Reconstruction of intrageneric relationships within the Indo-West Pacific littoral crab genus Metopograpsus (Decapoda, Brachyura, Grapsidae): an alternative speciation order according to a 28S rDNA molecular phylogeny

Crustaceana ◽  
2021 ◽  
Vol 94 (11-12) ◽  
pp. 1313-1325
Author(s):  
Elisabeth Mock ◽  
Christoph D. Schubart
Keyword(s):  
Molecular Phylogeny ◽  
Nuclear Gene ◽  
28S Rrna ◽  
Widespread Species ◽  
West Pacific ◽  
Phylogenetic Reconstructions ◽  
Geographic Coverage ◽  
Morphological Differences ◽  
First Time ◽  
Basal Position

Abstract The genus Metopograpsus H. Milne Edwards, 1853 is widespread throughout the Indo-West Pacific and currently consists of seven species that can only be separated by minor morphological differences. Therefore, it represents a good example for the usefulness of genetic analyses for identification and classification. In order to obtain phylogenetic information at both lower and higher evolutionary levels, it is best to use a combination of mitochondrial and nuclear molecular markers. Here we present for the first time a molecular phylogeny based on a relative long fragment of the 28S rRNA nuclear gene for the genus Metopograpsus, after application of newly developed primers. Our data suggest an alternative intrageneric speciation order, with M. thukuhar and M. cannicci holding a basal position and a monophyletic grouping of M. frontalis, M. oceanicus and M. quadridentatus, which differs from prior phylogenetic reconstructions. Previously recognized intraspecific phylogeographic patterns in M. latifrons and M. quadridentatus could not be confirmed, due to limited variability of this conserved nuclear gene and due to an incomplete geographic coverage of the corresponding species. In contrast, the previously indicated phylogenetic subdivision within the formerly widespread species M. thukuhar, which led to the recent description of M. cannicci, is here supported.

Diaphanocephalus galeatus (Nematoda: Diaphanocephalidae), a poorly known parasite of lizards: redescription, first genetic characterization and a revision of its congeners from Brazil

2018 ◽  
Vol 93 (05) ◽  
pp. 629-635
Author(s):  
F.B. Pereira ◽  
V.L. Ferreira ◽  
W.M. Tomas ◽  
C. Elisei ◽  
F. Paiva ◽  
...  
Keyword(s):  
Phylogenetic Trees ◽  
Genetic Characterization ◽  
Nuclear Gene ◽  
Buccal Capsule ◽  
Morphological Characterization ◽  
28S Rrna ◽  
Type Specimens ◽  
Mato Grosso ◽  
Different Populations ◽  
First Time

AbstractDiaphanocephalus galeatus collected from the small intestine of the lizard Dracaena paraguayensis in the Pantanal wetlands, State of Mato Grosso do Sul, Brazil, is redescribed. Genetic characterization and observations using scanning electron microscopy (SEM) were performed for the first time. The vouchers of D. galeatus and the type specimens of its congeners, deposited in the Coleção Helmintológica do Instituto Oswaldo Cruz (CHIOC), were consulted. Light and SEM observations revealed several undescribed features of D. galeatus, i.e. structure of the cephalic end and of the buccal capsule, position and morphology of deirids, presence of phasmids in females and presence of unpaired papilla on the membranous projection that covers the genital cone in males. After observation of the specimens deposited in the helminthological collection, D. jacuruxi is considered a synonym of D. galeatus, and D. diesingi, despite its incomplete description, is tentatively retained as valid due to the poor condition of the type material. The results also indicated low host specificity of D. galeatus, contradicting previous assertions. Genetic comparisons using patristic distances and phylogenetic trees generated from sequences of the 28S rRNA nuclear gene indicated that D. galeatus is closer to the taxa within Ancylostomatoidea and Strongyloidea than any lineage of Metastrongyloidea or Trichostrongyloidea. However, most of the nodal supports were low. Based on the genetic and morphological characterization, the validity of D. galeatus was confirmed. These data may serve for further comparative approaches for different populations of the parasite, from different hosts in different geographical areas, mitigating taxonomic confusions.

The identity of some specimens previously (mis)identified as Rhinoleucophenga obesa (Loew) (Diptera: Drosophilidae) in Brazil, based on morphological and molecular data, with implications on distribution

Zootaxa ◽  
2019 ◽  
Vol 4656 (2) ◽  
pp. 310-334
Author(s):  
JEAN LUCAS POPPE ◽  
MARCO SILVA GOTTSCHALK ◽  
MARÍNDIA DEPRÁ ◽  
HERMES JOSÉ SCHMITZ ◽  
VERA LÚCIA SILVA VALENTE
Keyword(s):  
Sibling Species ◽  
The United States ◽  
Molecular Data ◽  
Neotropical Region ◽  
Type Specimens ◽  
Widespread Species ◽  
Morphological Differences ◽  
Morphological And Molecular Data ◽  
First Time ◽  
Species Being

Rhinoleucophenga Hendel is an endemic genus of the New World with most species recorded in Brazil. Rhinoleucophenga obesa (Loew) seemed to be the most widespread species, being recorded in the United States of America, Mexico and Brazil. In the Neotropical region, identifications of R. obesa were commonly based on the description of non-type specimens determined by Costa Lima (1935) and Malogolowkin (1946), although their identities were doubtful. However, the recent redescription of R. obesa from the type-series from Texas, USA, confirmed a long period of misidentifications and a new species, R. cantareira Vilela & Bächli, was proposed based on Brazilian specimens. Thus, review of morphological and molecular traits of specimens previously identified as R. obesa in Neotropical biomes are necessary to check the identity and distribution of a group of sibling species: R. obesa, R. cantareira, R. gigantea (Thomson), R. pallida Hendel and R. pampeana Poppe et al. In the present paper, specimens previously determined as R. obesa, sampled in different Brazilian localities, were compared by morphological and molecular traits. Plates of female terminalia of R. cantareira and R. gigantea are presented for the first time. The spermathecal capsules (as well as the male epandrium) revealed useful characteristics to differentiate those species; these morphological differences were corroborated by a sequence fragment of COI. The specimens on which were based the descriptions of Rhinoleucophenga obesa sensu Costa Lima (1935) and sensu Malogolowkin (1946) were reviewed and confirmed as R. cantareira. Other Brazilian specimens from different localities, previously misidentified as R. obesa, were determined as R. gigantea or R. cantareira, with new records for both species. Therefore, the present study corresponds to the advance of identity definition and distribution of sibling species of Rhinoleucophenga commonly sampled in Neotropical inventory studies. 

New molecular phylogeny of Lucinidae: increased taxon base with focus on tropical Western Atlantic species (Mollusca: Bivalvia)

Zootaxa ◽  
2016 ◽  
Vol 4196 (3) ◽  
pp. 381 ◽  
Author(s):  
JOHN D. TAYLOR ◽  
EMILY A. GLOVER ◽  
LISA SMITH ◽  
CHIHO IKEBE ◽  
SUZANNE T. WILLIAMS
Keyword(s):  
Molecular Phylogeny ◽  
Species Complex ◽  
Single Species ◽  
Abundant Species ◽  
28S Rrna ◽  
Western Atlantic ◽  
Molecular Analyses ◽  
West Pacific ◽  
Phylogenetic Framework ◽  
A New Species

A new molecular phylogeny of the Lucinidae using 18S and 28S rRNA and cytochrome b genes includes many species from the tropical Western Atlantic as well as additional taxa from the Indo-West Pacific. This study provides a phylogenetic framework for a new taxonomy of tropical Western Atlantic lucinids. The analysis confirmed five major clades—Pegophyseminae, Leucosphaerinae, Myrteinae, Codakiinae and Lucininae, with Monitilorinae and Fimbriinae represented by single species. The Leucosphaerinae are expanded and include Callucina winckworthi and the W. Atlantic Myrtina pristiphora that groups with several Indo-West Pacific Myrtina species. Within the Codakiinae two abundant species of Ctena from the Western Atlantic with similar shells are discriminated as C. orbiculata and C. imbricatula, while in the Indo-West Pacific Ctena bella is a probable species complex. The Lucininae is the most species rich and disparate subfamily with several subclades apparent. Three species of Lucina are recognized in the W. Atlantic L. aurantia, L. pensylvanica and L. roquesana. Pleurolucina groups near to Cavilinga and Lucina, while Lucinisca muricata is more closely related to the E. Pacific L. fenestrata than to the Atlantic L. nassula. A new species of Parvilucina is identified from molecular analyses having been confounded with Parvilucina pectinata but differs in ligament structure. Also, the former Parvilucina clenchi is more distant and assigned to Guyanella. 

Allopatric separation represents an overlooked cryptic species in theAnania hortulataspecies complex (Lepidoptera: Crambidae: Pyraustinae): congruence between genetic and morphological evidence

2019 ◽  
Vol 151 (2) ◽  
pp. 163-186 ◽  
Author(s):  
Zhaofu Yang ◽  
Jean-François Landry
Keyword(s):  
North America ◽  
Nuclear Gene ◽  
Single Species ◽  
Coi Gene ◽  
Morphological Evidence ◽  
Widespread Species ◽  
Mitochondrial Coi ◽  
Network Analyses ◽  
Geographical Regions ◽  
Morphological Differences

AbstractAnania hortulata(Linnaeus, 1758) (Lepidoptera: Crambidae: Pyraustinae) is a strikingly coloured, common, and widespread species that has long been recognised as a single species widely distributed in Asia, Europe, and North America. Using a combination of molecular and morphometric data, this study resolved thatA. hortulatais actually a species complex of two superficially indistinguishable species. Phylogenetic and network analyses based on the mitochondrial COI gene discriminated lineages from all major geographical regions of China as distinct,A. sinensisYang and Landrynew species, whereasA. hortulataoccurs in Central Asia, Europe, and North America. Nuclear gene (CAD) and morphological differences in the genital characters provided further evidence for the separation ofA. hortulataandA. sinensis.

Molecular phylogeny and taxonomic evaluation of the genus Asaccus Dixon and Anderson, 1973 (Reptilia: Phyllodactylidae) in Iran

2020 ◽  
pp. 207-214
Author(s):  
Akbar Fattahi
Keyword(s):  
Molecular Phylogeny ◽  
Nuclear Gene ◽  
Genetic Distances ◽  
Genetic Lineage ◽  
New Taxon ◽  
Zagros Mountains ◽  
Relict Species ◽  
Taxonomical Revision ◽  
Two Populations ◽  
Taxonomic Evaluation

The Iranian species of the phyllodactylid geckos of the genus Asaccus are found only in the valleys of the Zagros Mountains, a region which represents an important area of endemism in western Iran. Recently, many relict species have been described from the central and southern parts of the Zagros Mountains, which were previously known as A. elisae. The recent descriptions of species within this complex suggest that diversity within the genus may be higher than expected and that its taxonomy and systematics should be revised. In the present study, phylogenetic relationships within the genus Asaccus were evaluated using two mitochondrial and one nuclear gene. Genetically, the genus shows high levels of variability. The molecular phylogeny of the genus suggests the presence of three main clades along the Zagros Mountains with the southern population (from the Hormozgan province) and one clade (A. sp8 and A. sp9) being sister taxon to A. montanus from UAE. The remaining samples are separated into two reciprocally monophyletic groups: the northern (Kurdistan, Kermanshah and Ilam provinces) and the central (Lorestan, Khuzestan, Kohgilouye-Bouyer Ahmad and Fars provinces) Zagros groups. The results of the present study suggest that populations attributed to A. elisae in Iran correspond to distinct lineages with high genetic distances. In brief, our results suggest that the genus needs a major taxonomical revision The Arabian origin of the genus has not been confirmed, because two populations from Zagros were located within the A. montanus, A. gallagheri and A. platyrhynchus clade. Further morphological analyses are needed to systematically define each genetic lineage as a new taxon.

Alkaliphilic species Euastrum lacustre (Charophyta, Zygnematophyceae), first record from Russia

2020 ◽  
Vol 54 (2) ◽  
pp. 313-320
Author(s):  
O. V. Anissimova
Keyword(s):  
Cell Wall ◽  
New Species ◽  
First Record ◽  
European Russia ◽  
Similar Species ◽  
Morphological Differences ◽  
First Time ◽  
Kursk Region

Euastrum lacustre is reported for Russia for the first time. This alcaliphilic species was found in the periphyton and plankton of three lakes in the Kursk Region (European Russia). A description of morphology, including the relief of cell wall, and habitats where this taxon is found are represented. LM and SEM microphotographs are provided. Morphological differences of E. lacustre from similar species are discussed. New species for region, namely Closterium aciculare, Cosmarium formosulum, C. granatum, C. pseudoinsigne, C. reniforme and Staurastrum pingue, are found in the samples together with E. lacustre.

scholarly journals Plastid phylogenomics resolves ambiguous relationships within the orchid family and provides a solid timeframe for biogeography and macroevolution

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Maria Alejandra Serna-Sánchez ◽  
Oscar A. Pérez-Escobar ◽  
Diego Bogarín ◽  
María Fernanda Torres-Jimenez ◽  
Astrid Catalina Alvarez-Yela ◽  
...  
Keyword(s):  
Phylogenetic Relationships ◽  
Divergence Times ◽  
Molecular Clocks ◽  
Phylogenetic Placement ◽  
Plastid Genomes ◽  
Phylogenetic Reconstructions ◽  
A Genome ◽  
Tree Models ◽  
Phylogenomic Analyses ◽  
First Time

AbstractRecent phylogenomic analyses based on the maternally inherited plastid organelle have enlightened evolutionary relationships between the subfamilies of Orchidaceae and most of the tribes. However, uncertainty remains within several subtribes and genera for which phylogenetic relationships have not ever been tested in a phylogenomic context. To address these knowledge-gaps, we here provide the most extensively sampled analysis of the orchid family to date, based on 78 plastid coding genes representing 264 species, 117 genera, 18 tribes and 28 subtribes. Divergence times are also provided as inferred from strict and relaxed molecular clocks and birth–death tree models. Our taxon sampling includes 51 newly sequenced plastid genomes produced by a genome skimming approach. We focus our sampling efforts on previously unplaced clades within tribes Cymbidieae and Epidendreae. Our results confirmed phylogenetic relationships in Orchidaceae as recovered in previous studies, most of which were recovered with maximum support (209 of the 262 tree branches). We provide for the first time a clear phylogenetic placement for Codonorchideae within subfamily Orchidoideae, and Podochilieae and Collabieae within subfamily Epidendroideae. We also identify relationships that have been persistently problematic across multiple studies, regardless of the different details of sampling and genomic datasets used for phylogenetic reconstructions. Our study provides an expanded, robust temporal phylogenomic framework of the Orchidaceae that paves the way for biogeographical and macroevolutionary studies.

scholarly journals First instar larvae of endemic Australian Miltogramminae (Diptera: Sarcophagidae)

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Krzysztof Szpila ◽  
Kinga Walczak ◽  
Nikolas P. Johnston ◽  
Thomas Pape ◽  
James F. Wallman
Keyword(s):  
Laser Scanning ◽  
Instar Larva ◽  
Laser Scanning Microscopy ◽  
Confocal Laser ◽  
Maxillary Palpus ◽  
Larval Morphology ◽  
First Instar ◽  
Morphological Differences ◽  
Thoracic And Abdominal ◽  
First Time

AbstractThe first instar larva of a species of the Australian endemic genus Aenigmetopia Malloch is described for the first time, along with the first instar larvae of three other Australian species representing the genera Amobia Robineau-Desvoidy and Protomiltogramma Townsend. Larval morphology was analysed using a combination of light microscopy, confocal laser scanning microscopy and scanning electron microscopy. The following morphological structures are documented: pseudocephalon, antennal complex, maxillary palpus, facial mask, modifications of thoracic and abdominal segments, anal region, spiracular field, posterior spiracles and details of the cephaloskeleton. Substantial morphological differences are observed between the three genera, most notably in the labrum and mouthhooks of the cephaloskeleton, sensory organs of the pseudocephalon, spinulation, sculpture of the integument and form of the spiracular field. The first instar larval morphology of Aenigmetopia amissa Johnston, Wallman, Szpila & Pape corroborates the close phylogenetic affinity of Aenigmetopia Malloch with Metopia Meigen, inferred from recent molecular analysis. The larval morphology of Amobia auriceps (Baranov), Protomiltogramma cincta Townsend and Protomiltogramma plebeia Malloch is mostly congruent with the morphology of Palaearctic representatives of both genera.

Contributions to Molecular Phylogeny of Lichen-Forming Fungi 2. Review of Current Monophyletic Branches of the Family Physciaceae

2021 ◽  
Vol 63 (3-4) ◽  
pp. 351-390
Author(s):  
S. Y. Kondratyuk ◽  
L. Lőkös ◽  
I. Kärnefelt ◽  
A. Thell ◽  
M.-H. Jeong ◽  
...  
Keyword(s):  
Costa Rica ◽  
Molecular Phylogeny ◽  
Type Species ◽  
Lichen Species ◽  
New Combinations ◽  
Phylogeny Analysis ◽  
The Family ◽  
Crustose Lichens ◽  
First Time ◽  
Combined Matrix

Seven genera new to science, i.e.: Helmutiopsis, Huriopsis, Johnsheardia, Klauskalbia, Kudratovia, Kurokawia and Poeltonia of the Physciaceae are proposed for the ‘Rinodina’ atrocinerea, the ‘Rinodina’ xanthophaea, the ‘Rinodina’ cinnamomea, the ‘Heterodermia’ obscurata, the ‘Rinodina’ straussii, the ‘Anaptychia’ isidiata and the ‘Physconia’ grisea groups consequently that all form strongly supported monophyletic branches in a phylogeny analysis based on a combined matrix of nrITS and mtSSU sequences. Phylogenetic positions of species belonging to the genera Kashiwadia s. l., Leucodermia, Mischoblastia,Oxnerella, Phaeorrhiza s. l., Polyblastidium and Rinodinella s. l. are discussed. Oxnerella afghanica which for the first time recorded as parasitic lichen species from both epiphytic and saxicolous crustose lichens is designated as type species for the genus Oxnerella. Sequences of the recently described Physcia orientostellaris as well as Huriopsis xanthophaea and additional sequences of Kashiwadia aff. orientalis and Mischoblastia aff. oxydata are submitted to the GenBank. The positions of Polyblastidium casaterrinum from Costa Rica, ‘Rinodina’ efflorescens from Białowieża, Poland, and ‘Mischoblastia’ confragosula from Cambodia in the Physciaceae are confirmed in a phylogeny analysis based on the nrITS sequences. The presence of ‘extraneous mycobiont DNA’ in lichen associations is exemplified with earlier incorrect identifications of Heterodermia, Kashiwadia, Kurokawia,Oxnerella and Poeltonia specimens. Fifty-six new combinations are presented: Helmutiopsis alba (for Rinodina alba Metzler ex Arn.), Helmutiopsis aspersa (for Lecanora aspersa Borrer), Helmutiopsis atrocinerea (for Parmelia atrocinerea Fr.), Huriopsis chrysidiata (for Rinodina chrysidiata Sheard), Huriopsis chrysomelaena (for Rinodina chrysomelaena Tuck.), Huriopsis lepida (for Lecanora lepida Nyl.), Huriopsis luteonigra (for Rinodina luteonigra Zahlbr.), Huriopsis plana (for Rinodina plana H. Magn.), Huriopsis thiomela (for Lecanora thiomela Nyl.), Huriopsis xanthomelana (for Rinodina xanthomelana Müll. Arg.), Huriopsis xanthophaea (for Lecanora xanthophaea Nyl.), Johnsheardia cinnamomea (for Rinodina mniaroea var. cinnamomea Th. Fr.), Johnsheardia herteliana (for Rinodina herteliana Kaschik), Johnsheardia jamesii (for Rinodina jamesii H. Mayrhofer), Johnsheardia reagens (for Rinodina reagens Matzer et H. Mayrhofer), Johnsheardia zwackhiana (for Lecanora zwackhiana Kremp.), Kashiwadia austrostellaris (for Physcia austrostellaris Elix), Kashiwadia jackii (for Physcia jackii Moberg), Kashiwadia littoralis for Physcia littoralis Elix), Kashiwadia nubila (for Physcia nubila Moberg), and Kashiwadia tropica (for Physcia tropica Elix), Klauskalbia crocea (for Heterodermia crocea R. C. Harris), Klauskalbia flabellata (for Parmelia flabellata Fée), Klauskalbia obscurata (for Physcia speciosa (Wulfen) Nyl. *obscurata Nyl.), Klauskalbia paradoxa (for Heterodermia paradoxa Schumm et Schäfer-Verwimp), Kudratovia bohlinii (for Rinodina bohlinii H. Magn.), Kudratovia candidogrisea (for Rinodina candidogrisea Hafellner, Muggia et Obermayer), Kudratovia luridata (for Buellia luridata Körb.), Kudratovia metaboliza (for Rinodina metaboliza Vain.), Kudratovia pycnocarpa (for Rinodina pycnocarpa H. Magn.), Kudratovia roscida (for Lecanora roscida Sommerf.), Kudratovia straussii (for Rinodina straussii J. Steiner), Kudratovia terrestris (for Rinodina terrestris Tomin), Kurokawia bryorum (for Anaptychia bryorum Poelt), Kurokawia isidiata (for Anaptychia isidiata Tomin), Kurokawia mereschkowskii (for Physcia mereschkowskii Tomin), Kurokawia palmulata (for Psoroma palmulatum Michx.), Kurokawia runcinata (for Lichen runcinatus With.), Kurokawia stippea (for Parmelia aquila var. stippea Ach.), Lecania safavidiorum (for Oxnerella safavidiorum S. Y. Kondr., Zarei-Darki, Lőkös et Hur), Leucodermia erinacea (for Lichen erinaceus Ach.), Mischoblastia confragosula (for Lecanora confragosula Nyl.), Mischoblastia destituta (for Lecidea destituta Nyl.), Mischoblastia moziana (for Lecanora moziana Nyl.), Mischoblastia moziana subsp. parasitica (comb. et stat. nova for Rinodina moziana var. parasitica Kaschik et H. Mayrhofer), Mischoblastia ramboldii (for Rinodina ramboldii Kaschik), Mischoblastia vezdae (for Rinodina vezdae H. Mayrhofer), Oxnerella afghanica (for Rinodina afghanica M. Steiner et Poelt), Oxnerella castanomelodes (for Rinodina castanomelodes H. Mayrhofer et Poelt), Physciella nigricans (for Lecanora nigricans Flörke), Poeltonia elegantula (for Physconia elegantula Essl.), Poeltonia grisea (for Lichen griseus Lam.), Poeltonia isidiomuscigena (for Physconia isidiomuscigena Essl.), Poeltonia perisidiosa (for Physcia perisidiosa Erichsen), Poeltonia venusta (for Parmelia venusta Ach.), and Polyblastidium albicans (for Parmelia albicans Pers.) are proposed.

Development and Molecular Genetics of Marchantia polymorpha

2021 ◽  
Vol 72 (1) ◽  
Author(s):  
Takayuki Kohchi ◽  
Katsuyuki T. Yamato ◽  
Kimitsune Ishizaki ◽  
Shohei Yamaoka ◽  
Ryuichi Nishihama
Keyword(s):  
Model Organism ◽  
Land Plant ◽  
Marchantia Polymorpha ◽  
Annual Review ◽  
Publication Date ◽  
Molecular Tools ◽  
Genetic Redundancy ◽  
Morphological Differences ◽  
Evo Devo ◽  
Basal Position

Bryophytes occupy a basal position in the monophyletic evolution of land plants and have a life cycle in which the gametophyte generation dominates over the sporophyte generation, offering a significant advantage in conducting genetics. Owing to its low genetic redundancy and the availability of an array of versatile molecular tools, including efficient genome editing, the liverwort Marchantia polymorpha has become a model organism of choice that provides clues to the mechanisms underlying eco-evo-devo biology in plants. Recent analyses of developmental mutants have revealed that key genes in developmental processes are functionally well conserved in plants, despite their morphological differences, and that lineage-specific evolution occurred by neo/subfunctionalization of common ancestral genes. We suggest that M. polymorpha is an excellent platform to uncover the conserved and diversified mechanisms underlying land plant development. Expected final online publication date for the Annual Review of Plant Biology, Volume 72 is May 2021. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

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