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Association mapping...
Association mapping in Salix viminalis L. (Salicaceae) - identification of candidate genes associated with growth and phenology
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- Hallingbäck, Henrik (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för växtbiologi,Department of Plant Biology
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- Fogelqvist, Johan (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för växtbiologi,Department of Plant Biology
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- Powers, Stephen J. (author)
- Rothamsted Res, Computat & Syst Biol Dept, Harpenden AL5 2JQ, Herts, England.
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- Turrion-Gomez, Juan (author)
- Rothamsted Res, AgroEcol Dept, Harpenden AL5 2JQ, Herts, England.
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- Rossiter, Rachel (author)
- Rothamsted Res, AgroEcol Dept, Harpenden AL5 2JQ, Herts, England.
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- Amey, Joanna (author)
- Rothamsted Res, AgroEcol Dept, Harpenden AL5 2JQ, Herts, England.
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- Martin, Tom (author)
- Swedish Univ Agr Sci, Uppsala BioCtr, Dept Plant Biol, POB 7043, S-75007 Uppsala, Sweden.;Linnean Ctr Plant Biol, POB 7043, S-75007 Uppsala, Sweden.
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- Weih, Martin (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för växtproduktionsekologi,Department of Crop Production Ecology
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- Gyllenstrand, Niclas (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för växtbiologi,Department of Plant Biology
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- Karp, Angela (author)
- Rothamsted Res, AgroEcol Dept, Harpenden AL5 2JQ, Herts, England.
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- Lagercrantz, Ulf (author)
- Uppsala universitet,Växtekologi och evolution
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- Hanley, Steven J. (author)
- Rothamsted Res, AgroEcol Dept, Harpenden AL5 2JQ, Herts, England.
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- Berlin Kolm, Sofia (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för växtbiologi,Department of Plant Biology
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- Rönnberg Wästljung, Ann-Christin (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för växtbiologi,Department of Plant Biology
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- Martin, Thomas (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för växtbiologi,Department of Plant Biology
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(creator_code:org_t)
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- 2015-07-29
- 2016
- English.
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In: Global Change Biology Bioenergy. - : Wiley. - 1757-1693 .- 1757-1707. ; 8:3, s. 670-685
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Abstract
Subject headings
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- Willow species (Salix) are important as short-rotation biomass crops for bioenergy, which creates a demand for faster genetic improvement and breeding through deployment of molecular marker-assisted selection (MAS). To find markers associated with important adaptive traits, such as growth and phenology, for use in MAS, we genetically dissected the trait variation of a Salix viminalis (L.) population of 323 accessions. The accessions were sampled throughout northern Europe and were established at two field sites in Pustnas, Sweden, and at Woburn, UK, offering the opportunity to assess the impact of genotype-by-environment interactions (GxE) on trait-marker associations. Field measurements were recorded for growth and phenology traits. The accessions were genotyped using 1536 SNP markers developed from phenology candidate genes and from genes previously observed to be differentially expressed in contrasting environments. Association mapping between 1233 of these SNPs and the measured traits was performed taking into account population structure and threshold selection bias. At a false discovery rate (FDR) of 0.2, 29 SNPs were associated with bud burst, leaf senescence, number of shoots or shoot diameter. The percentage of accession variation explained by these associations ranged from 0.3% to 4.4%, suggesting that the studied traits are controlled by many loci of limited individual impact. Despite this, a SNP in the EARLY FLOWERING 3 gene was repeatedly associated (FDR<0.2) with bud burst. The rare homozygous genotype exhibited 0.4-1.0 lower bud burst scores than the other genotype classes on a five-grade scale. Consequently, this marker could be promising for use in MAS and the gene deserves further study. Otherwise, associations were less consistent across sites, likely due to their small estimates and to considerable GxE interactions indicated by multivariate association analyses and modest trait accession correlations across sites (0.32-0.61).
Subject headings
- LANTBRUKSVETENSKAPER -- Lantbruksvetenskap, skogsbruk och fiske -- Trävetenskap (hsv//swe)
- AGRICULTURAL SCIENCES -- Agriculture, Forestry and Fisheries -- Wood Science (hsv//eng)
- TEKNIK OCH TEKNOLOGIER -- Industriell bioteknik -- Bioenergi (hsv//swe)
- ENGINEERING AND TECHNOLOGY -- Industrial Biotechnology -- Bioenergy (hsv//eng)
- LANTBRUKSVETENSKAPER -- Lantbruksvetenskap, skogsbruk och fiske -- Jordbruksvetenskap (hsv//swe)
- AGRICULTURAL SCIENCES -- Agriculture, Forestry and Fisheries -- Agricultural Science (hsv//eng)
- NATURVETENSKAP -- Biologi -- Genetik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Genetics (hsv//eng)
- LANTBRUKSVETENSKAPER -- Lantbruksvetenskap, skogsbruk och fiske -- Skogsvetenskap (hsv//swe)
- AGRICULTURAL SCIENCES -- Agriculture, Forestry and Fisheries -- Forest Science (hsv//eng)
Keyword
- adaptation
- association mapping
- candidate gene
- growth
- marker-assisted selection
- phenology
- Salix
- short-rotation coppice
- willow
Publication and Content Type
- ref (subject category)
- art (subject category)
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Hallingbäck, Hen ...
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Fogelqvist, Joha ...
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Powers, Stephen ...
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Turrion-Gomez, J ...
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Rossiter, Rachel
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Amey, Joanna
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Martin, Tom
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Weih, Martin
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Gyllenstrand, Ni ...
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Karp, Angela
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Lagercrantz, Ulf
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Hanley, Steven J ...
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Berlin Kolm, Sof ...
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Rönnberg Wästlju ...
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Martin, Thomas
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- About the subject
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- AGRICULTURAL SCIENCES
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AGRICULTURAL SCI ...
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and Agriculture Fore ...
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and Wood Science
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- ENGINEERING AND TECHNOLOGY
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ENGINEERING AND ...
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and Industrial Biote ...
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and Bioenergy
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- AGRICULTURAL SCIENCES
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AGRICULTURAL SCI ...
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and Agriculture Fore ...
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and Agricultural Sci ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Genetics
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AGRICULTURAL SCI ...
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and Agriculture Fore ...
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and Forest Science
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Global Change Bi ...
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Uppsala University
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Swedish University of Agricultural Sciences