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Phylogeny of the Diploid Species of Rubus (Rosaceae)
Rubus L. (Rosaceae, Rosoideae) contains around 700 species distributed on all continents except Antarctica, with the highest species diversity in temperate to subtropical regions of the northern hemisphere. The taxonomy of Rubus is challenging due to the frequency of polyploidy, hybridization and ap...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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MDPI
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10298701/ https://www.ncbi.nlm.nih.gov/pubmed/37372332 http://dx.doi.org/10.3390/genes14061152 |
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author | Gao, Xin-Fen Xiong, Xian-Hua Boufford, David E. Gao, Yun-Dong Xu, Bo Zhang, Cheng |
author_facet | Gao, Xin-Fen Xiong, Xian-Hua Boufford, David E. Gao, Yun-Dong Xu, Bo Zhang, Cheng |
author_sort | Gao, Xin-Fen |
collection | PubMed |
description | Rubus L. (Rosaceae, Rosoideae) contains around 700 species distributed on all continents except Antarctica, with the highest species diversity in temperate to subtropical regions of the northern hemisphere. The taxonomy of Rubus is challenging due to the frequency of polyploidy, hybridization and apomixis. Previous studies mostly sampled sparsely and used limited DNA sequence data. The evolutionary relationships between infrageneric taxa, therefore, remain to be further clarified. In the present study, genotyping by sequencing (GBS) reduced-representation genome sequencing data from 186 accessions representing 65 species, 1 subspecies and 17 varieties of Rubus, with emphasis on diploid species, were used to infer a phylogeny using maximum likelihood and maximum parsimony methods. The major results were as follows: (1) we confirmed or reconfirmed the polyphyly or paraphyly of some traditionally circumscribed subgenera, sections and subsections; (2) 19 well-supported clades, which differed from one another on molecular, morphological and geographical grounds, were identified for the species sampled; (3) characteristics such as plants with dense bristles or not, leaves leathery or papyraceous, number of carpels, instead of inflorescences paniculate or not, aggregate fruits and leaves abaxially tomentose or not, may be of some use in classifying taxa whose drupelets are united into a thimble-shaped aggregate fruit that falls in its entirety from the dry receptacle; and (4) a preliminary classification scheme of diploid species of Rubus is proposed based on our results combined with those from previous phylogenetic analyses. |
format | Online Article Text |
id | pubmed-10298701 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-102987012023-06-28 Phylogeny of the Diploid Species of Rubus (Rosaceae) Gao, Xin-Fen Xiong, Xian-Hua Boufford, David E. Gao, Yun-Dong Xu, Bo Zhang, Cheng Genes (Basel) Article Rubus L. (Rosaceae, Rosoideae) contains around 700 species distributed on all continents except Antarctica, with the highest species diversity in temperate to subtropical regions of the northern hemisphere. The taxonomy of Rubus is challenging due to the frequency of polyploidy, hybridization and apomixis. Previous studies mostly sampled sparsely and used limited DNA sequence data. The evolutionary relationships between infrageneric taxa, therefore, remain to be further clarified. In the present study, genotyping by sequencing (GBS) reduced-representation genome sequencing data from 186 accessions representing 65 species, 1 subspecies and 17 varieties of Rubus, with emphasis on diploid species, were used to infer a phylogeny using maximum likelihood and maximum parsimony methods. The major results were as follows: (1) we confirmed or reconfirmed the polyphyly or paraphyly of some traditionally circumscribed subgenera, sections and subsections; (2) 19 well-supported clades, which differed from one another on molecular, morphological and geographical grounds, were identified for the species sampled; (3) characteristics such as plants with dense bristles or not, leaves leathery or papyraceous, number of carpels, instead of inflorescences paniculate or not, aggregate fruits and leaves abaxially tomentose or not, may be of some use in classifying taxa whose drupelets are united into a thimble-shaped aggregate fruit that falls in its entirety from the dry receptacle; and (4) a preliminary classification scheme of diploid species of Rubus is proposed based on our results combined with those from previous phylogenetic analyses. MDPI 2023-05-25 /pmc/articles/PMC10298701/ /pubmed/37372332 http://dx.doi.org/10.3390/genes14061152 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Gao, Xin-Fen Xiong, Xian-Hua Boufford, David E. Gao, Yun-Dong Xu, Bo Zhang, Cheng Phylogeny of the Diploid Species of Rubus (Rosaceae) |
title | Phylogeny of the Diploid Species of Rubus (Rosaceae) |
title_full | Phylogeny of the Diploid Species of Rubus (Rosaceae) |
title_fullStr | Phylogeny of the Diploid Species of Rubus (Rosaceae) |
title_full_unstemmed | Phylogeny of the Diploid Species of Rubus (Rosaceae) |
title_short | Phylogeny of the Diploid Species of Rubus (Rosaceae) |
title_sort | phylogeny of the diploid species of rubus (rosaceae) |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10298701/ https://www.ncbi.nlm.nih.gov/pubmed/37372332 http://dx.doi.org/10.3390/genes14061152 |
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