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Contrasting patterns of nucleotide diversity for four conifers of Alpine European forests
A candidate gene approach was used to identify levels of nucleotide diversity and to identify genes departing from neutral expectations in coniferous species of the Alpine European forest. Twelve samples were collected from four species that dominate montane and subalpine forests throughout Europe:...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Blackwell Publishing Ltd
2012
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3492901/ https://www.ncbi.nlm.nih.gov/pubmed/23144662 http://dx.doi.org/10.1111/j.1752-4571.2012.00256.x |
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author | Mosca, Elena Eckert, Andrew J Liechty, John D Wegrzyn, Jill L La Porta, Nicola Vendramin, Giovanni G Neale, David B |
author_facet | Mosca, Elena Eckert, Andrew J Liechty, John D Wegrzyn, Jill L La Porta, Nicola Vendramin, Giovanni G Neale, David B |
author_sort | Mosca, Elena |
collection | PubMed |
description | A candidate gene approach was used to identify levels of nucleotide diversity and to identify genes departing from neutral expectations in coniferous species of the Alpine European forest. Twelve samples were collected from four species that dominate montane and subalpine forests throughout Europe: Abies alba Mill, Larix decidua Mill, Pinus cembra L., and Pinus mugo Turra. A total of 800 genes, originally resequenced in Pinus taeda L., were resequenced across 12 independent trees for each of the four species. Genes were assigned to two categories, candidate and control, defined through homology-based searches to Arabidopsis. Estimates of nucleotide diversity per site varied greatly between polymorphic candidate genes (range: 0.0004–0.1295) and among species (range: 0.0024–0.0082), but were within the previously established ranges for conifers. Tests of neutrality using stringent significance thresholds, performed under the standard neutral model, revealed one to seven outlier loci for each species. Some of these outliers encode proteins that are involved with plant stress responses and form the basis for further evolutionary enquiries. |
format | Online Article Text |
id | pubmed-3492901 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2012 |
publisher | Blackwell Publishing Ltd |
record_format | MEDLINE/PubMed |
spelling | pubmed-34929012012-11-09 Contrasting patterns of nucleotide diversity for four conifers of Alpine European forests Mosca, Elena Eckert, Andrew J Liechty, John D Wegrzyn, Jill L La Porta, Nicola Vendramin, Giovanni G Neale, David B Evol Appl Original Articles A candidate gene approach was used to identify levels of nucleotide diversity and to identify genes departing from neutral expectations in coniferous species of the Alpine European forest. Twelve samples were collected from four species that dominate montane and subalpine forests throughout Europe: Abies alba Mill, Larix decidua Mill, Pinus cembra L., and Pinus mugo Turra. A total of 800 genes, originally resequenced in Pinus taeda L., were resequenced across 12 independent trees for each of the four species. Genes were assigned to two categories, candidate and control, defined through homology-based searches to Arabidopsis. Estimates of nucleotide diversity per site varied greatly between polymorphic candidate genes (range: 0.0004–0.1295) and among species (range: 0.0024–0.0082), but were within the previously established ranges for conifers. Tests of neutrality using stringent significance thresholds, performed under the standard neutral model, revealed one to seven outlier loci for each species. Some of these outliers encode proteins that are involved with plant stress responses and form the basis for further evolutionary enquiries. Blackwell Publishing Ltd 2012-11 /pmc/articles/PMC3492901/ /pubmed/23144662 http://dx.doi.org/10.1111/j.1752-4571.2012.00256.x Text en © 2012 Blackwell Publishing Ltd http://creativecommons.org/licenses/by/2.5/ Re-use of this article is permitted in accordance with the Creative Commons Deed, Attribution 2.5, which does not permit commercial exploitation. |
spellingShingle | Original Articles Mosca, Elena Eckert, Andrew J Liechty, John D Wegrzyn, Jill L La Porta, Nicola Vendramin, Giovanni G Neale, David B Contrasting patterns of nucleotide diversity for four conifers of Alpine European forests |
title | Contrasting patterns of nucleotide diversity for four conifers of Alpine European forests |
title_full | Contrasting patterns of nucleotide diversity for four conifers of Alpine European forests |
title_fullStr | Contrasting patterns of nucleotide diversity for four conifers of Alpine European forests |
title_full_unstemmed | Contrasting patterns of nucleotide diversity for four conifers of Alpine European forests |
title_short | Contrasting patterns of nucleotide diversity for four conifers of Alpine European forests |
title_sort | contrasting patterns of nucleotide diversity for four conifers of alpine european forests |
topic | Original Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3492901/ https://www.ncbi.nlm.nih.gov/pubmed/23144662 http://dx.doi.org/10.1111/j.1752-4571.2012.00256.x |
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