scholarly journals Determination of species boundaries of Selais fish from Arut River, Central Kalimantan based on 16S mitochondrial gene using Bayesian approach

2020 ◽  
Vol 28 ◽  
pp. 01003
Author(s):  
Tuty Arisuryanti ◽  
Bella Ulin Nikmah ◽  
Tomi Kasayev ◽  
Lukman Hakim
Keyword(s):  
Bayesian Approach ◽  
Genetic Relationships ◽  
Mitochondrial Gene ◽  
Single Species ◽  
Morphological Characters ◽  
Valid Species ◽  
Species Boundaries ◽  
Phylogenetic Study ◽  
Central Kalimantan ◽  
Molecular Phylogenetic

Selais fish is difficult to discriminate with other Silurid fish species based on morphological characters. As a result, the valid species of selais fish is uncertain. Therefore, a molecular phylogenetic study was needed to clarify species boundaries and to addresses genetic relationships of the selais fish. In this study, 16S mitochondrial gene of ten selais samples collected from Arut River (Central Kalimantan) were sequenced, from which a Bayesian trees was generated. Result revealed monophyletic of selais fish which is revealed as a single species. The Bayesian inference showed that the selais fish clade is distinguished with two other genus, Kryptopterus and Ompok, by its sequence differences. This finding can address species boundaries of selais fish using Bayesian approach, but the name of the selais species has not been clarified.

Re-examination of the taxonomy of the Macrobrachium australiense Holthuis (Decapoda : Palaemonidae) species-complex: molecular evidence for a single species

2004 ◽  
Vol 18 (2) ◽  
pp. 227 ◽  
Author(s):  
Nicholas P. Murphy ◽  
John W. Short ◽  
Christopher M. Austin
Keyword(s):  
Genetic Relationships ◽  
Mitochondrial Gene ◽  
Taxonomic Status ◽  
Single Species ◽  
Gene Region ◽  
Molecular Evidence ◽  
Morphological Divergence ◽  
Separate Species ◽  
North West ◽  
North East

The freshwater shrimp Macrobrachium australiense is distributed throughout the majority of inland, north-west, north-east and eastern drainages. Owing to the large amount of morphological divergence, both between and within catchments, this species has proven to be taxonomically difficult and, until recently, consisted of three separate species, each with subsequent subspecies. This study uses nucleotide sequences from the 16S rRNA mitochondrial gene region to investigate the genetic relationships between populations and confirm the taxonomic status of M. australiense. The results from sequencing an approximately 450-bp fragment from this gene region from M. australiense sampled from 12 locations across inland, eastern and northern Australia identified very little variation. The variation found between 16S M. australiense haplotypes is much less than that found between Macrobrachium species, indicating that it is in fact a single species. The results are concordant with a recent morphological revision of Australian species in which nominal taxa of the M. australiense complex were synonymised.

scholarly journals Integrative taxonomy reveals two new cryptic species of Hyphessobrycon Durbin, 1908 (Teleostei: Characidae) from the Maracaçumé and middle Tocantins River basins, Eastern Amazon region

2020 ◽  
Vol 723 ◽  
pp. 77-107
Author(s):  
Erick Cristofore Guimarães ◽  
Pâmella Silva De Brito ◽  
Pedro Henrique Negreiros Bragança ◽  
Jadson Pinheiro Santos ◽  
Axel Makay Katz ◽  
...  
Keyword(s):  
New Species ◽  
Mitochondrial Gene ◽  
Morphological Characters ◽  
Molecular Data ◽  
Color Pattern ◽  
Integrative Taxonomy ◽  
The Body ◽  
Dorsal Fin ◽  
Two New Species ◽  
Molecular Phylogenetic

Two new species, Hyphessobrycon frickei Guimarães, Brito, Bragança, Katz & Ottoni sp. nov. and H. geryi Guimarães, Brito, Bragança, Katz & Ottoni sp. nov., are herein described, based on seven different and independent species delimitation methods, and on molecular and morphological characters, making the hypothesis of these new species supported from an integrative taxonomy perspective. They belong to the “Rosy tetra” clade, which is mainly characterized by the presence of a dark brown or black blotch on the dorsal fin and the absence of a midlateral stripe on the body. These two new species are distinguished from the other members of this clade mainly by the arrangement, shape and color pattern of humeral and dorsal-fin spots, as well as by other characters related to scale counts and body pigmentation. The placement of the new species within the “Rosy tetra” clade was based on the combination of morphological character states mentioned above and corroborated by a molecular phylogenetic analysis using the mitochondrial gene cytochrome oxidase subunit 1. In addition, a new clade (here termed Hyphessobrycon copelandi clade) within the “Rosy tetra” clade is proposed based on molecular data, comprising H. copelandi, H. frickei sp. nov., H. geryi sp. nov. and a still undescribed species. Our results corroborate the occurrence of hidden species within the “Rosy tetra” clade, as suggested by previous studies.

Phylogenetic revision of the shrimp genera Ephyrina, Meningodora and Notostomus (Acanthephyridae: Caridea)

2020 ◽  
Author(s):  
Anastasiia A Lunina ◽  
Dmitry N Kulagin ◽  
Alexander L Vereshchaka
Keyword(s):  
Molecular Markers ◽  
Morphological Characters ◽  
Valid Species ◽  
Phylogenetic Study ◽  
Forward Motion ◽  
Molecular Analyses ◽  
Phylogenetic Revision ◽  
Molecular Trees

Abstract The shrimp genera Ephyrina, Meningodora and Notostomus have an unusual carapace strengthened with carinae and a half-serrated mandible, which may suggest a possible monophyly of this group. Here we test this hypothesis and present the first phylogenetic study of these genera based on 95 morphological characters (all valid species coded) and six molecular markers (71% of valid species sequenced). Representatives of all genera of Oplophoridae (sister to Acanthephyridae) were outgroups, 32 species belonging to all genera and potentially different clades of Acanthephyridae were ingroups. Both morphological and molecular analyses retrieve trees with similar topology. Our results reject the hypothesis of a clade formed by Ephyrina + Meningodora + Notostomus. We show that Ephyrina and Notostomus are monophyletic, both on morphological and on molecular trees, Meningodora gains support only on morphological trees. Evolutionary traits in the Ephyrina and Meningodora + Notostomus clades are different. Synapomorphies are mostly linked to adaptations to forward motion in Ephyrina (oar-like meri and ischia of pereopods, stempost-like rostrum) and to progressive strengthening of the carapace and pleon in Meningodora and Notostomus (net of sharp carinae). Unusual mandibles evolved in the clades independently and represent convergent adaptations to feeding on gelatinous organisms.

scholarly journals A new species of the genus Centruroides Marx (Scorpiones, Buthidae) from western Michoacán State, México using molecular and morphological evidence

ZooKeys ◽  
2019 ◽  
Vol 859 ◽  
pp. 31-48
Author(s):  
Ana F. Quijano-Ravell ◽  
Luis F. de Armas ◽  
Oscar F. Francke ◽  
Javier Ponce-Saavedra
Keyword(s):  
New Species ◽  
Mitochondrial Gene ◽  
Morphological Characters ◽  
Integrative Taxonomy ◽  
Valid Species ◽  
Morphological Evidence ◽  
Molecular Evidence ◽  
Mountain Range ◽  
A New Species ◽  
Gene Mrna

A new species of scorpion belonging to the genus Centruroides Marx, 1890 is described from the Coalcomán mountain range, western Michoacán State, Mexico. Its general aspect resembles Centruroidesruana Quijano-Ravell & Ponce-Saavedra, 2016, and C.infamatus (C. L. Koch, 1844), but it is a smaller species having lower pectinal tooth counts; also, males of C.ruana have the pedipalp chelae slightly thicker, whereas C.infamatus has a subaculear tubercle nearer to the base of the aculeus. Another species with similar aspect is Centruroidesornatus Pocock, 1902; however, a preliminary molecular analysis of the mitochondrial gene mRNA 16S showed genetic divergence (measured as p-distance) near to 10% between these species, and lower differences between the new species with respect to C.infamatus (4.63%) and C.ruana (5.07%). The molecular evidence together with the morphological characters (integrative taxonomy) are sufficient for recognizing the Coalcomán population as a separate and valid species.

A molecular phylogeny of the Australian monitor lizards (Squamata:Varanidae) inferred from mitochondrial DNA sequences

2006 ◽  
Vol 54 (4) ◽  
pp. 253 ◽  
Author(s):  
A. J. Fitch ◽  
A. E. Goodman ◽  
S. C. Donnellan
Keyword(s):  
Dna Sequences ◽  
Mitochondrial Gene ◽  
Phylogenetic Study ◽  
Trna Genes ◽  
Preferred Habitat ◽  
Mitochondrial Data ◽  
Molecular Phylogenetic ◽  
Tree Topologies ◽  
Phylogenetic Framework ◽  
Monitor Lizards

To date no complete phylogeny of all of the currently recognised Indo-Australian varanid species and subspecies has been published. This paper presents a comprehensive mitochondrial gene phylogeny of these lizards. A portion of the mitochondrial genome comprising part of the ND4 gene and three adjacent tRNA genes (hereafter referred to as ND4) was analysed alone and, for a subset of the taxa, combined with previously published mitochondrial data. Similar tree topologies were produced by both datasets although combining the data helped resolve some of the unresolved or weakly supported nodes in the ND4 analyses. The monophyly of the Indo-Australian group was strongly supported in all analyses. This group comprised three major lineages: the gouldii group, the Odatria group and the varius group. Mitochondrial ND4 nucleotide sequences were successfully amplified from all of the Indo-Australian monitor species and subspecies currently recognised and, as such, is the first comprehensive phylogenetic study of the Australian monitor lizards published. Analysis of the tempo of diversification and evolution of preferred habitat use identified six episodes of increased net speciation rate, with two closely adjacent episodes showing the highest rates of diversification and correlating with the appearance of all preferred habitat types. The comprehensive molecular phylogenetic framework will also be useful for the identification of varanid species and traded products derived from monitors and, as such, has important applications for wildlife management and conservation.

Revisions of two poorly known species of Opisthotropis Günther, 1872 (Squamata: Colubridae: Natricinae) with description of a new species from China

Zootaxa ◽  
2017 ◽  
Vol 4247 (4) ◽  
pp. 391 ◽  
Author(s):  
YING-YONG WANG ◽  
QIANG GUO ◽  
ZU-YAO LIU ◽  
ZHI-TONG LYU ◽  
JIAN WANG ◽  
...  
Keyword(s):  
Southern China ◽  
Phylogenetic Analyses ◽  
Eastern China ◽  
Morphological Characters ◽  
Species Boundaries ◽  
Integrative Approach ◽  
Cyt B ◽  
Molecular Phylogenetic ◽  
Cyt B Gene ◽  
A New Species

The previous descriptions of Opisthotropis maxwelli Boulenger, 1914 and O. andersonii (Boulenger, 1888) were considered imperfect due to the limited number of specimens. This may in turn cause a problem for accurate species identification. In our study, the species boundaries of these two species were investigated using an integrative approach incorporating morphological characters and molecular phylogenetic analyses of the mitochondrial Cyt b gene of 26 specimens of nine known Opisthotropis species collected from south-eastern China. Our results surprisingly revealed a new cryptic species, Opisthotropis shenzhenensis sp. nov., from Shenzhen and Dongguan, Guangdong Province, southern China. Further, we re-described O. maxwelli based on several specimens from Fujian and Guangdong, and O. andersonii based on a series of specimens from Hong Kong, Shenzhen and Guangzhou, China. We provide an updated identification key to all described Opisthotropis species from China. 

scholarly journals Genetic relationship and identification of Dioscorea polystachya cultivars accessed by ISAP and SCAR markers

2017 ◽  
Vol 69 (2) ◽  
pp. 277-284 ◽  
Author(s):  
Bin Peng ◽  
Yanmei Zhang ◽  
Xiaoqin Sun ◽  
Mimi Li ◽  
Jiayu Xue ◽  
...  
Keyword(s):  
Genetic Relationships ◽  
Single Species ◽  
Morphological Characters ◽  
Molecular Data ◽  
Breeding Programs ◽  
Sequence Characterized Amplified Region ◽  
Conservation Actions ◽  
High Level ◽  
First Time

A survey of intron sequence amplified polymorphism (ISAP) in conjunction with sequence characterized amplified region (SCAR) was carried out to examine the genetic relationships among 14 Dioscorea polystachya cultivars and identify the most popular cultivar ?Tiegun?. Our results revealed that there is a high level of polymorphism among these cultivars. Furthermore, in this study, ISAP markers were consistent with the morphological characters of Dioscorea polystachya cultivars and previous hypotheses on the classification of these cultivars into 2 groups via leaf and tuber shapes have been confirmed. Based on morphological characters and molecular data, we show for the first time that D. doryphora might be a single species and another progenitor of these cultivars. An ISAP fragment specific to the ?Tiegun? cultivar was converted into a SCAR marker. This marker could be used to discriminate the ?Tiegun? cultivar from the other 13 cultivars. Overall, the results of our study provide the foundations for subsequent breeding programs or conservation actions.

Across the benthic and pelagic realms: a species‐level phylogeny of Benthesicymidae (Crustacea:Decapoda)

2021 ◽  
Vol 35 (7) ◽  
pp. 776
Author(s):  
Alexander L. Vereshchaka ◽  
Dmitry N. Kulagin ◽  
Anastasiia A. Lunina
Keyword(s):  
Phylogenetic Analyses ◽  
Bottom Layer ◽  
Morphological Characters ◽  
Valid Species ◽  
Phylogenetic Study ◽  
Depth Range ◽  
Sea Floor ◽  
Higher Taxa ◽  
Insight Into ◽  
Rare Opportunity

Benthesicymidae is a monophyletic group of Decapoda adapted to a life on the sea-floor, in the near-bottom layer, in the bathy- and in the mesopelagic, within an impressive depth range from a few hundred metres (Gennadas) to several thousand metres (Benthesicymus). Higher taxa are known to conquer all main oceanic biotopes such as the benthic, benthopelagic, and pelagic and a wide depth range but few family-level groups have clades evolved within all these oceanic realms. Therefore, the global fauna of Benthesicymidae provides a rare opportunity for an insight into phylogenetic processes favouring colonisation of all principal oceanic biotopes. The first comprehensive phylogenetic study of Benthesicymidae (all 37 valid species) is based on six molecular markers and 105 morphological characters (including 72 female and male copulatory characters). Analyses resulted in trees with similar topology and the same set of robust clades. Molecular methods based on 167 sequences (84 new) provided better resolution of deeper nodes and generally higher support of the clades, while morphological methods allowed analyses of all valid species of the global fauna. Phylogenetic analyses support the monophyly and robustness of all currently known genera except Gennadas, which was split into Gennadas Bate, 1881, Amalopenaeus Smith, 1882, and Notogennema gen. nov. We also retrieved two major clades for which we erected two new subfamilies: Benthesicyminae subfam. nov. (presumably benthic, genera Altelatipes, Bathicaris, Benthesicymus, and Benthonectes) and Gennadinae subfam. nov. (presumably pelagic, genera Amalopenaeus, Bentheogennema, Benthoecetes, Boreogennema, Gennadas, Maorrancaris, and Notogennema gen. nov.). We revealed two groups of morphological characters, that are interlinked evolutionarily: (1) petasma and thelycum; (2) body, mouthparts, and pereopods. Morphological traits within benthic and pelagic clades are different, a model explaining the differences is proposed. Along with previous studies, our results confirm the idea that the elaboration of the copulatory structures is a key to successful colonisation of the pelagic realm. These results extend our knowledge about evolution in the largest habitual biotope of our planet and phylogenetic processes favouring colonisation of all principal oceanic biotopes.

An integrative taxonomic review of the South Asian microhylid genus Uperodon

Zootaxa ◽  
2018 ◽  
Vol 4384 (1) ◽  
pp. 1 ◽  
Author(s):  
SONALI GARG ◽  
GAYANI SENEVIRATHNE ◽  
NAYANA WIJAYATHILAKA ◽  
SAMADHAN PHUGE ◽  
KAUSHIK DEUTI ◽  
...  
Keyword(s):  
Sri Lanka ◽  
South Asian ◽  
Valid Species ◽  
Phylogenetic Study ◽  
Rrna Gene ◽  
Breeding Ecology ◽  
The South ◽  
Generic Level ◽  
Morphological Studies ◽  
Molecular Phylogenetic

Based on a recent molecular phylogenetic study, the South Asian microhylid genus Uperodon (subfamily Microhylinae) currently comprises of 12 valid species that are largely restricted to India and Sri Lanka. Considering the revised generic-level status of its various members, here we review the taxonomy of all known species in this genus and clarify their nomenclatural status and geographical distribution, by integrating evidence from genetics, adult and tadpole morphology, breeding ecology, and bioacoustics. Our molecular analyses of a mitochondrial 16S rRNA gene fragment combined with external and internal morphological studies also revealed a distinct new species in the genus. This species, formally described as Uperodon rohani sp. nov., is endemic to Sri Lanka and widely distributed at lower elevations in the island. For nomenclatural stability of various previously known members, the following actions are also undertaken: (1) redescription of the poorly-defined species Ramanella anamalaiensis Rao (= Uperodon anamalaiensis) and Hylaedactylus montanus Jerdon (= Uperodon montanus); (2) neotype designation for Ramanella anamalaiensis Rao (= Uperodon anamalaiensis), Ramanella minor Rao, Ramanella mormorata Rao (= Uperodon mormorata), and Ramanella triangularis rufeventris Rao; (3) lectotype designation for Callula variegata Stoliczka (= Uperodon variegatus); and (4) synonymization of Ramanella minor Rao with Uperodon anamalaiensis. 

scholarly journals Molecular phylogenetics, seed morphometrics, chromosome number evolution and systematics of EuropeanElatineL. (Elatinaceae) species

PeerJ ◽  
2016 ◽  
Vol 4 ◽  
pp. e2800 ◽  
Author(s):  
Gábor Sramkó ◽  
Attila Molnár V. ◽  
János Pál Tóth ◽  
Levente Laczkó ◽  
Anna Kalinka ◽  
...  
Keyword(s):  
Molecular Phylogenetics ◽  
Morphological Variability ◽  
Morphological Characters ◽  
Morphological Evidence ◽  
Phylogenetic Study ◽  
Mediterranean Species ◽  
Molecular Phylogenetic Study ◽  
Molecular Phylogenetic ◽  
Chromosome Number Evolution ◽  
High Degree

The genusElatinecontainsca25 species, all of which are small, herbaceous annuals distributed in ephemeral waters on both hemispheres. However, due to a high degree of morphological variability (as a consequence of their amphibious life-style), the taxonomy of this genus remains controversial. Thus, to fill this gap in knowledge, we present a detailed molecular phylogenetic study of this genus based on nuclear (rITS) and plastid (accD-psaI,psbJ-petA,ycf6-psbM-trnD) sequences using 27 samples from 13 species. On the basis of this phylogenetic analysis, we provide a solid phylogenetic background for the modern taxonomy of the European members of the genus. Traditionally accepted sections of this tree (i.e., CryptaandElatinella) were found to be monophyletic; onlyE. borchoni—found to be a basal member of the genus—has to be excluded from the latter lineage to achieve monophyly. A number of taxonomic conclusions can also be drawn:E. hexandra, a high-ploid species, is most likely a stabilised hybrid between the main sections;E. campylospermamerits full species status based on both molecular and morphological evidence;E. gussoneiis a more widespread and genetically diverse species with two main lineages; and the presence of the AsianE. ambiguain the European flora is questionable. The main lineages recovered in this analysis are also supported by a number of synapomorphic morphological characters as well as uniform chromosome counts. Based on all the evidence presented here, two new subsections withinElatinellaare described: subsectionHydropiperaconsisting of the temperate species of the section, and subsectionMacropodaeincluding the Mediterranean species of the section.

Sign in / Sign up

Export Citation Format

Share Document