yu Yu, Jian Sang, Qingzhang Wu, Xianlong Zhang, Zhongxu Lin*. Intraspecific linkage map construction and QTL mapping of yield and fiber quality of Gossypium babardense. AJCS, 2013, 7(9):1252-1261.
6.Li X, Yuan D, Zhang J, Lin Z*, Zhang X. Genetic Mapping and Characteristics of Genes Specifically or Preferentially Expressed during Fiber Development in Cotton. PLoS ONE, 2013, 8(1): e54444. (IF=3.53)

2012年
1.Bin Wang, Yichun Nie, Zhongxu Lin*, Xianlong Zhang, Junjie Liu and Jing Bai. Molecular diversity, genomic constitution, and QTL mapping of fiber quality by mapped SSRs in introgression lines derived from Gossypium hirsutum × G. darwinii Watt. TAG, 2012, 125:1263-1274. (IF=3.658)

2. Zhongxu Lin, Ying Wang, Xianlong Zhang & Jinfa Zhang. Functional Markers for Cellulose Synthase and Their Comparison to SSRs in Cotton. Plant Mol Biol Rep, 2012, 30:1270–1275. (IF=5.319)
3.Ximei Li, Daojun Yuan, Hantao Wang, Xuemei Chen, Bin Wang, Zhongxu Lin*, Xianlong Zhang. Increasing cotton genome coverage with polymorphic SSRs as revealed by SSCP. Genome, 2012, 55(6): 459-470. (IF=1.668)
4.Xiaqing Wang, Gaofeng Ren, Ximei Li, Jianli Tu, Zhongxu Lin* and Xianlong Zhang. Development and Evaluation of Intron and Insertion–Deletion Markers for Gossypium barbadense. Plant Mol Biol Rep, 2012, 30 (3), 605-613. (IF=5.319)

3. 5.Yu Yu, Zhongxu Lin* and Xianlong Zhang. Genome-wide identification of recombination rates of male versus female gametes in inter-specific population of cotton. Pak J Bot, 2012, 44(2): 521-529. (IF=0.872)
6.Chuanxiang Liu, Zhongxu Lin* and Xianlong Zhang. Unbiased genomic distribution of genes related to cell morphogenesis in cotton by chromosome mapping. Plant Cell, Tissue and Organ Culture (PCTOC), 2012, 108 (3), 529-534. (IF=3.633)

2011年
1.X.Q. Wang, C.H. Feng, Z.X. Lin* and X.L. Zhang. Genetic diversity of sea-island cotton (Gossypium barbadense) revealed by mapped SSRs. Genet Mol Res, 2011, 10 (4): 3620-3631 (IF=1.184)
2.Yu Y, Yuan DJ, Liang SG, Li XM, Wang XQ, Lin ZX*, Zhang XL. Genome structure of cotton revealed by a genome-wide SSR genetic map constructed from a BC1 population between Gossypium hirsutum and G. barbadense. BMC Genomics, 2011, 12:15 (IF=4.073)
2010年
1.余渝，张艳欣，林忠旭*，张献龙。棉花种间BC1群体偏分离的遗传剖析。作物学报，2010，36 (10): 1657-1665
2.Zhongxu LIN, Daojun YUAN, Xianlong ZHANG. Mapped SSR markers unevenly distributed on the cotton chromosomes. Front. Agric. China, 2010, 4(3): 257–264

2009年
1.林忠旭，冯常辉，郭小平，张献龙。陆地棉产量、品质相关性状主效QTL和上位性互作分析。中国农业科学，2009，42（9）：3036－3047
2.余 渝，王夏青，冯常辉，林忠旭*，张献龙。棉花纤维特异/优势表达基因的染色体定位。棉花学报，2009，20（6）：435－441.
3.张培培，王夏青，余杨（三人皆为2009届本科毕业生），余渝，林忠旭*，张献龙。首批海岛棉基因组来源的微卫星标记的分离、评价和定位。作物学报，2009，35（6）：1013－1020
4.Zhongxu Lin, Yanxin Zhang, Xianlong Zhang and Xiaoping Guo. A high-density integrative linkage map for Gossypium hirsutum. Euphytica, 2009, 166:35–45 (IF=1.405)

2008年
1.LIN Zhong-xu, WANG Jin-feng（王锦峰，2006届毕业生）, ZHANG Xian-long. Characteristics of Gossypium thurberi and G. anomalum introgression lines of G. hirsutum revealed by EST-SSR and gSSR. Cotton science, 2008, 20(4):243-248
2.余 渝，王志伟，冯常辉，张艳欣，林忠旭*，张献龙。草棉EST-SSRs的遗传评价。作物学报，2008，34 (12): 2085-2091。
3.李武，倪薇（2007届毕业生），林忠旭*， 张献龙。海岛棉遗传多样性的SRAP标记分析。作物学报，2008，34（5）：893－898

2007年
1.ZHANG Yanxin, LIN Zhongxu*, LI Wu, TU Lili, NIE Yichun, ZHANG Xianlong. Studies of new EST-SSRs derived from Gossypium barbadense. Chinese Science Bulletin, 2007, 52 (18): 2522-2531.

2005年
1.Z. Lin, D. He, X. Zhang, Y. Nie, X. Guo, C. Feng, and J. McD. Stewart. Linkage map construction and mapping QTL for cotton fiber quality using SRAP, SSR and RAPD. Plant Breeding, 2005, 124 (2): 180-187. (IF=0.941)

2004年
1.林忠旭，张献龙，聂以春．新型标记SRAP在棉花F2分离群体及遗传多样性评价中的适应性分析．遗传学报，2004，31（6）：622－626。

2003年
1.LIN Zhongxu, ZHANG Xianlong, NIE Yichun, HE Daohua & WU Maoqing. Construction of a genetic linkage map for cotton based on SRAP. Chinese Science Bulletin, 2003, 48 (19): 2063－2067.

二、大会报告
1.Introgression of exotic germplasm into upland cotton for cotton genetics and breeding. WCRC-5, Mumbai, India, November 7-11, 2011
2.棉花功能标记开发的策略及应用。湖南长沙，2013年8月8-9
3.Genomic structure revealed by functional merkers in cotton. 2014 ICGI Research Conference, Wuhan, China, Sep.25-28, 2014
4.Interspecific recombination rate, segregation distortion and hybrid breakdown in cotton. World Cotton Research Cofference & 2016 ICGI Research Conference,Goiania, Brazil,May 2-6.
5. 利用SSRs和SNPs对我国陆地棉重要经济性状的全基因组关联分析。中国农学会棉花分会2016年年会，大会报告，江苏徐州，2016.8.8-9。

6. 利用多群体、多环境定位陆地棉农艺性状QTL及纤维长度主效QTL的克隆。中国农学会棉花分会2017年年会，大会报告，河南郑州，2017.8.8-9。