Identification of loci controlling timing of stem elongation in red clover using genotyping by sequencing of pooled phenotypic extremes

Åshild Ergon*, Øystein W. Milvang, Leif Skøt, Tom Ruttink

*Awdur cyfatebol y gwaith hwn

Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

1 Dyfyniadau(SciVal)
27 Wedi eu Llwytho i Lawr (Pure)

Crynodeb

Main conclusion
Through selective genotyping of pooled phenotypic extremes, we identified a number of loci and candidate genes putatively controlling timing of stem elongation in red clover.

Abstract
We have identified candidate genes controlling the timing of stem elongation prior to flowering in red clover (Trifolium pratense L.). This trait is of ecological and agronomic significance, as it affects fitness, competitivity, climate adaptation, forage and seed yield, and forage quality. We genotyped replicate pools of phenotypically extreme individuals (early and late-elongating) within cultivar Lea using genotyping-by-sequencing in pools (pool-GBS). After calling and filtering SNPs and GBS locus haplotype polymorphisms, we estimated allele frequencies and searched for markers with significantly different allele frequencies in the two phenotypic groups using BayeScan, an FST-based test utilizing replicate pools, and a test based on error variance of replicate pools. Of the three methods, BayeScan was the least stringent, and the error variance-based test the most stringent. Fifteen significant markers were identified in common by all three tests. The candidate genes flanking the markers include genes with potential roles in the vernalization, autonomous, and photoperiod regulation of floral transition, hormonal regulation of stem elongation, and cell growth. These results provide a first insight into the potential genes and mechanisms controlling transition to stem elongation in a perennial legume, which lays a foundation for further functional studies of the genetic determinants regulating this important trait.
Iaith wreiddiolSaesneg
Tudalennau (o-i)1587-1600
Nifer y tudalennau14
CyfnodolynMolecular Genetics and Genomics
Cyfrol297
Rhif cyhoeddi6
Dyddiad ar-lein cynnar24 Awst 2022
Dynodwyr Gwrthrych Digidol (DOIs)
StatwsCyhoeddwyd - 01 Tach 2022

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