Phylogeny of Cephalobina (Nematoda): molecular evidence for recurrent evolution of probolae and incongruence with traditional classifications.

Abstract:

:Nematodes of the suborder Cephalobina include an ecologically and morphologically diverse array of species that range from soil-dwelling microbivores to parasites of vertebrates and invertebrates. Despite a long history of study, certain of these microbivores (Cephaloboidea) present some of the most intractable problems in nematode systematics; the lack of an evolutionary framework for these taxa has prevented the identification of natural groups and inhibited understanding of soil biodiversity and nematode ecology. Phylogenetic analyses of ribosomal (LSU) sequence data from 53 taxa revealed strong support for monophyly of taxa representing the Cephaloboidea, but do not support the monophyly of most genera within this superfamily. Historically these genera have primarily been recognized based on variation in labial morphology, but molecular phylogenies show the same general labial (probolae) morphotype often results from recurrent similarity, a result consistent with the phenotypic plasticity of probolae previously observed for some species in ecological time. Phylogenetic analyses of LSU rDNA also recovered strong support for some other groups of cephalobs, including taxa representing most (but not all) Panagrolaimoidea. In addition to revealing homoplasy of probolae, molecular trees also imply other unexpected patterns of character evolution or polarity, including recurrent similarity of offset spermatheca presence, and representation of complex probolae as the ancestral condition within Cephaloboidea. For Cephalobidae, molecular trees do not support traditional genera as natural groups, but it remains untested if deconstructing probolae morphotypes or other structural features into finer component characters may reveal homologies that help delimit evolutionary lineages.

journal_name

Mol Phylogenet Evol

authors

Nadler SA,De Ley P,Mundo-Ocampo M,Smythe AB,Patricia Stock S,Bumbarger D,Adams BJ,De Ley IT,Holovachov O,Baldwin JG

doi

10.1016/j.ympev.2006.04.005

subject

Has Abstract

pub_date

2006-09-01 00:00:00

pages

696-711

issue

3

eissn

1055-7903

issn

1095-9513

pii

S1055-7903(06)00137-0

journal_volume

40

pub_type

杂志文章
  • Phylogenomics, life history and morphological evolution of ophiocomid brittlestars.

    abstract::Brittlestars in the family Ophiocomidae are large and colourful inhabitants of tropical shallow water habitats across the globe. Here we use targeted capture and next-generation sequencing to generate robust phylogenomic trees for 39 of the 43 species in order to test the monophyly of existing genera. The large genus ...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2018.10.003

    authors: O'Hara TD,Hugall AF,Cisternas PA,Boissin E,Bribiesca-Contreras G,Sellanes J,Paulay G,Byrne M

    更新日期:2019-01-01 00:00:00

  • A phylogenetic analysis of the Arecoid Line of palms based on plastid DNA sequence data.

    abstract::A phylogenetic analysis of the Arecoid Line (sensu Moore) of palms was conducted using 7 kb of coding and noncoding plastid DNA sequence data. Recovered maximum-parsimony and maximum-likelihood phylogenies support monophyly for the Arecoid Line relative to the rest of the family but paraphyly for subfamily Arecoideae ...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/S1055-7903(02)00022-2

    authors: Hahn WJ

    更新日期:2002-05-01 00:00:00

  • The ITS-2 of the nuclear rDNA as a molecular marker for populations, species, and phylogenetic relationships in Triatominae (Hemiptera: Reduviidae), vectors of Chagas disease.

    abstract::The nucleotide sequences of the rDNA second internal transcribed spacer (ITS-2) of 31 populations of 12 and 3 species of the two main Triatominae tribes Triatomini and Rhodniini, including the most important Chagas disease vectors, were obtained. Sequence comparisons and parsimony, distance, and maximum-likelihood ana...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1006/mpev.2000.0864

    authors: Marcilla A,Bargues MD,Ramsey JM,Magallon-Gastelum E,Salazar-Schettino PM,Abad-Franch F,Dujardin JP,Schofield CJ,Mas-Coma S

    更新日期:2001-01-01 00:00:00

  • Complete mitochondrial DNA of the hagfish, Eptatretus burgeri: the comparative analysis of mitochondrial DNA sequences strongly supports the cyclostome monophyly.

    abstract::The phylogenetic position of cyclostomes, i.e., the relationships between hagfishes, lampreys, and jawed vertebrates is an unresolved problem. Anatomical data support the paraphyly of cyclostomes, whereas nuclear genes data support monophyly of cyclostomes. Previous results obtained using mitochondrial DNA are ambiguo...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1006/mpev.2001.1045

    authors: Delarbre C,Gallut C,Barriel V,Janvier P,Gachelin G

    更新日期:2002-02-01 00:00:00

  • A phylogeny of the northern temperate leafy liverwort genus Scapania (Scapaniaceae, Jungermanniales).

    abstract::Scapania is a northern temperate genus with a few disjunctions in the south. Despite receiving considerable attention, the supraspecific classification of this genus remains unsatisfactorily solved. We use three molecular markers (nrITS, cpDNA trnL-F region, atpB-rbcL spacer) and 175 accessions belonging to 50 species...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2011.11.029

    authors: Heinrichs J,Bombosch A,Feldberg K,Kreier HP,Hentschel J,Eckstein J,Long D,Zhu RL,Schäfer-Verwimp A,Schmidt AR,Shaw B,Shaw AJ,Váňa J

    更新日期:2012-03-01 00:00:00

  • Resolution of deep nodes yields an improved backbone phylogeny and a new basal lineage to study early evolution of Asteraceae.

    abstract::A backbone phylogeny that fully resolves all subfamily and deeper nodes of Asteraceae was constructed using 14 chloroplast DNA loci. The recently named genus Famatinanthus was found to be sister to the Mutisioideae-Asteroideae clade that represents more than 99% of Asteraceae and was found to have the two chloroplast ...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2014.07.012

    authors: Panero JL,Freire SE,Ariza Espinar L,Crozier BS,Barboza GE,Cantero JJ

    更新日期:2014-11-01 00:00:00

  • Analysis of ultraconserved elements supports African origins of narrow-mouthed frogs.

    abstract::Narrow-mouthed frogs (Anura: Microhylidae) are globally distributed and molecular data suggest the rapid evolution of multiple subfamilies shortly after their origin. Despite recent progress, several subfamilial relationships remain unexplored using phylogenomic data. We analysed 1,796 nuclear ultraconserved elements,...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2020.106771

    authors: Streicher JW,Loader SP,Varela-Jaramillo A,Montoya P,de Sá RO

    更新日期:2020-05-01 00:00:00

  • Discovery of an old, archipelago-wide, endemic radiation of Philippine snakes.

    abstract::The extraordinarily rich land vertebrate biodiversity of the Philippines includes at least 112 species of terrestrial snakes (74% of which are endemic to the archipelago) in 41 genera (12% endemic). Endemic Philippine snake genera include Cyclocorus (two species), Hemibungarus (three species), Hologerrhum (two species...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2017.11.004

    authors: Weinell JL,Brown RM

    更新日期:2018-02-01 00:00:00

  • A molecular phylogenetic and fruit evolutionary analysis of the major groups of the paleotropical woody bamboos (Gramineae: Bambusoideae) based on nuclear ITS, GBSSI gene and plastid trnL-F DNA sequences.

    abstract::This study presented the first molecular phylogenetic analysis of the major clades of woody bamboos of the Old World tropics based on nuclear and chloroplast sequences (ITS, GBSSI and trnL-F). Sequence data from 53 species, representing 17 paleotropical woody bamboo genera, were analyzed using the maximum parsimony an...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2008.06.001

    authors: Yang HQ,Yang JB,Peng ZH,Gao J,Yang YM,Peng S,Li DZ

    更新日期:2008-09-01 00:00:00

  • Mountains and refuges: Genetic structure and evolutionary history in closely related, endemic Centaurea in continental Greece.

    abstract::Mountains of continental Greece are one of the main Mediterranean biodiversity hotspots, very rich in endemic species. The speciation in this area might have resulted from two main factors: a complex orography and its role as a refugium during past glaciations. We have investigated genetic diversity and population str...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2015.06.018

    authors: López-Vinyallonga S,López-Pujol J,Constantinidis T,Susanna A,Garcia-Jacas N

    更新日期:2015-11-01 00:00:00

  • Molecular phylogeny and character evolution in the Western Palaearctic Helicidae s.l. (Gastropoda: Stylommatophora).

    abstract::In this study, we present a molecular phylogeny for the west Palaearctic Helicidae sensu lato based on sequence data from two mitochondrial (COI, 16S rDNA) and two nuclear (ITS-1, 18S rDNA) genes. Maximum likelihood analysis and Bayesian inference revealed well supported monophyletic clades partly conflicting traditio...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2004.03.004

    authors: Steinke D,Albrecht C,Pfenninger M

    更新日期:2004-09-01 00:00:00

  • A recent evolutionary origin of a bacterial small RNA that controls multicellular fruiting body development.

    abstract::In animals and plants, non-coding small RNAs regulate the expression of many genes at the post-transcriptional level. Recently, many non-coding small RNAs (sRNAs) have also been found to regulate a variety of important biological processes in bacteria, including social traits, but little is known about the phylogeneti...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2014.01.001

    authors: Chen IC,Griesenauer B,Yu YT,Velicer GJ

    更新日期:2014-04-01 00:00:00

  • A phylogeny of the damselfly genus calopteryx (Odonata) using mitochondrial 16S rDNA markers.

    abstract::We seek to reconstruct the phylogenetic relationships of the damselfly genus Calopteryx, for which extensive behavioral and morphological knowledge already exists. To date, analyses of the evolutionary pathways of different life history traits have been hampered by the absence of a robust phylogeny based on morphologi...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1006/mpev.1999.0724

    authors: Misof B,Anderson CL,Hadrys H

    更新日期:2000-04-01 00:00:00

  • Phylogeny, biogeography, and ecology of Ficus section Malvanthera (Moraceae).

    abstract::We conducted the first molecular phylogenetic study of Ficus section Malvanthera (Moraceae; subgenus Urostigma) based on 32 Malvanthera accessions and seven outgroups representing other sections of Ficus subgenus Urostigma. We used DNA sequences from the nuclear ribosomal internal and external transcribed spacers (ITS...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2008.04.005

    authors: Rønsted N,Weiblen GD,Savolainen V,Cook JM

    更新日期:2008-07-01 00:00:00

  • Combination of molecular data support the existence of three main lineages in the phylogeny of aphids (Hemiptera: Aphididae) and the basal position of the subfamily Lachninae.

    abstract::The first molecular studies on the phylogeny of aphids (Hemiptera: Aphididae) bumped into a striking lack of phylogenetic structure for taxa levels higher than tribe, probably as a consequence of the rapid adaptive radiation that this group of insects went through during the Late Cretaceous. Here we present a new atte...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2009.12.005

    authors: Ortiz-Rivas B,Martínez-Torres D

    更新日期:2010-04-01 00:00:00

  • Support for the hypothesis of anguimorph ancestry for the suborder Serpentes from phylogenetic analysis of mitochondrial DNA sequences.

    abstract::Snakes represent one of the most ubiquitous and successful groups of terrestrial vertebrates; however, many aspects of their evolutionary relationships remain uncertain. Previous research, which utilized morphological and immunological data, has not resolved the origin of snakes or clearly delineated the relationships...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1006/mpev.1995.1010

    authors: Forstner MR,Davis SK,Arévalo E

    更新日期:1995-03-01 00:00:00

  • Molecular phylogeny of the nettle family (Urticaceae) inferred from multiple loci of three genomes and extensive generic sampling.

    abstract::Urticaceae is one of the larger Angiosperm families, but relationships within it remain poorly known. This study presents the first densely sampled molecular phylogeny of Urticaceae, using maximum likelihood (ML), maximum parsimony (MP) and Bayesian inference (BI) to analyze the DNA sequence data from two nuclear (ITS...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2013.06.022

    authors: Wu ZY,Monro AK,Milne RI,Wang H,Yi TS,Liu J,Li DZ

    更新日期:2013-12-01 00:00:00

  • A robust phylogeny among major lineages of the East African cichlids.

    abstract::The huge monophyletic group of the East African cichlid radiations (EAR) consists of thousands of species belonging to 12-14 tribes; the number of tribes differs among studies. Many studies have inferred phylogenies of EAR tribes using various genetic markers. However, these phylogenies partly contradict one another a...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2016.04.012

    authors: Takahashi T,Sota T

    更新日期:2016-07-01 00:00:00

  • Starting to unravel the toxoglossan knot: molecular phylogeny of the "turrids" (Neogastropoda: Conoidea).

    abstract::The superfamily Conoidea is one of the most speciose groups of marine mollusks, with estimates of about 340 recent valid genera and subgenera, and 4000 named living species. Previous classifications were based on shell and anatomical characters, and clades and phylogenetic relationships are far from well assessed. Bas...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2007.11.007

    authors: Puillandre N,Samadi S,Boisselier MC,Sysoev AV,Kantor YI,Cruaud C,Couloux A,Bouchet P

    更新日期:2008-06-01 00:00:00

  • A molecular phylogenetic analysis of the vampire moths and their fruit-piercing relatives (Lepidoptera: Erebidae: Calpinae).

    abstract::Within butterflies and moths, adult hematophagy is limited to species within the vampire moth genus Calyptra. These moths are placed within the subfamily Calpinae, whose other members are known to exhibit a broad range of feeding behaviors including those that can be considered 'piercers' of fruits or other hosts and ...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2012.06.029

    authors: Zaspel JM,Zahiri R,Hoy MA,Janzen D,Weller SJ,Wahlberg N

    更新日期:2012-11-01 00:00:00

  • Extracting phylogenetic signal from phylogenomic data: Higher-level relationships of the nightbirds (Strisores).

    abstract::A well-resolved phylogeny would facilitate study of adaptation to nocturnality in the avian superorder Strisores, a group that includes both nocturnal and diurnal lineages. Based on previous estimates, it could be hypothesized that there were multiple independent origins of nocturnality in this group. In order to refi...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2019.106611

    authors: White ND,Braun MJ

    更新日期:2019-12-01 00:00:00

  • Phylogeography of Pseudacris regilla (Anura: Hylidae) in western North America, with a proposal for a new taxonomic rearrangement.

    abstract::The Baja California populations of Pseudacris regilla, a widespread species in Western North America ranging from British Columbia to southern Baja California, are characterized by extensive geographic fragmentation. We performed phylogeographic and historical demographic analyses on 609 bp of the cytochrome b mitocho...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2005.10.011

    authors: Recuero E,Martínez-Solano I,Parra-Olea G,García-París M

    更新日期:2006-05-01 00:00:00

  • Parallel diversification of Australian gall-thrips on Acacia.

    abstract::The diversification of gall-inducing Australian Kladothrips (Insecta: Thysanoptera) on Acacia has produced a pair of sister-clades, each of which includes a suite of lineages that utilize virtually the same set of 15 closely related host plant species. This pattern of parallel insect-host plant radiation may be driven...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2007.03.007

    authors: McLeish MJ,Crespi BJ,Chapman TW,Schwarz MP

    更新日期:2007-06-01 00:00:00

  • Phylogeographic patterns of decapod crustaceans at the Atlantic-Mediterranean transition.

    abstract::Comparative multispecies studies allow contrasting the effect of past and present oceanographic processes on phylogeographic patterns. In the present study, a fragment of the COI gene was analyzed in seven decapod crustacean species from five families and with different bathymetric distributions. A total of 769 indivi...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2011.11.009

    authors: García-Merchán VH,Robainas-Barcia A,Abelló P,Macpherson E,Palero F,García-Rodríguez M,Gil de Sola L,Pascual M

    更新日期:2012-02-01 00:00:00

  • Phylogeny, species limits, and biogeography of the Brazilian lizards of the genus Eurolophosaurus (Squamata: Tropiduridae) as inferred from mitochondrial DNA sequences.

    abstract::Phylogenetic relationships and divergence times for 10 populations of the three recognized "species" of Brazilian lizards of genus Eurolophosaurus were estimated from 1229bp of cyt b, COI, 12S, and 16S rRNA mitochondrial gene segments. Eurolophosaurus is monophyletic and the basal split within the genus separates E. d...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2007.10.022

    authors: Passoni JC,Benozzati ML,Rodrigues MT

    更新日期:2008-02-01 00:00:00

  • Amplified fragment length polymorphism fingerprinting of 16 banana cultivars (Musa cvs.).

    abstract::Banana is one of the most important subtropical crops. The genetic system, however, is relatively unknown and is complicated by specific interhybridization, heterozygosity, and polyploidy, which are common in most clones. These factors make identification of closely related banana cultivars difficult, particularly whe...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1006/mpev.2000.0848

    authors: Loh JP,Kiew R,Set O,Gan LH,Gan YY

    更新日期:2000-12-01 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

  • A phylogeny of the ITS and ETS for Montanoa (Asteraceae: Heliantheae).

    abstract::A phylogeny of the genus Montanoa based on the internal transcribed spacer (ITS) and the external transcribed spacer (ETS) is presented. Each of the two clades revealed by the Bayesian and parsimony analyses has approximately half of the number of species in the genus. One lineage is composed mostly of central and sou...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2003.10.021

    authors: Plovanich AE,Panero JL

    更新日期:2004-06-01 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

  • Peripatric speciation of an endemic species driven by Pleistocene climate change: The case of the Mexican prairie dog (Cynomys mexicanus).

    abstract::The hypothesis that endemic species could have originated by the isolation and divergence of peripheral populations of widespread species can be tested through the use of ecological niche models (ENMs) and statistical phylogeography. The joint use of these tools provides complementary perspectives on historical dynami...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 历史文章,杂志文章

    doi:10.1016/j.ympev.2015.08.027

    authors: Castellanos-Morales G,Gámez N,Castillo-Gámez RA,Eguiarte LE

    更新日期:2016-01-01 00:00:00