Genome-wide association analyses of common wheat (Triticum aestivum L.) germplasm identified multiple loci for aluminium resistance

Harsh Raman, Benjamin Stodart, PR Ryan, E Delhaize, Livinus Emebiri, Andrew Milgate, N. Coombes

Research output: Contribution to journalArticle

44 Citations (Scopus)

Abstract

Aluminium (Al3+) toxicity restricts productivity and profitability of wheat (Triticum aestivum L.) crops grownon acid soils worldwide. Continued gains will be obtained by identifying superior alleles and novel Al3+ resistance locithat can be incorporated into breeding programs. We used association mapping to identify genomic regions associatedwith Al3+ resistance using 1055 accessions of common wheat from different geographic regions of the world and 178 polymorphicdiversity arrays technology (DArT) markers. Bayesian analyses based on genetic distance matrices classified theseaccessions into 12 subgroups. Genome-wide association analyses detected markers that were significantly associated withAl3+ resistance on chromosomes 1A, 1B, 2A, 2B, 2D, 3A, 3B, 4A, 4B, 4D, 5B, 6A, 6B, 7A, and 7B. Some of these genomicregions correspond to previously identified loci for Al3+ resistance, whereas others appear to be novel. Among themarkers targeting TaALMT1 (the major Al3+-resistance gene located on chromosome 4D), those that detected alleles in the promoter explained most of the phenotypic variance for Al3+ resistance, which is consistent with this region controlling the level of TaALMT1 expression. These results demonstrate that genome-wide association mapping cannot only confirm known Al3+-resistance loci, such as those on chromsomes 4D and 4B, but they also highlight the utility of this technique in identifying novel resistance loci.
Original languageEnglish
Pages (from-to)957-966
Number of pages10
JournalGenome
Volume53
Issue number11
DOIs
Publication statusPublished - 2010

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Genome-Wide Association Study
Aluminum
Triticum
aluminum
germplasm
Triticum aestivum
loci
wheat
genome
Chromosomes
Alleles
Bayes Theorem
Breeding
Soil
Genome
chromosome mapping
Technology
Acids
alleles
chromosomes

Cite this

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title = "Genome-wide association analyses of common wheat (Triticum aestivum L.) germplasm identified multiple loci for aluminium resistance",
abstract = "Aluminium (Al3+) toxicity restricts productivity and profitability of wheat (Triticum aestivum L.) crops grownon acid soils worldwide. Continued gains will be obtained by identifying superior alleles and novel Al3+ resistance locithat can be incorporated into breeding programs. We used association mapping to identify genomic regions associatedwith Al3+ resistance using 1055 accessions of common wheat from different geographic regions of the world and 178 polymorphicdiversity arrays technology (DArT) markers. Bayesian analyses based on genetic distance matrices classified theseaccessions into 12 subgroups. Genome-wide association analyses detected markers that were significantly associated withAl3+ resistance on chromosomes 1A, 1B, 2A, 2B, 2D, 3A, 3B, 4A, 4B, 4D, 5B, 6A, 6B, 7A, and 7B. Some of these genomicregions correspond to previously identified loci for Al3+ resistance, whereas others appear to be novel. Among themarkers targeting TaALMT1 (the major Al3+-resistance gene located on chromosome 4D), those that detected alleles in the promoter explained most of the phenotypic variance for Al3+ resistance, which is consistent with this region controlling the level of TaALMT1 expression. These results demonstrate that genome-wide association mapping cannot only confirm known Al3+-resistance loci, such as those on chromsomes 4D and 4B, but they also highlight the utility of this technique in identifying novel resistance loci.",
keywords = "Association mapping, DArT, Genetic diversity, Genetic structure, Germplasm, Linkage disequilibrium, Wheat",
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Genome-wide association analyses of common wheat (Triticum aestivum L.) germplasm identified multiple loci for aluminium resistance. / Raman, Harsh; Stodart, Benjamin; Ryan, PR; Delhaize, E; Emebiri, Livinus; Milgate, Andrew; Coombes, N.

In: Genome, Vol. 53, No. 11, 2010, p. 957-966.

Research output: Contribution to journalArticle

TY - JOUR

T1 - Genome-wide association analyses of common wheat (Triticum aestivum L.) germplasm identified multiple loci for aluminium resistance

AU - Raman, Harsh

AU - Stodart, Benjamin

AU - Ryan, PR

AU - Delhaize, E

AU - Emebiri, Livinus

AU - Milgate, Andrew

AU - Coombes, N.

N1 - Imported on 12 Apr 2017 - DigiTool details were: Journal title (773t) = Genome. ISSNs: 0831-2796;

PY - 2010

Y1 - 2010

N2 - Aluminium (Al3+) toxicity restricts productivity and profitability of wheat (Triticum aestivum L.) crops grownon acid soils worldwide. Continued gains will be obtained by identifying superior alleles and novel Al3+ resistance locithat can be incorporated into breeding programs. We used association mapping to identify genomic regions associatedwith Al3+ resistance using 1055 accessions of common wheat from different geographic regions of the world and 178 polymorphicdiversity arrays technology (DArT) markers. Bayesian analyses based on genetic distance matrices classified theseaccessions into 12 subgroups. Genome-wide association analyses detected markers that were significantly associated withAl3+ resistance on chromosomes 1A, 1B, 2A, 2B, 2D, 3A, 3B, 4A, 4B, 4D, 5B, 6A, 6B, 7A, and 7B. Some of these genomicregions correspond to previously identified loci for Al3+ resistance, whereas others appear to be novel. Among themarkers targeting TaALMT1 (the major Al3+-resistance gene located on chromosome 4D), those that detected alleles in the promoter explained most of the phenotypic variance for Al3+ resistance, which is consistent with this region controlling the level of TaALMT1 expression. These results demonstrate that genome-wide association mapping cannot only confirm known Al3+-resistance loci, such as those on chromsomes 4D and 4B, but they also highlight the utility of this technique in identifying novel resistance loci.

AB - Aluminium (Al3+) toxicity restricts productivity and profitability of wheat (Triticum aestivum L.) crops grownon acid soils worldwide. Continued gains will be obtained by identifying superior alleles and novel Al3+ resistance locithat can be incorporated into breeding programs. We used association mapping to identify genomic regions associatedwith Al3+ resistance using 1055 accessions of common wheat from different geographic regions of the world and 178 polymorphicdiversity arrays technology (DArT) markers. Bayesian analyses based on genetic distance matrices classified theseaccessions into 12 subgroups. Genome-wide association analyses detected markers that were significantly associated withAl3+ resistance on chromosomes 1A, 1B, 2A, 2B, 2D, 3A, 3B, 4A, 4B, 4D, 5B, 6A, 6B, 7A, and 7B. Some of these genomicregions correspond to previously identified loci for Al3+ resistance, whereas others appear to be novel. Among themarkers targeting TaALMT1 (the major Al3+-resistance gene located on chromosome 4D), those that detected alleles in the promoter explained most of the phenotypic variance for Al3+ resistance, which is consistent with this region controlling the level of TaALMT1 expression. These results demonstrate that genome-wide association mapping cannot only confirm known Al3+-resistance loci, such as those on chromsomes 4D and 4B, but they also highlight the utility of this technique in identifying novel resistance loci.

KW - Association mapping

KW - DArT

KW - Genetic diversity

KW - Genetic structure

KW - Germplasm

KW - Linkage disequilibrium

KW - Wheat

U2 - 10.1139/G10-058

DO - 10.1139/G10-058

M3 - Article

VL - 53

SP - 957

EP - 966

JO - Genome / National Research Council Canada = Genome / Conseil national de recherches Canada

JF - Genome / National Research Council Canada = Genome / Conseil national de recherches Canada

SN - 0008-4093

IS - 11

ER -