In‐depth sequence analysis of bread wheat vrn1 genes

0553364 - ÚEB 2022 RIV CH eng J - Journal Article
Strejčková, Beáta - Milec, Zbyněk - Holušová, Kateřina - Cápal, Petr - Vojtková, Tereza - Čegan, Radim - Šafář, Jan
In‐depth sequence analysis of bread wheat vrn1 genes.
International Journal of Molecular Sciences. Roč. 22, č. 22 (2021), č. článku 12284. E-ISSN 1422-0067
R&D Projects: GA ČR(CZ) GA19-05445S
Institutional support: RVO:61389030
Keywords : Allelic variation * Alternative splice variants * CNV * Next generation sequencing * VRN1 * Wheat
OECD category: Biochemistry and molecular biology
Impact factor: 6.208, year: 2021
Method of publishing: Open access
http://doi.org/10.3390/ijms222212284

The VERNALIZATION1 (VRN1) gene encodes a MADS‐box transcription factor and plays an important role in the cold‐induced transition from the vegetative to reproductive stage. Allelic variability of VRN1 homoeologs has been associated with large differences in flowering time. The aim of this study was to investigate the genetic variability of VRN1 homoeologs (VRN‐A1, VRN‐B1 and VRN‐D1). We performed an in‐depth sequence analysis of VRN1 homoeologs in a panel of 105 winter and spring varieties of hexaploid wheat. We describe the novel allele Vrn‐B1f with an 836 bp insertion within intron 1 and show its specific expression pattern associated with reduced heading time. We further provide the complete sequence of the Vrn‐A1b allele, revealing a 177 bp insertion in intron 1, which is transcribed into an alternative splice variant. Copy number variation (CNV) analysis of VRN1 homoeologs showed that VRN‐B1 and VRN‐D1 are present in only one copy. The copy number of recessive vrn‐A1 ranged from one to four, while that of dominant Vrn‐A1 was one or two. Different numbers of Vrn‐A1a copies in the spring cultivars Branisovicka IX/49 and Bastion did not significantly affect heading time. We also report on the deletion of secondary structures (G-quadruplex) in promoter sequences of cultivars with more vrn‐A1 copies.
Permanent Link: http://hdl.handle.net/11104/0328313