Finishing genomes with limited resources: lessons from an ensemble of microbial genomes

BMC Genomics

Table 1 Statistics from some contemporary finishing projects.

Genome	Size (Mbp)	Sequencing Center	Release Date	Finishing Reads
Yersinia pestis Angola	4.68	TIGR	12/12/07	5,642
Frankia sp. CcI3	5.4	JGI	02/06/06	2,417
Vibrio cholerae O395	4.1	TIGR	05/08/07	4,521
Salmonella enterica SL476	4.99	JCVI	07/24/08	799
Pantoea stewartii stewartii	-	Baylor	Ongoing	524
Verrucomicrobium spinosum DSM4136	8.2	JCVI	Ongoing	3,828
Aliivibrio salmonicida LFI1238	4.6	Sanger	10/01/08	2,033

Data was collected from NCBI's Trace Archive and Genomes Database. The V. cholerae genome was sequenced using a 454/Sanger hybrid approach while the rest of the genomes were sequenced by Sanger sequencing. Note that the P. stewartii genome was found to be particularly hard to finish, despite the high sequence coverage using Sanger sequencing, because of the presence of numerous plasmids in the sequenced strain.

ISSN: 1471-2164