微生物群体和进化遗传学培训班

2013年5月6-12日  北京

（第一轮通知）

真菌以非常丰富的生存方式和策略，广泛分布于各种各样的生态环境，演化成为多样性最为丰富的真核微生物类群。地球上存在的真菌物种总数估计达150-200万种。真菌如此丰富的生物多样性是如何形成的，即真菌物种形成机制，自然成为愈来愈受关注的基本科学问题。真菌本身的许多特性，如较小的基因组却表现出如此丰富的形态、生态功能和代谢方式等多样性，也使其成为研究真核生物进化的良好材料。真菌分子系统学与分子进化研究手段已经从单基因向多基因和全基因组方向发展。在种、属间的系统演化研究逐步深入的同时，以致力于揭示物种分化和形成机制为主要目的真菌群体遗传学研究逐步成为热点。近年来高通量DNA测序技术的发展，已使真菌群体基因组学研究成为前沿领域。为了使国内年轻研究者了解和掌握真菌分子进化、群体遗传和群体基因组学研究方面的最新结果、趋势和研究方法，我们拟于2013年5月6-12日在北京举办“微生物群体和进化遗传学”培训班。

培训班将由活跃于真菌分子进化、群体遗传和群体基因组学研究领域国际前沿的3位年轻海外专家主讲，他们分别是(个人简介见附三)： McMaster University (加拿大)生物系教授徐建平(Jianping Xu)博士; University of Ottawa (加拿大)教授夏旭华(Xia Xuhua)博士和University of Michigan (美国)的助理教授Timothy Y. James博士。培训班将以课堂讲授和计算机实际操作相结合的方式进行，每天在讲授基本原理、方法和最新进展之后，接着教授常用计算机软件的使用方法，力图让学员同时掌握基础理论知识和实际分析技能，尽快有效运用于自己的实际研究工作中去。

培训课程最后紧承“真菌群体和进化遗传学研讨会”，除3位主讲人外，将邀请本领域国内其他的优秀研究者，交流最新研究成果，并欢迎已有实际研究结果的学员展示自己的研究进展和探讨遇到的问题。通过学术交流，学员们可以加深对所学知识和技能的了解；国内外研究者之间，也可寻求可能的合作伙伴，建立合作研究关系。

豪华的国际授课教师阵容、热点的前沿研究领域、实用的软件操作方法、难得的学术交流机会，定让你受益良多，欢迎报名参加!

 

一、时间：2013年5月6-12日。5月6日培训现场报到。

二、地点：中国科学院微生物研究所（ 北京市朝阳区 北辰西路1号院3号）

三、收费：含培训费、资料费、场地费、会务费等，不含食宿。具体标准如下：

l         普通人员：2800元

l         中国菌物学会会员：2500元（接受现场入会）

l         学生：1800元（注册现场需出示学生证）

请有意参加培训班的人员，于2013年4月30日前通过银行转账汇入以下账户：

账户：中国菌物学会

帐号：250101040005913

开户行：中国农业银行北京科院南路支行

负责人：白逢彦 研究员

联络人：齐莎：010-64807515  ，蒋娜：010-64807455 

1. 请有意参加培训班的人员，于2013年4月1日前将参会回执（见附二）发至 mpeg2012@126.com

2. 请学员自备笔记本电脑，以便参加每日下午的“Computer lab”（常用计算机软件使用方法培训课程）。

3. 本次培训课程为中英文结合授课。“真菌群体和进化遗传学研讨会”欢迎已有实际研究结果的学员展示自己的研究进展和探讨遇到的问题。

4.  培训发票将在会议现场由本人领取。

姓名：	性别：		职称/职务：
工作单位：
通讯地址：
手机：		固定电话：
E-mail：
如需发票，请选择发票项目：[ ]培训费；[ ]会议费 发票单位：

 

 

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Lecture 1: Introduction to population genetics: Genes, alleles and their associations in natural populations (1.5 hours; Jianping Xu)

Lecture 2: Marker development for microbial population studies (1 hour; Tim James)

Lecture 3: Basic microbial population genetic questions, tools, and software

(1 hour; JP Xu)

Computer lab-1: population genetic analyses (2 hours; JP Xu)

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Lecture 4. Basic concepts in molecular phylogenetics and evolution

(1.5 hours, Xuhua Xia)

1. Distance-based methods: the independently estimated and simultaneously estimated distances based on various substitution models; the least-squares method for branch evaluation and the minimum evolution criterion for choosing the best tree.

2. The maximum parsimony method: the Fitch algorithm;  the assumptions and the problem of inconsistency.

3. The maximum likelihood method and Bayesian inference

 

Lecture 5. Advanced molecular phylogenetics and evolution (1 hour, Xuhua Xia)

1. Choosing substitution models by the likelihood ratio test and the information theoretic indices

2. Dating gene duplication and speciation events by the least-squares method: the conventional dating with calibration of internal nodes; the tip-dating method for viral samples taken over different years.

Computer lab-2: Molecular phylogenetics and evolution analyses (2.5 hours, Xuhua Xia)

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Lecture 6: Case studies of viral and bacterial population genetics (1.5 hours; JP Xu)

Lecture 7. Case studies of recent emerging eukaryotic infectious diseases (1 hour; Tim, James)

Lecture 8: Evolution of life cycles and mating systems (1 hour, Tim James)

Computer lab-3: Fungal mating system gene identification and analyses (2 hours, Tim James)

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Lecture 9: Tree of life and evolution of pathogenic life style (1.5 hours; Tim James)

Lecture 10: Microbial genomic resources and basic genomic analysis (1 hour, Xuhua Xia)

1. Microbial and viral databases

2. Indices of gene expression and codon usage biases

3. Nucleotide skew plots

Computer lab-4: Microbial genomic resources and basic genomic analysis (2.5 hours, Xuhua Xia)

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Lecture 11: Microbial Population genomics (1 hour, Tim James)

Lecture 12: Fundamentals and case studies of microbial experimental evolution (1.5 hours; JP Xu)

Lecture 13: Phylogeny-based comparative methods (1 hour, Xuhua Xia)

1. The association between genes, between genes and phenotypes and environmental variables.

2. The comparative method for continuous characters based on the Brownian motion model and the independent contrasts

3. The comparative method for discrete characters.

Computer lab-5: Phylogeny-based comparative methods (2 hours, Xuhua Xia)

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Dr. Jianping Xu obtained his PhD in biology from the University of Toronto in Canada in 1997, and then worked as a postdoctoral fellow  at Duke University in the US until 2000 when he was hired as an Assistant Professor at McMaster University in Canada. He is currently a Full Professor in Microbiology at McMaster working on molecular ecology and population genetics of microorganisms, with a focus on human fungal pathogens and wild gourmet mushrooms. He has edited two books in microbial evolutionary and population genetics. He currently teaches courses in Introductory Microbiology, Medical Microbiology, Field Biology, and Molecular Ecology.

His lab page is: http://www.biology.mcmaster.ca/faculty/xu/xu.htm

 

 

 

 

 

 

Dr. Xuhua Xia obtained his PhD in population biology from University of Western Ontario, and worked as a postdoctoral fellow/visiting scientist at University of Helsinki, University of Toronto, University of Washington, Louisiana State University and University of Chicago, carrying out research in molecular biology and evolution, molecular phylogenetics, and population genetics. He became an assistant professor at University of Hong Kong in 1996, and served in 2001 as a senior scientist and head of Bioinformatics Laboratory in the newly established HKU-Pasteur Research Centre. He came back to Canada in 2002 and has been full professor at University of Ottawa since 2009. Dr. Xia published two books in bioinformatics and molecular evolution, and is the author of the software package DAMBE that is widely used in molecular biology and evolution. He currently teaches courses in bioinformatics, molecular evolution and biostatistics.

His lab web page is http://dambe.bio.uottawa.ca.

 

 

 

 

 

 

 

Dr. Timothy Y. James obtained his PhD in biology from Duke University in North Carolina, USA.  He then completed three postdoctoral appointments at Duke University, Uppsala University, and McMaster University.  Since 2009, he has been an assistant professor and curator of fungi at the University of Michigan.  James’ research covers multiple aspects of fungal evolution, from evolution at the gene level (particularly genes controlling mating), population level (emphasis on dispersal mechanisms), and reconstructing the deepest branches in the fungal tree of life (particularly chytrid fungi).  James has specialized in studying a group of fungi known as chytrids that are largely aquatic and microscopic, including the fungal pathogen causing the current pandemic of amphibians.  He teaches courses in genetics and fungal biology.

His lab web page is: http://www.umich.edu/~mycology/