Development and characterization of genomic and expressed SSRs for levant cotton (Gossypium herbaceum L.).
Four microsatellite-enriched genomic libraries for CA(15), GA(15), AAG(8) and ATG(8) repeats and transcriptome sequences of five cDNA libraries of Gossypium herbaceum were explored to develop simple sequence repeat (SSR) markers. A total of 428 unique clones from repeat enriched genomic libraries were mined for 584 genomic SSRs (gSSRs). In addition, 99,780 unigenes from transcriptome sequencing were explored for 8,900 SSR containing sequences with 12,471 expressed SSRs. The present study adds 1,970 expressed SSRs and 263 gSSRs to the public domain for the use of genetic studies of cotton. When 150 gSSRs and 50 expressed SSRs were tested on a panel of four species of cotton, 68 gSSRs and 12 expressed SSRs revealed polymorphism. These 200 SSRs were further deployed on 15 genotypes of levant cotton for the genetic diversity assessment. This is the first report on the successful use of repeat enriched genomic library and expressed sequence database for microsatellite markers development in G. herbaceum.
Plant Molecular Biology and Genetic Engineering Laboratory, National Botanical Research Institute, Rana Pratap Marg, Lucknow, India.
Satya Narayan
SN
Jena
Anukool
A
Srivastava
Krishan Mohan
KM
Rai
Alok
A
Ranjan
Sunil K
SK
Singh
Tarannum
T
Nisar
Meenal
M
Srivastava
Sumit K
SK
Bag
Shrikant
S
Mantri
Mehar Hasan
MH
Asif
Hemant Kumar
HK
Yadav
Rakesh
R
Tuli
Samir V
SV
Sawant
D001483:Base Sequence; D016000:Cluster Analysis; D019295:Computational Biology; D057225:Data Mining; D015723:Gene Library; D023281:Genomics / Q000379:methods; D003368:Gossypium / Q000235:genetics*; D018895:Microsatellite Repeats / Q000235:genetics*; D008969:Molecular Sequence Data; D010641:Phenotype; D011110:Polymorphism, Genetic; D017422:Sequence Analysis, DNA