Association mapping of autumn-seeded rye (Secale cereale L.) reveals genetic linkages between genes controlling winter hardiness and plant development
Winter field survival (WFS) in autumn-seeded winter cereals is a complex trait associated with low temperature tolerance (LTT), prostrate growth habit (PGH), and final leaf number (FLN). WFS and the three sub-traits were analyzed by a genome-wide association study of 96 rye ( Secale cereal L.) genot...
Saved in:
Published in | Scientific reports Vol. 12; no. 1; p. 5793 |
---|---|
Main Authors | , , , , , , |
Format | Journal Article |
Language | English |
Published |
London
Nature Publishing Group UK
06.04.2022
Nature Publishing Group Nature Portfolio |
Subjects | |
Online Access | Get full text |
Cover
Loading…
Summary: | Winter field survival (WFS) in autumn-seeded winter cereals is a complex trait associated with low temperature tolerance (LTT), prostrate growth habit (PGH), and final leaf number (FLN). WFS and the three sub-traits were analyzed by a genome-wide association study of 96 rye (
Secale cereal
L.) genotypes of different origins and winter-hardiness levels. A total of 10,244 single nucleotide polymorphism (SNP) markers were identified by genotyping by sequencing and 259 marker-trait-associations (MTAs;
p
< 0.01) were revealed by association mapping. The ten most significant SNPs (
p
< 1.49e−04) associated with WFS corresponded to nine strong candidate genes:
Inducer of CBF Expression 1
(
ICE1
),
Cold-regulated 413-Plasma Membrane Protein 1
(
COR413-PM1
),
Ice Recrystallization Inhibition Protein 1
(
IRIP1
),
Jasmonate-resistant 1
(
JAR1
),
BIPP2C1
-like protein phosphatase,
Chloroplast Unusual Positioning Protein-1
(
CHUP1
),
FRIGIDA
-like 4 (
FRL4-like
) protein,
Chalcone Synthase 2
(
CHS2
), and
Phenylalanine Ammonia-lyase 8
(
PAL8
). Seven of the candidate genes were also significant for one or several of the sub-traits supporting the hypothesis that WFS, LTT, FLN, and PGH are genetically interlinked. The winter-hardy rye genotypes generally carried additional allele variants for the strong candidate genes, which suggested allele diversity was a major contributor to cold acclimation efficiency and consistent high WFS under varying field conditions. |
---|---|
Bibliography: | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 |
ISSN: | 2045-2322 2045-2322 |
DOI: | 10.1038/s41598-022-09582-2 |