scholarly journals Phylogenetic Analysis of the Far Eastern Salix (Salicaceae) Based on Sequence Data from Chloroplast DNA Regions and ITS of Nuclear Ribosomal DNA

2014 ◽  
Vol 3 (1) ◽  
pp. 3-19
Author(s):  
Vyacheslav Y. Barkalov ◽  
◽  
Marina M. Kozyrenko ◽  
Keyword(s):  
Phylogenetic Analysis ◽  
Chloroplast Dna ◽  
Ribosomal Dna ◽  
Sequence Data ◽  
Nuclear Ribosomal Dna ◽  
Chloroplast Dna Regions ◽  
Far Eastern

scholarly journals Population Genetic Analysis ofLobelia rhynchopetalumHemsl. (Campanulaceae) Using DNA Sequences fromITSand Eight Chloroplast DNA Regions

2012 ◽  
Vol 2012 ◽  
pp. 1-10 ◽  
Author(s):  
Mulatu Geleta ◽  
Tomas Bryngelsson
Keyword(s):  
Chloroplast Dna ◽  
Dna Sequences ◽  
Population Genetic ◽  
Sequence Data ◽  
Gene Diversity ◽  
Nuclear Ribosomal Dna ◽  
Bootstrap Support ◽  
Population Genetic Analysis ◽  
Mountain Systems ◽  
Chloroplast Dna Regions

DNA sequence data from the internal transcribed spacer of nuclear ribosomal DNA and eight chloroplast DNA regions were used to investigate haplotypic variation and population genetic structure of the Afroalpine giant lobelia,Lobelia rhynchopetalum.The study was based on eight populations sampled from two mountain systems in Ethiopia. A total of 20 variable sites were obtained, which resulted in 13 unique haplotypes and an overall nucleotide diversity (ND) of 0.281 ± 0.15 and gene diversity (GD) of 0.85 ± 0.04. Analysis of molecular variance (AMOVA) revealed a highly significant variation (P<0.001) among populations (FST), and phylogenetic analysis revealed that populations from the two mountain systems formed their own distinct clade with >90% bootstrap support. Each population should be regarded as a significant unit for conservation of this species. The primers designed for this study can be applied to anyLobeliaand other closely related species for population genetics and phylogenetic studies.

THE PHYLOGENY OF TRIBE ZINGIBEREAE (ZINGIBERACEAE) BASED ON ITS (nrDNA) AND trnL–F (cpDNA) SEQUENCES

2003 ◽  
Vol 60 (3) ◽  
pp. 483-507 ◽  
Author(s):  
C. NGAMRIABSAKUL ◽  
M. F. NEWMAN ◽  
Q. C. B. CRONK
Keyword(s):  
Phylogenetic Analysis ◽  
Chloroplast Dna ◽  
Ribosomal Dna ◽  
Nuclear Ribosomal Dna ◽  
Its Nrdna ◽  
First Time

A phylogenetic analysis of the tribe Zingibereae (Zingiberaceae) was performed using nuclear ribosomal DNA (ITS1, 5.8S and ITS2) and chloroplast DNA (trnL (UAA) 5′ exon to trnF (GAA)). The tribe is monophyletic with two major clades, the Curcuma clade and the Hedychium clade. Paracautleya, sampled for the first time, comes out as predicted while Caulokaempferia comes out in a different position from that found in another recent study. The genera Boesenbergia and Curcuma are apparently not monophyletic.

Twenty-six new species of Saussurea (Asteraceae, Cardueae) from the Qinghai-Tibetan Plateau and adjacent regions

Phytotaxa ◽  
2015 ◽  
Vol 213 (3) ◽  
pp. 159 ◽  
Author(s):  
Yousheng Chen ◽  
Qian Yuan
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Tibetan Plateau ◽  
Chloroplast Dna ◽  
Ribosomal Dna ◽  
Internal Transcribed Spacer ◽  
Nuclear Ribosomal Dna ◽  
Molecular Phylogenetic Analysis ◽  
Molecular Tree ◽  
Molecular Phylogenetic

Twenty-six new species of Saussurea (Asteraceae, Cardueae) from the Qinghai-Tibetan Plateau and adjacent regions are described and illustrated. Our molecular phylogenetic analysis based on the nuclear ribosomal DNA internal transcribed spacer (ITS) and two chloroplast DNA fragments (trnL-F and psbA-trnH) has shown that most of the new species are well recognized in the molecular tree, with their taxonomic affinities also largely revealed.

Synonymy of the three Villaria Rolfe species (Rubiaceae): evidence from morphological and nuclear ribosomal DNA sequence data

Acta Manilana ◽  
2010 ◽  
Vol 56 (0) ◽  
Author(s):  
GJD Alejandro ◽  
DLA Arlegui ◽  
PMO Detabali ◽  
EA Espino ◽  
EG Layson ◽  
...  
Keyword(s):  
Dna Sequence ◽  
Ribosomal Dna ◽  
Sequence Data ◽  
Nuclear Ribosomal Dna ◽  
Dna Sequence Data ◽  
Ribosomal Dna Sequence

Reciprocal monophyly of Craspedia and Pycnosorus (Asteraceae, Gnaphalieae) and the problems of using ribosomal DNA at the lowest taxonomic levels

2013 ◽  
Vol 26 (3) ◽  
pp. 233 ◽  
Author(s):  
Alexander N. Schmidt-Lebuhn
Keyword(s):  
Phylogenetic Analysis ◽  
Chloroplast Dna ◽  
Ribosomal Dna ◽  
Species Tree ◽  
Gene Trees ◽  
Species Relationships ◽  
Reciprocal Monophyly ◽  
Molecular Phylogenies

The reciprocal monophyly of Craspedia and Pycnosorus (Asteraceae, Gnaphalieae) is tested, with a phylogenetic analysis of ribosomal and chloroplast DNA. Although one species of the latter genus was not sampled, the results of the present study indicated that it is most likely monophyletic as opposed to paraphyletic with respect to Craspedia. Within Craspedia, deeper sampling results in the appearance of several species (C. aurantia, C. coolaminica, C. glabrata and C. variabilis) in both major Australian rDNA clades, indicating that the available molecular phylogenies have to be considered gene trees instead of species phylogenies. Additional studies using more independent loci and species-tree approaches are needed to resolve species relationships in the genus.

scholarly journals A phylogenetic analysis and new delimitation of Crepidiastrum (Asteraceae, tribe Cichorieae)

Phytotaxa ◽  
2014 ◽  
Vol 159 (4) ◽  
pp. 241 ◽  
Author(s):  
Yu-lan Peng ◽  
Yu Zhang ◽  
Xin-fen Gao ◽  
Lin-jing Tong ◽  
Liang Li ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Maximum Likelihood ◽  
Chloroplast Dna ◽  
Maximum Parsimony ◽  
Phylogenetic Analyses ◽  
Systematic Position ◽  
Likelihood Inference ◽  
Nuclear Its ◽  
Chloroplast Dna Regions

The systematic position of Paraixeris humifusa (Asteraceae) is hard to define, because the circumscription of Paraixeris, Youngia and Crepidiastrum, three closely related genera in subtribe Crepidinae (Cichorieae), is not clear. This paper reports on the relationships between 30 species in subtribe Crepidinae, based on an analysis of nucleotides from one nuclear (ITS) and three chloroplast DNA regions ( trnL-F, rps16 and atpB-rbcL). The phylogenetic analyses used maximum parsimony with maximum likelihood inference. The monophyly of Crepidiastrum in the most recent generic classification of Shih & Kilian (2011) is explored. The results show that 12 species in Crepidiastrum constitute a monophyletic group, and that Paraixeris humifusa should be treated as Youngia humifusa.

A phylogenetic analysis of Epimedium (Berberidaceae) based on nuclear ribosomal DNA sequences

2005 ◽  
Vol 35 (1) ◽  
pp. 287-291 ◽  
Author(s):  
Ye Sun ◽  
Kwok-Pui Fung ◽  
Ping-Chung Leung ◽  
Pang-Chui Shaw
Keyword(s):  
Phylogenetic Analysis ◽  
Ribosomal Dna ◽  
Dna Sequences ◽  
Nuclear Ribosomal Dna
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