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United States Department of Agriculture

Agricultural Research Service

Research Project: IMPROVEMENT OF PEST RESISTANCE AND QUALITY TRAITS OF SOYBEAN Title: Development of Soybean Aphid Genomic and EST-SSR Markers using Next Generation Sequencing

Authors
item Jun, Tae-Hwan -
item Michel, Andrew -
item Mittapalli, Om Prakash -
item Bai, Xiaodong -
item Mian, Rouf

Submitted to: Meeting Abstract
Publication Type: Abstract Only
Publication Acceptance Date: July 30, 2013
Publication Date: N/A

Technical Abstract: The soybean aphid (Aphis glycines Matsumura) has become the most damaging insect pest of soybean in most of North American soybean growing regions. Biotypes of soybean aphid capable of breaking down the resistance of newly developed aphid resistant soybean cultivars were discovered recently. But genetic resources, including molecular markers, to study soybean aphids are severely lacking. The objectives of this study are to develop simple sequence repeat (SSR) markers via next generation sequencing platforms and to evaluate the utility of the SSRs for genetic diversity or relationship analyses. One hundred twenty eight SSR primer pairs were designed from sequences generated by Illumina GAII from a reduced representation library of A. glycines. Approximately 94% (120) of the primers amplified SSR alleles of expected size and 24 SSRs were polymorphic among three aphid samples of three populations. The polymorphic SSRs were successfully used to differentiate among 24 soybean aphids from Ohio and South Dakota. Sequencing of PCR products of two SSR markers from 4 aphid samples revealed that the allelic polymorphism was due to variation in the SSR repeats among the aphids. Also, 342 EST-derived SSRs were designed from the transcriptomic sequences of A. glycines obtained by Roche-454. A relatively low frequency of polymorphic SSRs was detected as compared with the analysis of genomic SSRs. The PCR based co-dominant SSR markers developed from the genomic and transcriptomic sequences of A. glycines should be particularly useful for genetic differentiation among soybean aphids collected from different locations.

Last Modified: 10/24/2014
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