Full TGIF Record # 274914
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Web URL(s):http://www.grasslandoregon.com/assets/molecular-breeding-of-forage-and-turf.pdf#page=87
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Author(s):Amundsen, Keenan; Brown, Jesse; Wachholtz, Michael; Amaradasa, B. Sajeewa; Lu, Guoqing; Twigg, Paul; Heng-Moss, Tiffany
Author Affiliation:Amundsen, Brown, Amaradasa, and Heng-Moss: University of Nebraska-Lincoln, Lincoln; Wachholtz and Lu: University of Nebraska-Omaha, Omaha; Twigg: University of Nebraska-Kearney, Kearney, Nebraska
Title:Rapid SSR marker development in buffalograss
Section:Poster abstracts
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Meeting Info.:Salt Lake City, Utah: June 4-7, 2012
Source:Proceedings of the 7th International Symposium on the Molecular Breeding of Forage and Turf. 2012, p. 87.
# of Pages:1
Publishing Information:s.l.: s.n.
Keywords:TIC Keywords: Bouteloua dactyloides; Genetic markers; Simple sequence repeats; Turfgrass profile
Abstract/Contents:"Buffalograss (Buchloe dactyloides) is an important low input sustainable turfgrass species, native to North America. There are limited genomic resources available for studying buffalograss. Next generation sequencing provides a platform for increased access to sequence data at reduced costs and can be used to study species with little to no upfront sequence knowledge. The large amounts of sequence data generated from a single next generation sequencing experiment can be leveraged for expanding genomic resources and genetic marker development. In this study, 454 and Illumina sequencing was performed on Prestige and 378 buffalograss varieties. A total of 79.6 Mb and 9.5 Gb of transcriptome sequence data were generated from the 454 and Illumina sequencing respectively. A hybrid de novo assembly resulted in 560,720 Prestige and 356,547 378 contigs. After filtering the sequences based on length and sequence similarity criteria, 81,070 378 and 129,692 Prestige sequences remained. The software program RepeatMasker identified 3,748 simple sequence repeat (SSR) containing sequences from 378 and 7,611 from Prestige. Two and three bp repeats were the dominant SSR types. Reciprocal BLAST searches were performed and 1,586 homologous SSR-containing sequences were identified between the two varieties. In silico analysis was done to identify near identical sequences from Prestige and 378 that differed only by copy number of the simple sequence repeat. Flanking PCR primers were designed by Primer3 for each SSR and a subset was amplified on the parents from three experimental genetic linkage mapping populations. More than 92% of the SSR markers amplified a product in the expected size range. This approach allowed for rapid development of sequence specific SSR genetic markers and greatly increased the transcriptome sequence information available for future buffalograss studies."
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"ISBN: 978-1-4675-4762-8"
ASA/CSSA/SSSA Citation (Crop Science-Like - may be incomplete):
Amundsen, K., J. Brown, M. Wachholtz, B. S. Amaradasa, G. Lu, P. Twigg, et al. 2012. Rapid SSR marker development in buffalograss. Proceedings of the 7th International Symposium on the Molecular Breeding of Forage and Turf. p. 87.
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    Last checked: 09/02/2016
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