Multi-locus fossil-calibrated phylogeny, biogeography and a subgeneric revision of the Margaritiferidae (Mollusca: Bivalvia: Unionoida).

Abstract:

:The taxonomy and biogeographic history of the bivalve family Margaritiferidae are controversial because previous molecular studies did not provide a well-resolved phylogenetic framework for these enigmatic freshwater mussels that have extensive but disjunct distribution in North America, Eurasia and North Africa. In this study, we present a new, fossil-calibrated phylogenetic hypothesis based on five molecular markers (∼4kb of total length) for ten species. Our results indicate that all recent margaritiferids are in the single genus, Margaritifera Schumacher, 1816. Additionally, we identified three relatively well-supported phylogenetic clades that are valid subgenera, i.e., Margaritifera s. str. (Holarctic), Margaritanopsis (=Cumberlandia) (southeast North America-southeast Asia disjunct) and Pseudunio (Mediterranean). We suggest that the crown lineage of the Margaritiferidae most likely originated in the Cretaceous (mean age 93Ma, 95% CI 66-126Ma). The combined results of ancestral area reconstructions based on the three different approaches (S-DIVA, DEC and S-DEC) showed that ancient vicariance events could have played an important role in speciation within the family. The rates of mitochondrial evolution of margaritiferids are notably slow, which may be associated with their longevity, long generation time and low metabolic rates. Our findings highlight the complex biogeographic history of the Margaritiferidae as an intermixing of ancient vicariance and dispersal events, which were most likely associated with some inland barriers, continental movements and a sea level dynamic.

journal_name

Mol Phylogenet Evol

authors

Bolotov IN,Vikhrev IV,Bespalaya YV,Gofarov MY,Kondakov AV,Konopleva ES,Bolotov NN,Lyubas AA

doi

10.1016/j.ympev.2016.07.020

subject

Has Abstract

pub_date

2016-10-01 00:00:00

pages

104-121

eissn

1055-7903

issn

1095-9513

pii

S1055-7903(16)30176-2

journal_volume

103

pub_type

杂志文章
  • Chloroplast genome analysis of Australian eucalypts--Eucalyptus, Corymbia, Angophora, Allosyncarpia and Stockwellia (Myrtaceae).

    abstract::We present a phylogenetic analysis and comparison of structural features of chloroplast genomes for 39 species of the eucalypt group (genera Eucalyptus, Corymbia, Angophora, and outgroups Allosyncarpia and Stockwellia). We use 41 complete chloroplast genome sequences, adding 39 finished-quality chloroplast genomes to ...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2013.07.006

    authors: Bayly MJ,Rigault P,Spokevicius A,Ladiges PY,Ades PK,Anderson C,Bossinger G,Merchant A,Udovicic F,Woodrow IE,Tibbits J

    更新日期:2013-12-01 00:00:00

  • Model-based multi-locus estimation of decapod phylogeny and divergence times.

    abstract::Phylogenetic relationships among all of the major decapod infraorders have never been estimated using molecular data, while morphological studies produce conflicting results. In the present study, the phylogenetic relationships among the decapod basal suborder Dendrobranchiata and all of the currently recognized decap...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2005.06.021

    authors: Porter ML,Pérez-Losada M,Crandall KA

    更新日期:2005-11-01 00:00:00

  • World-wide species distributions in the family Kyphosidae (Teleostei: Perciformes).

    abstract::Sea chubs of the family Kyphosidae are major consumers of macroalgae on both temperate and tropical reefs, where they can comprise a significant proportion of fish biomass. However, the relationships and taxonomic status of sea chubs (including the junior synonyms Hermosilla, Kyphosus, Neoscorpis and Sectator) worldwi...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2016.04.037

    authors: Knudsen SW,Clements KD

    更新日期:2016-08-01 00:00:00

  • A new amplicon based approach of whole mitogenome sequencing for phylogenetic and phylogeographic analysis: An example of East African white-eyes (Aves, Zosteropidae).

    abstract::Classical Sanger sequencing is still frequently used to generate sequence data for phylogenetic and phylogeographic inference. In this contribution we present a novel approach to genotype whole mitogenomic haplotypes using Illumina MiSeq reads from indexed amplicons. Our new approach reduces preparation time by multip...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2016.05.023

    authors: Meimberg H,Schachtler C,Curto M,Husemann M,Habel JC

    更新日期:2016-09-01 00:00:00

  • Detection of the new cosmopolitan genus Thermoleptolyngbya (Cyanobacteria, Leptolyngbyaceae) using the 16S rRNA gene and 16S-23S ITS region.

    abstract::Cyanobacteria are widespread prokaryotes that are able to live in extreme conditions such as thermal springs. Strains attributable to the genus Leptolyngbya are among the most common cyanobacteria sampled from thermal environments. Leptolyngbya is a character-poor taxon that was demonstrated to be polyphyletic based o...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2016.08.010

    authors: Sciuto K,Moro I

    更新日期:2016-12-01 00:00:00

  • Plant recolonization in the Himalaya from the southeastern Qinghai-Tibetan Plateau: Geographical isolation contributed to high population differentiation.

    abstract::The Himalaya-Hengduan Mountains region (HHM) in the southern and southeastern Qinghai-Tibetan Plateau (QTP) is considered an important reservoir and a differentiation center for temperate and alpine plants in the Cenozoic. To reveal how plants responded to the Quaternary climatic oscillations in the QTP, the phylogeog...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2010.05.007

    authors: Cun YZ,Wang XQ

    更新日期:2010-09-01 00:00:00

  • Delineating species boundaries using an iterative taxonomic approach: the case of soldierless termites (Isoptera, Termitidae, Apicotermitinae).

    abstract::Species boundaries are traditionally inferred using morphological characters, although morphology sometimes fails to correctly delineate species. To overcome this limitation, researchers have widely taken advantage of alternative methods such as DNA barcoding or analysis of cuticular hydrocarbons (CHs) profiles, but r...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2013.07.007

    authors: Bourguignon T,Šobotník J,Hanus R,Krasulová J,Vrkoslav V,Cvačka J,Roisin Y

    更新日期:2013-12-01 00:00:00

  • Nuclear markers reveal that inter-lake cichlids' similar morphologies do not reflect similar genealogy.

    abstract::The apparent inter-lake morphological similarity among East African Great Lakes' cichlid species/genera has left evolutionary biologists asking whether such similarity is due to sharing of common ancestor or mere convergent evolution. In order to answer such question, we first used Geometric Morphometrics, GM, to quan...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2006.03.002

    authors: Kassam D,Seki S,Horic M,Yamaoka K

    更新日期:2006-08-01 00:00:00

  • A multi-gene dataset reveals a tropical New World origin and Early Miocene diversification of croakers (Perciformes: Sciaenidae).

    abstract::Widely distributed groups of living animals, such as the predominantly marine fish family Sciaenidae, have always attracted the attention of biogeographers to document the origins and patterns of diversification in time and space. In this study, the historical biogeography of the global Sciaenidae is reconstructed wit...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2015.03.025

    authors: Lo PC,Liu SH,Chao NL,Nunoo FK,Mok HK,Chen WJ

    更新日期:2015-07-01 00:00:00

  • Species-level phylogeography and evolutionary history of the hyperdiverse marine gastropod genus Conus.

    abstract::Phylogenetic and paleontological analyses are combined to reveal patterns of species origination and divergence and to define the significance of potential and actual barriers to dispersal in Conus, a species-rich genus of predatory gastropods distributed throughout the world's tropical oceans. Species-level phylogene...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2004.09.012

    authors: Duda TF Jr,Kohn AJ

    更新日期:2005-02-01 00:00:00

  • Phylogenetic relationships between oviparous and viviparous populations of an Australian lizard (Lerista bougainvillii, scincidae).

    abstract::Viviparity has evolved from oviparity in many vertebrate lineages, and species that contain both oviparous and viviparous populations offer the best opportunity for a detailed examination of the processes involved in this major life-history transition. However, although several such species have been reported, none ha...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1006/mpev.1997.0468

    authors: Fairbairn J,Shine R,Moritz C,Frommer M

    更新日期:1998-08-01 00:00:00

  • Evolutionary trends in the distylous genus Pulmonaria (Boraginaceae): Evidence of ancient hybridization and current interspecific gene flow.

    abstract::The distylous genus Pulmonaria contains approximately 18 species that are widely distributed across Eurasia. Previous studies have shown that species delimitation in the genus is problematic, but have not yet explored the evolutionary history of the genus. Premating reproductive barriers between European species appea...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2015.11.022

    authors: Meeus S,Janssens S,Helsen K,Jacquemyn H

    更新日期:2016-05-01 00:00:00

  • Phylogeny of Celastraceae subfamily Hippocrateoideae inferred from morphological characters and nuclear and plastid loci.

    abstract::The phylogeny of Celastraceae subfamily Hippocrateoideae (∼ 100 species and 19 genera in the Old and New World tropics) was inferred using morphological characters together with plastid (matK, trnL-F) and nuclear (ITS and 26S rDNA) genes. The subfamily is easily recognized by the synapomorphies of transversely flatten...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2011.02.017

    authors: Coughenour JM,Simmons MP,Lombardi JA,Yakobson K,Archer RH

    更新日期:2011-05-01 00:00:00

  • Phylogenetic relationships, subdivision, and biogeography of the cyprinid tribe Labeonini (sensu) (Teleostei: Cypriniformes), with comments on the implications of lips and associated structures in the labeonin classification.

    abstract::The Labeonini (sensu Rainboth, 1991) is a tribe of the subfamily Cyprininae, the largest subfamily of Cypriniformes. With around 400 species in 34 genera, this tribe is widely distributed in the freshwaters of tropical Africa and Asia. Most species are adapted to fast-flowing streams and rivers, and exhibit unique mor...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2009.09.027

    authors: Yang L,Mayden RL

    更新日期:2010-01-01 00:00:00

  • The scale of divergence: a phylogenetic appraisal of intercontinental allopatric speciation in a passively dispersed freshwater zooplankton genus.

    abstract::Molecular studies have enlightened our understanding of freshwater zooplankton biogeography, yet questions remain regarding the scale and commonality of geographic speciation. Here, we present a mtDNA-based phylogenetic hypothesis for 92 Daphnia species from all seven continents, with a focus on North and South Americ...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2008.11.026

    authors: Adamowicz SJ,Petrusek A,Colbourne JK,Hebert PD,Witt JD

    更新日期:2009-03-01 00:00:00

  • Phylogenetic analyses provide insights into the historical biogeography and evolution of Brachyrhaphis fishes.

    abstract::The livebearing fish genus Brachyrhaphis (Poeciliidae) has become an increasingly important model in evolution and ecology research, yet the phylogeny of this group is not well understood, nor has it been examined thoroughly using modern phylogenetic methods. Here, we present the first comprehensive phylogenetic analy...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2015.04.013

    authors: Ingley SJ,Reina RG,Bermingham E,Johnson JB

    更新日期:2015-08-01 00:00:00

  • Spiny trapdoor spiders (Euoplos) of eastern Australia: Broadly sympatric clades are differentiated by burrow architecture and male morphology.

    abstract::Spiders of the infraorder Mygalomorphae are fast becoming model organisms for the study of biogeography and speciation. However, these spiders can be difficult to study in the absence of fundamental life history information. In particular, their cryptic nature hinders comprehensive sampling, and linking males with con...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2018.01.022

    authors: Wilson JD,Hughes JM,Raven RJ,Rix MG,Schmidt DJ

    更新日期:2018-05-01 00:00:00

  • The mitogenome phylogeny of Adephaga (Coleoptera).

    abstract::The beetle suborder Adephaga consists of several aquatic ('Hydradephaga') and terrestrial ('Geadephaga') families whose relationships remain poorly known. In particular, the position of Cicindelidae (tiger beetles) appears problematic, as recent studies have found them either within the Hydradephaga based on mitogenom...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2017.06.009

    authors: López-López A,Vogler AP

    更新日期:2017-09-01 00:00:00

  • Genome-wide SNPs clarify lineage diversity confused by coloration in coralsnakes of the Micrurus diastema species complex (Serpentes: Elapidae).

    abstract::New world coralsnakes of the genus Micrurus are a diverse radiation of highly venomous and brightly colored snakes that range from North Carolina to Argentina. Species in this group have played central roles in developing and testing hypotheses about the evolution of mimicry and aposematism. Despite their diversity an...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2020.106770

    authors: Reyes-Velasco J,Adams RH,Boissinot S,Parkinson CL,Campbell JA,Castoe TA,Smith EN

    更新日期:2020-06-01 00:00:00

  • A phylogenetic framework for root lesion nematodes of the genus Pratylenchus (Nematoda): Evidence from 18S and D2-D3 expansion segments of 28S ribosomal RNA genes and morphological characters.

    abstract::The root lesion nematodes of the genus Pratylenchus Filipjev, 1936 are migratory endoparasites of plant roots, considered among the most widespread and important nematode parasites in a variety of crops. We obtained gene sequences from the D2 and D3 expansion segments of 28S rRNA partial and 18S rRNA from 31 populatio...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2008.04.028

    authors: Subbotin SA,Ragsdale EJ,Mullens T,Roberts PA,Mundo-Ocampo M,Baldwin JG

    更新日期:2008-08-01 00:00:00

  • Genome-scale transfer of mitochondrial DNA from legume hosts to the holoparasite Lophophytum mirabile (Balanophoraceae).

    abstract::Angiosperm mitochondrial horizontal gene transfer (HGT) has been widely reported during the past decades. With a few exceptions, foreign sequences are mitochondrial genes or intronic regions from other plants, indicating that HGT has played a major role in shaping mitochondrial genome evolution. Host-parasite relation...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2018.12.006

    authors: Sanchez-Puerta MV,Edera A,Gandini CL,Williams AV,Howell KA,Nevill PG,Small I

    更新日期:2019-03-01 00:00:00

  • Does dispersal across an aquatic geographic barrier obscure phylogeographic structure in the diamond-backed watersnake (Nerodia rhombifer)?

    abstract::The impact of barriers to dispersal and gene flow is often inferred to be the primary cause of lineage divergence and phylogeographic structure in terrestrial organisms. In particular, the Mississippi River has been implicated as a barrier to gene flow in many species, including aquatic taxa. However, if barriers are ...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2010.07.015

    authors: Brandley MC,Guiher TJ,Pyron RA,Winne CT,Burbrink FT

    更新日期:2010-11-01 00:00:00

  • Surviving the Messinian Salinity Crisis? Divergence patterns in the genus Dendropoma (Gastropoda: Vermetidae) in the Mediterranean Sea.

    abstract::Four genetically distinct clades were recently described under the name Dendropoma petraeum, a Mediterranean endemic vermetid gastropod. The aim of this work is to date the processes that drove to the diversification within this taxon and to relate them to the corresponding historical events occurred in the Mediterran...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2015.05.004

    authors: Calvo M,Alda F,Oliverio M,Templado J,Machordom A

    更新日期:2015-10-01 00:00:00

  • Phylogeny of the Carnivora (Mammalia): congruence vs incompatibility among multiple data sets.

    abstract::The purpose of this study was to determine the higher-level phylogenetic relationships among Carnivora, using a conditional data combination (CDC) approach to analyzing multiple data sets. New nucleotide sequences (851 base pairs from intron I of the transthyretin gene) among 22 representatives of the 11 families of C...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1006/mpev.1998.0504

    authors: Flynn JJ,Nedbal MA

    更新日期:1998-06-01 00:00:00

  • How many genera and species of woolly monkeys (Atelidae, Platyrrhine, Primates) are there? The first molecular analysis of Lagothrix flavicauda, an endemic Peruvian primate species.

    abstract::We sequenced COI and COII mitochondrial genes of 141 Neotropical woolly monkeys to provide new insights concerning their phylogeography and phylogenetic relationships. For the first time, eight individuals of the endemic and extremely rare Peruvian yellow-tailed woolly monkey (flavicauda) were sequenced at these genes...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2014.05.034

    authors: Ruiz-García M,Pinedo-Castro M,Shostell JM

    更新日期:2014-10-01 00:00:00

  • Systematics, biogeography and evolution of the Saharo-Arabian naked-toed geckos genus Tropiocolotes.

    abstract::Plate tectonics constitute one of the main mechanisms of biological diversification on Earth, often being associated with cladogenetic events at different phylogenetic levels, as well as with exchange of faunas and floras across previously isolated biogeographic regions. North Africa and Arabia share a complex geologi...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2020.106969

    authors: Machado L,Salvi D,James Harris D,Brito JC,Crochet PA,Geniez P,Ahmadzadeh F,Carranza S

    更新日期:2021-02-01 00:00:00

  • Systematic affinities of the lyrebirds (Passeriformes: Menura), with a novel classification of the major groups of passerine birds.

    abstract::Phylogenetic relationships of the lyrebirds are investigated using DNA sequence data. The aligned data matrix consists of 4027 bp obtained from three nuclear genes (c-myc, RAG-1 and myoglobin intron II) and two mitochondrial genes (cytochrome b and ND2). Both maximum-likelihood and parsimony analyses show that the lyr...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/s1055-7903(02)00215-4

    authors: Ericson PG,Christidis L,Irestedt M,Norman JA

    更新日期:2002-10-01 00:00:00

  • Phylogenetic relationships and genome divergence among the AA- genome species of the genus Oryza as revealed by 53 nuclear genes and 16 intergenic regions.

    abstract::Rapid radiations have long been regarded as the most challenging issue for elucidating poorly resolved phylogenies in evolutionary biology. The eight diploid AA- genome species in the genus Oryza represent a typical example of a closely spaced series of recent speciation events in plants. However, questions regarding ...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2013.10.008

    authors: Zhu T,Xu PZ,Liu JP,Peng S,Mo XC,Gao LZ

    更新日期:2014-01-01 00:00:00

  • Phylogeny of the grassland leafhopper genus Flexamia (Homoptera: Cicadellidae) based on mitochondrial DNA sequences.

    abstract::Leafhoppers (Cicadellidae) are a highly diverse group of sap-sucking insects, many species of which specialize on grasses. Past attempts to examine the roles of host transfer or host plant coevolution in the diversification of leafhopper species using cladistic methods have been hindered by a paucity of discrete, phyl...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1006/mpev.1997.0415

    authors: Dietrich CH,Whitcomb RF,Black WC

    更新日期:1997-10-01 00:00:00

  • Phylogenetic relationships of horned lizards (Phrynosoma) based on nuclear and mitochondrial data: evidence for a misleading mitochondrial gene tree.

    abstract::It has proven remarkably difficult to obtain a well-resolved and strongly supported phylogeny for horned lizards (Phrynosoma) because of incongruence between morphological and mitochondrial DNA sequence data. We infer the phylogenetic relationships among all 17 extant Phrynosoma species using >5.1 kb of mtDNA (12S rRN...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2005.12.016

    authors: Leaché AD,McGuire JA

    更新日期:2006-06-01 00:00:00