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Complete plastome sequencing from Toona (Meliaceae) and phylogenomic analyses within Sapindales
PREMISE OF THE STUDY: Toona (Meliaceae, Sapindales) is a small genus of five species of trees native from southern and eastern Asia to New Guinea and Australia. Complete plastomes were sequenced for three Toona species to provide a basis for future plastome genetic studies in threatened species of T...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley and Sons Inc.
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5947613/ https://www.ncbi.nlm.nih.gov/pubmed/30131882 http://dx.doi.org/10.1002/aps3.1040 |
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author | Lin, Nan Moore, Michael J. Deng, Tao Sun, Hang Yang, Lin‐sen Sun, Yan‐xia Wang, Heng‐chang |
author_facet | Lin, Nan Moore, Michael J. Deng, Tao Sun, Hang Yang, Lin‐sen Sun, Yan‐xia Wang, Heng‐chang |
author_sort | Lin, Nan |
collection | PubMed |
description | PREMISE OF THE STUDY: Toona (Meliaceae, Sapindales) is a small genus of five species of trees native from southern and eastern Asia to New Guinea and Australia. Complete plastomes were sequenced for three Toona species to provide a basis for future plastome genetic studies in threatened species of Toona. In addition, plastome structural evolution and phylogenetic relationships across Sapindales were explored with a larger data set of 29 Sapindales plastomes (including members of six out of nine families). METHODS: The plastomes were determined using the Illumina sequencing platform; the phylogenetic analyses were conducted using maximum likelihood by RAxML. RESULTS: The lengths of three Toona plastomes range from 159,185 to 158,196 bp. A total of 113 unique genes were found in each plastome. Across Sapindales, plastome gene structure and content were largely conserved, with the exception of the contraction of the inverted repeat region to exclude ycf1 in some species of Rutaceae and Sapindaceae, and the movement of trnI‐GAU and trnA‐UGC to a position outside the inverted repeat region in some Rutaceae species. DISCUSSION: The three Toona plastomes possess the typical structure of angiosperm plastomes. Phylogenomic analysis of Sapindales recovered a mostly strongly supported phylogeny of Sapindales, including most of the backbone relationships, with some improvements compared to previous targeted‐gene analyses. |
format | Online Article Text |
id | pubmed-5947613 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | John Wiley and Sons Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-59476132018-08-21 Complete plastome sequencing from Toona (Meliaceae) and phylogenomic analyses within Sapindales Lin, Nan Moore, Michael J. Deng, Tao Sun, Hang Yang, Lin‐sen Sun, Yan‐xia Wang, Heng‐chang Appl Plant Sci Genomic Resources Article PREMISE OF THE STUDY: Toona (Meliaceae, Sapindales) is a small genus of five species of trees native from southern and eastern Asia to New Guinea and Australia. Complete plastomes were sequenced for three Toona species to provide a basis for future plastome genetic studies in threatened species of Toona. In addition, plastome structural evolution and phylogenetic relationships across Sapindales were explored with a larger data set of 29 Sapindales plastomes (including members of six out of nine families). METHODS: The plastomes were determined using the Illumina sequencing platform; the phylogenetic analyses were conducted using maximum likelihood by RAxML. RESULTS: The lengths of three Toona plastomes range from 159,185 to 158,196 bp. A total of 113 unique genes were found in each plastome. Across Sapindales, plastome gene structure and content were largely conserved, with the exception of the contraction of the inverted repeat region to exclude ycf1 in some species of Rutaceae and Sapindaceae, and the movement of trnI‐GAU and trnA‐UGC to a position outside the inverted repeat region in some Rutaceae species. DISCUSSION: The three Toona plastomes possess the typical structure of angiosperm plastomes. Phylogenomic analysis of Sapindales recovered a mostly strongly supported phylogeny of Sapindales, including most of the backbone relationships, with some improvements compared to previous targeted‐gene analyses. John Wiley and Sons Inc. 2018-04-27 /pmc/articles/PMC5947613/ /pubmed/30131882 http://dx.doi.org/10.1002/aps3.1040 Text en © 2018 Lin et al. Applications in Plant Sciences is published by Wiley Periodicals, Inc. on behalf of the Botanical Society of America This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Genomic Resources Article Lin, Nan Moore, Michael J. Deng, Tao Sun, Hang Yang, Lin‐sen Sun, Yan‐xia Wang, Heng‐chang Complete plastome sequencing from Toona (Meliaceae) and phylogenomic analyses within Sapindales |
title | Complete plastome sequencing from Toona (Meliaceae) and phylogenomic analyses within Sapindales |
title_full | Complete plastome sequencing from Toona (Meliaceae) and phylogenomic analyses within Sapindales |
title_fullStr | Complete plastome sequencing from Toona (Meliaceae) and phylogenomic analyses within Sapindales |
title_full_unstemmed | Complete plastome sequencing from Toona (Meliaceae) and phylogenomic analyses within Sapindales |
title_short | Complete plastome sequencing from Toona (Meliaceae) and phylogenomic analyses within Sapindales |
title_sort | complete plastome sequencing from toona (meliaceae) and phylogenomic analyses within sapindales |
topic | Genomic Resources Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5947613/ https://www.ncbi.nlm.nih.gov/pubmed/30131882 http://dx.doi.org/10.1002/aps3.1040 |
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