Literature DB >> 26447215

A Study of Applicability of SNP Chips Developed for Bovine and Ovine Species to Whole-Genome Analysis of Reindeer Rangifer tarandus.

Veronika R Kharzinova1, Alexander A Sermyagin2, Elena A Gladyr2, Innokentiy M Okhlopkov2, Gottfried Brem2, Natalia A Zinovieva2.   

Abstract

Two sets of commercially available single nucleotide polymorphisms (SNPs) developed for cattle (BovineSNP50 BeadChip) and sheep (OvineSNP50 BeadChip) have been trialed for whole-genome analysis of 4 female samples of Rangifer tarandus inhabiting Russia. We found out that 43.0% of bovine and 47.0% of Ovine SNPs could be genotyped, while only 5.3% and 2.03% of them were respectively polymorphic. The scored and the polymorphic SNPs were identified on each bovine and each ovine chromosome, but their distribution was not unique. The maximal value of runs of homozygosity (ROH) was 30.93Mb (for SNPs corresponding to bovine chromosome 8) and 80.32Mb (for SNPs corresponding to ovine chromosome 7). Thus, the SNP chips developed for bovine and ovine species can be used as a powerful tool for genome analysis in reindeer R. tarandus. © The American Genetic Association. 2015. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Entities:  

Keywords:  SNP; reindeer Rangifer tarandus; whole-genome analysis

Mesh：

Year:  2015        PMID： 26447215     DOI： 10.1093/jhered/esv081

Source DB:  PubMed          Journal:  J Hered        ISSN： 0022-1503            Impact factor:   2.645


  6 in total

1.  Cross-Species Application of SNP Chips is Not Suitable for Identifying Runs of Homozygosity.

Authors:  Aaron B A Shafer; Joshua M Miller; Marty Kardos
Journal:  J Hered       Date:  2016-01-15       Impact factor: 2.645

2.  Response to "Cross-Species Application of SNP Chips is Not Suitable for Identifying Runs of Homozygosity" by Shafer, Miller, and Kardos.

Authors:  Veronika Kharzinova; Alexander A Sermyagin; Elena A Gladyr; Gottfried Brem; Natalia A Zinovieva
Journal:  J Hered       Date:  2016-01-24       Impact factor: 2.645

3.  Novel Graphical Analyses of Runs of Homozygosity among Species and Livestock Breeds.

Authors:  Laura Iacolina; Astrid V Stronen; Cino Pertoldi; Małgorzata Tokarska; Louise S Nørgaard; Joaquin Muñoz; Anders Kjærsgaard; Aritz Ruiz-Gonzalez; Stanisław Kamiński; Deirdre C Purfield
Journal:  Int J Genomics       Date:  2016-10-30       Impact factor: 2.326

4.  Genetic diversity and population structure of domestic and wild reindeer (Rangifer tarandus L. 1758): A novel approach using BovineHD BeadChip.

Authors:  Veronika Ruslanovna Kharzinova; Arsen Vladimirovich Dotsev; Tatiana Evgenievna Deniskova; Anastasiya Dmitrievna Solovieva; Valeriy Ivanovich Fedorov; Kasim Anverovich Layshev; Tatiana Michailovna Romanenko; Innokentiy Michailovich Okhlopkov; Klaus Wimmers; Henry Reyer; Gottfried Brem; Natalia Anatolievna Zinovieva
Journal:  PLoS One       Date:  2018-11-30       Impact factor: 3.240

5.  Evaluation of a Chicken 600K SNP genotyping array in non-model species of grouse.

Authors:  Piotr Minias; Peter O Dunn; Linda A Whittingham; Jeff A Johnson; Sara J Oyler-McCance
Journal:  Sci Rep       Date:  2019-04-23       Impact factor: 4.379

6.  Genome-wide SNP analysis unveils genetic structure and phylogeographic history of snow sheep (Ovis nivicola) populations inhabiting the Verkhoyansk Mountains and Momsky Ridge (northeastern Siberia).

Authors:  Arsen V Dotsev; Tatiana E Deniskova; Innokentiy M Okhlopkov; Gabor Mészáros; Johann Sölkner; Henry Reyer; Klaus Wimmers; Gottfried Brem; Natalia A Zinovieva
Journal:  Ecol Evol       Date:  2018-07-16       Impact factor: 2.912
  6 in total

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