Section Mimadenia: its phylogenetic relationships within the genus Mimosa (Leguminosae, Mimosoideae) using plastid trnL - F sequence data

2011 ◽  
Vol 24 (2) ◽  
pp. 104 ◽  
Author(s):  
C. Bessega ◽  
R. H. Fortunato
Keyword(s):  
Phylogenetic Analysis ◽  
Phylogenetic Relationships ◽  
Sequence Data ◽  
Intergenic Spacer ◽  
Nucleotide Sequences ◽  
Trnl Intron ◽  
Infrageneric Classification ◽  
Morphological Group ◽  
Evolutionary Hypothesis

Mimosa L. includes more than 530 species and is subdivided into five sections, including Mimadenia Barneby, Batocaulon DC., Habbasia DC., Calothamnos Barneby and Mimosa. It has previously been proposed that Mimosa is derived from piptadenioid ancestors and that section Mimadenia is a morphological group intermediate between the piptadenoid ancestor and the remaining species from Mimosa. The main goals of the present study were to assess the monophyly of the genus Mimosa as it is currently described, including representatives of all five sections, test the previous evolutionary hypothesis that section Mimadenia is primitive within Mimosa and discuss the infrageneric classification from a phylogenetic view. We report a phylogenetic analysis of chloroplast nucleotide sequences of the trnL intron and the trnL–trnF intergenic spacer from 36 species of Mimosa, and six related genera. Our analysis indicated that genus Mimosa is monophyletic, and the species of section Mimadenia constitute a clade sister to the rest of the genus. Although section Mimadenia, as described by Barneby (1991), seems to be monophyletic, the remaining sections Barneby (1991) proposed are not resolved as monophyletic. An effort needs to be made towards a new infrageneric classification of Mimosa that considers the phylogenetic evidence.

A revised infrageneric classification of Bellevalia Lapeyr. (Asparagaceae: Scilloideae) based on molecular analysis

Phytotaxa ◽  
2021 ◽  
Vol 525 (1) ◽  
pp. 70-84
Author(s):  
AZARNOOSH JAFARI ◽  
JAMIL VAEZI ◽  
MOHAMMAD MAHDI FORGHANIFARD ◽  
FÉLIX FOREST ◽  
JOHN C. MANNING
Keyword(s):  
Phylogenetic Analysis ◽  
Molecular Analysis ◽  
Trnl Intron ◽  
Leaf Margin ◽  
Infrageneric Classification ◽  
Flower Shape ◽  
Representative Species

Within the genus Bellevalia (Asparagaceae: Scilloideae: Hyacintheae), flower shape and colour, the ratio of leaf to scape length, and the orientation of the pedicels were traditionally used to delimit sections, subsections and species. We conducted a phylogenetic analysis of representative species from sections Bellevalia, Conicae, Nutantes and Oxydontae, representing four out of the six sections that are currently recognised, using the four chloroplast regions rbcL, matK, trnL intron, and trnL-F spacer. Our results indicate that the sections are not monophyletic as currently circumscribed. Our analyses retrieve two major, well-supported clades. The first clade (sect. Conicae) includes only species with ciliate leaves and green-veined perianth lobes, and the second clade (sect. Bellevalia) includes the species lacking these characteristics. Within the second clade, the species with yellow anthers are separated from those with violet anthers. Our molecular analysis does not support the traditional subdivisions of the genus but establishes the value of cilia on the leaf margin, green veins in the perianths lobes, and the colour of the anthers as indicators of relationships among the species. We recommend that the current four sections and six subsections of Bellevalia be reduced to two sections without subsections and we provide an updated and corrected nomenclature for these sections and subsections, designating lectotypes where necessary.

scholarly journals Two Complete Mitochondrial Genomes of Mileewinae (Hemiptera: Cicadellidae) and a Phylogenetic Analysis

Insects ◽  
2021 ◽  
Vol 12 (8) ◽  
pp. 668
Author(s):  
Tinghao Yu ◽  
Yalin Zhang
Keyword(s):  
Phylogenetic Analysis ◽  
Phylogenetic Relationships ◽  
Phylogenetic Trees ◽  
Strong Support ◽  
Intergenic Spacer ◽  
Taxonomic Status ◽  
Start Codon ◽  
Gene Arrangement ◽  
Mitochondrial Genomes ◽  
Protein Coding

More studies are using mitochondrial genomes of insects to explore the sequence variability, evolutionary traits, monophyly of groups and phylogenetic relationships. Controversies remain on the classification of the Mileewinae and the phylogenetic relationships between Mileewinae and other subfamilies remain ambiguous. In this study, we present two newly completed mitogenomes of Mileewinae (Mileewa rufivena Cai and Kuoh 1997 and Ujna puerana Yang and Meng 2010) and conduct comparative mitogenomic analyses based on several different factors. These species have quite similar features, including their nucleotide content, codon usage of protein genes and the secondary structure of tRNA. Gene arrangement is identical and conserved, the same as the putative ancestral pattern of insects. All protein-coding genes of U. puerana began with the start codon ATN, while 5 Mileewa species had the abnormal initiation codon TTG in ND5 and ATP8. Moreover, M. rufivena had an intergenic spacer of 17 bp that could not be found in other mileewine species. Phylogenetic analysis based on three datasets (PCG123, PCG12 and AA) with two methods (maximum likelihood and Bayesian inference) recovered the Mileewinae as a monophyletic group with strong support values. All results in our study indicate that Mileewinae has a closer phylogenetic relationship to Typhlocybinae compared to Cicadellinae. Additionally, six species within Mileewini revealed the relationship (U. puerana + (M. ponta + (M. rufivena + M. alara) + (M. albovittata + M. margheritae))) in most of our phylogenetic trees. These results contribute to the study of the taxonomic status and phylogenetic relationships of Mileewinae.

Traditional Infrageneric Classification of Gymnopilus Is Not Supported by Ribosomal DNA Sequence Data

Mycologia ◽  
2003 ◽  
Vol 95 (6) ◽  
pp. 1204 ◽  
Author(s):  
Laura Guzman-Davalos ◽  
Gregory M. Mueller ◽  
Joaquin Cifuentes ◽  
Andrew N. Miller ◽  
Anne Santerre
Keyword(s):  
Dna Sequence ◽  
Ribosomal Dna ◽  
Sequence Data ◽  
Infrageneric Classification ◽  
Dna Sequence Data ◽  
Ribosomal Dna Sequence

Generic delimitations in the family Stictidaceae (Ostropales, Ascomycota): the Stictis–Conotrema problem

2005 ◽  
Vol 37 (1) ◽  
pp. 67-75 ◽  
Author(s):  
Mats WEDIN ◽  
Heidi DÖRING ◽  
Kristina KÖNBERG ◽  
Gunnar GILENSTAM
Keyword(s):  
Sequence Data ◽  
Sister Group ◽  
Lsu Rdna ◽  
Infrageneric Classification ◽  
Rdna Its ◽  
The Family ◽  
Rdna Sequence Data ◽  
Natural Groups ◽  
High Support

The family Stictidaceae (Ostropales, Ascomycota) contains both lichenized and non-lichenized fungi. Here, we test if Conotrema (lichenized) and Stictis (non-lichenized) as currently delimited are distinct monophyletic genera, by parsimony and parsimony jackknifing analyses of combined nuclear rDNA (ITS and partial LSU rDNA) and mitochondrial SSU rDNA sequence data matrices. The study includes four species of Stictis, three species of Conotrema, and representatives of the related Schizoxylon (lichenized), Odontotrema, Carestiella (at least sometimes associated with algae), Cryptodiscus and Thelotrema (lichenized). In all analyses, the Conotrema species were nested within Stictis with high support. Thus, we conclude that Conotrema are only lichenized representatives of Stictis. The type species of the two generic names, C. urceolatum and S. radiata, are sister taxa in our analyses. Furthermore, the analysis gave no support for the present infrageneric classification of Stictis. Carestiella socia (the type of Carestiella) and the two representatives of Schizoxylon studied were also nested within Stictis s. lat. The Odontotremataceae is the sister group to the Stictidaceae, and Cryptodiscus foveolaris groups with Thelotrema rather than with the Stictidaceae. We conclude that lichenization in the Stictidaceae does not characterize natural groups, and that Conotrema should be considered a synonym to Stictis, as predicted by anatomical characteristics. The new combinations Stictis urceolatum and Stictis populorum are made.

scholarly journals Studies on diversity of soil microfungi in the Hornsund area, Spitsbergen

2013 ◽  
Vol 34 (1) ◽  
pp. 39-54 ◽  
Author(s):  
Siti Hafizah Hafizah ◽  
Siti Aisyah Alias ◽  
Hii Yii Siang ◽  
Jerzy Smykla ◽  
Ka−Lai Pang ◽  
...  
Keyword(s):  
Sequence Data ◽  
Intergenic Spacer ◽  
High Arctic ◽  
Soil Samples ◽  
Potato Dextrose Agar ◽  
Species Level ◽  
Thermal Growth ◽  
Geomyces Pannorum ◽  
Soil Microfungi

Abstract We assessed culturable soil microfungal diversity in various habitats around Hornsund, Spitsbergen in the High Arctic, using potato dextrose agar (PDA) medium. Thermal growth classification of the fungi obtained was determined by incubating them in 4°C and 25°C, permitting separation of those with psychrophilic, psychrotolerant and mesophilic char− acteristics. In total, 68 fungal isolates were obtained from 12 soil samples, and grouped into 38 mycelial morphotypes. Intergenic spacer regions of these morphotypes were sequenced, and they represented 25 distinct taxonomic units, of which 21 showed sufficient similarity with available sequence data in NCBI to be identified to species level. Soil under ornithogenic influence showed the highest species diversity, including sequences assigned to Mortierella macrocystis, M. elongata, Mortierella sp., Cudoniella sp., Varicosporium elodeae, Beauveria bassiana, Geomyces pannorum, Penicillium sp. and Atradidymella muscivora. Fourteen taxa were classified as psychrophilic, seven mesophilic, and four psychrotolerant.

scholarly journals Phylogenetic analysis of the genus Aeromonas based on two housekeeping genes

2004 ◽  
Vol 54 (5) ◽  
pp. 1511-1519 ◽  
Author(s):  
L. Soler ◽  
M. A. Yáñez ◽  
M. R. Chacon ◽  
M. G. Aguilera-Arreola ◽  
V. Catalán ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Phylogenetic Relationships ◽  
Housekeeping Genes ◽  
Nucleotide Sequences ◽  
Aeromonas Salmonicida ◽  
Species Level ◽  
Substitution Rates ◽  
Aeromonas Veronii ◽  
Taxonomic Organization ◽  
Phylogenetic Divergence

The phylogenetic relationships of all known species of the genus Aeromonas, and especially Aeromonas bestiarum and Aeromonas salmonicida, were investigated on 70 strains using the rpoD sequence, which encodes the σ 70 factor. This analysis was complemented with the sequence of gyrB, which has already proven useful for determining the phylogenetic relationships in the genus. Nucleotide sequences of rpoD and gyrB showed that both genes had similar substitution rates (<2 %) and a similar number of variable positions (34 % for rpoD versus 32 % for gyrB). Strain groupings by analysis of rpoD, gyrB and a combination of both genes were consistent with the taxonomic organization of all Aeromonas species described to date. However, the simultaneous analysis of both clocks improved the reliability and the power to differentiate, in particular, closely related taxa. At the inter-species level, gyrB showed a better resolution for differentiating Aeromonas sp. HG11/Aeromonas encheleia and Aeromonas veronii/Aeromonas culicicola/Aeromonas allosaccharophila, while rpoD more clearly differentiated A. salmonicida from A. bestiarum. The analysis of rpoD provided initial evidence for clear phylogenetic divergence between the latter two species.

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