Identification of microsatellites in cattle unigenes.
To identify EST-SSR molecular markers, 41,986 cattle UniGene sequences from NCBI were mined for analyzing SSRs. A total of 1,831 SSRs were identified from 1,666 ESTs, which represented an average density of 19.88 kb per SSR. The frequency of EST-SSRs was 4.0%. The dinucleotide repeat motif was the most abundant SSR, accounting for 54%, followed by 22%, 13%, 7% and 4%, respectively, for tri-, hexa-, penta- and tetra-nucleotide repeats. Depending upon the length of the repeat unit, the length of microsatellites varied from 14 to 86 bp. Among the di- and tri-nucleotide repeats, AC/TG (57%) and AGC (12%) were the most abundant type. Annotation of EST-SSRs was also carried out. Three hundred primer pairs were randomly designed using Prime Premier 5.0 program and Oligo 5.0 for further experimental validation.
Yan
Qiuliang
Q
College of Animal Science and Technology, Northwest A & F University, Yangling 712100, China.
Zhang
Yinghan
Y
Li
Hongbin
H
Wei
Caihong
C
Niu
Lili
L
Guan
Shan
S
Li
Shangang
S
Du
Lixin
L
D000818:Animals; D001947:Breeding; D002417:Cattle / Q000235:genetics*; D030541:Databases, Genetic; D018900:Dinucleotide Repeats; D020224:Expressed Sequence Tags; D005819:Genetic Markers / Q000235:genetics; D018895:Microsatellite Repeats; D018911:Trinucleotide Repeats
D005819:Genetic Markers