A revised molecular phylogeny reveals polyphyly in Schistura (Teleostei: Cypriniformes: Nemacheilidae)

Zootaxa ◽  
2019 ◽  
Vol 4559 (2) ◽  
pp. 349 ◽  
Author(s):  
KATHERINE SGOUROS ◽  
LAWRENCE M. PAGE ◽  
SARAH A. ORLOFSKE ◽  
ROBERT C. JADIN
Keyword(s):  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Mitochondrial Genes ◽  
Data Set ◽  
The Third ◽  
D Loop ◽  
Taxonomic Changes ◽  
Taxonomic Implications ◽  
Species Groups ◽  
Combined Data

There is a general consensus that the genus Schistura (Nemacheilidae), currently with 241 species, is not monophyletic. However, weak morphological synapomorphies and a lack of genetic data for most species of Schistura and their presumptive relatives have prevented meaningful diagnoses of species groups within this genus. To aid in deciphering evolutionary relationships, sequence data from two mitochondrial genes (cytochrome b and D-loop) were implemented in phylogenetic analyses for species of Schistura and other nemacheilids for which data from earlier studies and recently collected material were available. This analysis of 67 nemacheilid species, including 28 species of Schistura, provides the most comprehensive phylogeny of Nemacheilidae to date. In the phylogenetic tree for the combined data set, species of Schistura clustered in three clades. One clade contained 14 species of Schistura and Sectoria heterognathos and was sister to Homatula. A second clade of 11 species of Schistura was in a larger clade with Turcinoemacheilus kosswigi and Nemacheilus corica. The third clade contained three species, all from the Mae Khlong basin of Thailand. Taxonomic implications of these results are discussed; however, a more taxon-rich dataset and nuclear sequence data are needed before making taxonomic changes. 

A new genus and a major temperate bamboo lineage of the Arundinarieae (Poaceae: Bambusoideae) from Sri Lanka based on a multi-locus plastid phylogeny 

Phytotaxa ◽  
2014 ◽  
Vol 174 (4) ◽  
pp. 187 ◽  
Author(s):  
Lakshmi Attigala ◽  
Jimmy K. Triplett ◽  
Hashendra-Suvini Kathriarachchi ◽  
Lynn G Clark
Keyword(s):  
Sri Lanka ◽  
Sequence Data ◽  
Alternative Hypothesis ◽  
Phylogenetic Analyses ◽  
Morphological Characters ◽  
Sri Lankan ◽  
Data Set ◽  
Woody Bamboos ◽  
Cpdna Markers ◽  
Combined Data

Kuruna, a new temperate woody bamboo (Poaceae, Bambusoideae, Arundinarieae) genus from Sri Lanka, is recognized based on chloroplast sequence data from five markers (coding: ndhF 3’ end; non-coding: rps16-trnQ, trnC-rpoB, trnD-trnT, trnT-trnL). This genus represents the twelfth major lineage of temperate woody bamboos and is characterized by pachymorph culm bases with short necks, unicaespitose clumps, culm leaf girdles ca. 1 mm wide, usually abaxially hispid culm leaves with non-irritating hairs, persistent foliage leaf sheaths, complete branch sheathing and acute to biapiculate palea apices. Maximum Parsimony, Bayesian Inference and Maximum Likelihood analyses of a combined data set consistently strongly supported the monophyly of this Sri Lankan temperate woody bamboo clade. Although the Kishino-Hasegawa test is unable to reject the alternative hypothesis of monophyly of the Sri Lankan clade plus Bergbambos tessellata from South Africa, Kuruna and Bergbambos are distinguishable by a combination of morphological characters. A few additional cpDNA markers not previously used in phylogenetic analyses of Arundinarieae were tested to evaluate their utility in this taxonomically difficult tribe.

Species delimitation of Hymenasplenium obliquissimum group (Aspleniaceae) in southwestern China

Phytotaxa ◽  
2021 ◽  
Vol 480 (1) ◽  
pp. 29-44
Author(s):  
GUO-CHENG ZHANG ◽  
HUA-FENG HONG ◽  
GE-HONG CHEN ◽  
SHU-GANG LU ◽  
YAN-FEN CHANG
Keyword(s):  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Reticulate Evolution ◽  
Southwestern China ◽  
Natural Classification ◽  
Ploidy Levels ◽  
Dna Sequence Data ◽  
Taxonomic Implications ◽  
Taxonomic Approach ◽  
Locus Classicus

The Hymenasplenium obliquissimum group contains the widespread H. obliquissimum and several geographically restricted species, including H. retusulum, H. wuliangshanense, H. latidens, H. changputungense, H. quercicola, H. szechuanense, H. furfuraceum, H. adiantifrons, and H. filipes. However, the taxonomy of this group is still unclear and needs to be revised because some entities were treated infraspecifically or as synonyms and the validation of some species still needs to be assessed. To formulate a natural classification and investigate the relationships in this group, we collected and studied specimens of species related to the H. obliquissimum group and obtained specimens of species described by Ching at their locus classicus in southwestern China. An integrative taxonomic approach was taken to delimit species in the group using cytological, morphological, and DNA sequence data. Specifically, in the phylogenetic analyses, the H. obliquissimum group was recovered as a monophyletic group, comprising five principal chloroplast lineages. Based on our inferences, we provided taxonomic implications of chloroplast lineages discovered in this study and suggested possible reticulate evolution in the H. obliquissimum group which was interpreted by the incongruence of chloroplast and nuclear phylogenies. Further studies to strengthen the taxonomic of taxa especially those with the co-existence of different ploidy levels are still warranted.

Combined molecular and morphological phylogeny of Ephemerellinae (Ephemerellidae: Ephemeroptera), with remarks about classification

Zootaxa ◽  
2009 ◽  
Vol 1991 (1) ◽  
pp. 28-42 ◽  
Author(s):  
T. HEATH OGDEN ◽  
JONATHAN T. OSBORNE ◽  
LUKE M. JACOBUS ◽  
MICHAEL F. WHITING
Keyword(s):  
Morphological Analysis ◽  
Sequence Data ◽  
Histone H3 ◽  
Morphological Characters ◽  
Morphological Data ◽  
Rdna Genes ◽  
Dna Sequence Data ◽  
Extant Genus ◽  
Species Groups ◽  
Combined Data

This study represents the first combined molecular and morphological analysis for the mayfly family Ephemerellidae (Ephemeroptera), with a focus on the relationships of genera and species groups of the subfamily Ephemerellinae. The phylogeny was constructed based on DNA sequence data from 3 nuclear (18S rDNA, 28S rDNA, histone H3) and 2 mitochondrial (12S rDNA, 16S rDNA) genes, and 23 morphological characters. Taxon sampling for Ephemerellidae included exemplars from all 25 extant genus groups and additional representatives from those genera with the highest diversity. Ephemerellidae appears to consist of three major clades. Ephemerella, the largest genus of Ephemerellidae, and Serratella were not supported as monophyletic, and each had representatives in two of the three major clades. However, the genera Drunella and Cincticostella were supported as monophyletic. Lineages strongly supported as monophyletic include a grouping of the Timpanoginae genera Timpanoga, Dannella, Dentatella and Eurylophella, and groupings of the Ephemerellinae genera Torleya, Hyrtanella and Crinitella and the genera Kangella, Uracanthella and Teloganopsis. The placement of the Timpanoginae genus Attenella fell within Ephemerellinae, based on molecular and combined data, but it grouped with other Timpanoginae based on morphological data alone. Further study and analysis of Ephemerellidae morphology is needed, and classification should be revised, if it is to reflect phylogenetic relationships.

Phylogenetic relationships of Australian Scirtidae (Coleoptera) based on mitochondrial and nuclear sequences

2014 ◽  
Vol 28 (6) ◽  
pp. 628 ◽  
Author(s):  
Steven J. B. Cooper ◽  
Christopher H. S. Watts ◽  
Kathleen M. Saint ◽  
Remko Leijs
Keyword(s):  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Elongation Factor ◽  
Nuclear Gene ◽  
Species Complexes ◽  
Close Relationship ◽  
Molecular Phylogenetic ◽  
Coi Sequences ◽  
Elongation Factor 1 ◽  
Combined Data

Scirtidae is a cosmopolitan group of beetles with aquatic or saproxylic larvae. A large diversity of species has recently been described from Australia, but their systematics is uncertain. There is evidence that current genera are polyphyletic and that Australian species were wrongly placed in northern hemisphere genera. Here we investigate the systematics of Australian Scirtidae using molecular phylogenetic analyses of combined data from the mitochondrial cytochrome c oxidase subunit 1 (COI) and nuclear gene elongation factor 1-α (EF1-α) genes. We also assess the current taxonomy of Australian Scirtidae using partial COI sequences. Bayesian phylogenetic analyses of COI and EF1-α sequence data from 81 taxa show that the Australian genera Contacyphon, Pseudomicrocara and Prionocyphon are polyphyletic. There is no close relationship between Australian and Eurasian genera, with the exception of Scirtes. Phylogenetic analyses of partial COI data from Australian Scirtidae generally support the current α taxonomy, with the exception of several species that may be associated with species complexes. Geographically a high proportion of species lineages are restricted to relict patches of wet forest suggesting that they may be relict populations. The phylogeny and sequence data presented here provide a sound basis for further systematic and biogeographical studies of the Scirtidae.

Phylogenetic position of Sphaerospora testicularis and Latyspora scomberomori n. gen. n. sp. (Myxozoa) within the marine urinary clade

Parasitology ◽  
2010 ◽  
Vol 138 (3) ◽  
pp. 381-393 ◽  
Author(s):  
PAVLA BARTOŠOVÁ ◽  
MARK A. FREEMAN ◽  
HIROSHI YOKOYAMA ◽  
MONICA CAFFARA ◽  
IVAN FIALA
Keyword(s):  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Dicentrarchus Labrax ◽  
Sensu Stricto ◽  
Phylogenetic Position ◽  
Species Cluster ◽  
The Family ◽  
Sutural Line ◽  
Taxonomic Changes

SUMMARYAn amendment of the family Sinuolineidae (Myxosporea) is proposed in order to include a newly described genus Latyspora n. gen. The type species Latyspora scomberomori n. gen. n. sp. is a coelozoic parasite in the kidney tubules of Scomberomorus guttatus. In addition to the morphological and molecular characterization of L. scomberomori n. gen. n. sp., we also present novel SSU rDNA data on Sphaerospora testicularis, a serious parasite of Dicentrarchus labrax. Performed phylogenetic analyses revealed that both species cluster within the marine urinary clade encompassing the representatives with a shared insertion within their V4 SSU rRNA region and grouping according to the shape of their spores’ sutural line and their similar tissue tropism in the host. Sphaerospora testicularis is the closest relative to Parvicapsula minibicornis within the Parvicapsula subclade and L. scomberomori n. gen. n. sp. is the basal species of the Zschokkella subclade. The phylogenetic position of S. testicularis, outwith the basal Sphaerospora sensu stricto clade, and its morphology suggest it being a non-typical Sphaerospora. The sequence data provided on S. testicularis can help in future revisions of the strongly polyphyletic genus Sphaerospora. We recommend re-sequencing of several sphaerosporids as an essential step before such taxonomic changes are accomplished.

scholarly journals A new large-flowered species of Andeimalva (Malvaceae, Malvoideae) from Peru

PhytoKeys ◽  
2018 ◽  
Vol 110 ◽  
pp. 91-99 ◽  
Author(s):  
Laurence J. Dorr ◽  
Carolina Romero-Hernández ◽  
Kenneth J. Wurdack
Keyword(s):  
New Species ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
High Elevation ◽  
Its Sequence ◽  
The Third ◽  
The Andes ◽  
Molecular Phylogenetic ◽  
Small Genus ◽  
Northern Species

Andeimalvaperuviana Dorr & C.Romero, sp. nov., the third Peruvian endemic in a small genus of five species, is described and illustrated from a single collection made at high elevation on the eastern slopes of the Andes. Molecular phylogenetic analyses of nuclear ribosomal ITS sequence data resolve a group of northern species of Andeimalva found in Bolivia and Peru from the morphologically very different southern A.chilensis. The new species bears the largest flowers of any Andeimalva and is compared with Bolivian A.mandonii. A revised key to the genus is presented.

RAPID RADIATION IN AFRAMOMUM (ZINGIBERACEAE): EVIDENCE FROM NUCLEAR RIBOSOMAL DNA INTERNAL TRANSCRIBED SPACER (ITS) SEQUENCES

2000 ◽  
Vol 57 (3) ◽  
pp. 377-395 ◽  
Author(s):  
D. J. HARRIS ◽  
A. D. POULSEN ◽  
C. FRIMODT-MØLLER ◽  
J. PRESTON ◽  
Q. C. B CRONK
Keyword(s):  
Morphological Variation ◽  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Nuclear Ribosomal Dna ◽  
Sequence Difference ◽  
Rapid Radiation ◽  
Data Set ◽  
Its Nrdna ◽  
Species Groups ◽  
Fruit Characters

Internal transcribed spacer (ITS) nrDNA sequences of 42 accessions (representing 28 species) of Aframomum revealed an unusually low level of sequence variation, suggesting a recent radiation of the genus in Africa. The sample of species analysed includes all the main morphological variation and is based on wide geographical sampling. The Aframomum sequences varied from 187bp to 190bp (ITS 1) and 215bp to 216bp (ITS 2). Pair-wise sequence difference between accessions varied from 0% (e.g. A. luteoalbum and A. thonneri) to 2.74% (e.g. A. sp. nov. B to A. pseudostipulare). This contrasts with a comparable data set for the SE Asian genus Alpinia in the same tribe (Alpineae) in which maximum pair-wise difference is six times greater (range 0.5–15.6%). A parsimony analysis of the in-group and out-group taxa supports the monophyly of the genus Aframomum, but does not resolve the relationships between the in-group species. Four putative multi-species groups, however, have some jackknife support. The species sampled vary greatly in vegetative, floral and fruit characters. This morphological variation is not reflected in the ITS sequence data. This may be a result of rapid radiation under conditions of Pleistocene climatic change and effective dispersal of seeds by primates.

Assessing the usefulness of histone H3, U2 snRNA and 28S rDNA in analyses of polychaete relationships

1999 ◽  
Vol 47 (5) ◽  
pp. 499 ◽  
Author(s):  
S. Brown ◽  
G. Rouse ◽  
P. Hutchings ◽  
D. Colgan
Keyword(s):  
Maximum Parsimony ◽  
Sequence Data ◽  
Histone H3 ◽  
28S Rdna ◽  
Maximum Parsimony Analysis ◽  
Data Sets ◽  
Data Set ◽  
U2 Snrna ◽  
Dna Sequence Data ◽  
Combined Data

DNA sequence data from for histone H3 (34 species), U2 snRNA (34 species) and two segments (D1 and D9–10 expansion regions) of 28S rDNA (28 and 26 species, respectively) have been collected to investigate the relationships of polychaetes. Representatives of all of the major morphologically identified clades were used, as well as members of the Sipuncula, Echiura, Turbellaria, Clitellata and Siboglinidae (formerly the phyla Pogonophora and Vestimentifera). Maximum parsimony analyses of the separate data sets gave conflicting results and none conformed closely to previous results based on morphology. Instead each data set provided corroboration of a few of the morphological groupings, usually pairing, though inconsistently, members of the same family. Higher groupings proposed on morphological grounds were rarely recovered. Maximum parsimony analysis of the combined data, excluding areas of uncertain alignment, recovered some morphological groupings such as Cirratulidae, Terebellidae, scale worms and eunicimorphs, and did not significantly contradict others. However, some expected groupings were not recovered. Surprisingly, the fanworms (Sabellidae and Serpulidae) were not shown as sister taxa, and monophyly of Phyllodocida, a morphologically well corroborated clade, required four more steps than most parsimonious trees. Aciculata was not seen in our analyses, although it was the most strongly supported large clade in Rouse and Fauchald (1997, Cladistics and polychaetes. Zoologica Scripta 26, 138–204). Trees constrained to show Aciculata as monophyletic were 18 steps longer than the most parsimonious trees. If trees are rooted on sipunculans rather than the nematode, Aciculata is nearly recovered, being rendered paraphyletic by the inclusion of the sister-pair of Oweniidae and Chaetopteridae. As suggested by some recent morphological and molecular analyses, Siboglinidae and Clitellata may well have sister groups among polychaetes. The morphologically aberrant Sternaspidae are closest to members of Terebellida in the present analyses, supporting the placement of Rouse and Fauchald. Interesting results deserving further assessment concern the placement of Chaetopteridae, Oweniidae and Sipuncula.

scholarly journals Lecanicillium cauligalbarum sp. nov. (Cordycipitaceae, Hypocreales), a novel fungus isolated from a stemborer in the Yao Ren National Forest Mountain Park, Guizhou

MycoKeys ◽  
2018 ◽  
Vol 43 ◽  
pp. 59-74 ◽  
Author(s):  
Ye-Ming Zhou ◽  
Jun-Rui Zhi ◽  
Mao Ye ◽  
Zhi-Yuan Zhang ◽  
Wen-Bo Yue ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Forest Floor ◽  
Sequence Data ◽  
Distinct Species ◽  
National Forest ◽  
Data Set ◽  
Forest Mountain ◽  
A New Species ◽  
Combined Data

A new species of entomopathogenic fungi,Lecanicilliumcauligalbarum, was discovered from a survey of invertebrate-associated fungi in the Yao Ren National Forest Mountain Park in China. The synnemata of this species emerged from the corpse of a stemborer (Lepidoptera), which was hidden amongst pieces of wood on the forest floor. It differs from morphologically similarLecanicilliumspecies mainly in its short conidiogenous cells and ellipsoid to ovoid and aseptate conidia. Phylogenetic analysis of a combined data set comprising ITS,SSU,LSU,TEF,RPB1andRPB2sequence data supported the inclusion ofL.cauligalbarumin theLecanicilliumgenus and its recognition as a distinct species.

Mazzaella canaliculata comb. nov. based on Chondrus canaliculatus (Gigartinaceae, Rhodophyta) from Peru and Chile 

Phytotaxa ◽  
2021 ◽  
Vol 497 (3) ◽  
pp. 211-228
Author(s):  
NATALIA ARAKAKI ◽  
MARIA ELIANA RAMIREZ
Keyword(s):  
Southern Hemisphere ◽  
Phylogenetic Analyses ◽  
The Other ◽  
Red Seaweed ◽  
Central Coast ◽  
Data Set ◽  
Anatomical Features ◽  
Tubular Cells ◽  
Coi Sequences ◽  
Combined Data

Chondrus canaliculatus is a red seaweed endemic to Peru and Chile. The name currently represents the only species classified in Chondrus from the southern hemisphere. Based on previous phylogenetic analyses, C. canaliculatus is polyphyletic with respect to Chondrus and possesses unique morpho-anatomical features that distinguish it from other genera in the Gigartinaceae. In this study, expanded phylogenetic analyses using rbcL and COI sequences, a combined data set, and morphological details were further examined to address the taxonomy and evolutionary systematics of C. canaliculatus. Genetic analyses placed C. canaliculatus well within the genus Mazzaella and therefore Mazzaella canaliculata comb. nov. is proposed. Mazzaella canaliculata is distinguished from the other Mazzaella from the southern hemisphere by its dichotomous branching, secondary filaments that persist and leave a well-defined involucre, the absence of terminal tubular cells, and tetrasporangia that are borne from secondary filaments from inner cortical and outer medullary cells. The distributional range of M. canaliculata is extended from the central coast of Peru, Bahía de Pucusana, Lima (12° S) to Chiloé, Chile (41° S). This study contributes to the systematics of the Gigartinaceae and formally validates a problematic species based on a combined analysis of molecular, morphological and anatomical data using recently field collected specimens.

Sign in / Sign up

Export Citation Format

Share Document