Polyphyly of the fern family Tectariaceae sensu Ching: insights from cpDNA sequence data

2007 ◽  
Vol 50 (6) ◽  
pp. 789-798 ◽  
Author(s):  
HongMei Liu ◽  
XianChun Zhang ◽  
ZhiDuan Chen ◽  
ShiYong Dong ◽  
YinLong Qiu
Keyword(s):  
Sequence Data ◽  
Cpdna Sequence

Hybridization in the Temperate Bamboos (Poaceae: Bambusoideae: Arundinarieae): A Phylogenetic Study Using AFLPs and cpDNA Sequence Data

2021 ◽  
Vol 46 (1) ◽  
pp. 48-69
Author(s):  
Jimmy K. Triplett ◽  
Lynn G. Clark
Keyword(s):  
Dna Sequences ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Intergeneric Hybrid ◽  
Plastid Dna ◽  
Sensu Stricto ◽  
Phylogenetic Study ◽  
Aflp Data ◽  
The North ◽  
Cpdna Sequence

Abstract—The temperate bamboos are a taxonomically difficult group with nearly 600 species in approximately 30 genera and at least 12 constituent lineages. In this study, phylogenetic relationships were explored using amplified fragment length polymorphism (AFLP) data in comparison with a phylogeny based on plastid DNA sequences, with an emphasis onArundinariaof North America and its allies in East Asia (theArundinariaclade). Molecular analyses involved 248 individuals in 10 genera and 60 species. Hybridization was detected both within and among genera. Comparative analyses indicated hybrid origins for species in several widespread and well-known genera, includingHibanobambusa,Sasaella, andSemiarundinaria. Evidence also indicated thatPseudosasa japonica(the type species ofPseudosasa) is an intergeneric hybrid involvingPleioblastusandSasamorpha. In addition, cryptic hybrids were detected within and amongPleioblastus,Sasa, andSasamorpha. After accounting for hybrids, phylogenetic analyses of AFLP data provided resolution for core lineages in theArundinariaclade, includingPleioblastussensu stricto,Sasas. s., andSasamorpha.AFLP data also provided evidence for the monophyly of the North American cane bamboos (Arundinaria, three species) but failed to identify their closest relative among the East Asian taxa. The broader evolutionary implications of hybridization in the temperate bamboos are discussed along with recommendations for future studies.

Phylogeny of tribe Brassiceae (Brassicaceae) based on chloroplast restriction site polymorphisms and nuclear ribosomal internal transcribed spacer and chloroplast trnL intron sequences

2005 ◽  
Vol 83 (5) ◽  
pp. 467-483 ◽  
Author(s):  
Suzanne I Warwick ◽  
Connie A Sauder
Keyword(s):  
Restriction Site ◽  
Nuclear Dna ◽  
Sequence Data ◽  
Its Region ◽  
Internal Transcribed Spacers ◽  
Trnl Intron ◽  
Rrna Gene ◽  
Cpdna Sequence ◽  
Polymorphism Data ◽  
Restriction Site Polymorphisms

Using sequence data from the ITS region (internal transcribed spacers ITS-1 and ITS-2 of nuclear DNA and the 5.8 rRNA gene), chloroplast DNA (cpDNA) sequence data from the trnL intron, and cpDNA restriction site polymorphism data, we examined the evolutionary relationships of the tribe Brassiceae (Brassicaceae). A group of approximately 50 genera, it is distinguished by the presence of conduplicate cotyledons and (or) heteroarthrocarpic fruit. cpDNA restriction site data and ITS, trnL, and combined ITS/trnL sequence data were obtained for 22, 104, 94, and 87 taxa in the tribe, respectively. Results from maximum parsimony analyses of the cpDNA and ITS and ITS/trnL sequence data showed a monophyletic origin for the tribe, with the inclusion of controversial members Calepina, Conringia, and Orychophragmus. ITS- and ITS/trnL-based clades corresponded to taxonomic subtribes: Vellinae, Zillinae, and Savignyinae; but as with previous cpDNA studies, there was little support for subtribes Brassicinae, Raphaninae, and Moricandiinae. Although there was no support for the Rapa/Oleracea or Nigra cpDNA lineages, many cpDNA subclades within each of them were evident in the ITS- and ITS/trnL-based phylogeny. The trnL sequence data provided little or no resolution of tribal or subtribal limits. The ITS data indicated polyphyletic origins for Brassica, Diplotaxis, and Erucastrum.Key words: Brassiceae, Calepina, Conringia, Orychophragmus, ITS, trnL, cpDNA restriction site polymorphisms.

Systematics and biogeography of Lathyrus (Leguminosae) based on internal transcribed spacer and cpDNA sequence data

2005 ◽  
Vol 92 (7) ◽  
pp. 1199-1209 ◽  
Author(s):  
G. J. Kenicer ◽  
T. Kajita ◽  
R. T. Pennington ◽  
J. Murata
Keyword(s):  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Cpdna Sequence

Genetic diversity and species limits in Veltheimia (Asparagaceae: Scilloideae): insights from noncoding cpDNA sequence data

Phytotaxa ◽  
2020 ◽  
Vol 429 (3) ◽  
pp. 239-247
Author(s):  
NIGEL P. BARKER ◽  
TAMIKA FELLOWS ◽  
NTOMBIFIKILE PHALISO ◽  
JOHN ROURKE
Keyword(s):  
Genetic Diversity ◽  
Bayesian Analysis ◽  
Southern Africa ◽  
Sequence Data ◽  
Incomplete Lineage Sorting ◽  
Summer Rainfall ◽  
Coastal Forests ◽  
Lineage Sorting ◽  
Dna Sequence Data ◽  
Cpdna Sequence

Veltheimia is a genus of two species of bulbous flowering angiosperms restricted to southern Africa. Both parsimony and Bayesian analysis of 1829 nucleotides of DNA sequence data, from three non-coding chloroplast regions from multiple samples of both species, indicates that specimens of V. bracteata form a monophyletic clade together with three specimens named as V. capensis. This clade receives low support and is embedded within a paraphyletic grade of specimens of V. capensis. A Median Joining Network analysis of a subset of samples revealed nine haplotypes, the relationships of which mirrored the relationships resolved by the Bayesian analysis. With the exception of the V. capensis members of the V. bracteata clade, the remaining specimens are from the summer rainfall thicket and coastal forests. The samples of the basal V. capensis grade are found in the winter rainfall regions of southern Africa. These results indicate that there is limited genetic diversity within the genus, and there is no clear distinction between these two species based on plastid non-coding DNA data. This may be due to their recent divergence and incomplete lineage sorting, or recent or ongoing hybridisation and / or introgression.

scholarly journals Genetic divergence in Cork Oak based on cpDNA sequence data

2011 ◽  
Vol 5 (Suppl 7) ◽  
pp. P13 ◽  
Author(s):  
Joana Costa ◽  
Célia Miguel ◽  
Helena Almeida ◽  
Margarida M Oliveira ◽  
José A Matos ◽  
...  
Keyword(s):  
Genetic Divergence ◽  
Sequence Data ◽  
Cork Oak ◽  
Cpdna Sequence

Polyphyly of the genus Micromeria (Lamiaceae) — evidence from cpDNA sequence data

Taxon ◽  
2005 ◽  
Vol 54 (3) ◽  
pp. 639-650 ◽  
Author(s):  
Christian Bräuchler ◽  
Harald Meimberg ◽  
Tilman Abele ◽  
Günther Heubl
Keyword(s):  
Sequence Data ◽  
Cpdna Sequence
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