What is Metagenomics?

• study of complete microbial communities directly in their natural environments, including
  
• skin, mouth, and gut samples to understand human related diseases,
  
• soil samples to study plant soil-microbe interactions, and
  
• marine water samples 
  
• metagenomics does not require isolation and culturing of individual microbes: 'culture independent'
  
• focus on microbial communities: a sample can contain more than 10,000 species
  

What is a microbiome?

• the complete set of microbes that live in a particular microbial ecosystem: within and on the human body (human microbiome), specific plants (grapevine microbiome), or the oceans (marine microbiome)
  
• includes also the entire collection of microbial genes present in any bacteria of these microbial communities

Introduction & Literature

The Human Microbiome
PDF, Infographic and handout from the American Academy of Microbiology

How the microbiome shapes our world.
TED interview with Jonathan Eisen, Jessica Green, & Rob Knight

Microbiology: Metagenomics
by Philip Hugenholtz and Gene W. Tyson

Microbial Metagenomics: Beyond the Genome
by Jack A. Gilbert and Christopher L. Dupont


Staying Current in Bioinformatics & Genomics

How to find out the most recent trends in Genomics, by Stephen Turner

Microbiome Digest

recently published microbiology papers, selected by Elisabeth Bik

Metagenomics sampling projects

→ Human Microbiome Project (HMP)
→ Earth Microbiome Project

→ Tara Oceans Expedition
→ Hospital Microbiome Project

Find more public available sampling datasets:
→ NCBI
→ EMBL-EBI
→ JGI-GOLD

Books

  Metagenomics for Microbiology
  By Jacques Izard and Maria Rivera
  Academic Press; 1st edition, 2014

[ Book website | Academic Press / Elsevier | amazon.com | amazon.de ]

www.metagenomics.wiki