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Title: Assembly, Annotation, and Analysis of Multiple Mycorrhizal Fungal Genomes

Abstract

Mycorrhizal fungi play critical roles in host plant health, soil community structure and chemistry, and carbon and nutrient cycling, all areas of intense interest to the US Dept. of Energy (DOE) Joint Genome Institute (JGI). To this end we are building on our earlier sequencing of the Laccaria bicolor genome by partnering with INRA-Nancy and the mycorrhizal research community in the MGI to sequence and analyze dozens of mycorrhizal genomes of all Basidiomycota and Ascomycota orders and multiple ecological types (ericoid, orchid, and ectomycorrhizal). JGI has developed and deployed high-throughput sequencing techniques, and Assembly, RNASeq, and Annotation Pipelines. In 2012 alone we sequenced, assembled, and annotated 12 draft or improved genomes of mycorrhizae, and predicted ~;;232831 genes and ~;;15011 multigene families, All of this data is publicly available on JGI MycoCosm (http://jgi.doe.gov/fungi/), which provides access to both the genome data and tools with which to analyze the data. Preliminary comparisons of the current total of 14 public mycorrhizal genomes suggest that 1) short secreted proteins potentially involved in symbiosis are more enriched in some orders than in others amongst the mycorrhizal Agaricomycetes, 2) there are wide ranges of numbers of genes involved in certain functional categories, such as signal transductionmore » and post-translational modification, and 3) novel gene families are specific to some ecological types.« less

Authors:
; ; ; ;
Publication Date:
Research Org.:
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC)
OSTI Identifier:
1241241
Report Number(s):
LBNL-7018E
DOE Contract Number:  
DE-AC02-05CH11231
Resource Type:
Conference
Resource Relation:
Conference: Fungal Genetics Conference, Asilomar, CA
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Initiative Consortium, Mycorrhizal Genomics, Kuo, Alan, Grigoriev, Igor, Kohler, Annegret, and Martin, Francis. Assembly, Annotation, and Analysis of Multiple Mycorrhizal Fungal Genomes. United States: N. p., 2013. Web.
Initiative Consortium, Mycorrhizal Genomics, Kuo, Alan, Grigoriev, Igor, Kohler, Annegret, & Martin, Francis. Assembly, Annotation, and Analysis of Multiple Mycorrhizal Fungal Genomes. United States.
Initiative Consortium, Mycorrhizal Genomics, Kuo, Alan, Grigoriev, Igor, Kohler, Annegret, and Martin, Francis. Fri . "Assembly, Annotation, and Analysis of Multiple Mycorrhizal Fungal Genomes". United States. https://www.osti.gov/servlets/purl/1241241.
@article{osti_1241241,
title = {Assembly, Annotation, and Analysis of Multiple Mycorrhizal Fungal Genomes},
author = {Initiative Consortium, Mycorrhizal Genomics and Kuo, Alan and Grigoriev, Igor and Kohler, Annegret and Martin, Francis},
abstractNote = {Mycorrhizal fungi play critical roles in host plant health, soil community structure and chemistry, and carbon and nutrient cycling, all areas of intense interest to the US Dept. of Energy (DOE) Joint Genome Institute (JGI). To this end we are building on our earlier sequencing of the Laccaria bicolor genome by partnering with INRA-Nancy and the mycorrhizal research community in the MGI to sequence and analyze dozens of mycorrhizal genomes of all Basidiomycota and Ascomycota orders and multiple ecological types (ericoid, orchid, and ectomycorrhizal). JGI has developed and deployed high-throughput sequencing techniques, and Assembly, RNASeq, and Annotation Pipelines. In 2012 alone we sequenced, assembled, and annotated 12 draft or improved genomes of mycorrhizae, and predicted ~;;232831 genes and ~;;15011 multigene families, All of this data is publicly available on JGI MycoCosm (http://jgi.doe.gov/fungi/), which provides access to both the genome data and tools with which to analyze the data. Preliminary comparisons of the current total of 14 public mycorrhizal genomes suggest that 1) short secreted proteins potentially involved in symbiosis are more enriched in some orders than in others amongst the mycorrhizal Agaricomycetes, 2) there are wide ranges of numbers of genes involved in certain functional categories, such as signal transduction and post-translational modification, and 3) novel gene families are specific to some ecological types.},
doi = {},
journal = {},
number = ,
volume = ,
place = {United States},
year = {2013},
month = {3}
}

Conference:
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