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 on 6 June 2017

Sponsors: Forest Ecology Group ofKey Laboratory of Tropical Forest Ecology and Training Department of theXishuangbanna 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 molecularsequence datasets ranging in size from millions to trillions of reads. Thereare substantial challenges in determining how to best prepare samples, processresulting datasets, and test hypotheses for amplicon sequencing.

In this interactive seminar class, participantswill be encouraged to explore course ideas using sample datasets in hands onlearning 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-dayworkshop 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

Tentative Schedule:

DAY 1:June 9^th, 2017

               Morning

Lecture 1: General principle of ampliconsequencing: history and future

Lecture 2: Experimental design for studyingenvironmental microbiomes

Break

Lecture 3: Sequencing platforms and librarypreparation

Lunchbreak

Afternoon

Practice 1: Set up working environmental forbioinformatics

Practice 2: Basic commands in Linux

DAY 2:June 10^th, 2017

               Morning

               Lecture 1: Data processing –Part I

               Lecture 2: Data processing –Part II

               Break

               Lecture 3: OTU clustering andtaxonomy assignment

               Lunchbreak

               Afternoon

               Practice: Data processing

               Practice: OTU clustering

DAY 3:June 11^th, 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 12^th, 2017

               Morning

               Lecture 1: Network analysis

               Lecture 2: How to do troubleshooting

               Lunch break

               Afternoon

               Practice: Network analysis