scholarly journals Evolutionary relationships within the lamioid tribe Synandreae (Lamiaceae) based on multiple low-copy nuclear loci

2016 ◽  
Author(s):  
Tilottama Roy ◽  
Nathan S Catlin ◽  
Drake M.G. Garner ◽  
Philip D Cantino ◽  
Anne-Cathrine Scheen ◽  
...  
Keyword(s):  
Phylogenetic Relationships ◽  
New World ◽  
Sister Group ◽  
Nuclear Ribosomal Dna ◽  
Migration Patterns ◽  
Edaphic Conditions ◽  
South Central ◽  
Nuclear Loci ◽  
Sister Relationships ◽  
And Migration

The subfamily Lamioideae (Lamiaceae) comprises ten tribes, of which only Stachydeae and Synandreae include New World members. Previous studies have investigated the phylogenetic relationships among the members of Synandreae based on plastid and nuclear ribosomal DNA loci. In an effort to re-examine the phylogenetic relationships within Synandreae, the current study incorporates data from four low-copy nuclear loci, PHOT1, PHOT2, COR, and PPR. Our results confirm previous studies based on chloroplast and nuclear ribosomal markers in supporting monophyly of tribe Synandreae, as well as sister relationships between Brazoria and Warnockia, and between that pair of genera and a monophyletic Physostegia. However, we observe incongruence in the relationships of Macbridea and Synandra. The placement of Synandreae within Lamioideae is poorly resolved and incongruent among different analyses, and the sister group of Synandreae remains enigmatic. Comparison of the colonization and migration patterns corroborates a single colonization of the New World by Synandreae during the mid-Miocene. This is in contrast to the only other lamioid tribe that includes New World members, Stachydeae, which colonized the New World at least twice—during the mid-Miocene and Pliocene. Edaphic conditions and intolerance of soil acidity may be factors that restricted the distribution of most genera of Synandreae to southeastern and south-central North America, whereas polyploidy could have increased the colonizing capability of the more wide-ranging genus, Physostegia.

scholarly journals Evolutionary relationships within the lamioid tribe Synandreae (Lamiaceae) based on multiple low-copy nuclear loci

PeerJ ◽  
2016 ◽  
Vol 4 ◽  
pp. e2220 ◽  
Author(s):  
Tilottama Roy ◽  
Nathan S. Catlin ◽  
Drake M.G. Garner ◽  
Philip D. Cantino ◽  
Anne-Cathrine Scheen ◽  
...  
Keyword(s):  
Phylogenetic Relationships ◽  
New World ◽  
Sister Group ◽  
Nuclear Ribosomal Dna ◽  
Migration Patterns ◽  
Edaphic Conditions ◽  
South Central ◽  
Nuclear Loci ◽  
Sister Relationships ◽  
And Migration

The subfamily Lamioideae (Lamiaceae) comprises ten tribes, of which only Stachydeae and Synandreae include New World members. Previous studies have investigated the phylogenetic relationships among the members of Synandreae based on plastid and nuclear ribosomal DNA loci. In an effort to re-examine the phylogenetic relationships within Synandreae, the current study incorporates data from four low-copy nuclear loci,PHOT1,PHOT2,COR, andPPR. Our results confirm previous studies based on chloroplast and nuclear ribosomal markers in supporting the monophyly of tribe Synandreae, as well as sister relationships betweenBrazoriaandWarnockia, and between that pair of genera and a monophyleticPhysostegia. However, we observe incongruence in the relationships ofMacbrideaandSynandra. The placement of Synandreae within Lamioideae is poorly resolved and incongruent among different analyses, and the sister group of Synandreae remains enigmatic. Comparison of the colonization and migration patterns corroborates a single colonization of the New World by Synandreae during the Late Miocene/Tortonian age. This is in contrast to the only other lamioid tribe that includes New World members, Stachydeae, which colonized the New World at least twice—during the mid-Miocene and Pliocene. Edaphic conditions and intolerance of soil acidity may be factors that restricted the distribution of most genera of Synandreae to southeastern and south–central North America, whereas polyploidy could have increased the colonizing capability of the more wide-ranging genus,Physostegia.

scholarly journals Evolutionary relationships within the lamioid tribe Synandreae (Lamiaceae) based on multiple low-copy nuclear loci

2016 ◽  
Author(s):  
Tilottama Roy ◽  
Nathan S Catlin ◽  
Drake M.G. Garner ◽  
Philip D Cantino ◽  
Anne-Cathrine Scheen ◽  
...  
Keyword(s):  
Phylogenetic Relationships ◽  
New World ◽  
Sister Group ◽  
Nuclear Ribosomal Dna ◽  
Migration Patterns ◽  
Edaphic Conditions ◽  
South Central ◽  
Nuclear Loci ◽  
Sister Relationships ◽  
And Migration

The subfamily Lamioideae (Lamiaceae) comprises ten tribes, of which only Stachydeae and Synandreae include New World members. Previous studies have investigated the phylogenetic relationships among the members of Synandreae based on plastid and nuclear ribosomal DNA loci. In an effort to re-examine the phylogenetic relationships within Synandreae, the current study incorporates data from four low-copy nuclear loci, PHOT1, PHOT2, COR, and PPR. Our results confirm previous studies based on chloroplast and nuclear ribosomal markers in supporting monophyly of tribe Synandreae, as well as sister relationships between Brazoria and Warnockia, and between that pair of genera and a monophyletic Physostegia. However, we observe incongruence in the relationships of Macbridea and Synandra. The placement of Synandreae within Lamioideae is poorly resolved and incongruent among different analyses, and the sister group of Synandreae remains enigmatic. Comparison of the colonization and migration patterns corroborates a single colonization of the New World by Synandreae during the mid-Miocene. This is in contrast to the only other lamioid tribe that includes New World members, Stachydeae, which colonized the New World at least twice—during the mid-Miocene and Pliocene. Edaphic conditions and intolerance of soil acidity may be factors that restricted the distribution of most genera of Synandreae to southeastern and south-central North America, whereas polyploidy could have increased the colonizing capability of the more wide-ranging genus, Physostegia.

scholarly journals Reconstructing the phylogeny of new world monkeys (platyrrhini): evidence from multiple non-coding loci

2018 ◽  
Vol 65 (5) ◽  
pp. 579-588 ◽  
Author(s):  
Xiaoping Wang ◽  
Burton K Lim ◽  
Nelson Ting ◽  
Jingyang Hu ◽  
Yunpeng Liang ◽  
...  
Keyword(s):  
Phylogenetic Relationships ◽  
New World ◽  
Sequence Data ◽  
Sister Group ◽  
New World Monkeys ◽  
Independent Sequence ◽  
Tree Inference ◽  
Intergenic Regions ◽  
Group Relationships ◽  
Rapid Radiations

Abstract Among mammalian phylogenies, those characterized by rapid radiations are particularly problematic. The New World monkeys (NWMs, Platyrrhini) comprise 3 families and 7 subfamilies, which radiated within a relatively short time period. Accordingly, their phylogenetic relationships are still largely disputed. In the present study, 56 nuclear non-coding loci, including 33 introns (INs) and 23 intergenic regions (IGs), from 20 NWM individuals representing 18 species were used to investigate phylogenetic relationships among families and subfamilies. Of the 56 loci, 43 have not been used in previous NWM phylogenetics. We applied concatenation and coalescence tree-inference methods, and a recently proposed question-specific approach to address NWM phylogeny. Our results indicate incongruence between concatenation and coalescence methods for the IN and IG datasets. However, a consensus was reached with a single tree topology from all analyses of combined INs and IGs as well as all analyses of question-specific loci using both concatenation and coalescence methods, albeit with varying degrees of statistical support. In detail, our results indicated the sister-group relationships between the families Atelidae and Pitheciidae, and between the subfamilies Aotinae and Callithrichinae among Cebidae. Our study provides insights into the disputed phylogenetic relationships among NWM families and subfamilies from the perspective of multiple non-coding loci and various tree-inference approaches. However, the present phylogenetic framework needs further evaluation by adding more independent sequence data and a deeper taxonomic sampling. Overall, our work has important implications for phylogenetic studies dealing with rapid radiations.

Phylogenetic analysis and reclassification of the genus Priochirus Sharp (Coleoptera:Staphylinidae:Osoriinae)

2007 ◽  
Vol 21 (1) ◽  
pp. 73 ◽  
Author(s):  
Jie Wu ◽  
Hong-Zhang Zhou
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Phylogenetic Relationships ◽  
Cladistic Analysis ◽  
Phylogenetic Inference ◽  
Sister Group ◽  
Rove Beetle ◽  
New Subgenus ◽  
Species Groups ◽  
Sister Relationships

The genus Priochirus Sharp (Coleoptera : Staphylinidae) is a rove beetle group with great variation in cephalic structures, especially the teeth on the frontal margin of head. In this paper, phylogenetic relationships among ten subgenera of the genus Priochirus sensu lato, and of Priochirus and other genera of the tribe Leptochirini are analysed. A cladistic analysis was conducted based on 62 characters of adult morphology. Results indicate that the genus Priochirus is not a monophyletic group and is divided into two lineages (called here Lineages I and II respectively). The subgenus Euleptarthrus Jakobson, which included three species-groups (japonicus, longicornis and malayanus), is shown to be polyphyletic. Lineage I corresponds with the Leiochirus + (Exochirus + Syncampsochirus) + (Eutriacanthus + (Plastus + (japonicus-group of Euleptarthrus + (Barychirus + Stigmatochirus)))) clade and forms a sister group to the genus Thoracochirus Bernhauer. Lineage II corresponds with the Priochirus, s. str. + (Cephalomerus + (longicornis- and malayanus-group of the Euleptarthrus)) clade. In addition, the analysis reveals sister relationships between representatives of Lineage I and the genus Thoracochirus. On the basis of phylogenetic inference, the genus Plastus Bernhauer, stat. nov. is proposed to include the subgenera of Lineage I and a new subgenus Sinumandibulus, subgen. nov., which is erected for the japonicus-group of the former subgenus Euleptarthrus. The genus Priochirus Sharp sensu novo is redefined to include the subgenera of Lineage II. Seven new species are described from China: Plastus (Sinumandibulus) curvaticornis, sp. nov. from Sichuan; Plastus (Sinumandibulus) recticornis, sp. nov. from Hubei; Priochirus (Euleptarthrus) amblyodontus, sp. nov. from Hunan; Priochirus (Euleptarthrus) baoxingensis, sp. nov. from Sichuan, Priochirus (Euleptarthrus) elongates, sp. nov. from Guizhou, Priochirus (Euleptarthrus) parvicornis, sp. nov. from Fujian and Priochirus (Euleptarthrus) oxygonus, sp. nov. from Hainan.

Population trends and migration patterns in the critically endangered Yellow-breasted Bunting (Emberiza aureola) in the Republic of Korea

2020 ◽  
Vol 27 (1) ◽  
pp. 56-63
Author(s):  
Jong-Gil Park ◽  
Chang-uk Park ◽  
Kyoung-Soon Jin ◽  
Yang-Mo Kim ◽  
Hee-Young Kim ◽  
...  
Keyword(s):  
Population Trends ◽  
Critically Endangered ◽  
Republic Of Korea ◽  
Migration Patterns ◽  
The Republic ◽  
And Migration

scholarly journals Spatial and space-time correlations in systems of subpopulations with genetic drift and migration.

Genetics ◽  
1993 ◽  
Vol 133 (3) ◽  
pp. 711-727
Author(s):  
B K Epperson
Keyword(s):  
Population Genetics ◽  
Time Correlation ◽  
Space Time ◽  
Spatial Correlations ◽  
Gene Frequencies ◽  
Migration Patterns ◽  
Migration Rates ◽  
Space And Time ◽  
Time Correlations ◽  
And Migration

Abstract The geographic distribution of genetic variation is an important theoretical and experimental component of population genetics. Previous characterizations of genetic structure of populations have used measures of spatial variance and spatial correlations. Yet a full understanding of the causes and consequences of spatial structure requires complete characterization of the underlying space-time system. This paper examines important interactions between processes and spatial structure in systems of subpopulations with migration and drift, by analyzing correlations of gene frequencies over space and time. We develop methods for studying important features of the complete set of space-time correlations of gene frequencies for the first time in population genetics. These methods also provide a new alternative for studying the purely spatial correlations and the variance, for models with general spatial dimensionalities and migration patterns. These results are obtained by employing theorems, previously unused in population genetics, for space-time autoregressive (STAR) stochastic spatial time series. We include results on systems with subpopulation interactions that have time delay lags (temporal orders) greater than one. We use the space-time correlation structure to develop novel estimators for migration rates that are based on space-time data (samples collected over space and time) rather than on purely spatial data, for real systems. We examine the space-time and spatial correlations for some specific stepping stone migration models. One focus is on the effects of anisotropic migration rates. Partial space-time correlation coefficients can be used for identifying migration patterns. Using STAR models, the spatial, space-time, and partial space-time correlations together provide a framework with an unprecedented level of detail for characterizing, predicting and contrasting space-time theoretical distributions of gene frequencies, and for identifying features such as the pattern of migration and estimating migration rates in experimental studies of genetic variation over space and time.

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