scholarly journals Phylogenetic relationships among gekkotan lizards inferred from C-mos nuclear DNA sequences and a new classification of the Gekkota

2004 ◽  
Vol 83 (3) ◽  
pp. 353-368 ◽  
Author(s):  
DEMIN HAN ◽  
KAIYA ZHOU ◽  
AARON M. BAUER
Keyword(s):  
Dna Sequences ◽  
Phylogenetic Relationships ◽  
Nuclear Dna ◽  
New Classification

Towards a new classification of tribe Stachydeae (Lamiaceae): naming clades using molecular evidence

2019 ◽  
Vol 190 (4) ◽  
pp. 345-358 ◽  
Author(s):  
Yasaman Salmaki ◽  
Günther Heubl ◽  
Maximilian Weigend
Keyword(s):  
Ribosomal Dna ◽  
Dna Sequences ◽  
Phylogenetic Relationships ◽  
Nuclear Ribosomal Dna ◽  
Molecular Evidence ◽  
New Classification ◽  
Formal Classification ◽  
Phylogenetic Nomenclature

AbstractStachydeae, comprising c. 470 species, are one of the most diverse and taxonomically puzzling groups in Lamioideae. In the present study, the phylogenetic relationships in the Eurystachys clade (a phylogenetic name for all genera attributed to Stachydeae except Melittis) were reconstructed utilizing nuclear ribosomal DNA sequences (nrETS, 5S-NTS) from 148 accessions in 12 genera. Our phylogenetic results recovered Stachys as paraphyletic with numerous traditionally recognized genera nested in it. A broadly defined Eurystachys clade, however, was monophyletic. Unlike previous studies, the present study was able to resolve the group into 12 well-supported clades, named here as (1) Eriostomum, (2) Stachys, (3) Prasium, (4) Setifolia, (5) Distantes, (6) Burgsdorfia, (7) Hesiodia, (8) Empedoclia, (9) Sideritis, (10) Marrubiastrum, (11) Swainsoniana and (12) Olisia. These 12 clades were formally named in a phylogenetic nomenclature for the Eurystachys clade. Several infrageneric units were retrieved as monophyletic, namely Sideritis sections Burgsdorfia, Empedoclia and Hesiodia, Sideritis subgenus Marrubiastrum and Stachys sections Eriostomum (including Stachys section Mucronata) and Setifolia. The findings of this study also provide the basis for a future formal classification, with two options: (1) splitting of the Eurystachys clade into 12 monophyletic genera, all of them based on pre-existing genus names and redefined to encompass additional taxa, but without clear morphological apomorphies; or (2) lumping of all segregates into a broadly defined Stachys, including widely recognized and well-defined segregates such as Prasium and Sideritis.

New subtribe Pachitinae (Orchideae) of Orchidaceae: Evidence from morphological and molecular analyses

Phytotaxa ◽  
2017 ◽  
Vol 329 (2) ◽  
pp. 114
Author(s):  
GUI-ZHEN CHEN ◽  
JIE HUANG ◽  
GUO-QIANG ZHANG ◽  
LIANG MA ◽  
SHI-PIN CHEN
Keyword(s):  
Dna Sequences ◽  
Phylogenetic Relationships ◽  
Nuclear Dna ◽  
Molecular Analyses ◽  
Taxonomic Treatment

The subtribal delimitation and relationships of Orchideae remain unresolved. In the present study, the phylogenetic relationships among all subtribes of Orchideae were reconstructed, utilizing five plastid and two nuclear DNA sequences (rbcL, trnS-trnG, matK, trnL-F, psbA-trnH, Xdh and ITS) from 178 taxa of Orchideae. The combined results show that most clades are successively sister to the grade of clades representing antecedently accepted subtribes, but Pachites and Huttonaea do not belong to the previous classification of Disinae. In contrast, these two genera represent two additional isolated lineages. On this basis, a new subtribe, Pachitinae, is tentatively proposed to accommodate this taxon. Also, the subtribe Huttonaeinae Schltr. was recovered (1926: 568). In addition to the taxonomic treatment of this subtribe, the delimitation of many related subtribes in Orchideae is discussed.

scholarly journals Phylogenetic relationships of Cranichidinae and Prescottiinae (Orchidaceae, Cranichideae) inferred from plastid and nuclear DNA sequences

2009 ◽  
Vol 104 (3) ◽  
pp. 403-416 ◽  
Author(s):  
Gerardo A. Salazar ◽  
Lidia I. Cabrera ◽  
Santiago Madriñán ◽  
Mark W. Chase
Keyword(s):  
Dna Sequences ◽  
Phylogenetic Relationships ◽  
Nuclear Dna

Phylogenetic relationships and classification of the Malagasy pseudoxyrhophiine snake genera Geodipsas and Compsophis based on morphological and molecular data

Zootaxa ◽  
2007 ◽  
Vol 1517 (1) ◽  
pp. 53-62 ◽  
Author(s):  
FRANK GLAW ◽  
ZOLTÁN T. NAGY ◽  
MIGUEL VENCES
Keyword(s):  
Dna Sequences ◽  
Phylogenetic Relationships ◽  
Close Relationships ◽  
Original Description ◽  
Molecular Data ◽  
Morphological Data ◽  
Molecular Phylogenetic ◽  
Species Groups ◽  
Morphological And Molecular Data

Based on a specimen found at Montagne d'Ambre in northern Madagascar morphologically agreeing with Compsophis albiventris Mocquard, 1894, we report on the rediscovery of this enigmatic snake genus and species and its molecular phylogenetic relationships. Compsophis albiventris, considered to be the only representative of its genus and unreported since its original description, bears strong morphological similarities to species of Geodipsas Boulenger, 1896. A molecular phylogeny based on DNA sequences of three mitochondrial and nuclear genes (complete cytochrome b, fragments of 16S rRNA and c-mos) in Compsophis albiventris and three Geodipsas species corroborated close relationships between C. albiventris and Geodipsas boulengeri, and showed that the genera Compsophis and Geodipsas together form a monophyletic unit. Despite the general similarities, morphological data and chromatic features support the existence of two species groups, corresponding to Compsophis and Geodipsas. We consequently consider Geodipsas as a subgenus of Compsophis and transfer all species currently in Geodipsas into the genus Compsophis.

Phylogenetic Relationships of Zeugites (Poaceae: Centothecoideae) Inferred from Plastid and Nuclear DNA Sequences and Morphology

2007 ◽  
Vol 32 (4) ◽  
pp. 722-730
Author(s):  
Ana María Soriano Martínez ◽  
Gerardo A. Salazar ◽  
Patricia Dávila Aranda
Keyword(s):  
Dna Sequences ◽  
Phylogenetic Relationships ◽  
Nuclear Dna

A phylogeny and classification of the Muhlenbergiinae (Poaceae: Chloridoideae: Cynodonteae) based on plastid and nuclear DNA sequences

2010 ◽  
Vol 97 (9) ◽  
pp. 1532-1554 ◽  
Author(s):  
Paul M. Peterson ◽  
Konstantin Romaschenko ◽  
Gabriel Johnson
Keyword(s):  
Dna Sequences ◽  
Nuclear Dna

scholarly journals Multiloci analyses suggest synonymy among Rhomboplites, Ocyurus and Lutjanus and reveal the phylogenetic position of Lutjanus alexandrei (Lutjanidae: Perciformes)

2019 ◽  
Vol 17 (1) ◽  
Author(s):  
Ivana Veneza ◽  
Raimundo da Silva ◽  
Danillo da Silva ◽  
Grazielle Gomes ◽  
Iracilda Sampaio ◽  
...  
Keyword(s):  
Coastal Zone ◽  
Dna Sequences ◽  
Endemic Species ◽  
Phylogenetic Relationships ◽  
Nuclear Dna ◽  
Genetic Identity ◽  
Phylogenetic Position ◽  
Brazilian Coast ◽  
Western Atlantic ◽  
Phylogenetic Hypotheses

ABSTRACT Lutjanidae comprises 21 genera and 135 species widespread throughout Atlantic, Indian and Pacific oceans. Nonetheless, the phylogenetic relationships of Lutjaninae remain uncertain. Furthermore, phylogenetic hypotheses for Lutjanus alexandrei, an endemic species from northeastern Brazilian coast, in Lutjanidae are absent so far. Therefore, we carried out multiloci analyses, combining both mitochondrial and nuclear DNA sequences in Lutjaninae species from Western Atlantic focusing on the controversial relationships among Lutjanus, Rhomboplites, and Ocyurus. Besides, we determined the phylogenetic position and dated the origin of L. alexandrei. The phylogenetics trees based on the 4.4 kb for 11 species corroborated the synonym among Lutjanus and the putative monotypic genera. For the dating of L. alexandrei, another nucleotide dataset (3.0 kb; 40 species) validated the genetic identity of this species that diverged from the sister taxon L. apodus between 2.5 - 6.5 Mya, probably as a result of the barrier caused by the muddy outflow from Orinoco and Amazon rivers along the coastal zone. This report is the most robust multiloci analysis to confirm the synonymy of the three genera of Lutjaninae from Western Atlantic and the first reliable inference about the phylogenetic relationships and origin of L. alexandrei.

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