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Genome-wide association study identified novel candidate loci affecting wood formation in Norway spruce
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2019 (English)In: The Plant Journal, ISSN 0960-7412, E-ISSN 1365-313X, Vol. 100, no 1, p. 83-100Article in journal (Refereed) Published
Abstract [en]

Norway spruce is a boreal forest tree species of significant ecological and economic importance. Hence there is a strong imperative to dissect the genetics underlying important wood quality traits in the species. We performed a functional genome-wide association study (GWAS) of 17 wood traits in Norway spruce using 178 101 single nucleotide polymorphisms (SNPs) generated from exome genotyping of 517 mother trees. The wood traits were defined using functional modelling of wood properties across annual growth rings. We applied a Least Absolute Shrinkage and Selection Operator (LASSO-based) association mapping method using a functional multilocus mapping approach that utilizes latent traits, with a stability selection probability method as the hypothesis testing approach to determine a significant quantitative trait locus. The analysis provided 52 significant SNPs from 39 candidate genes, including genes previously implicated in wood formation and tree growth in spruce and other species. Our study represents a multilocus GWAS for complex wood traits in Norway spruce. The results advance our understanding of the genetics influencing wood traits and identifies candidate genes for future functional studies.

Place, publisher, year, edition, pages
John Wiley & Sons, 2019. Vol. 100, no 1, p. 83-100
Keywords [en]
candidate genes, functional trait mapping, genome-wide association mapping, Norway spruce, quence capture, single nucleotide polymorphisms
National Category
Bioinformatics and Systems Biology
Identifiers
URN: urn:nbn:se:umu:diva-162327DOI: 10.1111/tpj.14429ISI: 000478331500001PubMedID: 31166032Scopus ID: 2-s2.0-85072848905OAI: oai:DiVA.org:umu-162327DiVA, id: diva2:1344163
Available from: 2019-08-20 Created: 2019-08-20 Last updated: 2020-01-09Bibliographically approved

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Bernhardsson, CarolinaIngvarsson, Pär
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CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf