Abstract Detail

Genomics / Proteomics

Egan, Ashley N. [1], Vatanparast, Mohammad [1], Shetty, Prateek [2], Chopra, Ratan [3], Doyle, Jeff [4], Sathyanarayana, N. [5].

Transcriptome sequencing and marker development in winged bean (Psophocarpus tetragonolobus; Leguminosae).

Winged bean, Psophocarpus tetragonolobus (L.) DC, is similar to soybean in yield and nutritional value but is more adaptable to tropical conditions. Here, we strengthen genetic resources for this orphan crop by producing a de novo transcriptome assembly and annotation of Sri Lankan accessions, developing simple sequence repeat (SSR) markers, and identifying single nucleotide polymorphisms (SNPs) between geographically separated genotypes. A combined assembly based on 804,757 reads from two accessions produced 16,115 contigs with an N50 of 889 bp, over 90% of which has significant sequence similarity to other legumes. Combining contigs with singletons produced 97,241 transcripts. We identified 12,956 SSRs, including 2,594 repeats for which primers were designed and 13,091 high-confidence SNPs between Sri Lankan and Nigerian genotypes. The transcriptomic data sets generated here provide new resources for gene discovery and marker development in this orphan crop, and will be vital for future plant breeding efforts. We also analyzed the soybean trypsin inhibitor (STI) gene family, important plant defense genes, in the context of related legumes and found evidence for radiation of the Kunitz trypsin inhibitor (KTI) gene family within winged bean.

1 - Smithsonian Institution - NMNH, Botany, 10th and Constitution Ave, MRC 166, Washington, DC, 20013, USA
2 - Michigan State University, Plant Biology, 612 Wilson Rd, Room 166, East Lansing, MI, 48824, USA
3 - United States Department of Agriculture, Agriculture Research Service, 3810 4th St, Lubbock, TX, 79415, USA
4 - Cornell University, 412 Mann Library Building, ITHACA, NY, 14853-4301, USA
5 - Sikkim University, Botany, 5th Mile, Tadong, Gangtok, Sikkim, 737102, India

Keywords:
Fabaceae
Psophocarpus tetragonolobus
Transcriptomics
Roche 454 pyrosequencing
genetic resources.

Presentation Type: Oral Paper
Session: 19, Genomics & Proteomics I
Location: 105/Savannah International Trade and Convention Center
Date: Tuesday, August 2nd, 2016
Time: 8:00 AM
Number: 19001
Abstract ID:178
Candidate for Awards:None