Allele mining of TaGRF-2D gene 5'-UTR in Triticum aestivum and Aegilops tauschii genotypes

The low diversity of the D-subgenome of bread wheat requires the involvement of new alleles for breeding. In grasses, the allelic state of Growth Regulating Factor (GRF) gene is correlated with nitrogen uptake. In this study, we characterized the sequence of TaGRF-2D and assessed its diversity in br...

Full description

Saved in:
Bibliographic Details
Published in:PloS one 2020-04, Vol.15 (4), p.e0231704-e0231704
Main Authors: Kroupin, Pavel Yu, Chernook, Anastasiya G, Bazhenov, Mikhail S, Karlov, Gennady I, Goncharov, Nikolay P, Chikida, Nadezhda N, Divashuk, Mikhail G
Format: Article
Language:English
Subjects:
5' Untranslated Regions
Aegilops - genetics
Aegilops tauschii
Agricultural biotechnology
Alleles
Base Sequence
Biology and Life Sciences
Bread
Breeding
Chromosomes
Chromosomes, Plant
Cultivars
Dwarfism
Environmental impact
Fertilizers
Gene polymorphism
Genes
Genes, Plant
Genetic diversity
Genomes
Genomics
Genotypes
Germplasm
Goat grass
Laboratories
Markers
Medicine and Health Sciences
Metabolism
Mining
Nitrogen
Nucleotide sequence
Plant Proteins - genetics
Polymorphism
Polymorphism, Genetic
Polyploidy
Proteins
Research and Analysis Methods
Rice
Transcription Factors - genetics
Transcription, Genetic
Triticum - genetics
Wheat
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:The low diversity of the D-subgenome of bread wheat requires the involvement of new alleles for breeding. In grasses, the allelic state of Growth Regulating Factor (GRF) gene is correlated with nitrogen uptake. In this study, we characterized the sequence of TaGRF-2D and assessed its diversity in bread wheat and goatgrass Aegilops tauschii (genome DD). In silico analysis was performed for reference sequence searching, primer pairs design and sequence assembly. The gene sequence was obtained using Illumina and Sanger sequencing. The complete sequences of TaGRF-2D were obtained for 18 varieties of wheat. The polymorphism in the presence/absence of two GCAGCC repeats in 5' UTR was revealed and the GRF-2D-SSR marker was developed. Our results showed that the alleles 5' UTR-250 and 5' UTR-238 were present in wheat varieties, 5' UTR-250 was presented in the majority of wheat varieties. In Ae. tauschii ssp. strangulata (likely donor of the D-subgenome of polyploid wheat), most accessions carried the 5' UTR-250 allele, whilst most Ae. tauschii ssp. tauschii have 5' UTR-244. The developed GRF-2D-SSR marker can be used to study the genetic diversity of wheat and Ae. tauschii.
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0231704