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Plastome of Quercus xanthoclada and comparison of genomic diversity amongst selected Quercus species using genome skimming
Abstract. The genus Quercus L. contains several of the most economically important species for timber production in the Northern Hemisphere. It was one of the first genera described, but genetic diversity at a global scale within and amongst oak species remains unclear, despite numerous regional or...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Pensoft Publishers
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6783484/ https://www.ncbi.nlm.nih.gov/pubmed/31607787 http://dx.doi.org/10.3897/phytokeys.132.36365 |
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author | Hinsinger, Damien Daniel Strijk, Joeri Sergej |
author_facet | Hinsinger, Damien Daniel Strijk, Joeri Sergej |
author_sort | Hinsinger, Damien Daniel |
collection | PubMed |
description | Abstract. The genus Quercus L. contains several of the most economically important species for timber production in the Northern Hemisphere. It was one of the first genera described, but genetic diversity at a global scale within and amongst oak species remains unclear, despite numerous regional or species-specific assessments. To evaluate global plastid diversity in oaks, we sequenced the complete chloroplast of Quercus xanthoclada and compared its sequence with those available from other main taxonomic groups in Quercus. We quantify genomic divergence amongst oaks and performed a sliding window analysis to detect the most variable regions amongst members of the various clades, as well as divergent regions occurring in specific pairs of species. We identified private and shared SNPs amongst oaks species and sections and stress the need for a large global assessment of genetic diversity in this economically and ecologically important genus. |
format | Online Article Text |
id | pubmed-6783484 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Pensoft Publishers |
record_format | MEDLINE/PubMed |
spelling | pubmed-67834842019-10-11 Plastome of Quercus xanthoclada and comparison of genomic diversity amongst selected Quercus species using genome skimming Hinsinger, Damien Daniel Strijk, Joeri Sergej PhytoKeys Research Article Abstract. The genus Quercus L. contains several of the most economically important species for timber production in the Northern Hemisphere. It was one of the first genera described, but genetic diversity at a global scale within and amongst oak species remains unclear, despite numerous regional or species-specific assessments. To evaluate global plastid diversity in oaks, we sequenced the complete chloroplast of Quercus xanthoclada and compared its sequence with those available from other main taxonomic groups in Quercus. We quantify genomic divergence amongst oaks and performed a sliding window analysis to detect the most variable regions amongst members of the various clades, as well as divergent regions occurring in specific pairs of species. We identified private and shared SNPs amongst oaks species and sections and stress the need for a large global assessment of genetic diversity in this economically and ecologically important genus. Pensoft Publishers 2019-10-01 /pmc/articles/PMC6783484/ /pubmed/31607787 http://dx.doi.org/10.3897/phytokeys.132.36365 Text en Damien Daniel Hinsinger, Joeri Sergej Strijk http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
spellingShingle | Research Article Hinsinger, Damien Daniel Strijk, Joeri Sergej Plastome of Quercus xanthoclada and comparison of genomic diversity amongst selected Quercus species using genome skimming |
title | Plastome of Quercus
xanthoclada and comparison of genomic diversity amongst selected Quercus species using genome skimming |
title_full | Plastome of Quercus
xanthoclada and comparison of genomic diversity amongst selected Quercus species using genome skimming |
title_fullStr | Plastome of Quercus
xanthoclada and comparison of genomic diversity amongst selected Quercus species using genome skimming |
title_full_unstemmed | Plastome of Quercus
xanthoclada and comparison of genomic diversity amongst selected Quercus species using genome skimming |
title_short | Plastome of Quercus
xanthoclada and comparison of genomic diversity amongst selected Quercus species using genome skimming |
title_sort | plastome of quercus
xanthoclada and comparison of genomic diversity amongst selected quercus species using genome skimming |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6783484/ https://www.ncbi.nlm.nih.gov/pubmed/31607787 http://dx.doi.org/10.3897/phytokeys.132.36365 |
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