SIMB Annual Pre-Meeting Workshop

When & Where:

Sunday, July 30, 2017, 8 a.m. – 3:30 p.m.
Sheraton Denver Downtown
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Description:

The U.S. Department of Energy Joint Genome Institute (DoE JGI) will offer a 1-day workshop on Microbial Genomics and Metagenomics at SIMB 2017. The workshop will include seminars and extensive hands-on tutorials on how to use the IMG interface for comparative analysis of isolate genomes and metagenomes. We will also highlight some of the DoE JGI science and technology that could enhance your research. The workshop will introduce tools and strategies for computational discovery of application-relevant genes and biosynthetic clusters for secondary metabolites using the IMG/MER and IMG-ABC data and analysis platforms. IMG/MER and IMG-ABC tutorials will be presented using examples of research projects addressing questions in bioremediation, biofuels, antimicrobials, plant-microbe interactions and more. Participants will be divided into instructor-led groups and provided with hands-on exercises representing typical use-case scenarios.

The contents of this workshop will include:

  • Introduction to IMG. Integrated Microbial Genomes (IMG) system is a database of microbial genomes and metagenomes developed by the JGI. Its main features, as well as the JGI annotation and data submission pipeline will be briefly introduced.
  • Data Analysis for Gene Discovery Using Integrated Microbial Genomes (IMG). Use case scenarios will be presented highlighting relevant comparative genomics tools and other useful resources within the IMG system.
  • Metagenomic analyses and functional comparisons using IMG. Comparative metagenomic approaches and tools will be presented using the IMG system. An example bioremediation case study will be presented.
  • Discovery and Analysis of Biosynthetic Gene Clusters Using the Atlas of Biosynthetic Gene Clusters (IMG-ABC). The goal of this section is to present how the Atlas of Biosynthetic Gene Clusters (ABC) resource can be used to search the database and identify biosynthetic gene clusters of interest. Furthermore, the attendees will learn how to use ABC to visualize and study the diversity of the identified biosynthetic gene clusters, in addition to discovering potential modules within these gene clusters.
  • Users Hands-On with Exercises: Working groups on gene/enzyme discovery from genomes and metagenomes, biosynthetic cluster analysis

Organizers:

Natalia Ivanova and Rekha Seshadri, Joint Genome Institute (JGI)

Who should attend?

The Integrated Microbial Genomes(IMG) system is a comprehensive repository of annotated sequence data of archaeal, bacterial and viral genomes and metagenomes from cultured and uncultured organisms. Researchers who wish to learn to explore the data and leverage tools for comparison and gene discovery, should attend this workshop.

Note: a laptop with access to wireless internet is required for this workshop, as well as requesting an IMG account here once registered.  https://contacts.jgi.doe.gov/registration/new

Price:

Included: Workshop materials, continental breakfast, breaks and lunch.

SIMB Members: $350 ($400 – onsite, if available)
Nonmembers: $500 ($575 – onsite, if available)
Students: $200 (current ID required)

How to Register:

You can register for the workshop with your Annual Meeting registration (online or registration form). For more info, go to the Annual Meeting registration page.

If you wish to attend the workshop only (and not the SIMB Annual Meeting), you may register online and select “Workshop Attendee Only” as your registration fee. Or, you may fill out the Annual Meeting registration form.

NOTE: A minimum number of registrants is needed for the workshop. You will be notified by SIMB no later than one month out that the workshop will go forward.