Info • Histoplasma capsulatum NAm1

Status

This genome was sequenced by the Broad Institute. Please check their data use policies.

For Histoplasma capsulatum class NAmI strain WU24, the Broad Institute produced whole genome shotgun sequence from two plasmid libraries (4kb and 10kb inserts) and a Fosmid library. The resulting 7X assembly was made public in September 2005, and the results of automated genome annotation was made public May, 2006.

 

Summary statistics for the Histoplasma capsulatum NAm1 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 32.99
Sequencing read coverage depth 7x
# of contigs 2867
# of scaffolds 275
# of scaffolds >= 2Kbp 112
Scaffold N50 4
Scaffold L50 (Mbp) 2.89
# of gaps 2592
% of scaffold length in gaps 7.2%
Three largest Scaffolds (Mbp) 7.34, 3.66, 2.96


Gene Models BroadModels
length (bp) of: average median
gene 1686 1446
transcript 1369 1131
exon 414 223
intron 139 92
description:
protein length (aa) 427 341
exons per gene 3.31 3
# of gene models 9251


Genome Reference(s)

Please cite the following publication(s) if you use the data from this genome in your research:

Sharpton TJ, Stajich JE, Rounsley SD, Gardner MJ, Wortman JR, Jordar VS, Maiti R, Kodira CD, Neafsey DE, Zeng Q, Hung CY, McMahan C, Muszewska A, Grynberg M, Mandel MA, Kellner EM, Barker BM, Galgiani JN, Orbach MJ, Kirkland TN, Cole GT, Henn MR, Birren BW, Taylor JW
Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives.
Genome Res. 2009 Oct;19(10):1722-31. doi: 10.1101/gr.087551.108

Funding

This project was not sequenced at the JGI.