Phylogeny of Macronematinae (Trichoptera: Hydropsychidae) based on molecular and morphological analyses

2019 ◽  
Vol 151 (6) ◽  
pp. 696-716 ◽  
Author(s):  
Christine Jewel C. Uy ◽  
Ji Hyoun Kang ◽  
John C. Morse ◽  
Yeon Jae Bae
Keyword(s):  
Phylogenetic Relationships ◽  
Large Subunit ◽  
Phylogenetic Reconstruction ◽  
Morphological Characters ◽  
Nuclear Ribosomal Dna ◽  
Phylogenetic Study ◽  
Base Pairs ◽  
Morphological Findings ◽  
Close Relationship ◽  
Evolutionary Novelties

AbstractThe phylogenetic relationships among the members of Macronematinae (Trichoptera: Hydropsychidae) have long been debated and often revised. Our study based on a large subunit (28S) nuclear ribosomal DNA (D2 expansion fragment; 464 base pairs) of gene sequences found all genera to be monophyletic except for the genus Polymorphanisus Walker, which produced two clades in accordance with its species groups established using morphological characters. Phylogenetic reconstruction based on mitochondrial cytochrome oxidase I (658 base pairs) found the same monophyletic relationships, however, except for the genera Polymorphanisus and Macrostemum Kolenati. The placement of the genus Leptonema Guérin-Méneville as the basal clade in the subfamily was also ruled out, which is consistent with previous morphological findings. The monophyly of two previously recognised tribes (Macronematini and Polymorphanisini) was not supported. We also found that the genera Centromacronema Ulmer, Baliomorpha Neboiss, and Macronema Pictet are most closely related, having three head setal warts on the vertex of the head and unsegmented inferior appendages of male genitalia as their synapomorphies. Our study supported the hypothesis of close relationship of the genera Amphipsyche McLachlan and Protomacronema Ulmer with the morphological synapomorphies: absence of a forewing discoidal cell and the presence of elevated head carinae on the larvae. Some notable evolutionary novelties in the structure of adults in various lineages of this subfamily include reduction of maxillae and labium, reduction and loss of a discoidal cell and evolution of a c-sc crossvein in each forewing, fusion of segments in each male inferior appendage, and evolution of dark colour patterns in the forewings. Also, the head setal warts, which are unique organs in Trichoptera, evolved towards a decreasing number in the subfamily. This first molecular phylogenetic study, covering most genera in Macronematinae and including an interpretation of 12 key evolutionary novelties, provides an important basis for resolving long-standing questions regarding phylogenetic relationships and classification of genera and species and helps lay a stronger foundation for inference of testable hypotheses about functional traits for species of this common and widespread subfamily.

Description of new chiactine-bearing sponges provides insights into the higher classification of Calcaronea (Porifera: Calcarea)

Zootaxa ◽  
2019 ◽  
Vol 4615 (2) ◽  
pp. 201
Author(s):  
ADRIANA ALVIZU ◽  
JOANA R. XAVIER ◽  
HANS TORE RAPP
Keyword(s):  
New Species ◽  
Phylogenetic Reconstruction ◽  
Molecular Data ◽  
Phylogenetic Study ◽  
Two New Species ◽  
Close Relationship ◽  
New Material ◽  
Relationship Of ◽  
The Antarctic

A recent phylogenetic study revealed a close relationship between chiactine-bearing (family Achramorphidae, order Leucosolenida) and pugiole-bearing (order Baerida) calcaronean sponges as well as new putative taxa within Achramorphidae. In this study, we present a revision of chiactine-bearing sponges based on morphological re-examination of type material and recently collected specimens, in addition to new molecular data for the ribosomal 18S and C-region of the 28S. We provide re-descriptions for all known chiactine-bearing species, and further describe two new species from the Antarctic (Achramorpha antarctica sp. nov. and Megapogon schiaparellii sp. nov.) and two new species and a new genus from the Nordic Seas (Achramorpha ingolfi sp. nov. and Sarsinella karasikensis gen. nov. sp. nov.). The new phylogenetic reconstruction based on ribosomal 18S and C-region of the 28S confirms previous findings about the close relationship of some members of Baerida and the family Achramorphidae of the order Leucosolenida. However, new material and the addition of molecular data from the type species of both taxa would be required to formally propose changes at (sub-)ordinal levels within the classification of Calcaronean sponges. 

Phylogenetic relationships and classification of the Chloropinae of the world (Diptera: Chloropidae)

2020 ◽  
Vol 190 (3) ◽  
pp. 889-941
Author(s):  
Paula Raile Riccardi ◽  
Dalton De Souza Amorim
Keyword(s):  
Phylogenetic Relationships ◽  
Morphological Traits ◽  
Analytical Approach ◽  
Morphological Characters ◽  
Phylogenetic Study ◽  
New Genera ◽  
Compelling Evidence ◽  
Incertae Sedis ◽  
The World

Abstract The Chloropidae is a species-rich family of flies with about 3000 species in four subfamilies. The Chloropinae is the second most species-rich subfamily with almost 1000 described species in 75 accepted genera. There is agreement about the monophyly of the subfamily; however, the relationships among the genera are still poorly understood and some genera are clearly paraphyletic. Thus, the interpretation of the evolution of morphological traits, such as male terminalia sclerites, remains challenging. This is the first phylogenetic study of the Chloropinae using a formal analytical approach, including representatives of 73 genera of the subfamily and 124 morphological characters. The monophyly of the Chloropinae is corroborated. Chloropella is sister to the remainder of the subfamily. Slightly different analytical procedures show stable clades and rogue taxa. We propose a system for the subfamily with ten tribes, three of which are newly proposed here—Chloropellini trib. nov., Chloropini, Chloropsinini trib. nov., Diplotoxini, Eurinini stat. nov., Lasiosinini, Mepachymerini, Meromyzini, Mindini and Pseudothaumatomyini. Eight genera are kept incertae sedis and two new genera are erected. There is compelling evidence that Chlorops and Ectecephalina are paraphyletic.

Molecular systematics of subtribe Banksiinae (Banksia and Dryandra; Proteaceae) Based on cpDNA and nrDNA sequence data: Implications for taxonomy and biogeography

1998 ◽  
Vol 11 (4) ◽  
pp. 321 ◽  
Author(s):  
Austin R. Mast
Keyword(s):  
Sequence Data ◽  
Phylogenetic Reconstruction ◽  
Morphological Characters ◽  
Internal Transcribed Spacers ◽  
Nuclear Ribosomal Dna ◽  
Base Substitution ◽  
Trnl Intron ◽  
Single Root ◽  
Cladistic Analyses ◽  
Molecular Characters

Despite considerable research interest in the subtribe Banksiinae (Banksia L.f. and Dryandra R.Br.), no strongly supported phylogenetic hypothesis for the relationship between the genera exists, nor have molecular characters been sampled for phylogenetic reconstruction at any level. In this study, DNA sequence characters were sampled from chloroplast DNA (cpDNA; the trnL intron, the trnL 3′ exon, and the spacer between the trnL 3′ exon and trnF) and nuclear ribosomal DNA (nrDNA; both internal transcribed spacers) of 18 species of Banksia and five of Dryandra, with six outgroup taxa from the subfamily Grevilleoideae. The molecular characters provided the opportunity to code taxa outside of Banksia for cladistic comparison with the genus—an opportunity not previously provided by morphological characters. Cladistic analyses, using parsimony, explored the effects of various weightings of transition to transversion events and base substitution to insertion and deletion events to determine which relationships in the cladograms were robust. The trnL/trnF and ITS characters strongly supported a paraphyletic Banksia with respect to a monophyletic Dryandra. The molecular results supported a single root for Thiele and Ladiges’(1996) unrooted morphological cladogram along the branch between the Isotylis to B. fuscolutea clade and the Grandes to B. tricuspis clade. George’s (1981) subgenus Banksia and section Banksia appeared dramatically non-monophyletic. The distribution of eastern taxa at derived positions on the molecular cladograms suggested considerable cladogenesis in the the genus prior to the formation of the Nullarbor Plain during the Tertiary.

A phylogenetic study of Pimelea and Thecanthes (Thymelaeaceae): evidence from plastid and nuclear ribosomal DNA sequence data

2010 ◽  
Vol 23 (4) ◽  
pp. 270 ◽  
Author(s):  
M. Cynthia Motsi ◽  
Annah N. Moteetee ◽  
Angela J. Beaumont ◽  
Barbara L. Rye ◽  
Martyn P. Powell ◽  
...  
Keyword(s):  
Sequence Data ◽  
Intergenic Spacer ◽  
Taxonomic Status ◽  
Molecular Study ◽  
Nuclear Ribosomal Dna ◽  
Phylogenetic Study ◽  
Rps16 Intron ◽  
Dna Sequence Data ◽  
Close Relationship ◽  
Nuclear Its

A comprehensive molecular study, using sequence data from nuclear ITS rDNA and plastid rbcL and matK exons, rps16 intron, and the trnL-F intronic and intergenic spacer, was used to assess the taxonomic status of Thecanthes Wikstr., and to evaluate the relationships within Pimelea Banks & Sol. ex Gaertn. and Thecanthes (Thymelaeaceae). Both genera are Australasian and they constitute the subtribe Pimeleinae, which is characterised by a reduction to two stamens. Previous studies indicated a close relationship among Pimelea, Thecanthes and Gnidia L. species from tropical Africa. We conclude that Pimelea and Thecanthes form a strongly supported clade, with Thecanthes possibly included within Pimelea, although we await further data before formally proposing a series of new taxonomic combinations.

scholarly journals Two new species of Hygrophorus from temperate Himalayan Oak forests of Pakistan

MycoKeys ◽  
2019 ◽  
Vol 56 ◽  
pp. 33-47 ◽  
Author(s):  
Arooj Naseer ◽  
Abdul Nasir Khalid ◽  
Rosanne Healy ◽  
Matthew E. Smith
Keyword(s):  
New Species ◽  
Dna Sequences ◽  
Large Subunit ◽  
Its Region ◽  
Morphological Characters ◽  
Nuclear Ribosomal Dna ◽  
Oak Forests ◽  
Rdna Genes ◽  
Two New Species ◽  
Dark Green

The genus Hygrophorus is poorly studied from Asia. From Pakistan, only one species has been reported so far. Two new species in the genus have been collected from Himalayan oak forests of Pakistan. Hygrophorusalboflavescens (section Pudorini, subgenus Colorati) is characterised by its pure white, centrally depressed pileus, occurrence of white stipe with yellow patches at lower half and broader (4.98 μm) basidiospores. Hygrophorusscabrellus (section Hygrophorus, subgenus Hygrophorus) is characterised by its yellowish-green stipe with white apex that has fine scales on the entire stipe, an off-white pileus with dark green and greyish fibrils, ovoid to ellipsoid basidiospores and clavate 4-spored basidia. Macro- and micromorphological descriptions have revealed that both these taxa are not yet described. Phylogenetic estimation based on DNA sequences from the internal transcribed spacer (ITS) region and large subunit (LSU) of the nuclear ribosomal DNA (rDNA) genes, is congruent with the morphological characters that help to delimit these as new species of Hygrophorus. Allied taxa are also compared.

scholarly journals The comparison between nuclear ribosomal DNA and chloroplast DNA in molecular systematic study of four sections of genus Dendrobium sw. (orchidaceae)

2016 ◽  
Vol 5 (03) ◽  
pp. 4944 ◽  
Author(s):  
Maryam Moudi* ◽  
Rusea Go
Keyword(s):  
Chloroplast Dna ◽  
Ribosomal Dna ◽  
Morphological Characters ◽  
Molecular Data ◽  
Nuclear Ribosomal Dna ◽  
Phylogenetic Study ◽  
Data Sets ◽  
Molecular Systematic ◽  
Resolution Level ◽  
Reliable Marker

Phylogenetic study of the four sections (Aporum, Crumenata, Strongyle, and Bolbidium) of genus Dendrobium (family Orchidaceae) was conducted using molecular data. Classifications based on morphological characters have not being able to clearly divide these four sections neither do they supported their monophyly origin. Therefore, deeper and detailed analysis especially using molecular data is required to ascertain their status. Molecular evidences were used to clarify their relations either to lump them into one section or reduce them into two. The study has been carried out for the 34 species of Dendrobium using Maximum Parsimony (MP). Three nucleotide sequences data sets from two distinct genomes chloroplast DNA genes (rbcL and matK) and nuclear ribosomal DNA (ITS) were used to construct cladograms. The results that obtained from the Internal Transcribed Spacer (ITS) gene showed that the nuclear genes are reliable marker for the phylogenetic study of Dendrobium compared to chloroplast DNA with low resolution level among sections. 

Phylogenetic analysis of the rumen ciliate family Ophryoscolecidae based on 18S ribosomal RNA sequences, with new sequences fromDiplodinium,Eudiplodinium, andOphryoscolex

1997 ◽  
Vol 75 (6) ◽  
pp. 963-970 ◽  
Author(s):  
André-Denis G. Wright ◽  
Denis H. Lynn
Keyword(s):  
Phylogenetic Analysis ◽  
Ribosomal Rna ◽  
Phylogenetic Relationships ◽  
Cladistic Analysis ◽  
Morphological Characters ◽  
Small Subunit ◽  
Base Pairs ◽  
Rna Sequences ◽  
Ribosomal Rna Sequences ◽  
The Family

Phylogenetic relationships within the largest family of entodiniomorphid rumen ciliates, the Ophryoscolecidae, were inferred from comparisons of small-subunit ribosomal RNA gene sequences. These included three new sequences from Diplodinium dentatum (1638 base pairs (bp)), Eudiplodinium maggii (1637 bp), and Ophryoscolex purkynjei (1636 bp). Using morphological characters, Lubinsky constructed a cladogram of the Ophryoscolecidae, and on the basis of his analysis, he divided the family into three subfamilies (Entodiniinae, Diplodiniinae, Ophryoscolecinae) to reflect his "natural" groupings (G. Lubinsky. 1957. Can. J. Zool. 35: 141 – 159). Our cladistic analysis, based on the limited morphological and ultrastructural data available, indicates that there are no synapomorphies supporting the Diplodiniinae sensu Lubinsky. However, based upon the six 18S sequences for the Ophryoscolecidae, the rumen ciliates are monophyletic and fall into three distinct groups corresponding to Lubinsky's subfamilial division of the family. Our molecular analysis shows Entodinium to be the earliest branching rumen ciliate (subfamily Entodiniinae) and Eudiplodinium, not Diplodiium, branching first among the diplodiniines.

scholarly journals Asperosporus subterraneus, a new genus and species of sequestrate Agaricaceae found in Florida nursery production

2021 ◽  
Author(s):  
E. Karlsen-Ayala ◽  
R. Gazis ◽  
M.E. Smith
Keyword(s):  
Rna Polymerase Ii ◽  
New Genus ◽  
Large Subunit ◽  
Phylogenetic Reconstruction ◽  
Elongation Factor ◽  
Morphological Characteristics ◽  
South Florida ◽  
Nuclear Ribosomal Dna ◽  
New Genus And Species ◽  
Nursery Production

We describe a novel sequestrate genus and species, Asperosporus subterraneus gen. et sp. nov., found associated with nursery production of ferns in south Florida. This truffle species has a unique combination of morphological characters among described Agaricaceae in that it lacks a stipe or columella, has large, ornamented spores, the fresh sporocarps rapidly stain pink-red when cut or bruised, and they have a rancid smell. Although this fungus does not appear to be a direct plant pathogen, the hyphae of A. subterraneus produce a thick hydrophobic mycelial mat that binds the organic matter and therefore prevents water and fertilizer from being absorbed by plants, consequently causing wilting and chlorosis. Using morphological characteristics and phylogenetic reconstruction based on the internal transcribed spacer (ITS), partial large subunit nuclear ribosomal DNA (LSU), second largest subunit of RNA polymerase II (rpb2) and translation elongation factor 1-alpha (tef1) regions, we describe this taxon as a new genus and species in Agaricaceae.

Phylogenetics of Paepalanthus (Eriocaulaceae), a diverse Neotropical monocot lineage

2020 ◽  
Vol 195 (1) ◽  
pp. 34-52
Author(s):  
Caroline O Andrino ◽  
Paulo T Sano ◽  
Peter W Inglis ◽  
Nancy Hensold ◽  
Fabiane N Costa ◽  
...  
Keyword(s):  
South America ◽  
Phylogenetic Reconstruction ◽  
Morphological Characters ◽  
Phylogenetic Study ◽  
Likelihood Methods ◽  
Representative Sampling ◽  
Morphological Heterogeneity ◽  
Maximum Likelihood Methods ◽  
Nuclear Its

Abstract Paepalanthus is a diverse monocot genus with remarkable diversity distributed in the Neotropical highlands of South America. The genus comprises 410 species arranged in subgenera, sections, subsections and series. Added to this complex classification, Paepalanthus shows considerable morphological heterogeneity and includes three other genera in it, Actinocephalus (Körn.) Sano, Lachnocaulon Kunth and Tonina Aubl. A broadly sampled phylogenetic inference for the genus is still missing, precluding a better understanding of its delimitation and further studies in the group. Here we present the most comprehensive phylogenetic study for Paepalanthus to date, as well as morphological survey of characters that delimit the main lineages found. We assembled a morphologically and geographically representative sampling of Paepalanthus and associated genera comprising 356 accessions in a combined dataset of plastid (trnL-F, psbA-trnH) and nuclear (ITS, ETS) regions. Bayesian inference and maximum likelihood methods were used for phylogenetic reconstruction. We found that Paepalanthus and 16 of its 28 infrageneric categories are not monophyletic, as well as the closely related genus Actinocephalus. Thirty-six well-supported clades are recognized. Morphological characters show high levels of homoplasy, and concepts traditionally used in the classification of Paepalanthus were found to be inconsistent. We confirmed that Paepalanthus as currently circumscribed is not monophyletic and revealed several new relationships in Eriocaulaceae. To make Paepalanthus monophyletic, the genus must be re-circumscribed. These results also provide a foundation for future investigations of the diversification and evolution of flora of the Neotropical highlands of South America.

scholarly journals A multi-gene phylogeny of Chlorophyllum (Agaricaceae, Basidiomycota): new species, new combination and infrageneric classification

MycoKeys ◽  
2018 ◽  
Vol 32 ◽  
pp. 65-90 ◽  
Author(s):  
Zai-Wei Ge ◽  
Adriaana Jacobs ◽  
Else C. Vellinga ◽  
Phongeun Sysouphanthong ◽  
Retha van der Walt ◽  
...  
Keyword(s):  
New Species ◽  
Rna Polymerase Ii ◽  
Phylogenetic Analyses ◽  
Large Subunit ◽  
Elongation Factor ◽  
Morphological Characters ◽  
Nuclear Ribosomal Dna ◽  
New Combination ◽  
Infrageneric Classification ◽  
Molecular Phylogenetic

Taxonomic and phylogenetic studies of Chlorophyllum were carried out on the basis of morphological differences and molecular phylogenetic analyses. Based on the phylogeny inferred from the internal transcribed spacer (ITS), the partial large subunit nuclear ribosomal DNA (nrLSU), the second largest subunit of RNA polymerase II (rpb2) and translation elongation factor 1-α (tef1) sequences, six well-supported clades and 17 phylogenetic species are recognised. Within this phylogenetic framework and considering the diagnostic morphological characters, two new species, C.africanum and C.palaeotropicum, are described. In addition, a new infrageneric classification of Chlorophyllum is proposed, in which the genus is divided into six sections. One new combination is also made. This study provides a robust basis for a more detailed investigation of diversity and biogeography of Chlorophyllum.

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