@ARTICLE{TreeBASE2Ref23651,
author = {William P. Wysocki and Lynn G Clark and Lakshmi Attigala and Eduardo Ruiz-Sanchez and Melvin R Duvall},
title = {Evolution of the bamboos (Bambusoideae; Poaceae): a full plastome phylogenomic analysis},
year = {2014},
keywords = {Poaceae, Bambusoideae, bamboos, phylogenomics, plastome, organellar HGT, chloroplast genome},
doi = {10.1186/s12862-015-0321-5},
url = {http://},
pmid = {},
journal = {BMC Evolutionary Biology},
volume = {},
number = {},
pages = {},
abstract = {Bambusoideae (Poaceae) comprise three distinct and well-supported lineages: tropical woody bamboos (Bambuseae), temperate woody bamboos (Arundinarieae) and herbaceous bamboos (Olyreae). Phylogenetic studies using chloroplast markers have generally supported a sister relationship between Bambuseae and Olyreae. This suggests either at least two origins of the woody bamboo syndrome in this subfamily or its loss in Olyreae.
Here a full chloroplast genome (plastome) phylogenomic study is presented using the coding and noncoding regions of 13 complete plastomes from the Bambuseae, eight from Olyreae and 10 from Arundinarieae. Trees generated using full plastome sequences support the previously recovered monophyletic relationship between Bambuseae and Olyreae. In addition to these relationships, several unique plastome features were uncovered including the first mitogenome-to-plastome horizontal gene transfer observed in monocots.
Phylogenomic agreement with previous published phylogenies reinforces the validity of these studies. Additionally, this study presents the first published plastomes from Neotropical woody bamboos and the first full plastome phylogenomic study performed within the herbaceous bamboos. Although the phylogenomic tree presented in this study is largely robust, additional studies using nuclear genes support monophyly in woody bamboos as well as hybridization among previous woody bamboo lineages. The evolutionary history of the Bambusoideae could be further clarified using transcriptomic techniques to increase sampling among nuclear orthologues and investigate the molecular genetics underlying the development of woody and floral tissues.
}
}
Matrix 24077 of Study 16364
Citation title:
"Evolution of the bamboos (Bambusoideae; Poaceae): a full plastome phylogenomic analysis".
Study name:
"Evolution of the bamboos (Bambusoideae; Poaceae): a full plastome phylogenomic analysis".
This study is part of submission 16364
(Status: Published).
Matrices
Title: Bambusoideae Plastomes
Description: 33 Plastomes, Gapped positions and one inverted repeat region excluded.
Rows
Taxon Label |
Row Segments |
Characters 1?–30 |
Arundinaria appalachiana |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Arundinaria gigantea |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Arundinaria tecta |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Acidosasa purpurea |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Bambusa emeiensis |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Bambusa oldhamii |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Bambusa arnhemica |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Bambusa bambos |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Buergersiochloa bambusoides |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Chusquea liebmannii |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Cryptochloa strictiflora |
(none)
|
ATCTTGCTGAAGCAAGATATTGGGTATTTC |
Dendrocalamus latiflorus |
(none)
|
ATCTTGTTCCAGCAAGATATTGGGTATTTC |
Diandrolyra |
(none)
|
ATCTTGTTCCAGCAAGATATTGGGTATTTC |
Eremitis |
(none)
|
ATCTTGTTCCAACAAGATATTGGGTATTTC |
Ferrocalamus rimosivaginus |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Greslania |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Guadua weberbaueri |
(none)
|
ATCTTGTTTCAGAAAGATATTGGGTATCTC |
Hickelia madagascariensis |
(none)
|
ATCTTGTTCCAGCAAGATATTGGGTATTTC |
Indocalamus longiauritus |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Lithachne pauciflora |
(none)
|
ATCTTGCTGGAACAAGATATTGGGCATTTC |
Lolium perenne |
(none)
|
ATCTTGCTAGAACAAGATATTGGGTATTTC |
Neololeba atra |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Chusquea spectabilis |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Olmeca reflexa |
(none)
|
ATCTTGTTTCAGAAAGATATTGGGTATCTC |
Olyra latifolia |
(none)
|
ATCTTGCTGGAACAAGATGTTGGGTATTTC |
Otatea acuminata |
(none)
|
ATCTTGTTTCAGAAAGATATTGGGTATTTC |
Phyllostachys edulis |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Phyllostachys nigra |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Phyllostachys propinqua |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Pariana radiciflora |
(none)
|
ATCTTGTTCCAGCAAGATATTGGGTATTTC |
Raddia brasiliensis |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Thamnocalamus spathiflorus |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Zizania aquatica |
(none)
|
ATCTTGCTGGAACAAGATATTGGGTATTTC |
Columns
None of the columns has a description.