Use of chloroplast DNA polymorphisms for the phylogenetic study of seven Phaseolus taxa including P. vulgaris and P. coccineus

1993 ◽  
Vol 87 (4) ◽  
pp. 506-516 ◽  
Author(s):  
V. Schmit ◽  
P. du Jardin ◽  
J. P. Baudoin ◽  
D. G. Debouck
Keyword(s):  
Chloroplast Dna ◽  
Dna Polymorphisms ◽  
Phylogenetic Study

scholarly journals Chloroplast DNA polymorphisms in lodgepole and jack pines and their hybrids.

1987 ◽  
Vol 84 (7) ◽  
pp. 2097-2100 ◽  
Author(s):  
D. B. Wagner ◽  
G. R. Furnier ◽  
M. A. Saghai-Maroof ◽  
S. M. Williams ◽  
B. P. Dancik ◽  
...  
Keyword(s):  
Chloroplast Dna ◽  
Dna Polymorphisms

Is Ronnbergia (Bromeliaceae, Bromelioideae) a geographically disjunct genus? Evidence from morphology and chloroplast DNA sequence data

Phytotaxa ◽  
2015 ◽  
Vol 219 (3) ◽  
pp. 261 ◽  
Author(s):  
Julian Aguirre-Santoro ◽  
Julio Betancur ◽  
Gregory K. Brown ◽  
Timothy M. Evans ◽  
Fabiano Salgueiro ◽  
...  
Keyword(s):  
Chloroplast Dna ◽  
Dna Sequence ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Phylogenetic Reconstruction ◽  
Morphological Data ◽  
Phylogenetic Study ◽  
Geographic Ranges ◽  
Dna Sequence Data ◽  
Disjunct Genus

A phylogenetic study testing the monophyly of the geographically disjunct genus Ronnbergia (Bromeliaceae, Bromelioideae) is presented. The phylogenetic analyses were based on taxon sampling that included all but one species of Ronnbergia, and representative lineages across the subfamily Bromelioideae. Three chloroplast DNA sequence markers (matK, psbA-trnH, and trnL-trnF) and morphological data were used for the phylogenetic reconstruction. Both the molecular and morphological datasets supported the polyphyly of Ronnbergia, either independently or in combination. These findings suggest that the geographic disjunction of this genus is most likely a product of taxonomic misinterpretation. The results also indicate that the species currently circumscribed in Ronnbergia are closely related to species in the genus Aechmea with similar geographic ranges. The datasets do not have enough resolution power to reconstruct a deep phylogenetic history that involves all the species of Ronnbergia. Nevertheless, this study provides clues for future approaches that should focus on a larger species sampling and the use of multi-locus DNA sequence data.

Chloroplast DNA polymorphisms in eastern hemlock: range-wide genogeographic analyses and implications for gene conservation

2011 ◽  
Vol 41 (5) ◽  
pp. 1047-1059 ◽  
Author(s):  
Michée Joseph Lemieux ◽  
Jean Beaulieu ◽  
Jean Bousquet
Keyword(s):  
Chloroplast Dna ◽  
Population Differentiation ◽  
Genetic Distances ◽  
Adelges Tsugae ◽  
Eastern Hemlock ◽  
Dna Polymorphisms ◽  
Ex Situ ◽  
Glacial Refugium ◽  
Geographical Pattern ◽  
Genetic Patterns

The objective of this study was to determine if the genetic diversity of eastern hemlock ( Tsuga canadensis (L.) Carrière) is uniformly distributed or structured. Such information is relevant to help guide conservation efforts. Individuals were sampled in 60 range-wide populations of T. canadensis and genotyped at seven polymorphic chloroplast DNA loci. All 16 chlorotypes identified in T. canadensis were highly divergent from the unique chlorotype detected in Carolina hemlock ( Tsuga caroliniana Engelm.). Among-population differentiation in T. canadensis was low (GST = 0.020) and the distribution of chlorotypes did not show any strong geographical pattern, which is likely due to the homogenizing effect of pollen gene flow during the Holocene. Nevertheless, a spatial Bayesian approach revealed two distinct groups of populations. Furthermore, an analysis of relative genetic distances indicated that southeastern Appalachian populations harboured greater population differentiation while conserving relatively high allelic richness, which might represent the imprint of an ancient glacial refugium in the region. Thus, these distinctive genetic patterns and the risk of Tsuga decline following climate warming combined with the introduction of the insect Adelges tsugae (Annand) indicate that the southern part of the range should be considered of high priority for ex situ conservation.

scholarly journals Chloroplast DNA diversity among trees, populations and species in the California closed-cone pines (Pinus radiata, Pinus muricata and Pinus attenuata).

Genetics ◽  
1993 ◽  
Vol 135 (4) ◽  
pp. 1187-1196
Author(s):  
Y P Hong ◽  
V D Hipkins ◽  
S H Strauss
Keyword(s):  
Genetic Variation ◽  
Chloroplast Dna ◽  
Pinus Radiata ◽  
Nucleotide Diversity ◽  
Restriction Enzymes ◽  
Dna Polymorphisms ◽  
Pinus Muricata ◽  
Monterey Pine ◽  
Haplotypic Diversity ◽  
Closed Cone

Abstract The amount, distribution and mutational nature of chloroplast DNA polymorphisms were studied via analysis of restriction fragment length polymorphisms in three closely related species of conifers, the California closed-cone pines-knobcone pine: Pinus attenuata Lemm.; bishop pine: Pinus muricata D. Don; and Monterey pine: Pinus radiata D. Don. Genomic DNA from 384 trees representing 19 populations were digested with 9-20 restriction enzymes and probed with cloned cpDNA fragments from Douglas-fir [Pseudotsuga menziesii (Mirb.) Franco] that comprise 82% chloroplast genome. Up to 313 restriction sites were surveyed, and 25 of these were observed to be polymorphic among or within species. Differences among species accounted for the majority of genetic (haplotypic) diversity observed [Gst = 84(+/- 13)%]; nucleotide diversity among species was estimated to be 0.3(+/- 0.1)%. Knobcone pine and Monterey pine displayed almost no genetic variation within or among populations. Bishop pine also showed little variability within populations, but did display strong population differences [Gst = 87(+/- 8)%] that were a result of three distinct geographic groups. Mean nucleotide diversity within populations was 0.003(+/- 0.002)%; intrapopulation polymorphisms were found in only five populations. This pattern of genetic variation contrasts strongly with findings from study of nuclear genes (allozymes) in the group, where most genetic diversity resides within populations rather than among populations or species. Regions of the genome subject to frequent length mutations were identified; estimates of subdivision based on length variant frequencies in one region differed strikingly from those based on site mutations or allozymes. Two trees were identified with a major chloroplast DNA inversion that closely resembled one documented between Pinus and Pseudotsuga.

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