Positive selection in the SLC11A1 gene in the family Equidae

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F62157124%3A16170%2F16%3A43874081" target="_blank" >RIV/62157124:16170/16:43874081 - isvavai.cz</a>

Alternative codes found

RIV/00027162:_____/16:N0000048 RIV/62157124:16810/16:43874081

Result on the web

<a href="http://dx.doi.org/10.1007/s00251-016-0905-2" target="_blank" >http://dx.doi.org/10.1007/s00251-016-0905-2</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1007/s00251-016-0905-2" target="_blank" >10.1007/s00251-016-0905-2</a>

Result language

angličtina

Original language name

Positive selection in the SLC11A1 gene in the family Equidae

Original language description

Immunity-related genes are a suitable model for studying effects of selection at the genomic level. Some of them are highly conserved due to functional constraints and purifying selection, while others are variable and change quickly to cope with the variation of pathogens. The SLC11A1 gene encodes a transporter protein mediating antimicrobial activity of macrophages. Little is known about the patterns of selection shaping this gene during evolution. Although it is a typical evolutionarily conserved gene, functionally important polymorphisms associated with various diseases were identified in humans and other species. We analyzed the genomic organization, genetic variation, and evolution of the SLC11A1 gene in the family Equidae to identify patterns of selection within this important gene. Nucleotide SLC11A1 sequences were shown to be highly conserved in ten equid species, with more than 97 % sequence identity across the family. Single nucleotide polymorphisms (SNPs) were found in the coding and noncoding regions of the gene. Seven codon sites were identified to be under strong purifying selection. Codons located in three regions, including the glycosylated extracellular loop, were shown to be under diversifying selection. A 3-bp indel resulting in a deletion of the amino acid 321 in the predicted protein was observed in all horses, while it has been maintained in all other equid species. This codon comprised in an N-glycosylation site was found to be under positive selection. Interspecific variation in the presence of predicted N-glycosylation sites was observed.

Czech name

—

Czech description

—

Type

J_x - Unclassified - Peer-reviewed scientific article (Jimp, Jsc and Jost)

CEP classification

EB - Genetics and molecular biology

OECD FORD branch

—

Project

Result was created during the realization of more than one project. More information in the Projects tab.

Continuities

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year

2016

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

Immunogenetics

ISSN

0093-7711

e-ISSN

—

Volume of the periodical

68

Issue of the periodical within the volume

5

Country of publishing house

DE - GERMANY

Number of pages

12

Pages from-to

353-364

UT code for WoS article

000374838500005

EID of the result in the Scopus database

—