Patterns of nucleotide diversity for different domains of centromeric histone H3 (CENH3) gene in Secale L.

Rye (Secale) is among staple cereals along with other members of the Triticeae tribe: wheat and barley. The genus Secale includes perennial and annual, cross-pollinating and self-pollinating species, and they can be donors of valuable genes in wheat and rye breeding programs. Studies of the structur...

Full description

Saved in:
Bibliographic Details
Main Authors: S. S. Gatzkaya, E. V. Evtushenko
Format: Article
Language:English
Published: Siberian Branch of the Russian Academy of Sciences, Federal Research Center Institute of Cytology and Genetics, The Vavilov Society of Geneticists and Breeders 2019-03-01
Series:Вавиловский журнал генетики и селекции
Subjects:
Online Access:https://vavilov.elpub.ru/jour/article/view/1924
Tags: Add Tag
No Tags, Be the first to tag this record!
_version_ 1832575190023798784
author S. S. Gatzkaya
E. V. Evtushenko
author_facet S. S. Gatzkaya
E. V. Evtushenko
author_sort S. S. Gatzkaya
collection DOAJ
description Rye (Secale) is among staple cereals along with other members of the Triticeae tribe: wheat and barley. The genus Secale includes perennial and annual, cross-pollinating and self-pollinating species, and they can be donors of valuable genes in wheat and rye breeding programs. Studies of the structure of the gene for centromeric histone H3 (CENH3), essential for centromere functions, are relevant to the breeding of agronomically important crops. We have investigated the nucleotide diversity of sequences of two variants of the rye CENH3 gene inside the N-terminal tail (NTT) and the conservative HFD (histone fold domain) domain in the genus Secale. The mean values of nucleotide diversity in the NTT and HFD of wild cross- and self-pollinating taxa are close in αCENH3: πtot = 0.0176–0.0090 and 0.0136–0. 0052, respectively. In the case of βCENH3, the mean values for NTT (πtot = 0.0168–0.0062) are lower than for HFD (πtot = 0.0259–0.084). The estimates of nucleotide and haplotype diversity per site for the CENH3 domains are considerably lower in taxa with narrow geographic ranges: S. cereale subsp. dighoricum and S. strictum subsp. kuprijanovii. Commercial breeding reduces the nucleotide sequence variability in αCENH3 and βCENH3. Cultivated rye varieties have π values within 0.0122–0.0014. The nucleotide and haplotype diversity values in αCENH3 and βCENH3 are close in S. sylvestre, which is believed to be the oldest rye species. The results of this study prove that the frequency of single nucleotide polymorphisms and nucleotide diversity of sequences in genes for CENH3 in Secale species are influenced by numerous factors, including reproduction habits, the geographic isolation of taxa, breeding, and the evolutionary age of species.
format Article
id doaj-art-d1f8d9addd6e4bdeb0d5548508f71185
institution Kabale University
issn 2500-3259
language English
publishDate 2019-03-01
publisher Siberian Branch of the Russian Academy of Sciences, Federal Research Center Institute of Cytology and Genetics, The Vavilov Society of Geneticists and Breeders
record_format Article
series Вавиловский журнал генетики и селекции
spelling doaj-art-d1f8d9addd6e4bdeb0d5548508f711852025-02-01T09:58:07ZengSiberian Branch of the Russian Academy of Sciences, Federal Research Center Institute of Cytology and Genetics, The Vavilov Society of Geneticists and BreedersВавиловский журнал генетики и селекции2500-32592019-03-0123213513910.18699/VJ19.472882Patterns of nucleotide diversity for different domains of centromeric histone H3 (CENH3) gene in Secale L.S. S. Gatzkaya0E. V. Evtushenko1Institute of Molecular and Cellular Biology, SB RAS.Institute of Molecular and Cellular Biology, SB RAS.Rye (Secale) is among staple cereals along with other members of the Triticeae tribe: wheat and barley. The genus Secale includes perennial and annual, cross-pollinating and self-pollinating species, and they can be donors of valuable genes in wheat and rye breeding programs. Studies of the structure of the gene for centromeric histone H3 (CENH3), essential for centromere functions, are relevant to the breeding of agronomically important crops. We have investigated the nucleotide diversity of sequences of two variants of the rye CENH3 gene inside the N-terminal tail (NTT) and the conservative HFD (histone fold domain) domain in the genus Secale. The mean values of nucleotide diversity in the NTT and HFD of wild cross- and self-pollinating taxa are close in αCENH3: πtot = 0.0176–0.0090 and 0.0136–0. 0052, respectively. In the case of βCENH3, the mean values for NTT (πtot = 0.0168–0.0062) are lower than for HFD (πtot = 0.0259–0.084). The estimates of nucleotide and haplotype diversity per site for the CENH3 domains are considerably lower in taxa with narrow geographic ranges: S. cereale subsp. dighoricum and S. strictum subsp. kuprijanovii. Commercial breeding reduces the nucleotide sequence variability in αCENH3 and βCENH3. Cultivated rye varieties have π values within 0.0122–0.0014. The nucleotide and haplotype diversity values in αCENH3 and βCENH3 are close in S. sylvestre, which is believed to be the oldest rye species. The results of this study prove that the frequency of single nucleotide polymorphisms and nucleotide diversity of sequences in genes for CENH3 in Secale species are influenced by numerous factors, including reproduction habits, the geographic isolation of taxa, breeding, and the evolutionary age of species.https://vavilov.elpub.ru/jour/article/view/1924secale l.centromeric histone cenh3nucleotide diversitysingle nucleotide polymorphism
spellingShingle S. S. Gatzkaya
E. V. Evtushenko
Patterns of nucleotide diversity for different domains of centromeric histone H3 (CENH3) gene in Secale L.
Вавиловский журнал генетики и селекции
secale l.
centromeric histone cenh3
nucleotide diversity
single nucleotide polymorphism
title Patterns of nucleotide diversity for different domains of centromeric histone H3 (CENH3) gene in Secale L.
title_full Patterns of nucleotide diversity for different domains of centromeric histone H3 (CENH3) gene in Secale L.
title_fullStr Patterns of nucleotide diversity for different domains of centromeric histone H3 (CENH3) gene in Secale L.
title_full_unstemmed Patterns of nucleotide diversity for different domains of centromeric histone H3 (CENH3) gene in Secale L.
title_short Patterns of nucleotide diversity for different domains of centromeric histone H3 (CENH3) gene in Secale L.
title_sort patterns of nucleotide diversity for different domains of centromeric histone h3 cenh3 gene in secale l
topic secale l.
centromeric histone cenh3
nucleotide diversity
single nucleotide polymorphism
url https://vavilov.elpub.ru/jour/article/view/1924
work_keys_str_mv AT ssgatzkaya patternsofnucleotidediversityfordifferentdomainsofcentromerichistoneh3cenh3geneinsecalel
AT evevtushenko patternsofnucleotidediversityfordifferentdomainsofcentromerichistoneh3cenh3geneinsecalel