Nuclear and Mitochondrial Marker-Based Population Structure of the Goats in the Urals and the Central Region of Russia

Afanas’eva, A.I., Hormonal mechanisms of seasonal adaptive changes in Gornoaltaiskaya down goat breed, Sib. Vestn. S-kh. Nauki, 2005, no. 4, pp. 121—125.

Zobel, G., Neave, H.W., and Webster, J., Understanding natural behavior to improve dairy goat (Capra hircus) management systems, Transl. Anim. Sci., 2019, vol. 3, no. 1, pp. 212—224.

Article  PubMed  Google Scholar 

Feofilov, A.V., Yuldashbaev, Yu.A., and Glazko, V.I., Domestications of farm animals, Nov. Nauki Kaz., 2014, no. 1, pp. 84—99.

Glazko, V.I., Kosovskii, G.Yu., and Glazko, T.T., Domestication as a genetic phenomenon, Krolikovod. Zverovod., 2018, no. 1, pp. 5—8.

Dubeuf, J.P., Morales, F.A.R., and Guerrero, Y.M., Evolution of goat production systems in the Mediterranean basin: between ecological intensification and ecologically intensive production systems, Small Ruminant Res., 2018, vol. 163, pp. 2—9.

Article  Google Scholar 

Liu, M., Zhou, Y., Rosen, B.D., et al., Diversity of copy number variation in the worldwide goat population, Heredity, 2019, pp. 636—646. https://doi.org/10.1038/s41437-018-0150-6

Colli, L., Milanesi, M., Talenti, A., et al., Genome-wide SNP profiling of worldwide goat populations reveals strong partitioning of diversity and highlights post-domestication migration routes, Genet. Sel. Evol., 2018, pp. 1—20. https://doi.org/10.1186/s12711-018-0422-x

Beketov, S.V., Piskunov, A.K., Voronkova, V.N., et al., Genetic diversity and phylogeny of fleece-bearing goats of Central and Middle Asia, Russ. J. Genet., 2021, vol. 57, no. 7, pp. 810—819. https://doi.org/10.1134/S1022795421070036

Article  Google Scholar 

Shatalov, V.A., Stages of development of dairy goat breeding in Russia, Ovtsy, Kozy, Sherst. Delo, 2012, no. 4, pp. 17—20.

Chikalev, A.I., Kozovodstvo: uchebnik dlya vuzov (Goat Breeding: Textbook for Universities), GEOTAR-Media, 2012.

Voronkova, V.N., Piskunov, A.K., Nikolaeva, E.A., et al., Haplotype diversity of Mongolian and Tuvan goat breeds (Capra hircus) based on mtDNA and Y-chromosome polymorphism, Russ. J. Genet., 2021, vol. 57, no. 10, pp. 1170—1178. https://doi.org/10.1134/S102279542110015X

Article  CAS  Google Scholar 

Adamack, A.T. and Gruber, B., PopGenReport: simplifying basic population genetic analyses in R, Methods Ecol. Evol., 2014, vol. 5, no. 4, pp. 384—387.

Article  Google Scholar 

Jombart, T., Adegenet: a R package for the multivariate analysis of genetic markers, Bioinformatics, 2008, vol. 24, no. 11, pp. 1403—1405. https://doi.org/10.1093/bioinformatics/btn129

Article  CAS  PubMed  Google Scholar 

Peakall, R. and Smouse, P.E., GenAlEx 6: genetic analysis in Excel. Population genetic software for teaching and research, Mol. Ecol. Notes, 2006, vol. 6, pp. 288—295. https://doi.org/10.1111/j.1471-8286.2005.01155.x

Article  Google Scholar 

Luikart, G., Gielly, L., Excoffier, L., et al., Multiple maternal origins and weak phylogeographic structure in domestic goats, Proc. Natl. Acad. Sci. U.S.A., 2001, vol. 98, no. 10, pp. 5927—5932. https://doi.org/10.1073/pnas.091591198

Article  CAS  PubMed  PubMed Central  Google Scholar 

Waki, A., Sasazaki, S., Kobayashi, E., and Mannen, H., Paternal phylogeography and genetic diversity of East Asian goats, Anim. Genet., 2015, vol. 46, no. 3, pp. 337—339. https://doi.org/10.1111/age.12293

Article  CAS  PubMed  Google Scholar 

Vidal, O., Drögemüller, C., Obexer-Ruff, G., et al., Differential distribution of Y-chromosome haplotypes in Swiss and Southern European goat breeds, Sci. Rep., 2017, vol. 7, no. 1, p. 16161. https://doi.org/10.1038/s41598-017-15593-1

Article  CAS  PubMed  PubMed Central  Google Scholar 

Tabata, R., Kawaguchi, F., Sasazaki, S., et al., The Eurasian steppe is an important goat propagation route: a phylogeographic analysis using mitochondrial DNA and Y-chromosome sequences of Kazakhstani goats, Anim. Sci. J., 2018, vol. 90, pp. 317—322. https://doi.org/10.1111/asj.13144

Article  CAS  PubMed  Google Scholar 

Chen, C., Lu, B., Huang, X., et al., sangeranalyseR: simple and interactive analysis of Sanger sequencing data in R, bioRxiv, 2020.

Okonechnikov, K., Golosova, O., and Fursov, M., Unipro UGENE: a unified bioinformatics toolkit, Bioinformatics, 2012, vol. 28, no. 8, pp. 1166—1167.

Article  CAS  PubMed  Google Scholar 

Kumar, S., Tamura, K., and Nei, M., MEGA: molecular evolutionary genetics analysis software for microcomputers, Bioinformatics, 1994, vol. 10, no. 2, pp. 189—191.

Article  CAS  Google Scholar 

Excoffier, L., Laval, G., and Schneider, S., Arlequin ver. 3.0: an integrated software package for population genetics data analysis, Evol. Bioinf. Online, 2005, vol. 21, pp. 47—50. https://doi.org/10.1177/117693430500100003

Article  Google Scholar 

Rozas, J., Ferrer-Mata, A., Sánchez-DelBarrio, J.C., et al., DnaSP6: DNA sequence polymorphism analysis of large datasets, Mol. Biol. Evol., 2017, vol. 34, pp. 3299—3302. https://doi.org/10.1093/molbev/msx248

Article  CAS  PubMed  Google Scholar 

Huelsenbeck, J.P. and Ronquist, F., MrBayes: Bayesian inference of phylogenetic trees, Bioinformatics, 2001, vol. 17, pp. 754—755. https://doi.org/10.1093/bioinformatics/17.8.754

Article  CAS  PubMed  Google Scholar 

Lanfear, R., Frandsen, P.B., Wright, A.M., et al., PartitionFinder 2: new methods for selecting partitioned models of evolution for molecular and morphological phylogenetic analyses, Mol. Biol. Evol., 2017, vol. 34, no. 3, pp. 772—773.

CAS  PubMed  Google Scholar 

Leigh, J.W. and Bryant, D., PopART: full-feature software for haplotype network construction, Methods Ecol. Evol., 2015, vol. 6, no. 9, pp. 1110—1116. https://doi.org/10.1111/2041-210X.12410

Article  Google Scholar 

Kamvar, Z.N., Tabima, J.F., and Grünwald, N.J., Poppr: an R package for genetic analysis of populations with clonal, partially clonal, and/or sexual reproduction, Peer J., 2014, vol. 2, p. e281.

Article  PubMed  PubMed Central  Google Scholar 

Cassidy, L.M., Teasdale, M.D., Carolan, S., et al., Capturing goats: documenting two hundred years of mitochondrial DNA diversity among goat populations from Britain and Ireland, Biol. Lett., 2017, vol. 13, no. 3, p. 20160876.

Article  PubMed  PubMed Central  Google Scholar 

Al-Araimi, N.A., Al-Atiyat, R.M., Gaafar, O.M., et al., Maternal genetic diversity and phylogeography of native Arabian goats, Livest. Sci., 2017, vol. 206, pp. 88—94.

Article  Google Scholar 

Ruo-Yu, L.I.U., Gong-She, Y., and Chu-Zhao, L.E.I., The genetic diversity of mtDNA D-loop and the origin of Chinese goats, Acta Genet. Sin., 2006, vol. 33, no. 5, pp. 420—428.

Article  Google Scholar 

Bandelt, H.J., Forster, P., and Röhl, A., Median-joining networks for inferring intraspecific phylogenies, Mol. Biol. Evol., 1999, vol. 16, pp. 37—48. https://doi.org/10.1093/oxfordjournals.molbev.a026036

Article  CAS  PubMed  Google Scholar 

Mukhina, V., Svishcheva, G., Voronkova, V.N., et al., Genetic diversity, population structure and phylogeny of indigenous goats of Mongolia revealed by SNP genotyping, Animals, 2022, vol. 12, p. 221.

Article  PubMed  PubMed Central  Google Scholar 

Comments (0)

No login
gif