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ARS Home » Pacific West Area » Pullman, Washington » Grain Legume Genetics Physiology Research » Research » Publications at this Location » Publication #271137
Title: Comparative transcriptome analysis in Sclerotinia sclerotiorum and S. trifoliorum by 454 Titanium RNA sequencing

Author
item QIU, DAN - Washington State University
item Vandemark, George
item Chen, Weidong

Submitted to: Phytopathology
Publication Type: Abstract Only
Publication Acceptance Date: 5/1/2011
Publication Date: 6/1/2011
Citation: Qiu, D., Vandemark, G.J., Chen, W. 2011. Comparative transcriptome analysis in Sclerotinia sclerotiorum and S. trifoliorum by 454 Titanium RNA sequencing. Phytopathology. 101:S148.

Interpretive Summary:

Technical Abstract: Sclerotinia sclerotiorum and S. trifoliorum are two closely related devastating plant pathogens. Extensive research has been conducted on S. sclerotiorum and its genome sequences are available. To take advantages of the genomic information of S. sclerotiorum, we compared the transcriptome of S. trifoliorum with that of S. sclerotiorum in order to gain a better understanding of the biology of both species. Total transcripts of both species during vegetative growth were extracted and sequenced using the latest 454 Titanium RNA sequencing technology. A total of 23325 unique transcripts with average length of 534 nt (12.5 mb genome coverage) were obtained from S. sclerotiorum, whereas 21214 unique transcripts with average length of 509 nt (10.8 mb genome coverage) were obtained from S. trifoliorum. About 80% of the unique transcripts of both species were found in the S. sclerotiorum genome database, and about 60% of the transcripts were found between the two species. About 150 transcripts from each species were found in DNA regions that are not considered as coding regions, and 15 of those transcripts were the same in both species, suggesting they are functional. Twenty-eight contigs (transcripts with more than one read) of S. trifoliorum were not found in the S. sclerotiorum genome database. Additionally, differences in expressed genes involved in pathogenesis like oxalate biosynthesis and endopolygalacturonases were detected between the two species.