Unlocking the molecular basis of wheat straw composition and morphological traits through multi-locus GWAS.
Acid detergent fiber
Acid detergent lignin
Biofuel
ML-GWAS
Neutral detergent fiber
QTNs
Journal
BMC plant biology
ISSN: 1471-2229
Titre abrégé: BMC Plant Biol
Pays: England
ID NLM: 100967807
Informations de publication
Date de publication:
08 Nov 2022
08 Nov 2022
Historique:
received:
31
01
2022
accepted:
21
10
2022
entrez:
7
11
2022
pubmed:
8
11
2022
medline:
10
11
2022
Statut:
epublish
Résumé
Rapid reductions in emissions from fossil fuel burning are needed to curb global climate change. Biofuel production from crop residues can contribute to reducing the energy crisis and environmental deterioration. Wheat is a renewable source for biofuels owing to the low cost and high availability of its residues. Thus, identifying candidate genes controlling these traits is pivotal for efficient biofuel production. Here, six multi-locus genome-wide association (ML-GWAS) models were applied using 185 tetraploid wheat accessions to detect quantitative trait nucleotides (QTNs) for fifteen traits associated with biomass composition. Among the 470 QTNs, only 72 identified by at least two models were considered as reliable. Among these latter, 16 also showed a significant effect on the corresponding trait (p.value < 0.05). Candidate genes survey carried out within 4 Mb flanking the QTNs, revealed putative biological functions associated with lipid transfer and metabolism, cell wall modifications, cell cycle, and photosynthesis. Four genes encoded as Cellulose Synthase (CeSa), Anaphase promoting complex (APC/C), Glucoronoxylan 4-O Methyltransferase (GXM) and HYPONASTIC LEAVES1 (HYL1) might be responsible for an increase in cellulose, and natural and acid detergent fiber (NDF and ADF) content in tetraploid wheat. In addition, the SNP marker RFL_Contig3228_2154 associated with the variation in stem solidness (Q.Scsb-3B) was validated through two molecular methods (High resolution melting; HRM and RNase H The study provides new insights into the genetic basis of biomass composition traits on tetraploid wheat. The application of six ML-GWAS models on a panel of diverse wheat genotypes represents an efficient approach to dissect complex traits with low heritability such as wheat straw composition. The discovery of genes/genomic regions associated with biomass production and straw quality parameters is expected to accelerate the development of high-yielding wheat varieties useful for biofuel production.
Sections du résumé
BACKGROUND
BACKGROUND
Rapid reductions in emissions from fossil fuel burning are needed to curb global climate change. Biofuel production from crop residues can contribute to reducing the energy crisis and environmental deterioration. Wheat is a renewable source for biofuels owing to the low cost and high availability of its residues. Thus, identifying candidate genes controlling these traits is pivotal for efficient biofuel production. Here, six multi-locus genome-wide association (ML-GWAS) models were applied using 185 tetraploid wheat accessions to detect quantitative trait nucleotides (QTNs) for fifteen traits associated with biomass composition.
RESULTS
RESULTS
Among the 470 QTNs, only 72 identified by at least two models were considered as reliable. Among these latter, 16 also showed a significant effect on the corresponding trait (p.value < 0.05). Candidate genes survey carried out within 4 Mb flanking the QTNs, revealed putative biological functions associated with lipid transfer and metabolism, cell wall modifications, cell cycle, and photosynthesis. Four genes encoded as Cellulose Synthase (CeSa), Anaphase promoting complex (APC/C), Glucoronoxylan 4-O Methyltransferase (GXM) and HYPONASTIC LEAVES1 (HYL1) might be responsible for an increase in cellulose, and natural and acid detergent fiber (NDF and ADF) content in tetraploid wheat. In addition, the SNP marker RFL_Contig3228_2154 associated with the variation in stem solidness (Q.Scsb-3B) was validated through two molecular methods (High resolution melting; HRM and RNase H
CONCLUSIONS
CONCLUSIONS
The study provides new insights into the genetic basis of biomass composition traits on tetraploid wheat. The application of six ML-GWAS models on a panel of diverse wheat genotypes represents an efficient approach to dissect complex traits with low heritability such as wheat straw composition. The discovery of genes/genomic regions associated with biomass production and straw quality parameters is expected to accelerate the development of high-yielding wheat varieties useful for biofuel production.
Identifiants
pubmed: 36344939
doi: 10.1186/s12870-022-03900-6
pii: 10.1186/s12870-022-03900-6
pmc: PMC9641881
doi:
Substances chimiques
Biofuels
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
519Informations de copyright
© 2022. The Author(s).
Références
Int J Genomics. 2017;2017:6876393
pubmed: 28845431
ACS Chem Biol. 2012 Mar 16;7(3):481-6
pubmed: 22148723
Proc Natl Acad Sci U S A. 2020 Nov 17;117(46):28708-28718
pubmed: 33127757
Dev Cell. 2005 Apr;8(4):517-27
pubmed: 15809034
G3 (Bethesda). 2019 Aug 8;9(8):2535-2547
pubmed: 31278174
PLoS One. 2019 Dec 4;14(12):e0225383
pubmed: 31800595
Eng Life Sci. 2018 Jun 27;18(11):768-778
pubmed: 32624871
J Exp Bot. 2012 Apr;63(7):2787-98
pubmed: 22268150
Plant Cell Environ. 2009 Jul;32(7):758-79
pubmed: 19220786
Curr Opin Biotechnol. 2008 Apr;19(2):166-72
pubmed: 18403196
J Zhejiang Univ Sci B. 2011 Jul;12(7):518-26
pubmed: 21726058
Plant Physiol Biochem. 2019 Oct;143:50-60
pubmed: 31479882
Plant Physiol. 1989 Nov;91(3):876-82
pubmed: 16667151
Genetics. 2008 Jan;178(1):489-511
pubmed: 18202390
Plants (Basel). 2021 Feb 06;10(2):
pubmed: 33562160
Plant Cell. 2021 Jul 19;33(6):1980-1996
pubmed: 33764452
PLoS One. 2016 Nov 15;11(11):e0166577
pubmed: 27846306
J Exp Bot. 2009;60(2):367-76
pubmed: 19264758
Heredity (Edinb). 2017 Jun;118(6):517-524
pubmed: 28295030
G3 (Bethesda). 2011 Aug;1(3):209-18
pubmed: 22384332
Biotechnol Biofuels. 2020 Oct 08;13:165
pubmed: 33062051
Int J Mol Sci. 2019 Jul 26;20(15):
pubmed: 31357467
Curr Opin Plant Biol. 2010 Jun;13(3):305-12
pubmed: 20097119
Plant Methods. 2018 Mar 28;14:28
pubmed: 29610576
Plant Biotechnol J. 2015 Aug;13(6):779-90
pubmed: 25532560
Front Plant Sci. 2018 Feb 06;9:81
pubmed: 29467776
Plant Biotechnol J. 2016 Sep;14(9):1800-12
pubmed: 26853077
PLoS Comput Biol. 2017 Jan 31;13(1):e1005357
pubmed: 28141824
Plant Mol Biol. 2009 Oct;71(3):307-18
pubmed: 19629716
J Agric Food Chem. 2005 Jul 27;53(15):5872-81
pubmed: 16028968
PLoS One. 2017 Apr 11;12(4):e0175285
pubmed: 28399136
Front Plant Sci. 2018 Feb 01;9:64
pubmed: 29449854
Sci Rep. 2016 Jan 20;6:19444
pubmed: 26787347
J Dairy Sci. 1991 Oct;74(10):3583-97
pubmed: 1660498
Front Plant Sci. 2021 Jul 12;12:693285
pubmed: 34322145
Front Microbiol. 2016 Jun 27;7:910
pubmed: 27445995
Biotechnol Biofuels. 2017 Nov 30;10:286
pubmed: 29213325
Plant Physiol. 2007 Jan;143(1):213-24
pubmed: 17085513
Genomics. 2021 Sep;113(5):2989-3001
pubmed: 34182080
Curr Opin Genet Dev. 2007 Dec;17(6):553-8
pubmed: 17933511
Nat Genet. 2019 May;51(5):885-895
pubmed: 30962619
Front Plant Sci. 2019 Feb 11;10:100
pubmed: 30804969
Theor Appl Genet. 2005 Jul;111(2):337-46
pubmed: 15902397
Mol Biol Rep. 2013 Dec;40(12):7093-102
pubmed: 24178345
PLoS One. 2017 May 25;12(5):e0178290
pubmed: 28542488
Nat Commun. 2018 Apr 20;9(1):1579
pubmed: 29679008
Front Plant Sci. 2014 May 06;5:178
pubmed: 24834069
Plant Cell Environ. 2019 Sep;42(9):2540-2553
pubmed: 31077401
Ecol Evol. 2021 May 12;11(12):7411-7426
pubmed: 34188823
Brief Bioinform. 2018 Jul 20;19(4):700-712
pubmed: 28158525
Genes (Basel). 2021 Apr 20;12(4):
pubmed: 33923933
Plant Biotechnol J. 2014 Aug;12(6):787-96
pubmed: 24646323
Am J Hum Genet. 2007 Sep;81(3):559-75
pubmed: 17701901
Genomics. 2020 Nov;112(6):4608-4621
pubmed: 32771624
Mol Breed. 2014;34(4):1629-1645
pubmed: 25506257
Front Plant Sci. 2019 Feb 25;10:176
pubmed: 30858858
Field Crops Res. 2019 Nov 1;243:107627
pubmed: 31853164
Genomics Proteomics Bioinformatics. 2020 Aug;18(4):481-487
pubmed: 33346083
C R Biol. 2004 Sep-Oct;327(9-10):847-60
pubmed: 15587076
Front Plant Sci. 2017 May 12;8:774
pubmed: 28553306
BMC Genomics. 2014 Oct 07;15:873
pubmed: 25293821
Heredity (Edinb). 2018 Mar;120(3):208-218
pubmed: 29234158
Theor Appl Genet. 2019 Dec;132(12):3375-3398
pubmed: 31555887
PLoS One. 2017 Feb 3;12(2):e0171528
pubmed: 28158253
J Exp Bot. 2016 Feb;67(4):1161-78
pubmed: 26880749
PLoS One. 2013 Jun 27;8(6):e67280
pubmed: 23826256
Front Plant Sci. 2020 Feb 20;11:110
pubmed: 32153613