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Title: Environmental Microbiomes: Amplicon sequencing from sample preparationto publication
Venue: Meeting room 1 (XTBG headquarter at Menglun Town, Mengla County, Yunnan)
Dates: 9– 12 June 2017 (4 days)
Organiser: Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences
Registration: application will be closed at 6 June 2017
Sponsors: Forest Ecology Group of Key Laboratory of Tropical Forest Ecology and Training Department of the Xishuangbanna Tropical Botanical Garden, CAS
Registration fee: 600 RMB
About the workshop: Advances in sequencing technologies provide researchers with the capacityto profile large numbers of diverse environmental microbial communities at lowcost. These technologies yield molecular sequence datasets ranging in size from millions to trillions of reads. There are substantial challenges in determining how to best prepare samples, process resulting datasets, and test hypotheses for amplicon sequencing.
In this interactive seminar class, participantswill be encouraged to explore course ideas using sample datasets in hands on learning modules. In total, participantsin this course will become familiar with important considerations in hypothesistesting, experimental design, sample preparation, and various approaches foramplicon sequence processing, data analysis, and presentation. This four-day workshop will consist of informal lectures (50%) and hands-on tutorials(50%).
Student number: a maximum of 20
Instructor: Dr. SONG Zewei (University of MinnesotaTwin Cities, Department of Plant Pathology)
Researchgate: https://www.researchgate.net/profile/Zewei_Song
If youhave any questions about the workshop, please email huyuehua@xtbg.org.cn and/or liujx@xtbg.org.cn
To apply, please visit https://www.sojump.hk/jq/14290106.aspx
Tentative Schedule:
DAY 1:June 9th, 2017
Morning
Lecture 1: General principle of amplicon sequencing: history and future
Lecture 2: Experimental design for studying environmental microbiomes
Break
Lecture 3: Sequencing platforms and library preparation
Lunchbreak
Afternoon
Practice 1: Set up working environmental forbioinformatics
Practice 2: Basic commands in Linux
DAY 2:June 10th, 2017
Morning
Lecture 1: Data processing –Part I
Lecture 2: Data processing –Part II
Break
Lecture 3: OTU clustering and taxonomy assignment
Lunchbreak
Afternoon
Practice: Data processing
Practice: OTU clustering
DAY 3:June 11th, 2017
Morning
Lecture 1: Analyze the OTUtable: diversity
Lecture 2: Analyze the OTUtable: multivariate analysis
Break
Lecture 3: analyze the OTUtable: functions
Lunch break
Afternoon
Practice: Measure diversity
Practice: Multivariate analysis
DAY 4:June 12th, 2017
Morning
Lecture 1: Network analysis
Lecture 2: How to do troubleshooting
Lunch break
Afternoon
Practice: Network analysis
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