A Picea abies linkage map based on SNP markers identifies QTLs for four aspects of resistance to Heterobasidion parviporum infection.

A consensus linkage map of Picea abies, an economically important conifer, was constructed based on the segregation of 686 SNP markers in a F1 progeny population consisting of 247 individuals. The total length of 1889.2 cM covered 96.5% of the estimated genome length and comprised 12 large linkage g...

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Autores principales: Mårten Lind, Thomas Källman, Jun Chen, Xiao-Fei Ma, Jean Bousquet, Michele Morgante, Giusi Zaina, Bo Karlsson, Malin Elfstrand, Martin Lascoux, Jan Stenlid
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Publicado: Public Library of Science (PLoS) 2014
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spelling oai:doaj.org-article:90ff49ac98ff4cf6970e60212e692ba62021-11-25T06:07:56ZA Picea abies linkage map based on SNP markers identifies QTLs for four aspects of resistance to Heterobasidion parviporum infection.1932-620310.1371/journal.pone.0101049https://doaj.org/article/90ff49ac98ff4cf6970e60212e692ba62014-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/25036209/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203A consensus linkage map of Picea abies, an economically important conifer, was constructed based on the segregation of 686 SNP markers in a F1 progeny population consisting of 247 individuals. The total length of 1889.2 cM covered 96.5% of the estimated genome length and comprised 12 large linkage groups, corresponding to the number of haploid P. abies chromosomes. The sizes of the groups (from 5.9 to 9.9% of the total map length) correlated well with previous estimates of chromosome sizes (from 5.8 to 10.8% of total genome size). Any locus in the genome has a 97% probability to be within 10 cM from a mapped marker, which makes the map suited for QTL mapping. Infecting the progeny trees with the root rot pathogen Heterobasidion parviporum allowed for mapping of four different resistance traits: lesion length at the inoculation site, fungal spread within the sapwood, exclusion of the pathogen from the host after initial infection, and ability to prevent the infection from establishing at all. These four traits were associated with two, four, four and three QTL regions respectively of which none overlapped between the traits. Each QTL explained between 4.6 and 10.1% of the respective traits phenotypic variation. Although the QTL regions contain many more genes than the ones represented by the SNP markers, at least four markers within the confidence intervals originated from genes with known function in conifer defence; a leucoanthocyanidine reductase, which has previously been shown to upregulate during H. parviporum infection, and three intermediates of the lignification process; a hydroxycinnamoyl CoA shikimate/quinate hydroxycinnamoyltransferase, a 4-coumarate CoA ligase, and a R2R3-MYB transcription factor.Mårten LindThomas KällmanJun ChenXiao-Fei MaJean BousquetMichele MorganteGiusi ZainaBo KarlssonMalin ElfstrandMartin LascouxJan StenlidPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 9, Iss 7, p e101049 (2014)
institution DOAJ
collection DOAJ
language EN
topic Medicine
R
Science
Q
spellingShingle Medicine
R
Science
Q
Mårten Lind
Thomas Källman
Jun Chen
Xiao-Fei Ma
Jean Bousquet
Michele Morgante
Giusi Zaina
Bo Karlsson
Malin Elfstrand
Martin Lascoux
Jan Stenlid
A Picea abies linkage map based on SNP markers identifies QTLs for four aspects of resistance to Heterobasidion parviporum infection.
description A consensus linkage map of Picea abies, an economically important conifer, was constructed based on the segregation of 686 SNP markers in a F1 progeny population consisting of 247 individuals. The total length of 1889.2 cM covered 96.5% of the estimated genome length and comprised 12 large linkage groups, corresponding to the number of haploid P. abies chromosomes. The sizes of the groups (from 5.9 to 9.9% of the total map length) correlated well with previous estimates of chromosome sizes (from 5.8 to 10.8% of total genome size). Any locus in the genome has a 97% probability to be within 10 cM from a mapped marker, which makes the map suited for QTL mapping. Infecting the progeny trees with the root rot pathogen Heterobasidion parviporum allowed for mapping of four different resistance traits: lesion length at the inoculation site, fungal spread within the sapwood, exclusion of the pathogen from the host after initial infection, and ability to prevent the infection from establishing at all. These four traits were associated with two, four, four and three QTL regions respectively of which none overlapped between the traits. Each QTL explained between 4.6 and 10.1% of the respective traits phenotypic variation. Although the QTL regions contain many more genes than the ones represented by the SNP markers, at least four markers within the confidence intervals originated from genes with known function in conifer defence; a leucoanthocyanidine reductase, which has previously been shown to upregulate during H. parviporum infection, and three intermediates of the lignification process; a hydroxycinnamoyl CoA shikimate/quinate hydroxycinnamoyltransferase, a 4-coumarate CoA ligase, and a R2R3-MYB transcription factor.
format article
author Mårten Lind
Thomas Källman
Jun Chen
Xiao-Fei Ma
Jean Bousquet
Michele Morgante
Giusi Zaina
Bo Karlsson
Malin Elfstrand
Martin Lascoux
Jan Stenlid
author_facet Mårten Lind
Thomas Källman
Jun Chen
Xiao-Fei Ma
Jean Bousquet
Michele Morgante
Giusi Zaina
Bo Karlsson
Malin Elfstrand
Martin Lascoux
Jan Stenlid
author_sort Mårten Lind
title A Picea abies linkage map based on SNP markers identifies QTLs for four aspects of resistance to Heterobasidion parviporum infection.
title_short A Picea abies linkage map based on SNP markers identifies QTLs for four aspects of resistance to Heterobasidion parviporum infection.
title_full A Picea abies linkage map based on SNP markers identifies QTLs for four aspects of resistance to Heterobasidion parviporum infection.
title_fullStr A Picea abies linkage map based on SNP markers identifies QTLs for four aspects of resistance to Heterobasidion parviporum infection.
title_full_unstemmed A Picea abies linkage map based on SNP markers identifies QTLs for four aspects of resistance to Heterobasidion parviporum infection.
title_sort picea abies linkage map based on snp markers identifies qtls for four aspects of resistance to heterobasidion parviporum infection.
publisher Public Library of Science (PLoS)
publishDate 2014
url https://doaj.org/article/90ff49ac98ff4cf6970e60212e692ba6
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