Research output: Contribution to journal › Article › peer-review
Targeted Sequencing for Studying Economically Useful Traits and Phylogenetic Diversity of Ancient Sheep. / Kechin, A. A.; Dymova, M. A.; Tishkin, A. A. et al.
In: Russian Journal of Genetics, Vol. 55, No. 12, 01.12.2019, p. 1499-1505.Research output: Contribution to journal › Article › peer-review
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TY - JOUR
T1 - Targeted Sequencing for Studying Economically Useful Traits and Phylogenetic Diversity of Ancient Sheep
AU - Kechin, A. A.
AU - Dymova, M. A.
AU - Tishkin, A. A.
AU - Grushin, S. P.
AU - Dashkovskiy, P. K.
AU - Filipenko, M. L.
N1 - Publisher Copyright: © 2019, Pleiades Publishing, Inc.
PY - 2019/12/1
Y1 - 2019/12/1
N2 - Sheep were one of the first animals to be domesticated. The history of sheep domestication and their widespread distribution dates to about ten thousand years ago, during which sheep exhibit both physical changes and modifications at the genetic level. The authors developed a system of 49 oligonucleotide primers for targeted Next Generation Sequencing (NGS) of genetic loci for phylogenetic analysis and identifying economically useful traits. Altogether, NGS libraries were prepared and sequenced on an Illumina MiSeq platform(Illumina) for 48 samples, for 40 of which it was possible to determine phylogenetic lineages: 28 belonged to haplogroup B, 10 to haplogroup A, and one sample each to haplogroups C and D. Study of the genes associated with economically useful traits revealed the samples with nucleotide substitutions in the MC1R gene leading to black coat color: two samples with c.218T>A, one with c.361G>A, and two with both substitutions simultaneously, as well as one sample with the substitution in the GDF8 gene associated with muscle hypertrophy and one with the substitution in the TYRP1 gene associated with brown coat color. The data obtained confirm a high genetic diversity of sheep from ancient southwestern Siberia and the utility of targeted sequencing for the study of ancient DNA samples.
AB - Sheep were one of the first animals to be domesticated. The history of sheep domestication and their widespread distribution dates to about ten thousand years ago, during which sheep exhibit both physical changes and modifications at the genetic level. The authors developed a system of 49 oligonucleotide primers for targeted Next Generation Sequencing (NGS) of genetic loci for phylogenetic analysis and identifying economically useful traits. Altogether, NGS libraries were prepared and sequenced on an Illumina MiSeq platform(Illumina) for 48 samples, for 40 of which it was possible to determine phylogenetic lineages: 28 belonged to haplogroup B, 10 to haplogroup A, and one sample each to haplogroups C and D. Study of the genes associated with economically useful traits revealed the samples with nucleotide substitutions in the MC1R gene leading to black coat color: two samples with c.218T>A, one with c.361G>A, and two with both substitutions simultaneously, as well as one sample with the substitution in the GDF8 gene associated with muscle hypertrophy and one with the substitution in the TYRP1 gene associated with brown coat color. The data obtained confirm a high genetic diversity of sheep from ancient southwestern Siberia and the utility of targeted sequencing for the study of ancient DNA samples.
KW - ancient DNA
KW - archaeology of Siberia
KW - D-loop
KW - economically useful traits
KW - mitochondrial DNA
KW - NGS
KW - SNP
KW - targeted sequencing
UR - http://www.scopus.com/inward/record.url?scp=85078342138&partnerID=8YFLogxK
U2 - 10.1134/S102279541912007X
DO - 10.1134/S102279541912007X
M3 - Article
AN - SCOPUS:85078342138
VL - 55
SP - 1499
EP - 1505
JO - Russian Journal of Genetics
JF - Russian Journal of Genetics
SN - 1022-7954
IS - 12
ER -
ID: 23262071