Data mining for simple sequence repeats in expressed sequence tags from barley, maize, rice, sorghum and wheat

By R. Kantety, Mauricio La Rota, D. Matthews, M. Sorrells. Plant Molecular Biology, 2002

665 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/73351322cb3316816efbd900deb2130d5f869880

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Citations in the corpus

Importance of Genetic Diversity Assessment in Crop Plants and Its Recent Advances: An Overview of Its Analytical Perspectives (2015, background): “Gene banks need to include different characteristics in their screening processes and their collections need to be comprehensive, including what are now considered minor crops, and that may come with huge impact on food baskets.”
Progress and prospects of marker assisted backcrossing as a tool in crop breeding programs (2006, background): “kers in the future (Gupta et al., 2001; Kantety et al., 2002).”
Transfer of simple sequence repeat (SSR) markers from major cereal crops to minor grass species for germplasm characterization and evaluation (2005, background): “SSR sequences have also been identified within expressed sequence tags (ESTs), and many of these have been exploited to generate ‘EST-SSR’ markers (Kantety et al., 2002) which have been used for comparative framework mapping in wheat and rice (Yu et al., 2004).”
Generation of expressed sequence tags (ESTs) for gene discovery and marker development in cultivated peanut (2005, neutral): “3 (positive internal control), 2-Aller-et al., 2001; Kantety et al., 2002).”
An overview of molecular marker methods for plants (2006, background): “Recently, a new alternative source of SSRs development from expressed sequence tag (EST) databases has been utilized (Kota et al., 2001; Kantety et al., 2002; Michalek et al., 2002).”
The genetic dissection of quantitative traits in crops (2010, background): “…in databases is growing rapidly (especially from genome sequencing projects), and the accumulation of these sequences will be extremely useful for the discovery of single nucleotide polymorphisms (SNPs) and data mining for new markers in the future (Gupta et al. 2001; Kantety et al. 2002).”
Genic microsatellite markers in plants: features and applications. (2005, methodology): “For example, ESTs have been scanned for the presence of SSRs in Arabidopsis [16], cotton [17,18], Festuca species [19] ,g rapes[9], Medicago species [20] ,s oybean[21] ,s ugarcane[22], spruce [23] and cereals including barley [11‐13,17,24], maize [13,16,21,24], rice [10,13,16,17, 24 ], rye [13,15,25”
In silico analysis on frequency and distribution of microsatellites in ESTs of some cereal species. (2002, background): “Finally, the in silico identification of homoeologous EST sequences in related grass genomes will provide a powerful approach to study marker synteny [28].”
Microsatellite markers: an overview of the recent progress in plants (2011, background): “In another study, Varshney et al. (2009) generated a total of 20,162 droughtand salinity-responsive ESTs from ten different root tissue cDNA libraries of chickpea.”
Development, characterization and cross-species/genera transferability of EST-SSR markers for rubber tree (Hevea brasiliensis) (2008, background): “EST-SSR frequency was *1/2.25 kb for rubber tree transcriptome, which was higher than that of wheat (15.6 kb) ( Kantety et al. 2002 ), barley (*1/6.3 kb) (Thiel et al. 2003), and Arabidopsis thaliana (*1/ 13.83 kb), tomato (*1/11.1 kb), cotton (*1/20.0 kb), soybean (*1/7.4 kb) and poplar (*1/14.0 kb”
An introduction to markers, quantitative trait loci (QTL) mapping and marker-assisted selection for crop improvement: The basic concepts (2005, background): “…genomic sequences available in databases is growing rapidly (especially from genome sequencing projects e.g. rice), and the accumulation of these sequences will be extremely useful for the discovery of SNPs and data mining for new markers in the future (Gupta et al., 2001; Kantety et al., 2002).”
Genetic linkage maps of rose constructed with new microsatellite markers and locating QTL controlling flowering traits (2007, result): “This frequency is comparable to those obtained for Vitis (2.5%, Scott et al. 2000), maize and rice (1.5 and 4.7%, respectively, Kantety et al. 2002) and recently for the Rosaceae species (4%, Jung et al. 2005 ) but lower than those reported in Capsicum (10.5%, Huang et al. 2001) and wheat (7.5%, Ni”
EST-derived SSR markers in Jatropha curcas L.: development, characterization, polymorphism, and transferability across the species/genera (2011, background): “(3.4%), wheat (3.6%), sorghum (3.6%), and rice (4.7%) ( Kantety et al. 2002 ).”
Microsatellites and their genomic distribution, evolution, function and applications : A review with special reference to fish genetics (2006, background): “In order to hypothesize about putative functions of SSR-containing genes, these sequences are needed for comparison to the database of amino acid sequences (Kantety et al., 2002; Thiel et al., 2003).”
Molecular markers: It’s application in crop improvement (2009, background): “Most of the large scale, multi species in silico mining efforts for developing EST-SSRs seem to have focused primarily on monocotyledonous crops (Kantety et al. 2002), although ESTs of a few dicot species have been explored for SSR mining (Varshney et al. 2005).”
Functional integrated genetic linkage map based on EST-markers for a sugarcane (Saccharum spp.) commercial cross (2007, background): “Recent studies revealed that gene transcripts can also contain SSRs, and the abundance of Expressed Sequence Tags (ESTs) has become an attractive potential source of microsatellite markers (Kantley et al. 2002).”