Info • Amylomyces rouxii NRRL 5866 v1.0

Status

[November 2018] The Amylomyces rouxii NRRL 5866 metagenome was sequenced using PacBio. Two organisms were detected, Amylomyces rouxii NRRL 5866 and Paenibacillus sp. which were extracted and assembled separately. A. rouxii was assembled with Falcon v1.8.8 using preads bearing >20% homology to Rhizopus delemar. This assembly was then annotated using the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.

Summary statistics for the Amylomyces rouxii NRRL 5866 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 45.70
Sequencing read coverage depth 25x
# of contigs 775
# of scaffolds 775
# of scaffolds >= 2Kbp 763
Scaffold N50 56
Scaffold L50 (Mbp) 0.25
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.14, 0.84, 0.76


ESTs Data set # sequences total # mapped to genome % mapped to genome
Ests est.fasta 143215476 134324938 93.8%
Other Trinity_assembled_Illumina_transcriptome 64059 54584 85.2%


Gene Models FilteredModels1
length (bp) of: average median
gene 1395 1157
transcript 1207 999
exon 314 188
intron 68 57
description:
protein length (aa) 355 280
exons per gene 3.85 3
# of gene models 14619


Collaborators

Tim James, University of Michigan, USA

Joseph Spatafora, Oregon State University, USA

Genome Reference(s)

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

Wang Y, Chang Y, Ortañez J, Peña JF, Carter-House D, Reynolds NK, Smith ME, Benny G, Mondo SJ, Salamov A, Lipzen A, Pangilinan J, Guo J, LaButti K, Andreopolous W, Tritt A, Keymanesh K, Yan M, Barry K, Grigoriev IV, Spatafora JW, Stajich JE
Divergent Evolution of Early Terrestrial Fungi Reveals the Evolution of Mucormycosis Pathogenicity Factors.
Genome Biol Evol. 2023 Apr 6;15(4):. doi: 10.1093/gbe/evad046

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.