Genome-wide association mapping in winter barley for grain yield and culm cell wall polymer content using the high-throughput CoMPP technique

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Genome-wide association mapping in winter barley for grain yield and culm cell wall polymer content using the high-throughput CoMPP technique. / Bellucci, Andrea; Tondelli, Alessandro; Fangel, Jonatan Ulrik; Torp, Anna Maria; Xu, Xin; Willats, William George Tycho; Flavell, Andrew; Cattivelli, Luigi; Rasmussen, Søren Kjærsgaard.

In: PLOS ONE, Vol. 12, No. 3, e0173313, 2017.

Research output: Contribution to journalJournal articleResearchpeer-review

Harvard

Bellucci, A, Tondelli, A, Fangel, JU, Torp, AM, Xu, X, Willats, WGT, Flavell, A, Cattivelli, L & Rasmussen, SK 2017, 'Genome-wide association mapping in winter barley for grain yield and culm cell wall polymer content using the high-throughput CoMPP technique', PLOS ONE, vol. 12, no. 3, e0173313. https://doi.org/10.1371/journal.pone.0173313

APA

Bellucci, A., Tondelli, A., Fangel, J. U., Torp, A. M., Xu, X., Willats, W. G. T., ... Rasmussen, S. K. (2017). Genome-wide association mapping in winter barley for grain yield and culm cell wall polymer content using the high-throughput CoMPP technique. PLOS ONE, 12(3), [e0173313]. https://doi.org/10.1371/journal.pone.0173313

Vancouver

Bellucci A, Tondelli A, Fangel JU, Torp AM, Xu X, Willats WGT et al. Genome-wide association mapping in winter barley for grain yield and culm cell wall polymer content using the high-throughput CoMPP technique. PLOS ONE. 2017;12(3). e0173313. https://doi.org/10.1371/journal.pone.0173313

Author

Bellucci, Andrea ; Tondelli, Alessandro ; Fangel, Jonatan Ulrik ; Torp, Anna Maria ; Xu, Xin ; Willats, William George Tycho ; Flavell, Andrew ; Cattivelli, Luigi ; Rasmussen, Søren Kjærsgaard. / Genome-wide association mapping in winter barley for grain yield and culm cell wall polymer content using the high-throughput CoMPP technique. In: PLOS ONE. 2017 ; Vol. 12, No. 3.

Bibtex

@article{9af8dd22bae64171bfa153e70a6bd84f,
title = "Genome-wide association mapping in winter barley for grain yield and culm cell wall polymer content using the high-throughput CoMPP technique",
abstract = "A collection of 112 winter barley varieties (Hordeum vulgare L.) was grown in the field for two years (2008/09 and 2009/10) in northern Italy and grain and straw yields recorded. In the first year of the trial, a severe attack of barley yellow mosaic virus (BaYMV) strongly influenced final performances with an average reduction of ~ 50{\%} for grain and straw harvested in comparison to the second year. The genetic determination (GD) for grain yield was 0.49 and 0.70, for the two years respectively, and for straw yield GD was low in 2009 (0.09) and higher in 2010 (0.29). Cell wall polymers in culms were quantified by means of the monoclonal antibodies LM6, LM11, JIM13 and BS-400-3 and the carbohydrate-binding module CBM3a using the high-throughput CoMPP technique. Of these, LM6, which detects arabinan components, showed a relatively high GD in both years and a significantly negative correlation with grain yield (GYLD). Overall, heritability (H2) was calculated for GYLD, LM6 and JIM and resulted to be 0.42, 0.32 and 0.20, respectively. A total of 4,976 SNPs from the 9K iSelect array were used in the study for the analysis of population structure, linkage disequilibrium (LD) and genome-wide association study (GWAS). Marker-trait associations (MTA) were analyzed for grain yield and cell wall determination by LM6 and JIM13 as these were the traits showing significant correlations between the years. A single QTL for GYLD containing three MTAs was found on chromosome 3H located close to the Hv-eIF4E gene, which is known to regulate resistance to BaYMV. Subsequently the QTL was shown to be tightly linked to rym4, a locus for resistance to the virus. GWAs on arabinans quantified by LM6 resulted in the identification of major QTLs closely located on 3H and hypotheses regarding putative candidate genes were formulated through the study of gene expression levels based on bioinformatics tools.",
keywords = "Journal Article",
author = "Andrea Bellucci and Alessandro Tondelli and Fangel, {Jonatan Ulrik} and Torp, {Anna Maria} and Xin Xu and Willats, {William George Tycho} and Andrew Flavell and Luigi Cattivelli and Rasmussen, {S{\o}ren Kj{\ae}rsgaard}",
year = "2017",
doi = "10.1371/journal.pone.0173313",
language = "English",
volume = "12",
journal = "P L o S One",
issn = "1932-6203",
publisher = "Public Library of Science",
number = "3",

}

RIS

TY - JOUR

T1 - Genome-wide association mapping in winter barley for grain yield and culm cell wall polymer content using the high-throughput CoMPP technique

AU - Bellucci, Andrea

AU - Tondelli, Alessandro

AU - Fangel, Jonatan Ulrik

AU - Torp, Anna Maria

AU - Xu, Xin

AU - Willats, William George Tycho

AU - Flavell, Andrew

AU - Cattivelli, Luigi

AU - Rasmussen, Søren Kjærsgaard

PY - 2017

Y1 - 2017

N2 - A collection of 112 winter barley varieties (Hordeum vulgare L.) was grown in the field for two years (2008/09 and 2009/10) in northern Italy and grain and straw yields recorded. In the first year of the trial, a severe attack of barley yellow mosaic virus (BaYMV) strongly influenced final performances with an average reduction of ~ 50% for grain and straw harvested in comparison to the second year. The genetic determination (GD) for grain yield was 0.49 and 0.70, for the two years respectively, and for straw yield GD was low in 2009 (0.09) and higher in 2010 (0.29). Cell wall polymers in culms were quantified by means of the monoclonal antibodies LM6, LM11, JIM13 and BS-400-3 and the carbohydrate-binding module CBM3a using the high-throughput CoMPP technique. Of these, LM6, which detects arabinan components, showed a relatively high GD in both years and a significantly negative correlation with grain yield (GYLD). Overall, heritability (H2) was calculated for GYLD, LM6 and JIM and resulted to be 0.42, 0.32 and 0.20, respectively. A total of 4,976 SNPs from the 9K iSelect array were used in the study for the analysis of population structure, linkage disequilibrium (LD) and genome-wide association study (GWAS). Marker-trait associations (MTA) were analyzed for grain yield and cell wall determination by LM6 and JIM13 as these were the traits showing significant correlations between the years. A single QTL for GYLD containing three MTAs was found on chromosome 3H located close to the Hv-eIF4E gene, which is known to regulate resistance to BaYMV. Subsequently the QTL was shown to be tightly linked to rym4, a locus for resistance to the virus. GWAs on arabinans quantified by LM6 resulted in the identification of major QTLs closely located on 3H and hypotheses regarding putative candidate genes were formulated through the study of gene expression levels based on bioinformatics tools.

AB - A collection of 112 winter barley varieties (Hordeum vulgare L.) was grown in the field for two years (2008/09 and 2009/10) in northern Italy and grain and straw yields recorded. In the first year of the trial, a severe attack of barley yellow mosaic virus (BaYMV) strongly influenced final performances with an average reduction of ~ 50% for grain and straw harvested in comparison to the second year. The genetic determination (GD) for grain yield was 0.49 and 0.70, for the two years respectively, and for straw yield GD was low in 2009 (0.09) and higher in 2010 (0.29). Cell wall polymers in culms were quantified by means of the monoclonal antibodies LM6, LM11, JIM13 and BS-400-3 and the carbohydrate-binding module CBM3a using the high-throughput CoMPP technique. Of these, LM6, which detects arabinan components, showed a relatively high GD in both years and a significantly negative correlation with grain yield (GYLD). Overall, heritability (H2) was calculated for GYLD, LM6 and JIM and resulted to be 0.42, 0.32 and 0.20, respectively. A total of 4,976 SNPs from the 9K iSelect array were used in the study for the analysis of population structure, linkage disequilibrium (LD) and genome-wide association study (GWAS). Marker-trait associations (MTA) were analyzed for grain yield and cell wall determination by LM6 and JIM13 as these were the traits showing significant correlations between the years. A single QTL for GYLD containing three MTAs was found on chromosome 3H located close to the Hv-eIF4E gene, which is known to regulate resistance to BaYMV. Subsequently the QTL was shown to be tightly linked to rym4, a locus for resistance to the virus. GWAs on arabinans quantified by LM6 resulted in the identification of major QTLs closely located on 3H and hypotheses regarding putative candidate genes were formulated through the study of gene expression levels based on bioinformatics tools.

KW - Journal Article

U2 - 10.1371/journal.pone.0173313

DO - 10.1371/journal.pone.0173313

M3 - Journal article

C2 - 28301509

VL - 12

JO - P L o S One

JF - P L o S One

SN - 1932-6203

IS - 3

M1 - e0173313

ER -

ID: 174273910