Phylogenetic analysis of the higher classification of the Nematoda

1987 ◽  
Vol 65 (6) ◽  
pp. 1478-1482 ◽  
Author(s):  
Martin L. Adamson

Inglis (W. G. Inglis. 1983. Aust. J. Zool. 31: 243–255) divided Nematoda into three classes: the Enoplea, Rhabditea, and Chromadorea. Although most nematologists agree as to the limits of each of these groups, there is much disagreement as to how the groups relate to one another. Some authors group the Chromadorea with the Rhabditea, others group the Chromadorea with the Enoplea, and still others treat the three as independently derived taxa. In the present study I examine characters upon which various versions of the classification are based to identify plesiomorphic and derived character states. These are used to construct a phylogenetic tree using the Wagner algorithm. The analysis suggests that the Enoplea are best treated as the sister group to the Chromadorea–Rhabditea. The Chromadorea appear to be paraphyletic, consisting of several lineages forming a grade between the Enoplea and Rhabditea.

Paleobiology ◽  
1990 ◽  
Vol 16 (1) ◽  
pp. 25-48 ◽  
Author(s):  
Rich Mooi

Convincing hypotheses of the origin of major invertebrate groups are difficult to make in the absence of phylogenetic analyses. In spite of this, several scenarios exist for the origin of the unusual echinoid order Clypeasteroida. I expand upon the most probable of these models by performing a phylogenetic analysis on three clypeasteroid suborders, the enigmatic fossil genusTogocyamus, and the extinct Oligopygoida. This analysis shows that the oligopygoids are the sister group of the Clypeasteroida plusTogocyamus. The latter is here considered a plesion (extinct sister group) to the crown group Clypeasteroida. Within that order, the suborder Clypeasterina is the sister group to the Laganina plus Scutellina. A new classification of all these taxa is presented. The phylogeny is based on 47 characters and incorporates data on external appendages, Aristotle's lantern anatomy, and test structure of irregular echinoids, as well as new information on the morphology ofTogocyamus. The earliest clypeasteroids had a lantern similar to that of adult oligopygoids, which in turn inherited their lantern from a cassiduloid-like ancestor that retained the lantern into adulthood. This lantern is absent in adult cassiduloids. Subsequent changes, including modification of the lantern into a crushing mill, extreme flattening of the test, and proliferation of food-gathering tube feet have allowed clypeasteroids to become epifaunal inhabitants of environments characterized by fine, shifting substrates, a habitat previously inaccessible to most other irregular echinoids.


2004 ◽  
Vol 13 (1) ◽  
pp. 83-113
Author(s):  
Yu.A. Pesenko

The monophyly of the cosmopolitan tribe Halictini, including over 2300 currently recognized species, is supported by at least a single manifested synapomorphy shared by all members of the tribe: metasomal tergum VII of the male is modified; this forms a transverse ridge giving a false apex beneath which the tergum is strongly reflexed to the morphological posterior margin. On the basis of the present phylogenetic analysis, the tribe Halictini is subdivided into five subtribes: Halictina (comprised of 7 genera: Echthralictus, Glossodialictus, Halictus, Homalictus, Patellapis, Seladonia, and Thrincohalictus), Sphecodina (4 genera: Eupetersia, Microsphecodes, Ptilocleptis, and Sphecodes), Thrinchostomina (2 genera: Thrinchostoma and Parathrincostoma), Caenohalictina (9 genera: Agapostemon, Caenohalictus, Dinagapostemon, Habralictus, Mexalictus, Paragapostemon, Pseudagapostemon, Rhinetula, and Ruizantheda), and Gastrohalictina (one large and diverse genus: Lasioglossum s. l.). The subtribe Halictina is a paraphyletic group; the remaining four tribes are strictly monophyletic (holophyletic). The monophyly of the Halictus genus-group, comprising the genera Halictus and Seladonia, is supported by two distinct synapomorphies of the male genitalia: (1) dorsal gonostylus simple (not double), flattened, broad, narrowed proximally, and provided with a clump of very coarse bristles on the inner surface; (2) ventral gonostylus sclerotized, relatively thin and long, directed backward. Only generalized members of the group possess both the character states above. In derived members, the clump of bristles and the ventral gonostylus are often lost independently. The sister group of the Halictus genus-group is the genus Thrincohalictus. This is supported by the following synapomorphy found among the tribe Halictini only in Halictus, Seladonia, and Thrincohalictus: the ventral gonobasal rim in the male genitalia is forming a right posterolateral angle with a short projection directed laterally. Another feature characterizing these three genera is the presence (except in the parasitic subgenus Paraseladonia) of posterior bands of tomentum or dense and much plumose appressed hairs on the metasomal terga. However, this character is shared also with Patellapis subgenera Patellapis and Lomatalictus. The following subgeneric classification of the genera Halictus and Seladonia is suggested. The genus Halictus includes 12 subgenera: Acalcaripes (2 species), Argalictus (8), Halictus s. str. (4), Hexataenites (11), Lampralictus (1), Monilapis (29), Nealictus (2), Odontalictus (2), Platyhalictus (14), Protohalictus (13), Ramalictus (2), and Tytthalictus (4). The genus Seladonia comprises 6 subgenera, including 2 new ones: Mucoreohalictus subg. n. (15), Pachyceble (22), Paraseladonia (1), Placidohalictus subg. n. (5), Seladonia s. str. (36), and Vestitohalictus (16). The subgenera of Halictus and Seladonia are keyed. The phylogenetic tree of the subgenera of Halictus and Seladonia is reconstructed with use of 46 morphological characters of adults. All other genera of the tribe Halictini were taken as outgroup. The genus Halictus is ascertained as a strictly monophyletic group based upon a single postulated synapomorphy: dorsal gonostylus with a triangular hair patch as a distal appendage on inner side. All the subgenera of this genus appear as strictly monophyletic groups, with the exception of Monilapis, which is a paraphyletic one in relation to Acalcaripes. The monophyly of the genus Seladonia is supported by three synapomorphies, including a novelty (unique synapomorphy): male dorsal gonostylus with a deep cleft. All the subgenera of this genus are strictly monophyletic with the exception of Placidohalictus, which is a paraphyletic one in relation to Vestitohalictus and Mucoreohalictus. A synonymical catalogue of species and species-group names in the genera Halictus and Seladonia, including 442 names, is provided as an appendix.


2019 ◽  
Vol 50 (5) ◽  
pp. 702-716 ◽  
Author(s):  
Veronica Pereyra ◽  
Adriano Cavalleri ◽  
Claudia Szumik ◽  
Christiane Weirauch

The New World family Heterothripidae (~90 spp., four genera) comprises flower-feeding and ectoparasitic thrips. The monophyly of the group has remained untested and species-level relationships were unknown. Morphological (123 characters) and molecular (28S rDNA D2 and D3-D5, H3, and partial COI) data were compiled to reconstruct phylogenetic relationships of this group. The ingroup was represented by 65 species of the four recognized Heterothripidae genera (Aulacothrips Hood, Heterothrips Hood, Lenkothrips De Santis & Sureda, and Scutothrips Stannard). The monophyly of Heterothripidae was recovered in the total evidence and molecular data only analyses with the ectoparasitic Aulacothrips placed as the sister group of the remaining Heterothripidae. The large genus Heterothrips (>80% of the species-level diversity), which was thoroughly sampled in our analyses (56 species), was recovered as paraphyletic with respect to Scutothrips and Lenkothrips. We conclude that additional morphological and molecular data would be desirable before revising the classification of Heterothripidae


The Auk ◽  
1986 ◽  
Vol 103 (4) ◽  
pp. 737-754 ◽  
Author(s):  
Bradley C. Livezey

Abstract A phylogenetic analysis of all Recent genera of the Anseriformes using 120 morphological characters supports much of the current consensus regarding intraordinal relationships. I found that (1) Anseranas should be placed in a monotypic family; (2) Dendrocygna, Thalassornis, geese and swans, and Stictonetta are paraphyletic to the rest of the Anatidae; (3) Cereopsis is the sister group to Anser and Branta, and Coscoroba is the sister group to Cygnus and Olor; (4) Plectropterus is the sister group to the Tadorninae (shelducks) and the Anatinae (typical ducks); (5) the shelducks are monophyletic and include Sarkidiornis (provisionally), Malacorhynchus, Hymenolaimus, Merganetta, and Tachyeres; (6) the tribe "Cairinini" ("perching ducks") is an unnatural, polyphyletic assemblage and is rejected; (7) the dabbling ducks (including the smaller "perching ducks") comprise an unresolved, probably paraphyletic group; (8) tribal monophyly of the pochards (including Marmaronetta and Rhodonessa), sea ducks (including the eiders), and stiff-tailed ducks (including Heteronetta) is confirmed; and (9) the retention of Mergellus and resurrection of Nomonyx are recommended based on clarifications of intratribal relationships. Problematic groups, effects of homoplasy, phenetic comparisons, life-history correlates, biogeographic patterns, and fossil species are discussed, and a phylogenetic classification of Recent genera is proposed.


2000 ◽  
Vol 78 (6) ◽  
pp. 1067-1077 ◽  
Author(s):  
Dalton de Souza Amorim

A new phylogeny and phylogenetic classification for the Canthyloscelidae (Diptera: Psychodomorpha) is presented. A phylogenetic analysis of the Scatopsoidea is performed. A sister-group relationship between the Canthyloscelidae and Scatopsidae is accepted and the monophyly of the Canthyloscelidae is corroborated, including the genera Exiliscelis, Synneuron, Hyperoscelis, and Canthyloscelis. An earlier phylogenetic analysis of the group is considered, in which Synneuron was accepted as the sister-group of the Scatopsidae and Exiliscelis was considered the sister-group of Synneuron + Scatopsidae. Some apomorphic similarities between the larvae of all genera of Canthyloscelidae, especially the reduction of the head capsule, are considered true synapomorphies. Exiliscelis is considered the sister-group of the rest of the family and is placed in a new subfamily, Exiliscelinae. In the Canthyloscelinae, Synneuron is the sister-group of Hyperoscelis + Canthyloscelis. A phylogenetic classification of the group is proposed. Prohyperoscelis rohdendorfi Kovalev, 1985, from the Middle Jurassic in Russia, is accepted as the sister-group of Canthyloscelis.


Diversity ◽  
2021 ◽  
Vol 13 (10) ◽  
pp. 468
Author(s):  
Zhicuo Dan ◽  
Lei Duan ◽  
Zhenning Chen ◽  
Delong Guan ◽  
Shengquan Xu

Satyrinae is a 3000-species butterfly subfamily of Nymphalidae. The higher-level classification of this family is still controversial. In this research, we sequenced the complete mitogenomes of three satyrid butterfly species, Hipparchia autonoe, Paroeneis palaearctica, and Oeneis buddha, and studied the phylogeny of Satyrinae with all known complete mitogenomes. The results showed that the lengths of the three satyrid butterfly mitogenomes are 15,435 bp (H. Autonoe), 15,942 bp (P. palaearctica), and 15,259 bp (O. buddha). Gene content and arrangement of newly sequenced mitogenomes are highly conserved and are typical of Lepidoptera. These three mitogenomes were found to have a typical set of 37 genes and an A + T-rich region. The tRNA genes in these three mitogenomes showed a typical clover leaf structure, but the stem of tRNASer (AGN) was lacking dihydroacridine. In these three species, the lengths of the A + T-rich regions were different, which led to differences in mitochondrial genome sizes. The characterizations of the three mitogenomes enrich our knowledge on the Lepidopteran mitogenome and provide us genetic information to reconstruct the phylogenetic tree. Finally, the phylogenetic results confirmed the position of the genus Davidina in the subfamily Satyrini, had a closer phylogenetic relationship with Oeneis, and the phylogenetic analysis supported the formation of Oeneis buddha as an independent taxon in Oeneis.


Pathogens ◽  
2021 ◽  
Vol 10 (2) ◽  
pp. 241
Author(s):  
Joon Moh Park ◽  
Jachoon Koo ◽  
Se Won Kang ◽  
Sung Hee Jo ◽  
Jeong Mee Park

Rhodococcus fascians is an important pathogen that infects various herbaceous perennials and reduces their economic value. In this study, we examined R. fascians isolates carrying a virulence gene from symptomatic lily plants grown in South Korea. Phylogenetic analysis using the nucleotide sequences of 16S rRNA, vicA, and fasD led to the classification of the isolates into four different strains of R. fascians. Inoculation of Nicotiana benthamiana with these isolates slowed root growth and resulted in symptoms of leafy gall. These findings elucidate the diversification of domestic pathogenic R. fascians and may lead to an accurate causal diagnosis to help reduce economic losses in the bulb market.


Pathogens ◽  
2021 ◽  
Vol 10 (1) ◽  
pp. 41
Author(s):  
Marcos Godoy ◽  
Daniel A. Medina ◽  
Rudy Suarez ◽  
Sandro Valenzuela ◽  
Jaime Romero ◽  
...  

Piscine orthoreovirus (PRV) belongs to the family Reoviridae and has been described mainly in association with salmonid infections. The genome of PRV consists of about 23,600 bp, with 10 segments of double-stranded RNA, classified as small (S1 to S4), medium (M1, M2 and M3) and large (L1, L2 and L3); these range approximately from 1000 bp (segment S4) to 4000 bp (segment L1). How the genetic variation among PRV strains affects the virulence for salmonids is still poorly understood. The aim of this study was to describe the molecular phylogeny of PRV based on an extensive sequence analysis of the S1 and M2 segments of PRV available in the GenBank database to date (May 2020). The analysis was extended to include new PRV sequences for S1 and M2 segments. In addition, subgenotype classifications were assigned to previously published unclassified sequences. It was concluded that the phylogenetic trees are consistent with the original classification using the PRV genomic segment S1, which differentiates PRV into two major genotypes, I and II, and each of these into two subgenotypes, designated as Ia and Ib, and IIa and IIb, respectively. Moreover, some clusters of country- and host-specific PRV subgenotypes were observed in the subset of sequences used. This work strengthens the subgenotype classification of PRV based on the S1 segment and can be used to enhance research on the virulence of PRV.


2021 ◽  
Vol 20 (7) ◽  
pp. 911-927
Author(s):  
Lucia Muggia ◽  
Yu Quan ◽  
Cécile Gueidan ◽  
Abdullah M. S. Al-Hatmi ◽  
Martin Grube ◽  
...  

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.


2017 ◽  
Vol 49 (5) ◽  
pp. 457-466 ◽  
Author(s):  
Evgeny A. DAVYDOV ◽  
Lidia S. YAKOVCHENKO

AbstractRhizocarpon smaragdulum Davydov & Yakovchenko sp. nov. is described and a phylogenetic analysis (ITS, mtSSU) is presented, confirming its distinctiveness and indicating a sister relationship with R. suomiense and R. subgeminatum. The species is unique among yellow Rhizocarpon species in having a single hyaline ascospore per ascus. The phylogenetic tree suggests that the number of ascospores per ascus has been reduced in Rhizocarpon more than once during the course of its evolution. Two new distributional records are also reported: Rhizocarpon atroflavescens is new for Siberia and R. norvegicum is new for the Altai Mountains. Rhizocarpon norvegicum in this region grows on rocks and is also lichenicolous on Acarospora bullata.


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