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Molecular Phylogenetics and Evolution

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https://www.readbyqxmd.com/read/28089841/the-birth-of-aposematism-high-phenotypic-divergence-and-low-genetic-diversity-in-a-young-clade-of-poison-frogs
#1
Rebecca Dent Tarvin, Emily A Powell, Juan C Santos, Santiago R Ron, David C Cannatella
Rapid radiation coupled with low genetic divergence often hinders species delimitation and phylogeny estimation even if putative species are phenotypically distinct. Some aposematic species, such as poison frogs (Dendrobatidae), have high levels of intraspecific color polymorphism, which can lead to overestimation of species when phenotypic divergence primarily guides species delimitation. We explored this possibility in the youngest origin of aposematism (3-7 MYA) in poison frogs, Epipedobates, by comparing genetic divergence with color and acoustic divergence...
January 13, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28089840/biogeography-and-diversification-dynamics-of-the-african-woodpeckers
#2
Jérôme Fuchs, Jean-Marc Pons, Rauri C K Bowie
The dynamics of species accumulation of African terrestrial vertebrates over time remains underexplored in comparison with those in the New World, despite Africa hosting about 25% of the world's avian diversity. This lack of knowledge hampers our understanding of the fundamental processes that drive biodiversity and the dynamics of speciation. To begin to address this gap, we reconstructed species-level phylogenies of two unrelated clades of African woodpeckers (12 species of Geocolaptes/Campethera and 13 species of Chloropicus/ Mesopicos/ Dendropicos/Ipophilus) that diverged from their closest Indo-Malayan relatives at similar times...
January 12, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28088402/historical-relationships-of-three-enigmatic-phasianid-genera-aves-galliformes-inferred-using-phylogenomic-and-mitogenomic-data
#3
Ning Wang, Peter A Hosner, Bin Liang, Edward L Braun, Rebecca T Kimball
The phylogeny of the Phasianidae (pheasants, partridges, and allies) has been studied extensively. However, these studies have largely ignored three enigmatic genera because of scarce DNA source material and limited overlapping phylogenetic data: blood pheasants (Ithaginis), snow partridges (Lerwa), and long-billed partridges (Rhizothera). Thus, phylogenetic positions of these three genera remain uncertain in what is otherwise a well-resolved phylogeny. Previous studies using different data types place Lerwa and Ithaginis in similar positions, but the absence of overlapping data means the relationship between them could not be inferred...
January 11, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28089794/a-molecular-phylogeny-reveals-the-cuban-enigmatic-genus-behaimia-as-a-new-piece-in-the-brongniartieae-puzzle-of-papilionoid-legumes
#4
Luciano Paganucci de Queiroz, Wallace São-Mateus, Alfonso Delgado-Salinas, Benjamin M Torke, Gwilym P Lewis, Óscar Dorado, Julie K Ardley, Martin F Wojciechowski, Domingos Cardoso
The papilionoid legume tribe Brongniartieae comprises a collection of 15 genera with disparate morphologies that were previously positioned in at least four remotely related tribes. The Brongniartieae displays a wide geographical disjunction between Australia and the New World and previous phylogenetic studies had provided conflicting results about the relationships between the American and Australian genera. We carry out phylogenetic analyses of (1) a plastid matK dataset extensively sampled across legumes to solve the enigmatic relationship of the Cuban-endemic monospecific genus Behaimia; and (2) multilocus datasets with focus on all genera ever referred to Brongniartieae...
January 9, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28089793/eggshell-palaeogenomics-palaeognath-evolutionary-history-revealed-through-ancient-nuclear-and-mitochondrial-dna-from-madagascan-elephant-bird-aepyornis-sp-eggshell
#5
Alicia Grealy, Matthew Phillips, Gifford Miller, M Thomas P Gilbert, Jean-Marie Rouillard, David Lambert, Michael Bunce, James Haile
Palaeognaths, the sister group of all other living birds (neognaths), were once considered to be vicariant relics from the breakup of the Gondwanan supercontinent. However, recent molecular studies instead argue for dispersal of volant ancestors across marine barriers. Resolving this debate hinges upon accurately reconstructing their evolutionary relationships and dating their divergences, which often relies on phylogenetic information from extinct relatives and nuclear genomes. Mitogenomes from the extinct elephant birds of Madagascar have helped inform the palaeognath phylogeny; however, nuclear information has remained unavailable...
January 9, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28082006/molecular-diversity-of-wolbachia-in-lepidoptera-prevalent-allelic-content-and-high-recombination-of-mlst-genes
#6
Yury Ilinsky, Oleg E Kosterin
Wolbachia are common endosymbiotic bacteria of Arthropoda and Nematoda that are ordinarily transmitted vertically in host lineages through the egg cytoplasm. Despite the great interest in the Wolbachia symbiont, many issues of its biology remain unclear, including its evolutionary history, routes of transfer among species, and the molecular mechanisms underlying the symbiont's effect on its host. In this report, we present data relating to Wolbachia infection in 120 species of 13 Lepidoptera families, mostly butterflies, from West Siberian localities based on Multilocus sequence typing (MLST) and the wsp locus and perform a comprehensive survey of the distribution of Wolbachia and its genetic diversity in Lepidoptera worldwide...
January 8, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28082005/phylogeographic-structure-of-canthon-cyanellus-coleoptera-scarabaeidae-a-neotropical-dung-beetle-in-the-mexican-transition-zone-insights-on-its-origin-and-the-impacts-of-pleistocene-climatic-fluctuations-on-population-dynamics
#7
Janet Nolasco-Soto, Jorge González-Astorga, Alejandro Espinosa de Los Monteros, Eduardo Galante-Patiño, Mario E Favila
Canthon cyanellus is a roller dung beetle with a wide distribution range in the tropical forests of the New World. In Mexico, it inhabits the Pacific and the Gulf coasts, the Yucatan Peninsula and the south mainly in the State of Chiapas. This species shows a wide geographical variation in cuticle color, which has been used as defining trait for subspecies. In this study we analyzed the phylogeographic and demographic history of the Mexican populations of C. cyanellus using DNA sequences of the nuclear ITS2, and the mitochondrial COI and 16S genes...
January 7, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28069534/genetic-spatial-structure-of-an-anchialine-cave-annelid-indicates-connectivity-within-but-not-between-islands-of-the-great-bahama-bank
#8
Brett C Gonzalez, Alejandro Martínez, Elizabeth Borda, Thomas M Iliffe, Diego Fontaneto, Katrine Worsaae
Land-locked anchialine blue holes are karstic sinkholes and caves with tidally influenced, vertically stratified water bodies that harbor endemic fauna exhibiting variable troglomorphic features. These habitats represent island-like systems, which can serve to elucidate evolutionary and biogeographic processes at local scales. We investigated whether the 'continuous spelean corridor' hypothesis may elucidate the biogeographical distributions of the stygobitic annelid Pelagomacellicephala iliffei (Polynoidae) collected from the Great Bahama and Caicos Banks of the Bahamas Archipelago...
January 6, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28069533/myrteae-phylogeny-calibration-biogeography-and-diversification-patterns-increased-understanding-in-the-most-species-rich-tribe-of-myrtaceae
#9
Thais N C Vasconcelos, Carol E B Proença, Berhaman Ahmad, Daniel S Aguilar, Reinaldo Aguilar, Bruno S Amorim, Keron Campbell, Itayguara R Costa, Plauto S De-Carvalho, Jair E Q Faria, Augusto Giaretta, Pepijn W Kooij, Duane F Lima, Fiorella F Mazine, Brigido Peguero, Gerhard Prenner, Matheus F Santos, Julia Soewarto, Astrid Wingler, Eve J Lucas
Myrteae (c. 2500 species; 51 genera) is the largest tribe of Myrtaceae and an ecologically important groups of angiosperms in the Neotropics. Systematic relationships in Myrteae are complex, hindering conservation initiatives and jeopardizing evolutionary modelling. A well-supported and robust phylogenetic hypothesis was here targeted towards a comprehensive understanding of the relationships within the tribe. The resultant topology was used as a base for key evolutionary analyses such as age estimation, historical biogeography and diversification rate patterns...
January 6, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28065866/multilocus-molecular-phylogeny-of-the-ornamental-wood-eating-catfishes-siluriformes-loricariidae-panaqolus-and-panaque-reveals-undescribed-diversity-and-parapatric-clades
#10
Nathan K Lujan, Christian A Cramer, Raphael Covain, Sonia Fisch-Muller, Hernán López-Fernández
Approximately two-dozen species in three genera of the Neotropical suckermouth armored catfish family Loricariidae are the only described fishes known to specialize on diets consisting largely of wood. We conducted a molecular phylogenetic analysis of 10 described species and 14 undescribed species or morphotypes assigned to the wood-eating catfish genus Panaqolus, and four described species and three undescribed species or morphotypes assigned to the distantly related wood-eating catfish genus Panaque. Our analyses included individuals and species from both genera that are broadly distributed throughout tropical South America east of the Andes Mountains and 13 additional genera hypothesized to have also descended from the most recent common ancestor of Panaqolus and Panaque...
January 5, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28065865/heterocyte-forming-cyanobacteria-from-brazilian-saline-alkaline-lakes
#11
Diego Bonaldo Genuário, Ana Paula Dini Andreote, Marcelo Gomes Marçal Vieira Vaz, Marli Fátima Fiore
Studies investigating the diversity of cyanobacteria from tropical environments are scarce, especially those devoted to the isolation and molecular characterization of the isolated strains. Among the Brazilian biomes, Pantanal has mainly been examined through microscopic observation of environmental samples, resulting in lists of morphotypes without any genetic information. Recently, two studies were conducted evaluating the morphologic and genetic diversity of cultured non-heterocytous cyanobacteria in this biome, which resulted in the separation and description of two novel genera...
January 5, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28062269/molecular-based-phylogenetic-species-recognition-in-the-genus-pampus-perciformes-stromateidae-reveals-hidden-diversity-in-the-indian-ocean
#12
P R Divya, C Mohitha, G Kumar Rahul, C P Rajool Shanis, V S Basheer, A Gopalakrishnan
Pomfrets (Genus Pampus) are commercially important fishes in the Indo Pacific region. The systematics of this genus is complicated due to morphological similarities between species. The silver pomfret from Indian waters has long been considered to be Pampus argenteus. The objective of the study was to utilize the mitochondrial COI gene to establish the molecular identity of the silver pomfret distributed in Indian waters and to resolve the phylogenetic relationships among Pampus species in the world based on sequence data in the NCBI database...
January 3, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28057554/analysis-of-phylogenetic-relationships-and-genome-size-evolution-of-the-amaranthus-genus-using-gbs-indicates-the-ancestors-of-an-ancient-crop
#13
Markus G Stetter, Karl J Schmid
The genus Amaranthus consists of 50-70 species and harbors several cultivated and weedy species of great economic importance. A small number of suitable traits, phenotypic plasticity, gene flow and hybridization made it difficult to establish the taxonomy and phylogeny of the whole genus despite various studies using molecular markers. We inferred the phylogeny of the Amaranthus genus using genotyping by sequencing (GBS) of 94 genebank accessions representing 35 Amaranthus species and measured their genome sizes...
January 3, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28057553/time-to-split-salvia-s-l-lamiaceae-new-insights-from-old-world-salvia-phylogeny
#14
Maria Will, Regine Claßen-Bockhoff
AIMS: Salvia L. is widely known as the largest genus in the mint family. A morphological modification of the androecium (lever-like stamens) was used to support this genus. However, molecular data revealed that Salvia is polyphyletic. Since phylogenetic studies largely underrepresented Old World Salvia species, we filled this gap and combined new data with existing sequences. The aim of our study was the identification of well-supported clades that provide the basis for evolutionary and taxonomic conclusions...
January 3, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28057552/model-selection-in-statistical-historical-biogeography-of-neotropical-insects-the-exophthalmus-genus-complex-curculionidae-entiminae
#15
Guanyang Zhang, Usmaan Basharat, Nicholas Matzke, Nico M Franz
Statistical historical biogeographic methods rely on models that represent various biogeographic processes. Until recently model selection in this domain was not widely used, and the impact of differential model selection on inferring biogeographic scenarios was not well understood. Focusing on Neotropical weevils in the Exophthalmus genus complex (EGC) (Insecta: Curculionidae: Entiminae), we compare three commonly used biogeographic models - DIVA (Dispersal-Vicariance Analysis), DEC (Dispersal-Extinction-Cladogenesis) and BayArea (Bayesian Analysis of Biogeography), and examine the impact of modeling founder-event jump dispersal on historical biogeographic reconstructions...
January 2, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28049040/phylogeny-of-the-fern-subfamily-pteridoideae-pteridaceae-pteridophyta-with-the-description-of-a-new-genus-gastoniella
#16
Liang Zhang, Xin-Mao Zhou, Ngan Thi Lu, Li-Bing Zhang
As the second most genera-rich fern family, Pteridaceae contain more than 1000 species contributing to ca. 10% of extant leptosporangiate fern diversity. The subfamily Pteridoideae is one of the five subfamilies often recognized. The circumscription of Pteridoideae has not been clear. A large number of species have not yet been included in any molecular analyses before. In this study, DNA sequences of six plastid loci of 154 accessions representing ca. 87 species in 14 genera of Pteridaceae subfam. Pteridoideae and four accessions representing two species in subfam...
December 31, 2016: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28049039/new-insights-into-the-phylogeny-of-burasaieae-menispermaceae-with-the-recognition-of-a-new-genus-and-emphasis-on-the-southern-taiwanese-and-mainland-chinese-disjunction
#17
Wei Wang, Rosa Del C Ortiz, Frédéric M B Jacques, Shih-Wen Chung, Yang Liu, Xiao-Guo Xiang, Zhi-Duan Chen
Taiwan is a continental island lying at the boundary between the Eurasian and the Philippine tectonic plates and possesses high biodiversity. Southern Taiwan, viz. Hengchun Peninsula, is notably floristically different from northern Taiwan. The floristic origin and relationships of the Hengchun Peninsula have been rarely investigated in a phylogenetic context. In this study, data from six plastid and nuclear sequences were used to reconstruct phylogenetic relationships within Burasaieae (Menispermaceae), which mainly inhabits tropical rainforests...
December 31, 2016: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28043876/the-syllis-gracilis-species-complex-a-molecular-approach-to-a-difficult-taxonomic-problem-annelida-syllidae
#18
Patricia Álvarez-Campos, Gonzalo Giribet, Ana Riesgo
Syllis gracilis is an emblematic member of the subfamily Syllinae (Syllidae, Annelida), which inhabits shallow, temperate coastal waters and can be found on algae, coral rubble, and sponges. Their distinctive ypsiloid chaetae, usually found in specimens from populations all around the world, led to the consideration of the species as cosmopolitan, even though four other species have similar chaetae: Syllis magellanica, S. picta, S. mayeri and S. ypsiloides. The discovery of deeply divergent lineages in the Mediterranean Sea, that were morphologically similar, questioned the cosmopolitanism of S...
December 31, 2016: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28043877/slr0006-like-proteins-a-tsac-tsac2-ycio-subfamily-exclusive-to-cyanobacteria
#19
Leonor L Carvalho, Tiina A Salminen, Käthe M Dahlström
The universally conserved TsaC/TsaC2/YciO family of proteins is essential for the N(6)-threonylcarbamoyladenosine modification present in almost all ANN-decoding tRNAs. Previously, the family has been grouped into the TsaC/TsaC2 and YciO subfamilies. We used sequence analysis, phylogenetic methods and homology modeling to show that a third subfamily, the Slr0006-like subfamily, exists exclusively in some cyanobacteria. The Slr0006-like proteins are solely found together with both TsaC and YciO homologs, indicating a distinct function for the Slr0006-like subfamily...
December 30, 2016: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28042043/first-plastid-phylogenomic-study-reveals-potential-cyto-nuclear-discordance-in-the-evolutionary-history-of-ficus-l-moraceae
#20
Sam Bruun-Lund, Wendy L Clement, Finn Kjellberg, Nina Rønsted
Standard Sanger chloroplast markers provide limited information to resolve species level relationships within plants, in particular within large genera. Figs (Ficus L., Moraceae) compose one of the 50 largest genera of angiosperms with ∼750 species occurring in the tropics and subtropics worldwide. Figs, in addition to being a keystone food resource in rainforests, are well-known for the mutualistic interactions with their pollinating wasps. It is regarded as a model system for understanding co-evolution dating back more than 75million years...
December 29, 2016: Molecular Phylogenetics and Evolution
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