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http://dx.doi.org/10.5352/JLS.2012.22.12.1644

Polymorphisms and Allele Distribution of Novel Indel Markers in Jeju Black Cattle, Hanwoo and Imported Cattle Breeds  

Han, Sang-Hyun (Subtropical Animal Experiment Station, National Institute of Animal Science, RDA)
Kim, Jae-Hwan (Animal Genetic Resources Station, National Institute of Animal Science, RDA)
Cho, In-Cheol (Subtropical Animal Experiment Station, National Institute of Animal Science, RDA)
Cho, Sang-Rae (Subtropical Animal Experiment Station, National Institute of Animal Science, RDA)
Cho, Won-Mo (Subtropical Animal Experiment Station, National Institute of Animal Science, RDA)
Kim, Sang-Geum (Subtropical Animal Experiment Station, National Institute of Animal Science, RDA)
Kim, Yoo-Kyung (Subtropical Animal Experiment Station, National Institute of Animal Science, RDA)
Kang, Yong-Jun (Subtropical Animal Experiment Station, National Institute of Animal Science, RDA)
Park, Yong-Sang (Subtropical Animal Experiment Station, National Institute of Animal Science, RDA)
Kim, Young-Hoon (Institute for Livestock Promotion)
Park, Se-Phil (Mirae Biotech. Co./Jeju National University Stem Cell Research Center)
Kim, Eun-Young (Mirae Biotech. Co./Jeju National University Stem Cell Research Center)
Lee, Sung-Soo (Animal Biotechnology Division, National Institute of Animal Science, RDA)
Ko, Moon-Suck (Subtropical Animal Experiment Station, National Institute of Animal Science, RDA)
Publication Information
Journal of Life Science / v.22, no.12, 2012 , pp. 1644-1650 More about this Journal
Abstract
The aim of this study was to screen the polymorphisms and distribution of each genotype of insertion/ deletion (indel) markers which were found in a preliminary comparative study of bovine genomic sequence databases. Comparative bioinformatic analyses were first performed between the nucleotide sequences of Bovine Genome Project and those of expressed sequence tag (EST) database, and a total of fifty-one species of indel markers were screened. Of these, forty-two indel markers were evaluated, and nine informative indel markers were ultimately selected for population analysis. Nucleotide sequences of each marker were re-sequenced and their polymorphic patterns were typed in six cattle breeds: Holstein, Angus, Charolais, Hereford, and two Korean native cattle breeds (Hanwoo and Jeju Black cattle). Cattle breeds tested in this study showed polymorphic patterns in eight indel markers but not in the Indel-15 marker in Charolais and Holstein. The results of analysis for Jeju Black cattle (JBC) population indicated an observed heterozygosity (Ho) that was highest in HW_G1 (0.600) and the lowest in Indel_29 (0.274). The PIC value was the highest in HW_G4 (0.373) and lowest in Indel_6 (0.305). These polymorphic indel markers will be useful in supplying genetic information for parentage tests and traceability and to develop a molecular breeding system for improvement of animal production in cattle breeds as well as in the JBC population.
Keywords
Indel marker; polymorphism; genotype; cattle; Jeju black cattle;
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