scholarly journals Diversification of the North American shrub genusCeanothus(Rhamnaceae): conflicting phylogenies from nuclear ribosomal DNA and chloroplast DNA

2000 ◽  
Vol 87 (1) ◽  
pp. 108-123 ◽  
Author(s):  
Terry M. Hardig ◽  
Pamela S. Soltis ◽  
Douglas E. Soltis
Keyword(s):  
Chloroplast Dna ◽  
Ribosomal Dna ◽  
North American ◽  
Nuclear Ribosomal Dna ◽  
The North

scholarly journals The comparison between nuclear ribosomal DNA and chloroplast DNA in molecular systematic study of four sections of genus Dendrobium sw. (orchidaceae)

2016 ◽  
Vol 5 (03) ◽  
pp. 4944 ◽  
Author(s):  
Maryam Moudi* ◽  
Rusea Go
Keyword(s):  
Chloroplast Dna ◽  
Ribosomal Dna ◽  
Morphological Characters ◽  
Molecular Data ◽  
Nuclear Ribosomal Dna ◽  
Phylogenetic Study ◽  
Data Sets ◽  
Molecular Systematic ◽  
Resolution Level ◽  
Reliable Marker

Phylogenetic study of the four sections (Aporum, Crumenata, Strongyle, and Bolbidium) of genus Dendrobium (family Orchidaceae) was conducted using molecular data. Classifications based on morphological characters have not being able to clearly divide these four sections neither do they supported their monophyly origin. Therefore, deeper and detailed analysis especially using molecular data is required to ascertain their status. Molecular evidences were used to clarify their relations either to lump them into one section or reduce them into two. The study has been carried out for the 34 species of Dendrobium using Maximum Parsimony (MP). Three nucleotide sequences data sets from two distinct genomes chloroplast DNA genes (rbcL and matK) and nuclear ribosomal DNA (ITS) were used to construct cladograms. The results that obtained from the Internal Transcribed Spacer (ITS) gene showed that the nuclear genes are reliable marker for the phylogenetic study of Dendrobium compared to chloroplast DNA with low resolution level among sections. 

Phylogeny and biogeography of Apiaceae tribe Oenantheae inferred from nuclear rDNA ITS and cpDNA psbI–5′trnK(UUU) sequences, with emphasis on the North American Endemics clade

Botany ◽  
2008 ◽  
Vol 86 (9) ◽  
pp. 1039-1064 ◽  
Author(s):  
Stephen R. Downie ◽  
Deborah S. Katz-Downie ◽  
Feng-Jie Sun ◽  
Chang-Shook Lee
Keyword(s):  
Dna Sequences ◽  
North American ◽  
Maximum Parsimony ◽  
Nuclear Dna ◽  
Sequence Data ◽  
Sister Group ◽  
Nuclear Ribosomal Dna ◽  
Intergenic Spacers ◽  
Rdna Its ◽  
The North

Intergeneric phylogenetic relationships within Apiaceae tribe Oenantheae were investigated using sequence data from the chloroplast DNA psbI–5′trnK(UUU) and nuclear ribosomal DNA internal transcribed spacer regions. One hundred and thirty-one accessions were examined, representing all 17 genera of the tribe and approximately one-half of its species. The cpDNA region includes four intergenic spacers and the rps16 intron and these noncoding loci were analyzed separately to assess their relative utility for resolving relationships. Separate maximum parsimony analyses of the entire psbI–5′trnK(UUU) and ITS regions, each with and without scored indels, yielded concordant trees. Phylogenies derived from maximum parsimony, Bayesian, or maximum likelihood analyses of combined chloroplast and nuclear DNA sequences for 82 accessions were highly resolved, well supported, and consistent. Among the five noncoding loci examined, the trnQ(UUG)–5′rps16 and 3′rps16–5′trnK(UUU) intergenic spacers are the most variable, with the latter contributing the greatest total number of parsimony informative characters relative to its size. The North American genera Atrema , Cynosciadium , Daucosma , Limnosciadium , Neogoezia , Oxypolis , Ptilimnium , and Trepocarpus ally with the western hemispheric and Australasian genus Lilaeopsis in a strongly supported North American Endemics clade that is a sister group to a clade composed primarily of Old World taxa ( Berula sensu lato, Cryptotaenia , Helosciadium , and Sium ). Oxypolis and Ptilimnium are not monophyletic, with the rachis-leaved members of each comprising a clade separate from their compound-leaved congeners. Dispersal-vicariance analysis suggests that the ancestors of the North American Endemics clade probably originated in Canada and the USA or in a broader ancestral area including Mexico and South America.

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.

Origin and phylogeny of Guinea yams as revealed by RFLP analysis of chloroplast DNA and nuclear ribosomal DNA

1992 ◽  
Vol 83-83 (6-7) ◽  
pp. 743-751 ◽  
Author(s):  
R. Terauchi ◽  
V. A. Chikaleke ◽  
G. Thottappilly ◽  
S. K. Hahn
Keyword(s):  
Chloroplast Dna ◽  
Ribosomal Dna ◽  
Rflp Analysis ◽  
Nuclear Ribosomal Dna ◽  
Guinea Yams

The Phylogeny of Rosoideae (Rosaceae) Based on Sequences of the Internal Transcribed Spacers (ITS) of Nuclear Ribosomal DNA and the trnL/F Region of Chloroplast DNA

2003 ◽  
Vol 164 (2) ◽  
pp. 197-211 ◽  
Author(s):  
Torsten Eriksson ◽  
Malin S. Hibbs ◽  
Anne D. Yoder ◽  
Charles F. Delwiche ◽  
Michael J. Donoghue
Keyword(s):  
Chloroplast Dna ◽  
Ribosomal Dna ◽  
Internal Transcribed Spacers ◽  
Nuclear Ribosomal Dna ◽  
F Region
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