scholarly journals Phylogeny of the Labeoninae (Teleostei, Cypriniformes) based on nuclear DNA sequences and implications on character evolution and biogeography

2012 ◽  
Vol 58 (6) ◽  
pp. 837-850 ◽  
Author(s):  
Lanping Zheng ◽  
Junxing Yang ◽  
Xiaoyong Chen
Keyword(s):  
Molecular Phylogeny ◽  
Dna Sequences ◽  
Nuclear Dna ◽  
Morphological Characters ◽  
Character Evolution ◽  
Lower Lip ◽  
Molecular Phylogenetic Tree ◽  
Systematic Exploration ◽  
Molecular Phylogenetic ◽  
History Of

Abstract The Labeoninae is a subfamily of the family Cyprinidae, Order Cypriniformes. Oromandibular morphology within the Labeoninae is the greatest among cyprinid fishes. Although several phylogenetic studies about labeonines have been undertaken the results have been inconsistent and a comprehensive phylogeny is needed. Further, an incongruence between morphological and molecular phylogeny requires a systematic exploration of the significance of morphological characters on the basis of the molecular phylogeny. In this study, a total of 292 nucleotide sequences from 73 individuals (representing 24 genera and 73 species) of Labeoninae were analyzed. The results of the phylogenetic analysis indicate that there are four major clades within Labeoninae and three monophyletic lineages within the fourth clade. Results of the character evolution show that all oroman-dibular morphological characters are homoplastically distributed on the molecular phylogenetic tree and suggests that these characters evolved several times during the history of labeonines. In particular, the labeonine , a specific disc on the lower lip, has been acquired three times and reversed twice. These morphological characters do not have systematic significance but can be useful for taxonomy. The results of biogeography suggest that the Labeoninae originated from Southeast Asia and separately dispersed to Africa, East Asia and South Asia.

Leptolejeunea nigra (Lejeuneaceae), a new species with brownish black ocelli based upon morphology and DNA sequences

Phytotaxa ◽  
2019 ◽  
Vol 427 (1) ◽  
pp. 31-42
Author(s):  
LEI SHU ◽  
RUI-LIANG ZHU
Keyword(s):  
New Species ◽  
Molecular Phylogeny ◽  
Dna Sequences ◽  
Phylogenetic Analyses ◽  
Morphological Characters ◽  
Time Span ◽  
Molecular Dating ◽  
Molecular Phylogenetic ◽  
Brownish Black ◽  
A New Species

Based on molecular phylogenetic analyses and morphological characters, a new species from Bangladesh, northern Vietnam, and southwestern China, Leptolejeunea nigra, is described. It is mostly similar to L. balansae but remarkable for having brownish black ocelli in its leaf lobes. In the molecular phylogeny, the samples of L. nigra are not nested within any clade and form an independent lineage. In particular, the molecular dating suggested that the divergence of L. nigra happened in time span of the formation of the Himalayas.

scholarly journals What is a Wood-Warbler? Molecular Characterization of a Monophyletic Parulidae

The Auk ◽  
2002 ◽  
Vol 119 (3) ◽  
pp. 695-714 ◽  
Author(s):  
I. J. Lovette ◽  
E. Bermingham
Keyword(s):  
Dna Sequences ◽  
Nuclear Dna ◽  
Morphological Characters ◽  
High Rate ◽  
Nucleotide Substitutions ◽  
Wood Warbler ◽  
Wood Warblers ◽  
Phylogenetic Level ◽  
Molecular Phylogenetic

AbstractThe wood-warblers (family Parulidae) fall within a radiation of passerine birds commonly known as the New World nine-primaried oscines. Defining familial relationships within that radiation has previously been challenging because of its extremely high diversity, a paucity of phylogenetically informative morphological characters, and an apparent high rate of cladogenesis early in the radiation's history. Here, analyses of mitochondrial and nuclear DNA sequences demonstrate that the 25 extant genera traditionally placed in the Parulidae do not form a monophyletic group. Instead, all reconstructions identify a well-resolved clade of 19 genera (Vermivora, Parula, Dendroica, Catharopeza, Mniotilta, Setophaga, Protonotaria, Helmitheros, Limnothlypis, Seiurus, Oporornis, Geothlypis, Wilsonia, Cardellina, Ergaticus, Myioborus, Euthlypis, Basileuterus, and Phaeothlypis) that are all morphologically typical wood-warblers traditionally placed in the Parulidae. Six genera traditionally assigned to the Parulidae—Microligea, Teretistris, Zeledonia, Icteria, Granatellus, and Xenoligea—fall outside this highly supported clade in all mtDNA-based and nuclear DNA-based reconstructions, and each is probably more closely allied to taxa traditionally placed in other nine-primaried oscine families. The long, well-supported, and independently confirmed internode at the base of this wood-warbler clade provides the opportunity to define a monophyletic Parulidae using several complementary molecular phylogenetic criteria. Support for those relationships comes from reconstructions based on a range of nucleotide-intensive (from 894 to 3,638 nucleotides per taxon) and taxon-intensive (45 to 128 species) analyses of mtDNA sequences, as well as independent reconstructions based on nucleotide substitutions in the nuclear-encoded c-mos gene. Furthermore, the 19 typical wood-warbler genera share a synapomorphic one-codon c-mos deletion not found in other passerines. At a slightly deeper phylogenetic level, our mtDNA-based reconstructions are consistent with previous morphologic and genetic studies in suggesting that many nine-primaried oscine taxa have unanticipated affinities, that many lineages arose during an early and explosive period of cladogenesis, and that the generation of a robust nine-primaried oscine phylogeny will require robust taxonomic sampling and extensive phylogenetic information.

Molecular phylogeny of pimoid spiders and the limits of Linyphiidae, with a reassessment of male palpal homologies (Araneae, Pimoidae)

Zootaxa ◽  
2021 ◽  
Vol 5026 (1) ◽  
pp. 77-107
Author(s):  
GUSTAVO HORMIGA ◽  
SIDDHARTH KULKARNI ◽  
THIAGO DA SILVA MOREIRA ◽  
DIMITAR DIMITROV
Keyword(s):  
Molecular Phylogeny ◽  
Phylogenetic Tree ◽  
Phylogenetic Relationships ◽  
Target Gene ◽  
Sister Group ◽  
Biogeographic History ◽  
Molecular Phylogenetic Tree ◽  
Molecular Phylogenetic ◽  
History Of

We address the phylogenetic relationships of pimoid spiders (Pimoidae) using a standard target-gene approach with an extensive taxonomic sample, which includes representatives of the four currently recognized pimoid genera, 26 linyphiid genera, a sample of Physoglenidae, Cyatholipidae and one Tetragnathidae species. We test the monophyly of Pimoidae and Linyphiidae and explore the biogeographic history of the group. Nanoa Hormiga, Buckle and Scharff, 2005 and Pimoa Chamberlin & Ivie, 1943 form a clade which is the sister group of a lineage that includes all Linyphiidae, Weintrauboa Hormiga, 2003 and Putaoa Hormiga and Tu, 2008. Weintrauboa, Putaoa, Pecado and Stemonyphantes form a clade (Stemonyphantinae) sister to all remaining linyphiids. We use the resulting optimal molecular phylogenetic tree to assess hypotheses on the male palp sclerite homologies of pimoids and linyphiids. Pimoidae is redelimited to only include Pimoa and Nanoa. We formalize the transfer from Pimoidae of the genera Weintrauboa and Putaoa to Linyphiidae, re-circumscribe the linyphiid subfamily Stemonyphantinae, and offer revised morphological diagnoses for Pimoidae and Linyphiidae.  

scholarly journals The diverse origins of New Zealand house mice

2008 ◽  
Vol 276 (1655) ◽  
pp. 209-217 ◽  
Author(s):  
Jeremy B Searle ◽  
Paul M Jamieson ◽  
İslam Gündüz ◽  
Mark I Stevens ◽  
Eleanor P Jones ◽  
...  
Keyword(s):  
New Zealand ◽  
Dna Sequences ◽  
Mus Musculus ◽  
Western Europe ◽  
Nuclear Dna ◽  
Morphological Characters ◽  
House Mice ◽  
Mus Musculus Domesticus ◽  
Mus Musculus Musculus ◽  
History Of

Molecular markers and morphological characters can help infer the colonization history of organisms. A combination of mitochondrial (mt) d -loop DNA sequences, nuclear DNA data, external measurements and skull characteristics shows that house mice ( Mus musculus ) in New Zealand and its outlying islands are descended from very diverse sources. The predominant genome is Mus musculus domesticus (from western Europe), but Mus musculus musculus (from central Europe) and Mus musculus castaneus (from southern Asia) are also represented genetically. These subspecies have hybridized to produce combinations of musculus and domesticus nuclear DNA coupled with domesticus mtDNA, and castaneus or musculus mtDNA with domesticus nuclear DNA. The majority of the mice with domesticus mtDNA that we sampled had d -loop sequences identical to two haplotypes common in Britain. This is consistent with long-term British–New Zealand cultural linkages. The origins of the castaneus mtDNA sequences widespread in New Zealand are less easy to identify.

Molecular phylogeny and classification of Chelidurella Verhoeff, stat. restit. (Dermaptera: Forficulidae)

2020 ◽  
pp. 1-37
Author(s):  
Markéta Kirstová ◽  
Robin Kundrata ◽  
Petr Kočárek
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Molecular Phylogeny ◽  
Dna Sequences ◽  
Phylogenetic Analyses ◽  
Taxonomic Revision ◽  
Morphological Characters ◽  
Two New Species ◽  
Molecular Phylogenetic

Abstract We present herein the first phylogenetic analysis of the genus Chelidura and the taxonomic revision of the genus Chelidurella, stat. restit., based on DNA sequences. The results confirm the generic status of Chelidurella Verhoeff, 1902 and Mesochelidura Verhoeff, 1902, and they are removed from the synonymy with Chelidura and reinstated as valid genera. Many individual Chelidurella species are defined based on the combination of a few variable characters on the pygidium and forceps, and the systematics and phylogeny of this genus are unclear. The validity of most of the species is revisited here by molecular phylogenetic analyses, and individual morphological characters are evaluated for their relevance in the identification of all described species. We describe two new species to science, Chelidurella galvagnii Kirstová & Kočárek, sp. nov. from Austria, and C. pseudovignai Kočárek & Kirstová, sp. nov. from Italy and Austria; two species, C. guentheri Galvagni, 1994 and C. tatrica Chládek, 2017 are newly synonymized. Critical diagnostic characters are illustrated, and an identification key for males of Chelidurella is provided.

scholarly journals Evolutionary Relationship between Two Firefly Species,Curtos costipennisandC. okinawanus(Coleoptera, Lampyridae), in the Ryukyu Islands of Japan Revealed by the Mitochondrial and Nuclear DNA Sequences

2012 ◽  
Vol 2012 ◽  
pp. 1-9 ◽  
Author(s):  
Masahiko Muraji ◽  
Norio Arakaki ◽  
Shigeo Tanizaki
Keyword(s):  
Dna Sequences ◽  
Evolutionary History ◽  
Nuclear Dna ◽  
Evolutionary Relationship ◽  
Early Pleistocene ◽  
Ryukyu Islands ◽  
Mtdna Sequences ◽  
Northern Half ◽  
The Ryukyu Islands ◽  
History Of

The phylogenetic relationship, biogeography, and evolutionary history of closely related two firefly species,Curtos costipennisandC. okinawanus, distributed in the Ryukyu Islands of Japan were examined based on nucleotide sequences of mitochondrial (2.2 kb long) and nuclear (1.1-1.2 kb long) DNAs. In these analyses, individuals were divided among three genetically distinct local groups,C. costipennisin the Amami region,C. okinawanusin the Okinawa region, andC. costipennisin the Sakishima region. Their mtDNA sequences suggested that ancestralC. costipennispopulation was first separated between the Central and Southern Ryukyu areas, and the northern half was then subdivided betweenC. costipennisin the Amami andC. okinawanusin the Okinawa. The application of the molecular evolutionary clocks of coleopteran insects indicated that their vicariance occurred 1.0–1.4 million years ago, suggesting the influence of submergence and subdivision of a paleopeninsula extending between the Ryukyu Islands and continental China through Taiwan in the early Pleistocene.

scholarly journals Morphological and molecular phylogenetic analyses of Zepedanulus ishikawai (Arachnida: Opiliones: Laniatores: Epedanidae) in the southern part of the Ryukyu Archipelago

2021 ◽  
pp. 1-28
Author(s):  
Yoshimasa Kumekawa ◽  
Haruka Fujimoto ◽  
Osamu Miura ◽  
Ryo Arakawa ◽  
Jun Yokoyama ◽  
...  
Keyword(s):  
Phylogenetic Tree ◽  
Phylogenetic Analyses ◽  
Divergence Time ◽  
Morphological Characters ◽  
Ryukyu Archipelago ◽  
Divergence Time Estimates ◽  
Time Estimates ◽  
Molecular Phylogenetic ◽  
History Of ◽  
Polymerase Chain

Abstract Harvestmen (Arachnida: Opiliones) are soil animals with extremely low dispersal abilities that experienced allopatric differentiation. To clarify the morphological and phylogenetic differentiation of the endemic harvestman Zepedanulus ishikawai (Suzuki, 1971) (Laniatores: Epedanidae) in the southern part of the Ryukyu Archipelago, we conducted molecular phylogenetic analyses and divergence time estimates based on CO1 and 16S rRNA sequences of mtDNA, the 28S rRNA sequence of nrDNA, and the external morphology. A phylogenetic tree based on mtDNA sequences indicated that individuals of Z. ishikawai were monophyletic and were divided into clade I and clade II. This was supported by the nrDNA phylogenetic tree. Although clades I and II were distributed sympatrically on all three islands examined (Ishigaki, Iriomote, and Yonaguni), heterogeneity could not be detected by polymerase chain reaction–restriction fragment length polymorphism of nrDNA, indicating that clades I and II do not have a history of hybridisation. Also, several morphological characters differed significantly between individuals of clade I and clade II. The longstanding isolation of the southern Ryukyus from the surrounding islands enabled estimation of the original morphological characters of both clades of Z. ishikawai.

scholarly journals Discovery of a new family of amphibians from northeast India with ancient links to Africa

2012 ◽  
Vol 279 (1737) ◽  
pp. 2396-2401 ◽  
Author(s):  
Rachunliu G. Kamei ◽  
Diego San Mauro ◽  
David J. Gower ◽  
Ines Van Bocxlaer ◽  
Emma Sherratt ◽  
...  
Keyword(s):  
Dna Sequences ◽  
Nuclear Dna ◽  
Phylogenetic Analyses ◽  
Sister Group ◽  
Northeast India ◽  
Sister Group Relationship ◽  
New Family ◽  
Ancient Lineage ◽  
Molecular Phylogenetic ◽  
Threatened Habitats

The limbless, primarily soil-dwelling and tropical caecilian amphibians (Gymnophiona) comprise the least known order of tetrapods. On the basis of unprecedented extensive fieldwork, we report the discovery of a previously overlooked, ancient lineage and radiation of caecilians from threatened habitats in the underexplored states of northeast India. Molecular phylogenetic analyses of mitogenomic and nuclear DNA sequences, and comparative cranial anatomy indicate an unexpected sister-group relationship with the exclusively African family Herpelidae. Relaxed molecular clock analyses indicate that these lineages diverged in the Early Cretaceous, about 140 Ma. The discovery adds a major branch to the amphibian tree of life and sheds light on both the evolution and biogeography of caecilians and the biotic history of northeast India—an area generally interpreted as a gateway between biodiversity hotspots rather than a distinct biogeographic unit with its own ancient endemics. Because of its distinctive morphology, inferred age and phylogenetic relationships, we recognize the newly discovered caecilian radiation as a new family of modern amphibians.

A revised molecular phylogeny of the globally distributed hawkmoth genus Hyles (Lepidoptera: Sphingidae), based on mitochondrial and nuclear DNA sequences

2009 ◽  
Vol 52 (3) ◽  
pp. 852-865 ◽  
Author(s):  
Anna K. Hundsdoerfer ◽  
Daniel Rubinoff ◽  
Marc Attié ◽  
Michael Wink ◽  
Ian J. Kitching
Keyword(s):  
Molecular Phylogeny ◽  
Dna Sequences ◽  
Nuclear Dna ◽  
Globally Distributed
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