Generation and Characterization of the Western Regional Research Center Brachypodium T-DNA Insertional Mutant Collection

Bragg, Jennifer N.; Wu, Jiajie; Gordon, Sean P.; Guttman, Mara E.; Thilmony, Roger; Lazo, Gerard R.; Gu, Yong Q.; Vogel, John P.

doi:10.1371/journal.pone.0041916

Title: Generation and Characterization of the Western Regional Research Center Brachypodium T-DNA Insertional Mutant Collection

Journal Article · Mon Sep 17 00:00:00 EDT 2012 · PLoS ONE

DOI:https://doi.org/10.1371/journal.pone.0041916· OSTI ID:1904733

Bragg, Jennifer N. ^[1]; Wu, Jiajie ^[1]; Gordon, Sean P. ^[2]; Guttman, Mara E. ^[2]; Thilmony, Roger ^[2]; Lazo, Gerard R. ^[2]; Gu, Yong Q. ^[2]; Vogel, John P. ^[2]

US Department. of Agriculture (USDA), Albany, CA (United States). Agricultural Research Service; University of California, Davis, CA (United States)
US Department. of Agriculture (USDA), Albany, CA (United States). Agricultural Research Service

The model grass Brachypodium distachyon (Brachypodium) is an excellent system for studying the basic biology underlying traits relevant to the use of grasses as food, forage and energy crops. To add to the growing collection of Brachypodium resources available to plant scientists, we further optimized our Agrobacterium tumefaciens-mediated high-efficiency transformation method and generated 8,491 Brachypodium T-DNA lines. We used inverse PCR to sequence the DNA flanking the insertion sites in the mutants. Using these flanking sequence tags (FSTs) we were able to assign 7,389 FSTs from 4,402 T-DNA mutants to 5,285 specific insertion sites (ISs) in the Brachypodium genome. More than 29% of the assigned ISs are supported by multiple FSTs. T-DNA insertions span the entire genome with an average of 19.3 insertions/Mb. The distribution of T-DNA insertions is non-uniform with a larger number of insertions at the distal ends compared to the centromeric regions of the chromosomes. Insertions are correlated with genic regions, but are biased toward UTRs and non-coding regions within 1 kb of genes over exons and intron regions. More than 1,300 unique genes have been tagged in this population. Information about the Western Regional Research Center Brachypodium insertional mutant population is available on a searchable website (http://brachypodium.pw.usda.gov) designed to provide researchers with a means to order T-DNA lines with mutations in genes of interest.

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Research Organization:: US Department. of Agriculture (USDA), Albany, CA (United States). Agricultural Research Service; Univ. of California, Davis, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER); US Department of Agriculture (USDA)

Grant/Contract Number:: AI02-07ER64452; 5325-21000-013-00

OSTI ID:: 1904733

Journal Information:: PLoS ONE, Vol. 7, Issue 9; ISSN 1932-6203

Publisher:: Public Library of ScienceCopyright Statement

Country of Publication:: United States

Language:: English

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