Assessment of species boundaries of the Moringa ovalifolia in Namibia using nuclear its DNA sequence data

2020 ◽  
Vol 131 ◽  
pp. 335-341
Author(s):  
M.K. Hausiku ◽  
E.G. Kwembeya ◽  
P.M. Chimwamurombe ◽  
A. Mbangu
Keyword(s):  
Dna Sequence ◽  
Sequence Data ◽  
Species Boundaries ◽  
Dna Sequence Data ◽  
Nuclear Its

Molecular phylogenetics of the Onobrychis genus (Fabaceae: Papilionoideae) using ITS and trnL–trnF DNA sequence data

2014 ◽  
Vol 62 (3) ◽  
pp. 235 ◽  
Author(s):  
S. Safaei Chaei Kar ◽  
F. Ghanavati ◽  
M. R. Naghavi ◽  
H. Amirabadi-zade ◽  
R. Rabiee
Keyword(s):  
Dna Sequence ◽  
Molecular Phylogenetics ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Dna Sequence Data ◽  
Group I ◽  
Molecular Phylogenetic ◽  
Nuclear Its ◽  
Cultivated Species ◽  
Relationship Of

Onobrychis, comprising more than 130 species, is a genus of the family Fabaceae. At this time, the interspecies relationship of this biologically important genus is still a subject of great discussion and debate. To help resolve this disagreement, we used molecular phylogeny to analyse internal transcribed spacer (ITS) and trnL–trnF sequences of 76 species of Onobrychis. Bayesian interference, maximum parsimony and maximum likelihood analyses of nuclear ITS and plastid trnL–trnF DNA sequence data generated trees with strong posterior probability for two groups: Onobrychis subgen. Sisyrosema (including: Heliobrychis, Hymenobrychis, Afghanicae and Anthyllium sections) along with Laxiflorae section in Group I and Onobrychis subgen. Onobrychis (except Laxiflorae section) in the other (Group II). The Laxiflorae section roots back to the ancestral node for Sisyrosema subgen. O. viciifolia (cultivated species), which is closely associated with O. cyri var. cyri, suggesting that the latter may be a wild progenitor of O. viciifolia. The present study supported the paraphyly of subgenera Onobrychis and Sisyrosema. The study proposed the paraphyletic nature of the sections Onobrychis, Dendrobrychis, Heliobrychis and Hymenobrychis. Together with our molecular phylogenetic analyses we present a review of Onobrychis morphology and discuss and compare our results with those of earlier morphological and molecular phylogenetic analyses.

A Campanulaceous Fate: the Albanian Stenoendemic Asyneuma comosiforme in fact Belongs to Isophyllous Campanula

2009 ◽  
Vol 34 (3) ◽  
pp. 595-601 ◽  
Author(s):  
Božo Frajman ◽  
Gerald M. Schneeweiss
Keyword(s):  
Dna Sequence ◽  
Sequence Data ◽  
Balkan Peninsula ◽  
Small Population ◽  
Phylogenetic Position ◽  
Biodiversity Hotspots ◽  
Dna Sequence Data ◽  
Main Clade ◽  
Restricted Distribution ◽  
Nuclear Its

The Balkan Peninsula is one of the few biodiversity hotspots in Europe, characterized by numerous endemic taxa. Due to their often-restricted distribution and the scarcity of modern phylogenetic and phylogeographic studies from this region, the phylogenetic position and taxonomy of these species are often poorly understood. One example is Asyneuma comosiforme, a stenoendemic species known only from the Shija Gorge in northeastern Albania. Since its description in 1921, the position of this poorly known species within Asyneuma has been questioned. Here, we use nuclear ITS and plastid trnL–trnF DNA sequence data to address the question of the phylogenetic position of this enigmatic species. The inferred phylogenies clearly support A. comosiforme as sister to the main clade of isophyllous Campanula species, which is supported by morphological and ecological similarities. Thus, a new nomenclatural combination, Campanula comosiformis, is proposed. Given the restricted distribution, this species should be considered at least vulnerable, but the small population size might warrant its classification as endangered.

Delimiting species boundaries for endangered Canary Island grasshoppers based on DNA sequence data

2006 ◽  
Vol 8 (3) ◽  
pp. 587-598 ◽  
Author(s):  
Heriberto López ◽  
Hermans G. Contreras-Díaz ◽  
Pedro Oromí ◽  
Carlos Juan
Keyword(s):  
Dna Sequence ◽  
Canary Island ◽  
Sequence Data ◽  
Species Boundaries ◽  
Dna Sequence Data

scholarly journals Model-Based Species Delimitation: Are Coalescent Species Reproductively Isolated?

2019 ◽  
Vol 69 (4) ◽  
pp. 708-721 ◽  
Author(s):  
Luke C Campillo ◽  
Anthony J Barley ◽  
Robert C Thomson
Keyword(s):  
Reproductive Isolation ◽  
Dna Sequence ◽  
Sequence Data ◽  
Species Recognition ◽  
Species Boundaries ◽  
Simultaneous Estimation ◽  
Dna Sequence Data ◽  
Multispecies Coalescent ◽  
Species Pairs ◽  
History Of

Abstract A large and growing fraction of systematists define species as independently evolving lineages that may be recognized by analyzing the population genetic history of alleles sampled from individuals belonging to those species. This has motivated the development of increasingly sophisticated statistical models rooted in the multispecies coalescent process. Specifically, these models allow for simultaneous estimation of the number of species present in a sample of individuals and the phylogenetic history of those species using only DNA sequence data from independent loci. These methods hold extraordinary promise for increasing the efficiency of species discovery but require extensive validation to ensure that they are accurate and precise. Whether the species identified by these methods correspond to the species that would be recognized by alternative species recognition criteria (such as measurements of reproductive isolation) is currently an open question and a subject of vigorous debate. Here, we perform an empirical test of these methods by making use of a classic model system in the history of speciation research, flies of the genus Drosophila. Specifically, we use the uniquely comprehensive data on reproductive isolation that is available for this system, along with DNA sequence data, to ask whether Drosophila species inferred under the multispecies coalescent model correspond to those recognized by many decades of speciation research. We found that coalescent based and reproductive isolation-based methods of inferring species boundaries are concordant for 77% of the species pairs. We explore and discuss potential explanations for these discrepancies. We also found that the amount of prezygotic isolation between two species is a strong predictor of the posterior probability of species boundaries based on DNA sequence data, regardless of whether the species pairs are sympatrically or allopatrically distributed. [BPP; Drosophila speciation; genetic distance; multispecies coalescent.]

Molecular Systematics of Lecanora Subgenus Placodium

1998 ◽  
Vol 30 (4-5) ◽  
pp. 415-425 ◽  
Author(s):  
Ulf Arup ◽  
Martin Grube
Keyword(s):  
Dna Sequence ◽  
Molecular Systematics ◽  
Sequence Data ◽  
Sister Group ◽  
Molecular Data ◽  
Monotypic Genus ◽  
Secondary Chemistry ◽  
Dna Sequence Data ◽  
Group A ◽  
Nuclear Its

AbstractA first hypothesis for the phylogeny of Lecanora subgen. Placodium is presented by using molecular data. Previous evolutionary ideas and classification concepts for this group with non-molecular data are re-investigated using DNA sequence data from the nuclear ITS and 5.8S regions. Using Protoparmelia as an outgroup, the Lecanora subfusca group together with the L. rupicola group appear as a sister group to assemblages with lobate species. Subgen. Placodium as currently accepted, is not monophyletic. Molecular data suggest that the Lecanora dispersa group and the L. polytropa group are widened by lobate species and there is evidence from the ITS data that the monotypic genus Arctopeltis Poelt is closely related to the L. dispersa group. A congruence between molecular data and secondary chemistry supports the broader concept of the L. dispersa group suggested by the molecular data.

Bulbophyllum yongtaiense (Orchidaceae, Epidendroideae, Dendrobiinae), a new species from Fujian, China: Evidence from morphological and molecular analyses

Phytotaxa ◽  
2018 ◽  
Vol 349 (3) ◽  
pp. 281
Author(s):  
JIANGFENG LIU ◽  
MINGHE LI ◽  
SIREN LAN ◽  
YICHI LIANG
Keyword(s):  
New Species ◽  
Dna Sequence ◽  
Sequence Data ◽  
Orchid Species ◽  
Molecular Analyses ◽  
Dna Sequence Data ◽  
Data Support ◽  
Nuclear Its ◽  
Obtuse Apex ◽  
A New Species

Bulbophyllum yongtaiense, a new orchid species from Fujian, China, is described and illustrated based on morphological and molecular analyses. Detailed morphological comparisons indicate that B. yongtaiense is similar to B. kuanwuense, but it can be distinguished from longer scape, fimbriate-ciliate on margins of dorsal sepals and petals, petals with obtuse apex and a lip with finely papillose near base. Molecular analyses based on nuclear ITS and plastid matK, atpI-atpH, and trnL-F DNA sequence data support B. yongtaiense is genetically similar to B. hirundinis and B. pecten-veneris, but it can be distinguished from them by having shorter lateral sepals, petals with obtuse apex and a lip with finely papillose near base.

scholarly journals Model-based species delimitation: are coalescent species reproductively isolated?

2019 ◽  
Author(s):  
Luke C. Campillo ◽  
Anthony J. Barley ◽  
Robert C. Thomson
Keyword(s):  
Reproductive Isolation ◽  
Dna Sequence ◽  
Sequence Data ◽  
Species Recognition ◽  
Species Boundaries ◽  
Simultaneous Estimation ◽  
Dna Sequence Data ◽  
Multispecies Coalescent ◽  
Species Pairs ◽  
History Of

ABSTRACTA large and growing fraction of systematists define species as independently evolving lineages that may be recognized by analyzing the population genetic history of alleles sampled from individuals belonging to those species. This has motivated the development of increasingly sophisticated statistical models rooted in the multispecies coalescent process. Specifically, these models allow for simultaneous estimation of the number of species present in a sample of individuals and the phylogenetic history of those species using only DNA sequence data from independent loci. These methods hold extraordinary promise for increasing the efficiency of species discovery, but require extensive validation to ensure that they are accurate and precise. Whether the species identified by these methods correspond to the species that would be recognized by alternative species recognition criteria (such as measurements of reproductive isolation) is currently an open question, and a subject of vigorous debate. Here we perform an empirical test of these methods by making use of a classic model system in the history of speciation research, flies of the genus Drosophila. Specifically, we use the uniquely comprehensive data on reproductive isolation that is available for this system, along with DNA sequence data, to ask whether Drosophila species inferred under the multispecies coalescent model correspond to those recognized by many decades of speciation research. We found that coalescent based and reproductive isolation based methods of inferring species boundaries are concordant for 77% of the species pairs. We explore and discuss potential explanations for these discrepancies. We also found that the amount of prezygotic isolation between two species is a strong predictor of the posterior probability of species boundaries based on DNA sequence data, regardless of whether the species pairs are sympatrically or allopatrically distributed.

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