Genomic Encyclopedia of Bacterial and Archaeal Type Strains, Phase III: the genomes of soil and plant-associated and newly described type strains

Abstract

The Genomic Encyclopedia of Bacteria and Archaea (GEBA) project was launched by the JGI in 2007 as a pilot project to sequence about 250 bacterial and archaeal genomes of elevated phylogenetic diversity. Herein, we propose to extend this approach to type strains of prokaryotes associated with soil or plants and their close relatives as well as type strains from newly described species. Understanding the microbiology of soil and plants is critical to many DOE mission areas, such as biofuel production from biomass, biogeochemistry, and carbon cycling. We are also targeting type strains of novel species while they are being described. Since 2006, about 630 new species have been described per year, many of which are closely aligned to DOE areas of interest in soil, agriculture, degradation of pollutants, biofuel production, biogeochemical transformation, and biodiversity.

Keywords: Genome sequencing; Prokaryotes; Type stains.

Figure 1

Cumulative number of prokaryotic species described since publication of the Approved List in 1980 and 2013. Modified from Euzéby and Parte [List of Prokaryotic Names with Standing in Nomenclature: http://www.bacterio.cict.fr/].

Figure 2

Nationalities of the contributors to the GEBA phase II and III sequencing proposals for the KMG projects. Others include Italy, Mexico and Portugal.

Figure 3

Sources of the type strains contributed to the KMG projects by individual investigators. Others include air, sludge, hot springs, wall painting, and unknown.