Jonathan Eisen and the GEBA project - video linked to news release re Dec. 2009 Nature paper

submitted by: JGI

DOE JGI Phylogenomics Program Head and UC Davis professor Jonathan Eisen discusses the GEBA project in this complement to the news release regarding the GEBA paper published in the journal Nature on December 24, 2009.

Jonathan Eisen discusses GEBA project at DOE JGI

submitted by: JGI

Jonathan Eisen spoke about the Genomic Encyclopedia of Bacteria and Archaea (GEBA) at the DOE JGI on October 27, 2009.

Microbial Inventory Research Across Diverse Aquatic LTERs (ASM Working Group Part 4/4)

submitted by: LTER_NetworkOffice_is
The MIRADA LTERs project (see working group materials) is an NSF-funded Microbial Biodiversity Survey and Inventory across all 13 of the major aquatic (marine and freshwater) Long Term Ecological Research (LTER) sites. The long-term objective of our study is to document and describe baseline diversity and relative abundance data for both common and rare members of microbial communities located in aquatic LTER sites and to relate this diversity to the underlying physical and chemical...

Microbial Inventory Research Across Diverse Aquatic LTERs (ASM Working Group Part 2/4)

submitted by: LTER_NetworkOffice_is
The MIRADA LTERs project (see working group materials) is an NSF-funded Microbial Biodiversity Survey and Inventory across all 13 of the major aquatic (marine and freshwater) Long Term Ecological Research (LTER) sites. The long-term objective of our study is to document and describe baseline diversity and relative abundance data for both common and rare members of microbial communities located in aquatic LTER sites and to relate this diversity to the underlying physical and chemical...

The Environment Ontology: Linking Environmental Data

submitted by: dougramsey
Norman Morrison, University of Manchester Every biological specimen that is collected or sampled — whether for a museum collection, for epidemiological studies, for population studies, for ecological research, for research into evolution, biodiversity or sustainability, indeed any biological research — comes from a particular habitat where particular physical conditions prevail. How ever, at present there is no accepted semantic standard for describing the environment from which these...

Jason Flowers Metabolic Characterization of Candidatus Accumulibacter Phosphatis Using Metaproteomic Analysis

submitted by: dougramsey
In many freshwater bodies, phosphorus is a limiting nutrient for bacterial growth. To prevent eutrophication, enhanced biological phosphorus removal (EBPR) of waste water has been successfully applied at sewage plants for the past thirty years. Previous researchers could only speculate about the biochemical pathways involved in EBPR principally because the organisms responsible for EBPR cannot be isolated in pure culture. Using metagenomic data recently obtained from a Candidatus...

A Genomic Encyclopedia of Bacteria and Archaea (GEBA) and the Search for the Dark Matter of the Biological Universe

submitted by: dougramsey
There is a glaring gap in microbial genome sequence availability – the currently available genome sequences show a highly biased phylogenetic distribution compared to the extent of microbial diversity known today. This bias has resulted in major limitations in our knowledge of microbial genome complexity and our understanding of the evolution, physiology and metabolic capacity of microbes. Although there have been small efforts in sequencing genomes from across the tree of life for...