A high density consensus map of rye (Secale cereale L.) based on DArT markers.
BACKGROUND: Rye (Secale cereale L.) is an economically important crop, exhibiting unique features such as outstanding resistance to biotic and abiotic stresses and high nutrient use efficiency. This species presents a challenge to geneticists and breeders due to its large genome containing a high pr...
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doaj-6cc295cc75ec48d284aea486aa3e991d2020-11-25T02:27:10ZengPublic Library of Science (PLoS)PLoS ONE1932-62032011-01-01612e2849510.1371/journal.pone.0028495A high density consensus map of rye (Secale cereale L.) based on DArT markers.Paweł MilczarskiHanna Bolibok-BrągoszewskaBeata MyśkówStefan StojałowskiKatarzyna Heller-UszyńskaMagdalena GóralskaPiotr BrągoszewskiGrzegorz UszyńskiAndrzej KilianMonika Rakoczy-TrojanowskaBACKGROUND: Rye (Secale cereale L.) is an economically important crop, exhibiting unique features such as outstanding resistance to biotic and abiotic stresses and high nutrient use efficiency. This species presents a challenge to geneticists and breeders due to its large genome containing a high proportion of repetitive sequences, self incompatibility, severe inbreeding depression and tissue culture recalcitrance. The genomic resources currently available for rye are underdeveloped in comparison with other crops of similar economic importance. The aim of this study was to create a highly saturated, multilocus linkage map of rye via consensus mapping, based on Diversity Arrays Technology (DArT) markers. METHODOLOGY/PRINCIPAL FINDINGS: Recombinant inbred lines (RILs) from 5 populations (564 in total) were genotyped using DArT markers and subjected to linkage analysis using Join Map 4.0 and Multipoint Consensus 2.2 software. A consensus map was constructed using a total of 9703 segregating markers. The average chromosome map length ranged from 199.9 cM (2R) to 251.4 cM (4R) and the average map density was 1.1 cM. The integrated map comprised 4048 loci with the number of markers per chromosome ranging from 454 for 7R to 805 for 4R. In comparison with previously published studies on rye, this represents an eight-fold increase in the number of loci placed on a consensus map and a more than two-fold increase in the number of genetically mapped DArT markers. CONCLUSIONS/SIGNIFICANCE: Through the careful choice of marker type, mapping populations and the use of software packages implementing powerful algorithms for map order optimization, we produced a valuable resource for rye and triticale genomics and breeding, which provides an excellent starting point for more in-depth studies on rye genome organization.http://europepmc.org/articles/PMC3232230?pdf=render |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Paweł Milczarski Hanna Bolibok-Brągoszewska Beata Myśków Stefan Stojałowski Katarzyna Heller-Uszyńska Magdalena Góralska Piotr Brągoszewski Grzegorz Uszyński Andrzej Kilian Monika Rakoczy-Trojanowska |
spellingShingle |
Paweł Milczarski Hanna Bolibok-Brągoszewska Beata Myśków Stefan Stojałowski Katarzyna Heller-Uszyńska Magdalena Góralska Piotr Brągoszewski Grzegorz Uszyński Andrzej Kilian Monika Rakoczy-Trojanowska A high density consensus map of rye (Secale cereale L.) based on DArT markers. PLoS ONE |
author_facet |
Paweł Milczarski Hanna Bolibok-Brągoszewska Beata Myśków Stefan Stojałowski Katarzyna Heller-Uszyńska Magdalena Góralska Piotr Brągoszewski Grzegorz Uszyński Andrzej Kilian Monika Rakoczy-Trojanowska |
author_sort |
Paweł Milczarski |
title |
A high density consensus map of rye (Secale cereale L.) based on DArT markers. |
title_short |
A high density consensus map of rye (Secale cereale L.) based on DArT markers. |
title_full |
A high density consensus map of rye (Secale cereale L.) based on DArT markers. |
title_fullStr |
A high density consensus map of rye (Secale cereale L.) based on DArT markers. |
title_full_unstemmed |
A high density consensus map of rye (Secale cereale L.) based on DArT markers. |
title_sort |
high density consensus map of rye (secale cereale l.) based on dart markers. |
publisher |
Public Library of Science (PLoS) |
series |
PLoS ONE |
issn |
1932-6203 |
publishDate |
2011-01-01 |
description |
BACKGROUND: Rye (Secale cereale L.) is an economically important crop, exhibiting unique features such as outstanding resistance to biotic and abiotic stresses and high nutrient use efficiency. This species presents a challenge to geneticists and breeders due to its large genome containing a high proportion of repetitive sequences, self incompatibility, severe inbreeding depression and tissue culture recalcitrance. The genomic resources currently available for rye are underdeveloped in comparison with other crops of similar economic importance. The aim of this study was to create a highly saturated, multilocus linkage map of rye via consensus mapping, based on Diversity Arrays Technology (DArT) markers. METHODOLOGY/PRINCIPAL FINDINGS: Recombinant inbred lines (RILs) from 5 populations (564 in total) were genotyped using DArT markers and subjected to linkage analysis using Join Map 4.0 and Multipoint Consensus 2.2 software. A consensus map was constructed using a total of 9703 segregating markers. The average chromosome map length ranged from 199.9 cM (2R) to 251.4 cM (4R) and the average map density was 1.1 cM. The integrated map comprised 4048 loci with the number of markers per chromosome ranging from 454 for 7R to 805 for 4R. In comparison with previously published studies on rye, this represents an eight-fold increase in the number of loci placed on a consensus map and a more than two-fold increase in the number of genetically mapped DArT markers. CONCLUSIONS/SIGNIFICANCE: Through the careful choice of marker type, mapping populations and the use of software packages implementing powerful algorithms for map order optimization, we produced a valuable resource for rye and triticale genomics and breeding, which provides an excellent starting point for more in-depth studies on rye genome organization. |
url |
http://europepmc.org/articles/PMC3232230?pdf=render |
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