Info • Acremonium alcalophilum v1.0
Please note that this organism is for archival use only. Please see the current Acremonium alcalophilum v2.0 site for the latest data and information.

Status

v1.0 (March 2011): The Acremonium alcalophilum genome sequence assembly v1.0 was built with Arachne assembler from whole genome shotgun and paired end sequencing reads. The nuclear genome sequence from this draft assembly was annotated using the JGI Genome Annotation Pipeline and custom analyses. Multiple ESTs sequencing technologies and EST cluster data sets were tested for gene modeling with this genome; the combined 454 and Illumina EST Clusters ("cap3_all",  in the table below) was found best and used in gene modeling.

Summary statistics for the Acremonium alcalophilum v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp} 54.42
Sequencing read coverage depth 7.98x
# of contigs 865
# of scaffolds 15
# of scaffolds >= 2Kbp 14
Scaffold N50 3
Scaffold L50 (Mbp) 7.21
# of gaps 425
% of scaffold length in gaps 0.4%
Three largest Scaffolds (Mbp) 11.08, 9.11, 7.21
ESTs Data set # sequences total # mapped to genome % mapped to genome Notes
EstClusters Acral1_EstClusters_cap3_all.fa 16,004 12,195 76% Illumina + 454 ests clustered by A. Tsang lab.
EstClusters Acral1_EstClusters_cap3_illumina.fa 19,647 14,705 75% Illumina ests clustered by A. Tsang lab.
EstClusters Acral1_EstClusters_454Isotigs_gte50.fasta 11,550 11,388 99% 454 ESTs clustered by JGI.
Ests Acral1_Ests_CFFC_CGAN_good_ESTs.fasta 1,336,020 1,283,166 96% 454 ESTs sequenced by JGI.
Ests Acral1_Ests_solexa_s_7.fasta, _s7_1.fasta, _s_7_2.fasta 58,438,549 22,607,805 39% Illumina ESTs provided by A. Tsang lab.
Note: All ESTs and EstClusters were mapped to the genomic assembly using BLAT and applying cutoffs of 95% identity and 80% coverage.
Gene Models FilteredModels2_2
length (bp) of: average median
gene 2451 1923
transcript 1994 1614
exon 493 180
intron 152 71
description:
protein length (aa) 451 366
exons per gene 4.05 3
# of gene models 9491

Collaborators

Funding

The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231.