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万方浩、钱万强课题组

万方浩、钱万强课题组

  Wan Fanghao & Qian Wanqiang Lab

  

  课题组长

  万方浩,研究员,博士生导师。国家“973”计划项目首席科学家和咨询专家,国家生物安全重点专项专家组专家。主要从事生物入侵及生物防治的研究,创建了我国入侵生物学新兴学科。先后主持国家“973”计划等国家重点项目20余项;获国家和省部级成果奖20项(国家科技进步二等奖2项);发表论文700余篇(SCI-160余篇),出版专著21部。

       钱万强,研究员,硕士生导师。中国植保学会生物入侵分会副主任委员,深圳市国家级高层次领军人才,主要研究方向为植物保护、入侵生物学。主持利用二代三代测序技术完成了苹果蠹蛾、薇甘菊、福寿螺等入侵物种的基因组测序工作,通过对福寿螺快速进化的DNA转座子进行探究,揭示出福寿螺在入侵地区处于低遗传多样性条件下,应对“入侵悖论”的快速进化策略;通过入侵昆虫和非入侵昆虫基因组的比对分析,发现了入侵种基因组具有明显的进化特点和可塑性基因,丰富了“可塑基因驱动”假说,在 Nature Communication、 Giga Science、Plant Physiology,Frontiers in Bioscience 等杂志上发表论文30余篇,主译、编著《细胞的分子生物学》、《入侵生物学》等著作,参与出版多部专著。主持和承担国家重点研发计划、973计划、国家自然科学基金10余项。

 

  工作经历

  2014.10至今             中国农业科学院深圳基因组研究所                       研究员 

  2006.3–2014.12         中国农业科学院植物保护研究所                           研究员        

  2004.7–2006.3           中国农业科学院农业环境与可持续发展研究所       研究员 

  1995.9–2004.7           中国农业科学院生物防治研究所                           研究员        

  1993.9–1995.9           加拿大农业与农业食品研究所                              博士后 

  1989.9–1993.9           中国农业科学院生物防治研究所                           副研究员    

  1984.12–1986.12       湖南农学院昆虫教研室                                        助理研究员

 

  教育经历

  1986.12–1989.9          中国农业科学院                           博士                   

  1982.1–1984.12          湖南农学院                                  硕士                   

  1978.3–1982.1           湖南农学院                                   学士  

                 

  研究方向

  围绕重要农业入侵生物防控基因组及基于组学大数据深度分析,开展深层次的入侵机制与防控新技术的研发。利用现代基因组测序技术和组装策略构建高质量的入侵生物基因组,结合生物学实验解析入侵的分子机制与生态学过程,挖掘重要入侵性相关基因,进而开发相应基因干扰的分子农药和智能检测监测系统,创新入侵生物防控新技术。

 

  研究进展

  1. 染色体水平的基因组揭示苹果蠹蛾的化学生态适应性与抗药性分子机制

  组装出染色体水平的苹果蠹蛾基因组,通过比较基因组学分析发现,OR3基因发生了拷贝,增强了苹果蠹蛾在全球入侵过程中的对寄主的适应性;通过全基因组关联分析,鉴定出与苹果蠹蛾抗药性相关的基因。研究结果为苹果蠹蛾的综合治理提供了新思路与新方法。

  图1 CpomOR3a与CpomOR3b在苹果蠹蛾对梨酯和性信息素识别中的功能研究

  2.苹果蠹蛾保幼激素酯酶基因的鉴定及表达谱分析

  鉴定出苹果蠹蛾保幼激素酯酶基因(CpJHE),明确了该基因在5龄幼虫3日龄时表达丰度最高,另外,CpJHE转录本主要在脂肪体中表达。结果表明CpJHE在苹果蠹蛾发育和繁殖过程中发挥重要作用,为苹果蠹蛾的有效防控提供了新靶标。

  图2 苹果蠹蛾保幼激素酯酶基因鉴定及表达谱分析

  3.入侵软体动物基因组及入侵相关基因挖掘

  利用最新的测序技术和组装策略构建了染色体级的非洲大蜗牛基因组,开展了比较基因组学分析,获得重要入侵性相关基因并进行了功能验证,并对不同地理种群开展了基因组重测序分析,从基因组水平解析了其入侵的分子机制。

  图3 非洲大蜗牛基因组主要特征的分布图;n:31条染色体长度,d-m:组织转录组(脑、卵、眼、血淋巴细胞、肝胰腺、肾脏、肺、肌肉、卵巢、精巢),c:转座子分布,b:基因密度分布,a:GC含量分布。

  4.薇甘菊基因组及入侵相关基因挖掘

  利用高通量测序和多组学技术,从基因组重要基因家族扩张、化感物质合成通路、强的光合系统以及根际土壤氮循环等方面,系统的解析了入侵植物薇甘菊入侵过程中的环境适应性进化和快速生长的分子机制。

  图4 薇甘菊快速生长的分子机制:a菊科植物的进化; b 菊科植物的全基因组复制事件;c 薇甘菊倍半萜内酯代谢通路; d 薇甘菊白天和夜晚CO2固定模式; e 薇甘菊根际土壤氮循环。

  5.外来入侵植物智能监测

  通过无人机采集野外7种外来入侵植物彩色图像,提出了基于深度卷积神经网络的野外薇甘菊识别模型IAPsNet,识别准确率93.39%,并成功对野外的外来入侵植物进行了智能监测。研究结果为开发外来入侵植物的智能监测和早期预警系统提供了理论和科学依据。

  图5 无人机获取外来入侵植物图像和深度卷积神经网络IAPsNet结构

  6. IAS1000计划

  IAS1000计划(1000种入侵物种基因组计划)顺利推进,目前与40余家科研院所、大学与企业建立了合作关系。对IAS1000联盟首批确定的重要入侵物种、如薇甘菊、紫茎泽兰、苹果蠹蛾、潜叶蛾、甜菜夜蛾、苹果绵蚜、稻水象甲、福寿螺和非洲大蜗牛等物种展开了测序和基因组分析。

  Notes: “★” represents different population re-sequencing.

 

 

  PI

  Fanghao Wan, a Research professor and doctoral advisor, Chief scientist and consultant expert at the National Program on Key Basic Research Project (973 Program), member of Expert National Biosecurity Key Project. His principal research interest is biological invasion and biological control. He created the emerging subject of invasion biology, in China. He successively presided over by 973 program and other Major Program more than 20 so on. He won 20 national and provincial achievement awards (among which two were second prize of national science and technology progress awards). He has published more than 700 papers (SCI more than 160) and 21 monographs.

 

  Working Experience

  2014.10–Present    Agricultural Genomics Institute at Shenzhen-CAAS                                                      Research professor                 

        2006.3–2014.12           Institute of Plant Protection-CAAS                                                                                 Research professor   

  2004.7–2006.3             Institute of Environment and Sustainable Development in Agriculture -CAAS            Research professor   

  1995.9–2004.7             Institute of Biological Control -CAAS                                                                           Research professor          

  1993.9–1995.9            Agriculture and Agri-Food Canada, Research Station, Lethbridge, AB.                        Postdoctoral                                                                      

  1989.9–1993.9            Institute of Biological Control -CAAS                                                                           Associate professor 

  1984.12–1986.12        Hunan Agricultural College                                                                                            Research assistant    

                           

  Education Experience

  1986.12–1989.9                     Chinese Academy of Agricultural Sciences          Ph.D                   

        1982.1–1984.12                     College of Hunan agricultural                               Master               

  1978.3–1982.1                       College of Hunan agricultural                                Bachelor         

  

  Research Interest

  Our team mainly focus on the genomics study of critical invasive alien species in agriculture, aimed at obtaining an in-depth understanding of the invasion mechanism as well as developing novel techniques for control and management based on whole genome sequencing and deep mining of omics big data. Firstly, we build high-quality genome assemblies for invasive alien species using state-of-the-art genome sequencing technique and assembly strategy, and elucidate the molecular mechanism and ecological process of invasion combining with biological experiments. Additionally, the important genes related to invasiveness are discovered. Furthermore, molecular insecticide or herbicide targeting those genes and intelligent detection and monitoring system are developed, achieving innovation of techniques for control and management of invasive species.

  

  Major Achievements

  1. The chromosome-level genome illuminates the molecular mechanism of chemical-ecological adaption and insecticide resistance in Cydia pomonella

  We sequenced and assembled the chromosome-level genome of Cydia pomonella. Comparative genomics analysis showed that the OR3 gene was duplicated, which enhanced the adaptation ability to hosts in C. pomonella during the global invasion. The CYP6B2 gene was identified by Genome-wide association study (GWAS), which associated with the insecticide resistance of C. pomonella. Our results provide a new view and method for the comprehensive control of C. pomonella.

  

  Fig. 1 Functional demonstration of CpomOR3a/CpomOR3b in pear ester and codlemone olfactory reception of the codling moth, Cydia pomonella.

  2. Identification and developmental expression of juvenile hormone esterase (CpJHE) in codling moth, Cydia pomonella (L.)

  We identified the juvenile hormone esterase gene (CpJHE) of Cydia pomonella and found that the CpJHE transcript level take a leap in the 3-day-old fifth instar larva, and it expressed mainly in the fat body. This study indicates that the CpJHE gene play a vital role in the development and reproduction of C. pomonella and it can provide a new target for the prevention and management of C. pomonella.

  Fig. 2 Identification and development expression of juvenile hormone esterase gene (CpJHE) in Cydia pomonella

  3.Genome sequencing of invasive mollusk and discovery of invasion related genes

  The latest sequencing techniques and assembly strategies were employed to build a chromosome-scale genome of Achatina immaculata. Meanwhile, we performed comparative genomic analysis, obtaining important genes in relation to invasiveness and conducting functional validation. Additionally, we performed whole genome re-sequencing analysis of different populations. In total, this study provides insights into the molecular mechanism for the successful invasion of Giant African snails in genome scale.

  Fig. 3. The general characteristics of A.immaculata. Track n: 31 linkage groups of the genome; Track d-m: expression profile of brain, egg, eye, hemocytes, hepatopancreas, kidney, lungs, muscle, ovary and testis tissues; Track c: distribution of transposon elements; Track b: distribution of gene density; Track a: distribution of GC content.

  4. Genome sequencing of Mikania micrantha and discovery of invasion related genes

  Using high-throughput sequencing and multiple genomic techniques, the research team systematically analyzed the molecular mechanism of environmental adaptive evolution and rapid growth during the invasion of Mikania micrantha from the perspectives of family expansion of important genes in the genome, allelochemical synthesis pathway, strong photosynthetic system and nitrogen cycle in rhizosphere soil.

  Fig. 4 Molecular mechanism of rapid growth in Mikania micrantha; a, Evolution of compositae; b, Whole-genome replication events in compositae; c, sesquiterpene lactone metabolism pathway of Mikania micrantha; D. CO2 fixation mode of Mikania micrantha during day and night; Nitrogen cycling in the rhizosphere of Mikania micrantha.

  5. Invasive alien plants intelligent monitoring

  We acquired the color images of the monitoring area in wild environment by unmanned aerial vehicle (UAV), and propose a novel IAPsNet based on deep convolutional neural network (CNN) to identify the seven invasive alien plants appeared in the images, the recognition accuracy was 93.39%. And IAPsNet has successfully applied to intelligently monitor the IAPs in the real-time. The research results will provide some theoretical and scientific basis for the development of intelligent monitoring and early warning system of invasive alien plants.

 

  Fig. 5 invasive alien plants images acquired by UAV, and deep CNN architecture of IAPsNet

  6. IAS1000 Project

  The “IAS1000 Project” (A genome project of 1000 invasive alien species,) has been successfully carried out. At present, it has established cooperative relations with more than 40 scientific research institutes, universities and enterprises. The first list important invasive species, such as Mikania micrantha, Eupatorium adenophorum, Cydia pomonella, Tuta sp.., Spodoptera exigua, Eriosoma lanigerum, Lissorhoptrus oryzophilus, Pomacea canaliculata and Achatina immaculata, were sequenced and analyzed.

  Notes: “★” represents different population re-sequencing.

  

  Selected Publication

  1. Bo Liu, …, Wanqiang Qian*, Wei Fan* and Fanghao Wan*. (2020) Mikania micrantha genome provides insights into the molecular mechanism of rapid growth. Nature Communications, DOI: 10.1038/s41467-019-13926-4. (SCI收录)

  2. Fanghao Wan #*, Chuanlin Yin#, Rui Tang#, Maohua Chen#, Qiang Wu#Cong Huang#, Wanqiang Qian, …, Fei Li*. A chromosome level genome assembly of Cydia pomonella provides insights into chemical ecology and insecticide resistance. Nature Communications, 2019, 10: 4237. (SCI收录)

  3. Cong Huang, Qiang Wu, Chunyan Jiang, Longsheng Xing, Guoliang Shi, Bin Zhang, Wanqiang Qian, Youzhi Li, Yu Xi, Nianwan Yang, Fanghao Wan*. Identification and developmental expression of putative gene encoding juvenile hormone esterase (CpJHE-like) in codling moth, Cydia pomonella (L.). Journal of Integrative Agriculture, 2019, 18(7): 1624-1633. (SCI收录)

  4. Longsheng Xing, Tianbo Ding, Cong Huang, Yu Xi, Qiang Wu, Wanqiang Qian, Fanghao WanBin Zhang*. 2019. A comprehensive atlas of lysine acetylome in onion thrips (Thrips tabaci Lind.) revealed by proteomics analysis. Journal of Proteomics, 207 (2019) 103465. (SCI收录)

  5. Bin Zhang, Wanqiang Qian, Xi Qiao, Yu Xi, Fanghao Wan. 2019. Invasion biology, ecology, and management of Frankliniella occidentalis in China. Archives of Insect Biochemistry and Physiology,  DOI:10.1002/arch.21613. (SCI收录)

  6. Fanghao Wan. 2019. Plant protection: Current status, progress and challenges in China. Journal of Integrative Agriculture, 18(4): 703-704. (SCI收录)

  7. Xi Qiao, Jianhua Bao, Hang Zhang, Fanghao Wan, Daoliang Li. 2019. Underwater sea cucumber identification based on principal component analysis and support vector machine. Measurement, 133:444-455. (SCI收录)

  8. Xiong zhang#, Bo Liu#,…, Wei Fan*, Wanqiang Qian*, Daolong Dou*. Whole Genome Re-sequencing Reveals Natural Variation and Adaptive Evolution of Phytophthora sojae. Frontiers in Microbiogy, 2019, doi: 10.3389/fmicb.2019.02792.(SCI收录)

  9. 黄聪, 李有志, 杨念婉, 武强, 邢龙生, 钱万强, 席羽, 李飞, 万方浩*. 入侵昆虫基因组研究进展. 植物保护, 2019, 45(5): 112-120.

  10. 张雪,钱万强,王宁,周倩,张彬*. 不同光照条件对西花蓟马产卵量的影响. 中国植保导刊,2019, 39(7): 5-10.

  11. 鲁莎,郭建洋,席羽,万方浩*. miRNA调控昆虫与病害互作的研究进展.生物安全学报,2019,28(2):89-94.

  Selected Copyrights

  1、基因染色体定位图绘制软件V1.0,登记号:2019SR0544532,新萄京3522vip(邢龙生)

  2、入侵植物识别系统V1.0,登记号:2019SR0544523,新萄京3522vip(乔曦)

 

万方浩、钱万强课题组更新于2020年7月

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