Metagenoms: Difference between revisions
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* ~10X more bateria than human cells in the body | * ~10X more bateria than human cells in the body | ||
* small-subunit (16S) ribosomal RNA gene-sequence-based surveys : | * small-subunit (16S) ribosomal RNA gene-sequence-based surveys : | ||
* found in all microorganisms | |||
* has enough sequence conservation for accurate alignment | |||
* has enough variation for phylogenetic analyses. | |||
* skin, mouth, oesophagus, stomach, colon and vagina | * skin, mouth, oesophagus, stomach, colon and vagina | ||
* largest reported data sets are for the gut | * largest reported data sets are for the gut | ||
* most of the 10–100 trillion microorganisms in the human gastrointestinal tract live in the colon. | * most of the 10–100 trillion microorganisms in the human gastrointestinal tract live in the colon. | ||
* more than 90% of all phylogenetic types (phylotypes) of colonic bacteria belong to just 2 of the 70 known divisions (phyla) in the domain Bacteria: the Firmicutes and the Bacteroidetes. | * more than 90% of all phylogenetic types (phylotypes) of colonic bacteria belong to just 2 of the 70 known divisions (phyla) in the domain Bacteria: the Firmicutes and the Bacteroidetes. | ||
Firmicutes (Gram-positive bacteria) 639 Genome Sequences | |||
* Bacilli 472 | |||
* Clostridia 106 | |||
* Erysipelotrichi 1 | |||
* Mollicutes 60 | |||
* Thermolithobacteria | |||
* unclassified Firmicutes sensu stricto | |||
* environmental samples | |||
Bacteroidetes 53 Genome Sequences | |||
* Bacteroidetes (class) 22 | |||
* Flavobacteria 21 | |||
* Sphingobacteria 8 | |||
* unclassified Bacteroidetes 1 | |||
* environmental samples 1 | |||
Revision as of 14:16, 2 June 2008
Links
- JGI FAMeS
- JGI SIMHC
- Human Microbiome Project @ NIH
- {http://www.nature.com/nature/journal/v449/n7164/full/nature06244.html HMP Nature article Oct 2007]
HMP
- ~10X more bateria than human cells in the body
- small-subunit (16S) ribosomal RNA gene-sequence-based surveys :
* found in all microorganisms * has enough sequence conservation for accurate alignment * has enough variation for phylogenetic analyses.
- skin, mouth, oesophagus, stomach, colon and vagina
- largest reported data sets are for the gut
- most of the 10–100 trillion microorganisms in the human gastrointestinal tract live in the colon.
- more than 90% of all phylogenetic types (phylotypes) of colonic bacteria belong to just 2 of the 70 known divisions (phyla) in the domain Bacteria: the Firmicutes and the Bacteroidetes.
Firmicutes (Gram-positive bacteria) 639 Genome Sequences
* Bacilli 472 * Clostridia 106 * Erysipelotrichi 1 * Mollicutes 60 * Thermolithobacteria * unclassified Firmicutes sensu stricto * environmental samples
Bacteroidetes 53 Genome Sequences
* Bacteroidetes (class) 22 * Flavobacteria 21 * Sphingobacteria 8 * unclassified Bacteroidetes 1 * environmental samples 1