02065nas a2200277   4500000000100000008004100001260001200042653002800054653002500082653002600107653002100133653003300154653004100187100001500228700001800243700002000261700001800281700001700299700002100316700002000337700001900357245008800376856005600464490000600520520126100526       2013                            d  c03/201310aBrachypodium sylvaticum10acomparative genomics10ade novo transcriptome10ainvasive species10asimple sequence repeat (SSR)10asingle-nucleotide polymorphism (SNP)1 aSamuel Fox1 aJustin Preece1 aJeffrey Kimbrel1 aGina Marchini1 aAbigail Sage1 aKen Youens-Clark1 aMitchell Cruzan1 aPankaj Jaiswal00aSEQUENCING AND DE NOVO TRANSCRIPTOME ASSEMBLY OF BRACHYPODIUM SYLVATICUM (POACEAE )  uhttp://www.bioone.org/doi/full/10.3732/apps.12000110 v13 a<b>Premise of the study:</b> We report the de novo assembly and characterization of the transcriptomes of Brachypodium sylvaticum (slender false-brome) accessions from native populations of Spain and Greece, and an invasive population west of Corvallis, Oregon, USA.

<b>Methods and Results:</b> More than 350 million sequence reads from the mRNA libraries prepared from three B. sylvaticum genotypes were assembled into 120,091 (Corvallis), 104,950 (Spain), and 177,682 (Greece) transcript contigs. In comparison with the B. distachyon Bd21 reference genome and GenBank protein sequences, we estimate >90% exome coverage for B. sylvaticum. The transcripts were assigned Gene Ontology and InterPro annotations. Brachypodium sylvaticum sequence reads aligned against the Bd21 genome revealed 394,654 single-nucleotide polymorphisms (SNPs) and >20,000 simple sequence repeat (SSR) DNA sites.

<b>Conclusions:</b> To our knowledge, this is the first report of transcriptome sequencing of invasive plant species with a closely related sequenced reference genome. The sequences and identified SNP variant and SSR sites will provide tools for developing novel genetic markers for use in genotyping and characterization of invasive behavior of B. sylvaticum.