Phylogeny of the Neotropical genus Gephyrocharax (Characiformes: Characidae: Stevardiinae), with remarks on the tribe Stevardiini

2017 ◽  
Vol 182 (4) ◽  
pp. 808-829 ◽  
Author(s):  
James A Vanegas-Ríos
Keyword(s):  
Sister Group ◽  
Data Matrix ◽  
Morphological Evidence ◽  
Phylogenetic Study ◽  
Adult Males ◽  
Current Definition ◽  
The Family ◽  
Recent Classification ◽  
Definition Of

AbstractStevardiinae, which consists of 326 species and 44 genera, is a monophyletic subfamily within the family Characidae. In a recent classification of the subfamily, the tribe Stevardiini was expanded from three (Corynopoma, Gephyrocharax and Pterobrycon) to six genera by the addition of Chrysobrycon, Hysteronotus and Pseudocorynopoma. However, no morphological evidence has supported this definition of the tribe and the monophyly of Gephyrocharax. To address these issues, a phylogenetic study of most stevardiins focusing on Gephyrocharax was conducted. A data matrix including 532 characters and 213 taxa (73 stevardiines, 19 of which were stevardiins) was processed using maximum parsimony in TNT 1.5. All characters were analysed under extended implied weighting, exploring 21 k values. A strict consensus (comprising the most stables trees obtained) was used as the final topology. The results support the current definition of Stevardiini, as well as the monophyly of Chrysobrycon, Gephyrocharax and Pterobrycon. Corynopoma was obtained as the sister group of Gephyrocharax, the latter being phylogenetically diagnosed by two synapomorphies associated with caudal-fin morphology of adult males. The following interspecific relationships within Gephyrocharax are hypothesised: (G. martae ((G. chocoensis (G. major (G. atracaudatus, G. intermedius))) (G. venezuelae (G. sinuensis (G. valencia (G. caucanus (G. melanocheir, G. torresi)))))))).

A Global Phylogenomic Study of the Thelypteridaceae

2021 ◽  
Vol 46 (4) ◽  
pp. 891-915
Author(s):  
Susan Fawcett ◽  
Alan R. Smith ◽  
Michael Sundue ◽  
J. Gordon Burleigh ◽  
Emily B. Sessa ◽  
...  
Keyword(s):  
Morphological Characters ◽  
Morphological Evidence ◽  
Phylogenetic Studies ◽  
The Family ◽  
Likelihood Analysis ◽  
Single Genus ◽  
The Subject ◽  
Recent Classification ◽  
Phylogenomic Study

Abstract— The generic classification of the Thelypteridaceae has been the subject of much controversy. Proposed taxonomic systems have varied from recognizing the approximately 1200 species in the family within the single genus Thelypteris, to systems favoring upwards of 30 genera. Insights on intrafamilial relationships, especially for neotropical taxa, have been gained from recent phylogenetic studies; however, in the most recent classification, 10 of 30 recognized genera are either non-monophyletic or untested. We sequenced 407 nuclear loci for 621 samples, representing all recognized genera and approximately half the known species diversity. These were analyzed using both maximum likelihood analysis of a concatenated matrix and multi-species coalescent methods. Our phylogenomic results, informed by recently published morphological evidence, provide the foundation for a generic classification which recircumscribed 14 genera and recognized seven new genera. The 37 monophyletic genera sampled demonstrate greater geographic coherence than previous taxonomic concepts suggested. Additionally, our results demonstrate that certain morphological characters, such as frond division, are evolutionarily labile and are thus inadequate for defining genera.

scholarly journals Sequence data from isolated lichen-associated melanized fungi enhance delimitation of two new lineages within Chaetothyriomycetidae

2021 ◽  
Vol 20 (7) ◽  
pp. 911-927
Author(s):  
Lucia Muggia ◽  
Yu Quan ◽  
Cécile Gueidan ◽  
Abdullah M. S. Al-Hatmi ◽  
Martin Grube ◽  
...  
Keyword(s):  
Sequence Data ◽  
Single Species ◽  
Sister Group ◽  
Asexual Propagation ◽  
Dna Sequence Data ◽  
Wide Range ◽  
The Family ◽  
Rock Inhabiting Fungi ◽  
Stable Habitat

AbstractLichen thalli provide a long-lived and stable habitat for colonization by a wide range of microorganisms. Increased interest in these lichen-associated microbial communities has revealed an impressive diversity of fungi, including several novel lineages which still await formal taxonomic recognition. Among these, members of the Eurotiomycetes and Dothideomycetes usually occur asymptomatically in the lichen thalli, even if they share ancestry with fungi that may be parasitic on their host. Mycelia of the isolates are characterized by melanized cell walls and the fungi display exclusively asexual propagation. Their taxonomic placement requires, therefore, the use of DNA sequence data. Here, we consider recently published sequence data from lichen-associated fungi and characterize and formally describe two new, individually monophyletic lineages at family, genus, and species levels. The Pleostigmataceae fam. nov. and Melanina gen. nov. both comprise rock-inhabiting fungi that associate with epilithic, crust-forming lichens in subalpine habitats. The phylogenetic placement and the monophyly of Pleostigmataceae lack statistical support, but the family was resolved as sister to the order Verrucariales. This family comprises the species Pleostigma alpinum sp. nov., P. frigidum sp. nov., P. jungermannicola, and P. lichenophilum sp. nov. The placement of the genus Melanina is supported as a lineage within the Chaetothyriales. To date, this genus comprises the single species M. gunde-cimermaniae sp. nov. and forms a sister group to a large lineage including Herpotrichiellaceae, Chaetothyriaceae, Cyphellophoraceae, and Trichomeriaceae. The new phylogenetic analysis of the subclass Chaetothyiomycetidae provides new insight into genus and family level delimitation and classification of this ecologically diverse group of fungi.

A comparison of methodological approaches to the subfamilial classification of the Naididae (Oligochaeta)

1987 ◽  
Vol 65 (3) ◽  
pp. 691-707 ◽  
Author(s):  
A. F. L. Nemec ◽  
R. O. Brinkhurst
Keyword(s):  
Data Matrix ◽  
Jaccard Coefficient ◽  
Data Set ◽  
Parsimony Method ◽  
Fit Statistics ◽  
Reconstruction Methods ◽  
Linkage Methods ◽  
The Family ◽  
First Time

A data matrix of 23 generic or subgeneric taxa versus 24 characters and a shorter matrix of 15 characters were analyzed by means of ordination, cluster analyses, parsimony, and compatibility methods (the last two of which are phylogenetic tree reconstruction methods) and the results were compared inter alia and with traditional methods. Various measures of fit for evaluating the parsimony methods were employed. There were few compatible characters in the data set, and much homoplasy, but most analyses separated a group based on Stylaria from the rest of the family, which could then be separated into four groups, recognized here for the first time as tribes (Naidini, Derini, Pristinini, and Chaetogastrini). There was less consistency of results within these groups. Modern methods produced results that do not conflict with traditional groupings. The Jaccard coefficient minimizes the significance of symplesiomorphy and complete linkage avoids chaining effects and corresponds to actual similarities, unlike single or average linkage methods, respectively. Ordination complements cluster analysis. The Wagner parsimony method was superior to the less flexible Camin–Sokal approach and produced better measure of fit statistics. All of the aforementioned methods contain areas susceptible to subjective decisions but, nevertheless, they lead to a complete disclosure of both the methods used and the assumptions made, and facilitate objective hypothesis testing rather than the presentation of conflicting phylogenies based on the different, undisclosed premises of manual approaches.

Mimaporia, a new genus of Epicopeiidae (Lepidoptera), with description of a new species from Vietnam

Zootaxa ◽  
2017 ◽  
Vol 4254 (5) ◽  
pp. 537 ◽  
Author(s):  
CHIA-HSUAN WEI ◽  
SHEN-HORN YEN
Keyword(s):  
New Species ◽  
New Genus ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Taxonomic Status ◽  
Sister Group ◽  
Morphological Evidence ◽  
New Taxon ◽  
The Family ◽  
A New Species

The Epicopeiidae is a small geometroid family distributed in the East Palaearctic and Oriental regions. It exhibits high morphological diversity in body size and wing shape, while their wing patterns involve in various complex mimicry rings. In the present study, we attempted to describe a new genus, and a new species from Vietnam, with comments on two assumed congeneric novel species from China and India. To address its phylogenetic affinity, we reconstructed the phylogeny of the family by using sequence data of COI, EF-1α, and 28S gene regions obtained from seven genera of Epicopeiidae with Pseudobiston pinratanai as the outgroup. We also compared the morphology of the new taxon to other epicopeiid genera to affirm its taxonomic status. The results suggest that the undescribed taxon deserve a new genus, namely Mimaporia gen. n. The species from Vietnam, Mimaporia hmong sp. n., is described as new to science. Under different tree building strategies, the new genus is the sister group of either Chatamla Moore, 1881 or Parabraxas Leech, 1897. The morphological evidence, which was not included in phylogenetic analyses, however, suggests its potential affinity with Burmeia Minet, 2003. This study also provides the first, although preliminary, molecular phylogeny of the family on which the revised systematics and interpretation of character evolution can be based. 

Phylogeny of the Mycetophiliformia, with proposal of the subfamilies  Heterotrichinae, Ohakuneinae, and Chiletrichinae for the Rangomaramidae (Diptera, Bibionomorpha)

Zootaxa ◽  
2007 ◽  
Vol 1535 (1) ◽  
pp. 1-92 ◽  
Author(s):  
DALTON DE SOUZA AMORIM ◽  
EIRIK RINDAL
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Sister Group ◽  
Data Matrix ◽  
Southern Brazil ◽  
The Family ◽  
First Time ◽  
A New Species ◽  
Transformation Series

A phylogenetic analysis of the Mycetophiliformia (= Sciaroidea) was performed to determine the relationships among its families and to place the following genera of uncertain position in the system: Heterotricha, Ohakunea, Colonomyia, Freemanomyia, Rhynchoheterotricha, Chiletricha, Afrotricha, Anisotricha, Kenyatricha, Nepaletricha, Sciarosoma, Sciaropota, Insulatricha, Cabamofa, Rogambara, and Starkomyia. Eratomyia n. gen. is described based on a new species from Ecuador. Colonomyia brasiliana sp.n. and Colonomyia freemani sp.n. are described respectively from southern Brazil and Chile. The male of Cabamofa mira Jaschhof is described for the first time. A total of 64 terminal taxa and 137 transformation series (with 202 characters) were included in the data matrix, with a number of new features from thoracic morphology. Willi Hennig’s 1973 system for the higher Bibionomorpha was adopted using the name Mycetophiliformia for the Sciaroidea. The Mycetophiliformia are monophyletic. The family Cecidomyiidae appears as the sister group of the remaining Mycetophiliformia, followed by the Sciaridae. In the preferred topology, the Rangomaramidae appear as the group sister of a clade consisting of (Ditomyiidae + Bolitophilidae + Diadocidiidae + Keroplatidae) and of (Lygistorrhinidae + Mycetophilidae). The topology within the Rangomaramidae is (Chiletrichinae subfam. n. (Heterotrichinae subfam. n. ((Rangomaraminae + Ohakuneinae subfam. n.))). The Chiletrichinae include the genera Kenyatricha, Rhynchoheterotricha, Insulatricha, Chiletricha, and Eratomyia n. gen. Heterotrichinae and Rangomaraminae are monotypic. The subfamily Ohakuneinae includes Ohakunea, Colonomyia, Cabamofa, and Rogambara. The positions of Freemanomyia, Loicia, Taxicnemis, Sciaropota, Starkomyia, Anisotricha, Nepaletricha, and Sciarosoma are considered. Afrotricha might belong to the Sciaridae. The similarities used by many authors to gather the Sciaridae and Mycetophilidae in a clade are shown to be a combination of plesiomorphies and homoplasies.

A Phylogenetic Analysis and Taxonomic Revision of Bartonia (Gentianaceae: Gentianeae), Based on Molecular and Morphological Evidence

2009 ◽  
Vol 34 (1) ◽  
pp. 162-172 ◽  
Author(s):  
Katherine G. Mathews ◽  
Niall Dunne ◽  
Emily York ◽  
Lena Struwe
Keyword(s):  
Phylogenetic Analyses ◽  
Strong Support ◽  
Taxonomic Revision ◽  
Sister Group ◽  
Species Boundaries ◽  
Morphological Evidence ◽  
Phylogenetic Study ◽  
Sister Group Relationship ◽  
Internal Transcribed Spacer Region ◽  
Test Species

A phylogenetic study and taxonomic revision of the four currently accepted species of Bartonia (Gentianaceae, subtribe Swertiinae) were conducted in order to test species boundaries and interspecific relationships. Species boundaries were examined based on measurements of key quantitative and qualitative morphological characters as given in the original descriptions. Phylogenetic analyses were performed using molecular data from the nuclear internal transcribed spacer region and chloroplast DNA (trnL intron through the trnL-F spacer), separately and combined using parsimony and Bayesian methodologies, incorporating outgroups from subtribes Swertiinae and Gentianinae. The morphological study revealed that characters of one species, B. texana, represent a subset of the morphological variation found within B. paniculata, but that B. paniculata, B. verna, and B. virginica could all be separated from one another. The molecular phylogenetic analyses all found B. texana to nest in a clade with the two recognized subspecies of B. paniculata (subsp. paniculata and subsp. iodandra), making the latter paraphyletic. Bartonia texana is here reduced to subspecific rank, as Bartonia paniculata subsp. texana. Also, the phylogenetic analyses showed strong support for a sister group relationship between B. verna and B. virginica, as opposed to between B. paniculata and B. virginica as has been previously suggested.

Morphological and systematic study of the tribe Australiosomatini (Diplopoda:Polydesmida:Paradoxosomatidea:Paradoxosomatidae) and a revision of the genus Australiosoma Brölemann

2006 ◽  
Vol 20 (5) ◽  
pp. 527 ◽  
Author(s):  
Melissah Rowe ◽  
Petra Sierwald
Keyword(s):  
New Species ◽  
Species Level ◽  
Data Matrix ◽  
Adult Males ◽  
Ecological Studies ◽  
Additional Species ◽  
The Family ◽  
Two New Species ◽  
Three New Species ◽  
Species Specific

The collection of several paradoxosomatid species in the context of ecological studies prompted an investigation into the morphology and species-level characteristics of Australian millipedes in the tribe Australiosomatini Brölemann, 1916 (Polydesmida : Paradoxosomatidae). Three new species are described: Akamptogonus caragoon, sp. nov., Australiosoma fulbrighti, sp. nov. and Australiosoma combei, sp. nov. Notes or re-descriptions are provided for nine additional species belonging to the tribe. Scanning electron microscopy was utilised to examine details of the antennal sensory fields, the fifth sternite lamella and associated pores. The presence of the fifth sternite lamella in adult males is considered a synapomorphy for the family Paradoxosomatidae, whereas the prominent tubercle on the first femur in males (adenostyle) represents a synapomorphy of the subfamily Australiosomatinae. With the description of two new species in the genus Australiosoma Brölemann, 1913 a revision of the genus was undertaken with the purpose of constructing a species-level phylogeny. The most commonly described and utilised species-specific characteristics were scored in a data matrix and analysed using PAUP. The analysis resulted in a single, fully resolved tree of the following structure: Hoplatria clavigera ((A. clavigerum, A. inusitatum) (((A. rainbowi, A. nodulosum) A. michelseni) (A. laminatum (A. combei, A. fulbrighti))).

On the phylogeny of the Dytiscidae (Insecta: Coleoptera) with emphasis on the morphology of the female reproductive system

2001 ◽  
Vol 32 (1) ◽  
pp. 45-89 ◽  
Author(s):  
Kelly B. Miller
Keyword(s):  
New Genus ◽  
Sister Group ◽  
Female Genitalia ◽  
New Combination ◽  
The Family ◽  
Character Evidence ◽  
Female Genital System ◽  
New Synonymy ◽  
Female Genital

AbstractCharacters from adult morphology are analyzed cladistically to infer the phylogeny of the family Dytiscidae. The analysis is based on examination of 233 species of Dytiscidae and several outgroup taxa including members of Noteridae, Amphizoidae, Hygrobiidae and Carabidae. Members of all currently recognized tribes of Dytiscidae are represented except Anisomeriini Brinck, Hydronebriini Guignot and Carabhydrini Watts. Emphasis is placed on identifying informative characters from the female genital system that comprise 34 of the resulting 101 total characters. The consensus of the most parsimonious trees is well resolved and supports recognition of ten subfamilies of Dytiscidae including; Matinae van den Branden, Laccophilinae Gistel, Coptotominae van den Branden, Copelatinae Erichson, Hydroporinae Aubé, Agabinae Thomson, Colymbetinae Erichson, Lancetinae van den Branden and Dytiscinae Leach. Also, Hydrodytes Miller, NEW GENUS, is erected and placed in its own subfamily, Hydrodytinae, NEW SUBFAMILY, to include two species previously placed in Agaporomorphus Zimmermann (Copelatinae), H. opalinus (Zimmermann) (NEW COMBINATION) and H. dodgei (Young) (NEW COMBINATION). Hydrodytinae is sister group to Hydroporinae and is diagnosed by the presence of anterior apodemes on the gonocoxae, several characters of the metendosternite (each synapomorphic with Hydroporinae), lack of pseudotetramerous pro- and mesotarsi, lack of a declivitous prosternum and prosternal process, the scutellum visible with the elytra closed (all plesiomorphic), the rami of the female genitalia sinuate and dorsally with an opalescent sheen (each autapomorphic for Hydrodytinae). Matinae is resolved as the sister group to the remaining Dytiscidae. Hyphydrini Sharp is found to be paraphyletic with respect to Pachydrini Biström, Nilsson and Wewalka, and the latter is relegated to a junior subjective synonym of the former (NEW SYNONYMY). Hydroporini Aubé and Hygrotini Portevin are found to be para- or polyphyletic. No changes are made to the classification of these taxa since character evidence is relatively weak, and taxon sampling within Hydroporinae is inadequate to justify changes. Carabdytes Balke, Hendrich and Wewalka is found to be the sister taxon to the remaining Colymbetinae, and because of its unique combination of characters and phylogenetic placement it is included in its own tribe, Carabdytini Pederzani (RESURRECTED). All other examined tribes of Dytiscidae are monophyletic. The female genitalia are described and figured for numerous taxa across the family, and numerous other characters are described and figured. The evolution of various features of the female genitalia within Dytiscidae is discussed. The resulting phylogenetic hypothesis is compared and contrasted with other phylogenetic proposals.

Generic delimitations in the family Stictidaceae (Ostropales, Ascomycota): the Stictis–Conotrema problem

2005 ◽  
Vol 37 (1) ◽  
pp. 67-75 ◽  
Author(s):  
Mats WEDIN ◽  
Heidi DÖRING ◽  
Kristina KÖNBERG ◽  
Gunnar GILENSTAM
Keyword(s):  
Sequence Data ◽  
Sister Group ◽  
Lsu Rdna ◽  
Infrageneric Classification ◽  
Rdna Its ◽  
The Family ◽  
Rdna Sequence Data ◽  
Natural Groups ◽  
High Support

The family Stictidaceae (Ostropales, Ascomycota) contains both lichenized and non-lichenized fungi. Here, we test if Conotrema (lichenized) and Stictis (non-lichenized) as currently delimited are distinct monophyletic genera, by parsimony and parsimony jackknifing analyses of combined nuclear rDNA (ITS and partial LSU rDNA) and mitochondrial SSU rDNA sequence data matrices. The study includes four species of Stictis, three species of Conotrema, and representatives of the related Schizoxylon (lichenized), Odontotrema, Carestiella (at least sometimes associated with algae), Cryptodiscus and Thelotrema (lichenized). In all analyses, the Conotrema species were nested within Stictis with high support. Thus, we conclude that Conotrema are only lichenized representatives of Stictis. The type species of the two generic names, C. urceolatum and S. radiata, are sister taxa in our analyses. Furthermore, the analysis gave no support for the present infrageneric classification of Stictis. Carestiella socia (the type of Carestiella) and the two representatives of Schizoxylon studied were also nested within Stictis s. lat. The Odontotremataceae is the sister group to the Stictidaceae, and Cryptodiscus foveolaris groups with Thelotrema rather than with the Stictidaceae. We conclude that lichenization in the Stictidaceae does not characterize natural groups, and that Conotrema should be considered a synonym to Stictis, as predicted by anatomical characteristics. The new combinations Stictis urceolatum and Stictis populorum are made.

A classification of Lejeuneaceae (Marchantiophyta) based on molecular and morphological evidence

Phytotaxa ◽  
2013 ◽  
Vol 100 (1) ◽  
pp. 6 ◽  
Author(s):  
S. ROBBERT GRADSTEIN
Keyword(s):  
Molecular Methods ◽  
Morphological Evidence ◽  
The Family ◽  
Molecular Phylogenetic

Lejeuneaceae are the largest family of the liverworts with at least one thousand species in 68 currently accepted genera. The number of genera is much lower than accepted previously and was reduced based on recent molecular work. This paper present a first classification of Lejeuneaceae based on integrated molecular-phylogenetic and morphological evidence. The family is subdivided into two broad subfamilies, Ptychanthoideae (19 genera) and Lejeuneoideae (49 genera). Ptychanthoideae are not further subdivided whereas Lejeuneoideae are classified into three tribes: Brachiolejeuneeae (8 genera), Symbiezidieae (new; 1 genus) and Lejeuneeae (40 genera). Lejeuneeae, the largest tribe in the family, are classified into eight subtribes: Ceratolejeuneinae (2 genera), Cheilolejeuneinae (4 genera), Cololejeuneinae (12 genera), Cyclolejeuneinae (3 genera), Drepanolejeuneinae (2 genera), Echinolejeuneinae (3 genera), Lejeuneinae (5 genera) and Lepidolejeuneinae (2 genera). Seven genera of Lejeuneeae have not yet been studied by molecular methods and are not classified.

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