Development of simple sequence repeat markers for bermudagrass from its expressed sequence tag sequences and preexisting sorghum SSR markers

2010 ◽  
Vol 29 (1) ◽  
pp. 23-30 ◽  
Author(s):  
Chengcheng Tan ◽  
Yanqi Wu ◽  
Charles M. Taliaferro ◽  
Michael P. Anderson ◽  
Chuck Tauer ◽  
...  
Keyword(s):  
Ssr Markers ◽  
Simple Sequence Repeat ◽  
Expressed Sequence Tag ◽  
Sequence Repeat ◽  
Simple Sequence Repeat Markers ◽  
Expressed Sequence ◽  
Simple Sequence

Characterization of expressed sequence tag-derived simple sequence repeat markers for 17 Linum species

Botany ◽  
2010 ◽  
Vol 88 (5) ◽  
pp. 537-543 ◽  
Author(s):  
Yong-Bi Fu ◽  
Gregory W. Peterson
Keyword(s):  
Simple Sequence Repeat ◽  
Expressed Sequence Tag ◽  
Sequence Repeat ◽  
Simple Sequence Repeat Markers ◽  
Linum Usitatissimum L ◽  
Evolutionary Studies ◽  
Expressed Sequence ◽  
Simple Sequence ◽  
Cultivated Flax

One major challenge in genetic and evolutionary studies of wild flax species is the lack of informative molecular markers. A set of 100 informative expressed sequence tag-derived simple sequence repeat (EST-SSR) primer pairs developed in cultivated flax ( Linum usitatissimum L.) were characterized on 35 Linum accessions representing 17 Linum species for their transferability to other Linum species. Ninety-nine primer pairs displayed scorable polymorphisms across 35 Linum samples and generated 627 bands likely from 121 loci. About 50% of the detected bands occurred only in three or fewer samples. A total of 393 bands, likely from 116 loci, were detected by 97 primer pairs in Linum bienne Mill. samples, but only up to 60 bands, likely from up to 39 loci, were revealed by 6 to 37 primer pairs in the samples of the other 15 Linum species. The L. bienne samples displayed 23.7% more EST-SSR variation than the L. usitatissimum samples. These characterized EST-SSR markers should be useful for future genetic diversity and evolutionary studies of Linum species, particularly for the progenitor of cultivated flax.

scholarly journals Genetic Diversity Analysis and Single-nucleotide Polymorphism Marker Development in Cultivated Bulb Onion Based on Expressed Sequence Tag–Simple Sequence Repeat Markers

2008 ◽  
Vol 133 (6) ◽  
pp. 810-818 ◽  
Author(s):  
John McCallum ◽  
Susan Thomson ◽  
Meeghan Pither-Joyce ◽  
Fernand Kenel ◽  
Andrew Clarke ◽  
...  
Keyword(s):  
Ssr Markers ◽  
Simple Sequence Repeat ◽  
Expressed Sequence Tag ◽  
Snp Markers ◽  
Sequence Repeat ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Bulb Onion ◽  
Expressed Sequence ◽  
Simple Sequence

Bulb onion (Allium cepa L.) is a globally significant crop, but the structure of genetic variation within and among populations is poorly understood. We broadly surveyed genetic variation in a cultivated onion germplasm using simple sequence repeat (SSR) markers and sequenced regions flanking expressed sequence tag (EST)-SSRs to develop single-nucleotide polymorphism (SNP) markers. Samples from 89 inbred and open-pollinated (OP) bulb onion populations of wide geographical adaptation and four related Allium L. accessions were genotyped with 56 EST-SSR and four genomic SSR markers. Multivariate analysis of genetic distances among populations resolved long-day, short-day, and Indian populations. EST-SSR markers frequently revealed two major alleles at high frequency in OP populations. The median proportion of single-locus polymorphic loci was 0.70 in OP and landrace populations compared with 0.43 in inbred lines. Resequencing of 24 marker amplicons revealed additional SNPs in 17 (68%) and five SNP assays were developed from these, suggesting that resequencing of EST markers can readily provide SNP markers for purity testing of inbreds and other applications in Allium genetics.

scholarly journals Large-scale development of expressed sequence tag-derived simple sequence repeat markers and diversity analysis in Arachis spp.

2011 ◽  
Vol 30 (1) ◽  
pp. 125-138 ◽  
Author(s):  
Padmalatha Koilkonda ◽  
Shusei Sato ◽  
Satoshi Tabata ◽  
Kenta Shirasawa ◽  
Hideki Hirakawa ◽  
...  
Keyword(s):  
Scale Development ◽  
Simple Sequence Repeat ◽  
Large Scale ◽  
Expressed Sequence Tag ◽  
Diversity Analysis ◽  
Sequence Repeat ◽  
Simple Sequence Repeat Markers ◽  
Expressed Sequence ◽  
Simple Sequence

scholarly journals Developing expressed sequence tag libraries and the discovery of simple sequence repeat markers for two species of raspberry (Rubus L.)

2015 ◽  
Vol 15 (1) ◽  
Author(s):  
Jill M. Bushakra ◽  
Kim S. Lewers ◽  
Margaret E. Staton ◽  
Tetyana Zhebentyayeva ◽  
Christopher A. Saski
Keyword(s):  
Simple Sequence Repeat ◽  
Expressed Sequence Tag ◽  
Sequence Repeat ◽  
Simple Sequence Repeat Markers ◽  
Expressed Sequence ◽  
Simple Sequence

Development and mapping of functional expressed sequence tag-derived simple sequence repeat markers in a rubber tree RRIM600 × PB217 population

2016 ◽  
Vol 36 (4) ◽  
Author(s):  
Kanlaya Nirapathpongporn ◽  
Panida Kongsawadworakul ◽  
Unchera Viboonjun ◽  
Kanikar Teerawattanasuk ◽  
Hervé Chrestin ◽  
...  
Keyword(s):  
Simple Sequence Repeat ◽  
Expressed Sequence Tag ◽  
Rubber Tree ◽  
Sequence Repeat ◽  
Simple Sequence Repeat Markers ◽  
Expressed Sequence ◽  
Simple Sequence
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