scholarly journals Systematics of the subfamily Aclyvolvinae (Caenogastropoda: Ovulidae) based on molecular and morphometric analyses

2019 ◽  
Vol 85 (3) ◽  
pp. 336-347
Author(s):  
Bastian T Reijnen ◽  
Sancia E T van der Meij
Keyword(s):  
16S Rrna ◽  
Type Species ◽  
Sequence Data ◽  
Morphological Characters ◽  
Phylogenetic Position ◽  
28S Rrna ◽  
Molecular Analyses ◽  
Mitochondrial Coi ◽  
Morphometric Analyses ◽  
Molecular Phylogenetic

Abstract Molecular phylogenetic research on the octocoral-associated gastropod family Ovulidae is still in its infancy and, as a consequence, the relationships between subfamilies and genera are not well defined. Previous research on various ovulid genera has shown that their conchological characters are often too fluid when dealing with species delimitations. For this study, Ovulidae were collected in Indonesia and Malaysia, with some additional specimens obtained from Thailand and the Red Sea. Relationships between the Aclyvolvinae and other ovulid subfamilies were assessed using sequence data from two mitochondrial genes (cytochrome c oxidase subunit I (COI) and 16S rRNA); the dataset contained ovulid species (including type species) from the subfamilies Eocypraeinae, Ovulinae, Pediculariinae and Simniinae. The type species of the subfamilies Eocypraeinae and Sulcocypraeinae are fossils, and hence could not be included in the analyses. The phylogeny and systematics of the subfamily Aclyvolvinae were assessed based on four DNA gene regions (mitochondrial COI and 16S rRNA, and nuclear 28S rRNA and histone H3) and morphometric analyses. Shell morphological characters were analysed to help clarify species delimitations within the Aclyvolvinae. The results from the molecular analyses showed that the subfamilies Aclyvolvinae, Eocypraeinae and Simniinae are polyphyletic, whereas the Ovulinae and Pediculariinae appear to be monophyletic. Within the subfamily Aclyvolvinae, the type species of Hiatavolva, H. depressa, did not form a clade with the other species of Hiatavolva. Instead, H. rugosa and H. coarctata formed a clade that is sister to the clade comprising Aclyvolva lamyi, A. lanceolata and A. nicolamassierae, and are therefore now considered as belonging to the genus Aclyvolva. Aclyvolva lamyi and A. nicolamassierae were shown to be synonyms of A. lanceolata, and A. rugosa (n. comb.) is a synonym of A. coarctata (n. comb.). The genus Kuroshiovolva could not be retrieved in a fixed phylogenetic position within the Aclyvolvinae, nor did it cluster with H. depressa or Aclyvolva spp. Our morphometric analyses are in agreement with the results of the molecular analyses, and furthermore show that juvenile shells are morphologically significantly different from their adult conspecifics. Photographs of the type material of Ovulum lanceolatum, O. coarctatum, Neosimnia lamyi, Hiata rugosa and A. nicolamassierae are provided, and new information is given on the geographical distribution and host species of Aclyvolvinae. The subfamily Aclyvolvinae is redefined and now includes only A. lanceolata and A. coarctata. The genus Hiatavolva is now monotypic, containing only H. depressa, but the subfamily to which this genus belongs remains unclear. Kuroshiovolva is not part of the Aclyvolvinae, but its subfamily level placement is unclear.

scholarly journals Cave shrimps Troglocaris s. str. (Dormitzer, 1853), taxonomic revision and description of new taxa after phylogenetic and morphometric studies

Zootaxa ◽  
2012 ◽  
Vol 3421 (1) ◽  
pp. 1 ◽  
Author(s):  
JURE JUGOVIC ◽  
BRANKO JALŽIĆ ◽  
SIMONA PREVORČNIK ◽  
BORIS SKET
Keyword(s):  
Type Species ◽  
Morphological Variability ◽  
Taxonomic Revision ◽  
Morphological Characters ◽  
Molecular Data ◽  
Coi Gene ◽  
Distribution Area ◽  
Molecular Analyses ◽  
Morphometric Analyses ◽  
Morphological Distinction

Within the Dinaric genus Troglocaris cave shrimps from the subgenus Troglocaris s. str. (Dormitzer, 1853) (Crustacea:Decapoda: Atyidae), have the widest distribution area. The recent molecular analyses have revealed significant, crypticdiversity in the subgenus. The aim of the subsequent detailed morphometric analyses was the provision of the appropriatediagnosable characters for the discovered lineages, i.e. taking care of their taxonomical visibility. We herein designate aneotype and provide a detailed description for the polytipic type species of the genus T. (T.) anophthalmus (Kollar, 1848), toenable its morphological distinction from the erroneously described T. (T.) planinensis Birštejn, 1948. Considering acombination of morphological, geographical and molecular data, we describe four new subspecies: T. (T.) a. ocellata ssp. nov.,T. (T.) a. periadriatica ssp. nov., T. (T.) a. legovici ssp. nov. and T. (T.) a. sontica ssp. nov., apart from the extant T. (T.) a.intermedia Babić, 1922. Due to a considerable morphological variability and no easily observable diagnostic morphological characters, the GenBank accession numbers for the COI gene are added in all mentioned taxa.

scholarly journals Revision of the genus Emphylica Turner, 1913 based on morphology and molecular data (Lepidoptera, Crambidae, Pyraustinae)

ZooKeys ◽  
2019 ◽  
Vol 836 ◽  
pp. 113-133 ◽  
Author(s):  
Kai Chen ◽  
Qingming Liu ◽  
Jianhua Jin ◽  
Dandan Zhang
Keyword(s):  
New Species ◽  
16S Rrna ◽  
Sequence Data ◽  
Southern China ◽  
Molecular Data ◽  
28S Rrna ◽  
New Combinations ◽  
Molecular Phylogenetic ◽  
Phylogenetic Framework ◽  
A New Species

Moths of the genus Emphylica Turner, 1913 resemble species of Achyra Guenée, 1849, Loxostege Hübner, 1825 and Sitochroa Hübner, 1825 in having a conical frons. In order to examine the monophyly of Emphylica, and its relationship to other genera with a conical frons, a molecular phylogenetic framework is reconstructed based on sequence data of COI, 16S rRNA, 28S rRNA, EF-1α and Wg gene regions. The results robustly support the monophyly of Emphylica. Achyra + (Loxostege + Sitochroa) is in a sister position to Emphylica. A new species, E.crassihamatasp. n., is described from Southern China and two new combinations, E.diaphana (Caradja & Meyrick, 1934), comb. n. and E.cruoralis (Warren, 1895), comb. n., are proposed. An identification key based on males is provided for all Emphylica species. The adult habitus and genitalia of all species are figured.

scholarly journals Molecular phylogenetic data and seed coat anatomy resolve the generic position of some critical Chenopodioideae (Chenopodiaceae – Amaranthaceae) with reduced perianth segments

PhytoKeys ◽  
2018 ◽  
Vol 109 ◽  
pp. 103-128 ◽  
Author(s):  
Alexander P. Sukhorukov ◽  
Maya V. Nilova ◽  
Anastasiya A. Krinitsina ◽  
Maxim A. Zaika ◽  
Andrey S. Erst ◽  
...  
Keyword(s):  
Seed Coat ◽  
Type Species ◽  
Its Region ◽  
Outer Wall ◽  
Morphological Characters ◽  
Phylogenetic Position ◽  
Phylogenetic Study ◽  
Outer Cell ◽  
Monotypic Genus ◽  
Molecular Phylogenetic

The former Chenopodiumsubgen.Blitum and the genus Monolepis (Chenopodioideae) are characterised in part by a reduced (0–4) number of perianth segments. According to recent molecular phylogenetic studies, these groups belong to the reinstated genera Blitum incl. Monolepis (tribe Anserineae) and Oxybasis (tribe Chenopodieae). However, key taxa such as C.antarcticum, C.exsuccum, C.litwinowii, C.foliosumsubsp.montanum and Monolepisspathulata were not included and so their phylogenetic position within the Chenopodioideae remained equivocal. These species and additional samples of Blitumasiaticum and B.nuttallianum were incorporated into an expanded phylogenetic study based on nrDNA (ITS region) and cpDNA (trnL-trnF and atpB-rbcL intergenic spacers and rbcL gene). Our analyses confirm the placement of C.exsuccum, C.litwinowii and C.foliosumsubsp.montanum within Blitum (currently recognised as Blitumpetiolare, B.litwinowii and B.virgatumsubsp.montanum, respectively); additionally, C.antarcticum, currently known as Oxybasisantarctica, is also placed within Blitum (reinstated here as B.antarcticum). Congruent with previous studies, two of the three accepted species of Monolepis – the type species M.trifida (= M.nuttalliana) as well as M.asiatica – are included in Blitum. The monotypic genus Carocarpidium described recently with the type C.californicum is not accepted as it is placed within Blitum (reinstated here as B.californicum). To date, few reliable morphological characters have been proposed that consistently distinguish Blitum (incl. two Monolepis species) from morphologically similar Oxybasis; however, two key differences are evident: (1) the presence of long-petiolate rosulate leaves in Blitum vs. their absence in Oxybasis and (2) a seed coat structure with the outer wall of the testa cells lacking stalactites (‘non-stalactite seed coat’) but with an obvious protoplast in Blitum vs. seed coat with the outer walls of the testa cells having stalactites (‘stalactite seed coat’) and a reduced protoplast in Oxybasis. Surprisingly, the newly sequenced North American Monolepisspathulata nested within the tribe Dysphanieae (based on ITS and trnL-trnF + rbcL + atpB-rbcL analyses).The phylogenetic results, as well as presence of the stalactites in the outer cell walls of the testa and lack of the rosulate leaves, confirm the distinctive nature of Monolepisspathulata from all Blitum and, therefore, the recent combination Blitumspathulatum cannot be accepted. Indeed, the morphological and molecular distinctive nature of this species from all Dysphanieae supports its recognition as a new monotypic genus, named herein as Neomonolepis (type species: N.spathulata). The basionym name Monolepisspathulata is also lectotypified on a specimen currently lodged at GH. Finally, while Micromonolepispusilla is confirmed as belonging to the tribe Chenopodieae, its position is not fully resolved. As this monotypic genus is morphologically divergent from Chenopodium, it is retained as distinct but it is acknowledged that further work is required to confirm its status.

Revision of the genus Eumorphobotys with descriptions of two new species (Lepidoptera, Crambidae, Pyraustinae)

Zootaxa ◽  
2018 ◽  
Vol 4472 (3) ◽  
pp. 489 ◽  
Author(s):  
KAI CHEN ◽  
DANDAN ZHANG ◽  
MIHAI STĂNESCU
Keyword(s):  
New Species ◽  
16S Rrna ◽  
Southwest China ◽  
Sequence Data ◽  
Southern China ◽  
Morphological Characters ◽  
Rrna Gene ◽  
28S Rrna ◽  
Labial Palpus ◽  
Two New Species

The genus Eumorphobotys Munroe & Mutuura (1969) comprises two species that have been found in southern China. Two new species, E. concavuncus sp. n. and E. horakae sp. n., are described from southwest China. In appearance, this genus also resembles Calamochrous Lederer, 1863, Sclerocona Meyrick, 1890, Prodasycnemis Warren, 1892, and Loxoneptera Hampson, 1896. In order to evaluate the generic placement of the new taxa, the phylogeny of Eumorphobotys species and several species representing the potential related genera based on sequence data of COI, 16S rRNA, EF-1α and 28S rRNA gene regions were reconstructed and the taxonomy of these genera based on morphological characters was re-assessed. The results are as follows: (i) the monophyly of Eumorphobotys is well supported; (ii) Loxoneptera is paraphyletic. Two species of Calamochrous were recovered as terminal lineages within Loxoneptera; (iii) the clade comprising species of Loxoneptera and Calamochrous is in the sister position to Eumorphobotys with a robust support; (iv) species of Loxoneptera and Calamochrous resemble Eumorphobotys in the wing shape and the porrect labial palpus but differ in genitalia structures. The relationships of these genera are discussed; (v) two new species, E. concavuncus sp. n. and E. horakae sp. n., are described, Calamochrous obscuralis (Caradja, 1925) syn. n. is synonymized with E. eumorphalis (Caradja, 1925) based on the male genitalia and the adults and genitalia of all species (except the female of E. horakae sp. n.) are illustrated. 

Asian Betylobraconinae (Hymenoptera, Braconidae), with description of a new genus and phylogenetic affinities of the tribe Facitorini

2008 ◽  
Vol 39 (2) ◽  
pp. 133-154 ◽  
Author(s):  
Alberto Sáez ◽  
Kaoru Maeto ◽  
Alejandro Zaldivar-Riverón ◽  
Sergey Belokobylskij
Keyword(s):  
New Species ◽  
Type Species ◽  
New Genus ◽  
Phylogenetic Analyses ◽  
28S Rrna ◽  
Asian Region ◽  
Molecular Phylogenetic ◽  
Phylogenetic Affinities ◽  
One New Species ◽  
Rrna Sequences

AbstractThe taxonomy of the Asian genera of the subfamily Betylobraconinae, a small and understudied group within the hymenopteran family Braconidae, is revised. A new genus exclusively from the Asian region, Asiabregma gen. nov., containing three species (A. ryukyuensis sp. nov. (type species, Japan and Malaya), A. makiharai sp. nov. (Japan) and A. sulaensis (van Achterberg), comb. nov. (Indonesia)) is described. One new species of Aulosaphobracon, A. striatus sp. nov. from Vietnam, and one of Facitorus, F. amamioshimus sp. nov. from Japan, are also described. Based on molecular phylogenetic analyses using COI mtDNA and 28S rRNA sequences, the three genera previously placed in the tribe Facitorini, Facitorus, Conobregma and Jannya, together with Asiabregma gen. nov., are transferred to the rogadine tribe Yeliconini.

scholarly journals Noteworthy record of the Ethiopian genet, Genetta abyssinica, (Carnivora, Viverridae) from Djibouti informs its phylogenetic position within Genetta

Mammalia ◽  
2019 ◽  
Vol 83 (2) ◽  
pp. 180-189 ◽  
Author(s):  
Adam W. Ferguson ◽  
Houssein R. Roble ◽  
Molly M. McDonough
Keyword(s):  
Phylogenetic Relationships ◽  
Sequence Data ◽  
Alternative Hypothesis ◽  
Phylogenetic Analyses ◽  
Phylogenetic Position ◽  
Sister Relationship ◽  
Molecular Sequence Data ◽  
Molecular Sequence ◽  
Molecular Phylogenetic ◽  
Relationship Of

AbstractThe molecular phylogeny of extant genets (Carnivora, Viverridae,Genetta) was generated using all species with the exception of the Ethiopian genetGenetta abyssinica. Herein, we provide the first molecular phylogenetic assessment ofG. abyssinicausing molecular sequence data from multiple mitochondrial genes generated from a recent record of this species from the Forêt du Day (the Day Forest) in Djibouti. This record represents the first verified museum specimen ofG. abyssinicacollected in over 60 years and the first specimen with a specific locality for the country of Djibouti. Multiple phylogenetic analyses revealed conflicting results as to the exact relationship ofG. abyssinicato otherGenettaspecies, providing statistical support for a sister relationship to all other extant genets for only a subset of mitochondrial analyses. Despite the inclusion of this species for the first time, phylogenetic relationships amongGenettaspecies remain unclear, with limited nodal support for many species. In addition to providing an alternative hypothesis of the phylogenetic relationships among extant genets, this recent record provides the first complete skeleton of this species to our knowledge and helps to shed light on the distribution and habitat use of this understudied African small carnivore.

Paracarphalea, a new genus of the coffee family segregated from the Malagasy endemic genus Carphalea (Rubiaceae, Rubioideae, Knoxieae)

Phytotaxa ◽  
2016 ◽  
Vol 263 (2) ◽  
pp. 98 ◽  
Author(s):  
JULIA FERM ◽  
JESPER KÅREHED ◽  
BIRGITTA BREMER ◽  
SYLVAIN G. RAZAFIMANDIMBISON
Keyword(s):  
Bayesian Methods ◽  
Type Species ◽  
New Genus ◽  
Sequence Data ◽  
Conservation Status ◽  
Endemic Genus ◽  
Phylogenetic Studies ◽  
Molecular Phylogenetic ◽  
Nuclear Its ◽  
Iucn Criteria

The Malagasy genus Carphalea (Rubiaceae) consists of six species (C. angulata, C. cloiselii, C. kirondron, C. linearifolia, C. madagascariensis, C. pervilleana) of shrubs or small trees and is recognizable by a distinctly lobed calyx, 2(–4)-locular ovaries, each locule with several ovules on a rod-like stalk arising from the base of the locule, and indehiscent fruits. Carphalea linearifolia, rediscovered in 2010, has not previously been included in any Rubiaceae molecular phylogenetic studies. We re-investigated the monophyly of Carphalea using sequence data from chloroplast (rps16 and trnT-F) and nuclear (ITS and ETS) markers analysed with parsimony and Bayesian methods. Carphalea linearifolia forms a clade with C. cloiselii and the type species C. madagascariensis. This clade is sister to a clade consisting of the rest of the Carphalea species plus the genus Triainolepis. According to these results, the new genus Paracarphalea is here described to accommodate Carphalea angulata, C. kirondron, and C. pervilleana. The conservation status of Carphalea linearifolia is assessed as critically endangered according to IUCN criteria.

Homoplasy: from detecting pattern to determining process in evolution, but with a secondary role for morphology?

Zootaxa ◽  
2011 ◽  
Vol 2984 (1) ◽  
pp. 67 ◽  
Author(s):  
LEANDRO C. S. ASSIS ◽  
MARCELO R. DE CARVALHO ◽  
QUENTIN D. WHEELER
Keyword(s):  
Sequence Data ◽  
Morphological Characters ◽  
Flow Chart ◽  
Molecular Topology ◽  
Molecular Sequence Data ◽  
Molecular Sequence ◽  
Secondary Role ◽  
Molecular Phylogenetic ◽  
Phylogenetic Framework

David Wake and colleagues provided a thought-provoking review of the concept of homoplasy through the integration, within a phylogenetic framework, of genetic and developmental data (Wake et al. 2011). According to them (p. 1032) “Molecular sequence data have greatly increased our ability to identify homoplastic traits.” This is made clear, for example, in their flow chart for homoplasy detection (Figure 2, p. 1034), wherein homoplasy is discovered through the mapping of “traits of interest” onto a phylogram, a practice common in the molecular phylogenetic paradigm. The “mapping” is usually of morphological characters that are employed to support the chosen (molecular) topology, but which, as a consequence, do not themselves contribute to the formation of those topologies (Assis & Carvalho 2010).

Dysosmobacter welbionis gen. nov., sp. nov., isolated from human faeces and emended description of the genus Oscillibacter

2020 ◽  
Vol 70 (9) ◽  
pp. 4851-4858 ◽  
Author(s):  
Tiphaine Le Roy ◽  
Patrick Van der Smissen ◽  
Adrien Paquot ◽  
Nathalie Delzenne ◽  
Giulio G. Muccioli ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
Strictly Anaerobic ◽  
Respiratory Quinone ◽  
Content Type ◽  
Human Faeces ◽  
Link Type

A strictly anaerobic, Gram-stain-negative, non-spore-forming, non-motile, non-pigmented bacterium, strain J115T, was isolated from human faeces. Cells of strain J115T were straight rods, generally 1.8–3.0 µm, but could be up to 18 µm long. Growth occurred below 2 % (w/v) NaCl and 2 % (v/v) bile. Strain J115T produced acid from myo-inositol but not from d-glucose, d-ribose or d-xylose. Butyric acid was the major end-product from myo-inositol. The genomic DNA G+C content was 58.92 mol%. Phylogenetic analysis based on 16S rRNA gene sequencing indicated that the closest cultivated neighbours of strain J115T were Oscillibacter ruminantium GH1T (95.4 % similarity) and Oscillibacter valericigenes Sjm18-20T (94.1 %). Strain J115T was also related to the not-yet-cultured bacterium Oscillospira guilliermondii (92–93 % similarity). Coherently with the 16S rRNA gene sequence results, the ANI scores don't have units of strain J115T to O. ruminantium GH1T and O. valericigenes Sjm18-20T were 73.37 and 73.24, respectively, while in silico estimations of DNA–DNA hybridization were both 20.4 %, with confidence intervals of 18.2–22.9 % and 18.2–22.8 %, respectively. The major fatty acids were iso-C15 : 0 (24.2 %), C18 : 0 DMA (18.4 %), anteiso-C15 : 0 (15.2 %) and C16 : 0 DMA (7.6 %). No respiratory quinone was detected. Based on phenotypic features and phylogenetic position, it is proposed that this isolate represents a novel species in a new genus, Dysosmobacter welbionis gen. nov., sp. nov. The type strain of Dysosmobacter welbionis is J115T (DSM 106889T=LMG 30601T).

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