Open Access Highly Accessed Research article

Rapid transcriptome characterization and parsing of sequences in a non-model host-pathogen interaction; pea-Sclerotinia sclerotiorum

Xiaofeng Zhuang1, Kevin E McPhee2, Tristan E Coram3, Tobin L Peever4 and Martin I Chilvers1*

Author Affiliations

1 Department of Plant, Soil and Microbial Sciences, Michigan State University, 1066 Bogue Street, East Lansing, MI, USA

2 Department of Plant Sciences, North Dakota State University, 370G Loftsgard Hall, Fargo, ND, USA

3 Dow AgroSciences LLC, 9330 Zionsville Road, Indianapolis, IN, USA

4 Department of Plant Pathology, Washington State University, Pullman, WA, USA

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BMC Genomics 2012, 13:668  doi:10.1186/1471-2164-13-668

Published: 26 November 2012

Additional files

Additional file 1:

Fasta files for 10158 contigs (pea and Sclerotinia ESTs), parsed into ambiguous contigs (1a), no blast-hit contigs (1b), pea contigs (1c) andS. sclerotiorumcontigs (1d).

Format: ZIP Size: 628KB Download file

Open Data

Additional file 2:

S. sclerotiorumEST contigs encoding potential secretory/signal peptides.

Format: DOCX Size: 40KB Download file

Open Data

Additional file 3:

Comparison of BLASTn and tBLASTx method to assign artificial EST mixture of pea-S. sclerotiorum(including 18,490 pea ESTs and 17,198 S. sclerotiorumESTs).

Format: DOCX Size: 17KB Download file

Open Data

Additional file 4:

The assignment results of an artificial EST mixture using the tBlastx method against 7 fungal genome databases and theS. sclerotiorumgenome only.

Format: DOCX Size: 17KB Download file

Open Data

Additional file 5:

Comparison of different e-value ratios (fungi/plant) to distinguish species ESTs from the artificial EST mixture.

Format: DOCX Size: 18KB Download file

Open Data