Molecular phylogeny of the mud lobsters and mud shrimps (Crustacea : Decapoda : Thalassinidea) using nuclear 18S rDNA and mitochondrial 16S rDNA

2002 ◽  
Vol 16 (6) ◽  
pp. 839 ◽  
Author(s):  
C. C. Tudge ◽  
C. W. Cunningham
Keyword(s):  
Maximum Likelihood ◽  
Molecular Phylogeny ◽  
16S Rdna ◽  
18S Rdna ◽  
Strong Support ◽  
Ribosomal Genes ◽  
Bayesian Analyses ◽  
The Family ◽  
Mitochondrial 16S Rdna

Partial sequences of the 18S nuclear and 16S mitochondrial ribosomal genes were obtained for 14�species of thalassinidean shrimp (families Callianassidae, Laomediidae, Strahlaxiidae, Thalassinidae and Upogebiidae) and a further six species in related decapod infraorders (families Aeglidae, Astacidae, Lithodidae, Palinuridae, Raninidae and Scyllaridae). Maximum-likelihood and Bayesian analyses show equivocal support for the monophyly of the Thalassinidea, but show strong support for division of the infraorder into two major clades. This dichotomy separates representatives in the Upogebiidae, Laomediidae and Thalassinidae from those in the Strahlaxiidae and Callianassidae. The Laomediidae is shown to be paraphyletic, with the thalassinid species, Thalassina squamifera, being placed on a branch between Axianassa and a clade comprising Jaxea and Laomedia, the three current laomediid genera. For a monophyletic Laomediidae, the family Axianassidae should be resurrected for the genus Axianassa.

A molecular phylogeny of the Grunts (Perciformes: Haemulidae) inferred using mitochondrial and nuclear genes

Zootaxa ◽  
2011 ◽  
Vol 2966 (1) ◽  
pp. 37 ◽  
Author(s):  
MILLICENT D. SANCIANGCO ◽  
LUIZ A. ROCHA ◽  
KENT E. CARPENTER
Keyword(s):  
Maximum Likelihood ◽  
Molecular Phylogeny ◽  
Strong Support ◽  
Morphological Characters ◽  
Cyt B ◽  
Bayesian Analyses ◽  
Mitochondrial Coi ◽  
Outgroup Species ◽  
Molecular Studies ◽  
Upper Jaw

We infer a phylogeny of haemulid genera using mitochondrial COI and Cyt b genes and nuclear RAG1, SH3PX3, and Plagl2 genes from 56 haemulid species representing 18 genera of the expanded haemulids (including the former inermiids) and ten outgroup species. Results from maximum parsimony, maximum likelihood, and Bayesian analyses show strong support for a monophyletic Haemulidae with the inclusion of Emmelichthyops atlanticus. The former inermiids did not form a clade indicating that the highly protrusible upper jaw specialization to planktivory evolved more than once within Haemulidae. The subfamilies Haemulinae and Plectorhinchinae, currently diagnosed by eight morphological characters, most notably the number of chin pores and the origin of the retractor dorsalis, are also recovered from these analyses with the Haemulinae sister to the Plectorhinchinae. Plectorhinchus is monophyletic only with the inclusion of Diagramma. Within the Haemulinae, Pomadasys and Conodon are polyphyletic. In addition, Anisotremus is monophyletic only with the inclusion of Genyatremus and Conodon nobilis, and Haemulon is monophyletic only with the inclusion of Xenistius. These results suggest that further morphological and molecular studies are needed to revise the limits of several haemulid genera.

Molecular phylogeny of the spoonbills (Aves: Threskiornithidae) based on mitochondrial DNA

Zootaxa ◽  
2010 ◽  
Vol 2603 (1) ◽  
pp. 53 ◽  
Author(s):  
R. TERRY CHESSER ◽  
CAROL K. L. YEUNG ◽  
CHENG-TE YAO ◽  
XIU-HUA TIAN ◽  
SHOU-HSIEN LI
Keyword(s):  
Mitochondrial Dna ◽  
Maximum Likelihood ◽  
Molecular Phylogeny ◽  
Phylogenetic Trees ◽  
Strong Support ◽  
Sister Group ◽  
Molecular Data ◽  
Mitochondrial Genes ◽  
Bayesian Analyses ◽  
Limited Sampling

Spoonbills (genus Platalea) are a small group of wading birds, generally considered to constitute the subfamily Plataleinae (Aves: Threskiornithidae). We reconstructed phylogenetic relationships among the six species of spoonbills using variation in sequences of the mitochondrial genes ND2 and cytochrome b (total 1796 bp). Topologies of phylogenetic trees reconstructed using maximum likelihood, maximum parsimony, and Bayesian analyses were virtually identical and supported monophyly of the spoonbills. Most relationships within Platalea received strong support: P. minor and P. regia were closely related sister species, P. leucorodia was sister to the minor-regia clade, and P. alba was sister to the minor-regia-leucorodia clade. Relationships of P. flavipes and P. ajaja were less well resolved: these species either formed a clade that was sister to the four-species clade, or were successive sisters to this clade. This phylogeny is consistent with ideas of relatedness derived from spoonbill morphology. Our limited sampling of the Threskiornithinae (ibises), the putative sister group to the spoonbills, indicated that this group is paraphyletic, in agreement with previous molecular data; this suggests that separation of the Threskiornithidae into subfamilies Plataleinae and Threskiornithinae may not be warranted.

The phylogenetic relationships between Amphinomidae, Archinomidae and Euphrosinidae (Amphinomida: Aciculata: Polychaeta), inferred from molecular data

2008 ◽  
Vol 88 (3) ◽  
pp. 509-513 ◽  
Author(s):  
Helena Wiklund ◽  
Arne Nygren ◽  
Fredrik Pleijel ◽  
Per Sundberg
Keyword(s):  
Maximum Likelihood ◽  
Hydrothermal Vent ◽  
Phylogenetic Relationships ◽  
18S Rdna ◽  
Single Species ◽  
Molecular Data ◽  
Junior Synonym ◽  
28S Rdna ◽  
Bayesian Analyses ◽  
The Family

Amphinomida is an ‘isolated’ clade within the polychaete group Aciculata and traditionally includes the families Amphinomidae, Archinomidae and Euphrosinidae. Archinomidae were erected for a single species, the hydrothermal vent polychaete Archinome rosacea. Originally, A. rosacea was assigned to Euphrosinidae although it shares more morphological similarities with Amphinomidae. In this study we assess the position of Archinome, Euphrosinidae and Amphinomidae by using molecular data from nuclear 18S rDNA and 28S rDNA. Parsimony, maximum likelihood and Bayesian analyses are performed on the nucleotide datasets covering in total 19 terminals from Amphinomidae, Euphrosinidae, Archinomidae and outgroups. Our results conclusively show that Euphrosinidae and Amphinomidae are sister taxa and that Archinome is sister to Chloeia within Amphinomidae. Based on these results the family name Archinomidae is treated as a junior synonym of Amphinomidae.

scholarly journals Phylogenetics of Hydroidolina (Hydrozoa: Cnidaria)

2008 ◽  
Vol 88 (8) ◽  
pp. 1663-1672 ◽  
Author(s):  
Paulyn Cartwright ◽  
Nathaniel M. Evans ◽  
Casey W. Dunn ◽  
Antonio C. Marques ◽  
Maria Pia Miglietta ◽  
...  
Keyword(s):  
16S Rdna ◽  
Dna Sequences ◽  
18S Rdna ◽  
Phylogenetic Analyses ◽  
Strong Support ◽  
Sensu Stricto ◽  
28S Rdna ◽  
Mitochondrial 16S Rdna

Hydroidolina is a group of hydrozoans that includes Anthoathecata, Leptothecata and Siphonophorae. Previous phylogenetic analyses show strong support for Hydroidolina monophyly, but the relationships between and within its subgroups remain uncertain. In an effort to further clarify hydroidolinan relationships, we performed phylogenetic analyses on 97 hydroidolinan taxa, using DNA sequences from partial mitochondrial 16S rDNA, nearly complete nuclear 18S rDNA and nearly complete nuclear 28S rDNA. Our findings are consistent with previous analyses that support monophyly of Siphonophorae and Leptothecata and do not support monophyly of Anthoathecata nor its component subgroups, Filifera and Capitata. Instead, within Anthoathecata, we find support for four separate filiferan clades and two separate capitate clades (Aplanulata and Capitatasensu stricto). Our data however, lack any substantive support for discerning relationships between these eight distinct hydroidolinan clades.

scholarly journals Overview and revision of the extant genera and subgenera of Trogidae (Coleoptera: Scarabaeoidea)

2016 ◽  
Vol 47 (1) ◽  
pp. 53-82 ◽  
Author(s):  
Werner P. Strümpher ◽  
Martin H. Villet ◽  
Catherine L. Sole ◽  
Clarke H. Scholtz
Keyword(s):  
Molecular Phylogeny ◽  
Endemic Species ◽  
Strong Support ◽  
Morphological Characters ◽  
New Combinations ◽  
Genus Level ◽  
Generic Rank ◽  
The Family ◽  
Taxonomic Changes

Extant genera and subgenera of the Trogidae (Coleoptera: Scarabaeoidea) are reviewed. Contemporary classifications of this family have been based exclusively on morphological characters. The first molecular phylogeny for the family recently provided strong support for the relationships between morphologically defined genera and subgenera. On the basis of morphological, molecular and biogeographical evidence, certain taxonomic changes to the genus-level classification of the family are now proposed. The family is confirmed as consisting of two subfamilies, Omorginae Nikolajev and Troginae MacLeay, the former with two genera,OmorgusErichson andPolynoncusBurmeister, and the latter with two genera,TroxFabricius andPhoberusMacLeaystat. rev.Phoberusis restored to generic rank to include all Afrotropical (including Madagascan endemic) species;Afromorgusis confirmed at subgeneric rank within the genusOmorgus; and the monotypic Madagascan genusMadagatroxsyn. n.is synonymised withPhoberus.The current synonymies ofPseudotroxRobinson (withTrox),ChesasBurmeister,LagopelusBurmeister andMegalotroxPreudhomme de Borre (all withOmorgus) are all accepted to avoid creating speculative synonyms before definitive phylogenetic evidence is available. New combinations resulting from restoringPhoberusto a monophyletic genus are listed in Appendix A.

Molecular Phylogeny of the Family Ophryscolecidae (Ciliophora, Litostomatea) Inferred from 18S rDNA Sequences

2015 ◽  
Vol 62 (5) ◽  
pp. 584-590 ◽  
Author(s):  
Mariana F. Rossi ◽  
Roberto Júnio. P. Dias ◽  
Marcus V. X. Senra ◽  
Isabel Martinele ◽  
Carlos A. G. Soares ◽  
...  
Keyword(s):  
Molecular Phylogeny ◽  
18S Rdna ◽  
Rdna Sequences ◽  
The Family ◽  
18S Rdna Sequences

Molecular phylogeny of the family Bacillariaceae based on 18S rDNA sequences: focus on freshwaterNitzschiaof the sectionLanceolatae

2011 ◽  
Vol 26 (3) ◽  
pp. 273-291 ◽  
Author(s):  
Frédéric Rimet ◽  
Lenaïg Kermarrec ◽  
Agnès Bouchez ◽  
Lucien Hoffmann ◽  
Luc Ector ◽  
...  
Keyword(s):  
Molecular Phylogeny ◽  
18S Rdna ◽  
Rdna Sequences ◽  
The Family ◽  
18S Rdna Sequences

Studies on Parmulariaceae I. A phylogeny based on available sequence data; introducing Parmulariales ord. nov., and Hemigraphaceae, Melaspileellaceae and Stictographaceae fam. nov.

Phytotaxa ◽  
2018 ◽  
Vol 369 (2) ◽  
pp. 63 ◽  
Author(s):  
DONG-QIN DAI ◽  
LI-ZHOU TANG ◽  
CHAO LIU ◽  
HAI-BO WANG ◽  
KEVIN D. HYDE
Keyword(s):  
Maximum Likelihood ◽  
Phylogenetic Tree ◽  
Type Species ◽  
Sequence Data ◽  
Sensu Stricto ◽  
New Order ◽  
Bayesian Analyses ◽  
Phylogenic Analysis ◽  
The Family

The family Parmulariaceae comprises three polyphyletic genera, but with very little data in GenBank and is presently placed in the order Asterinales. In this study, we re-analyze the available sequence data for taxa of the family and re-examine the type species of Hemigrapha, Inocyclus and Parmularia. The phylogenetic tree generated from maximum likelihood and Bayesian analyses of combined LSU-SSU sequence data demonstrate the relationships among Hemigrapha, Inocyclus and Parmularia species, and the relations of Buelliella, Karschia, Labrocarpon, Lembosia, Melaspileella, Melaspileopsis and Stictographa. We introduce Parmulariales ord. nov. to accommodate Parmulariaceae and the order Asterinales accommodates Asterinaceae, Asterotexaceae, Hemigraphaceae fam. nov., Melaspileellaceae fam. nov. and Stictographaceae fam. nov. Notes for each new order and families are provided. We confirm that Asterinaceae sensu lato is distant from Asterinaceae sensu stricto in the phylogenic analysis. The classification presented here is provisional, as more species are needed to re-collected and sequenced. We expect further support for our ordinal and familial lineages, as well as further novel lineages.

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