Towards a monophyletic classification of Lejeuneaceae III: the systematic position of Leiolejeunea

Phytotaxa ◽  
2014 ◽  
Vol 170 (3) ◽  
pp. 187 ◽  
Author(s):  
ALFONS SCHÄFER-VERWIMP ◽  
KATHRIN FELDBERG ◽  
SHANSHAN DONG ◽  
HUUB VAN MELICK ◽  
DENILSON F. PERALTA ◽  
...  
Keyword(s):  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Dna Sequences ◽  
Its Region ◽  
Systematic Position ◽  
Leaf Cell ◽  
Oil Bodies ◽  
Sister Relationship ◽  
First Time

The derived liverwort Leiolejeunea grandiflora was recollected at the type locality in Jamaica after more than 100 years. The characteristics of its oil bodies were described for the first time based on the new collections. Each leaf cell possesses 2-4(-6) rather small, subhomogeneous to very finely segmented, subglobose to ellipsoidal, colorless oil bodies. The plants were either dioicous or autoicous. DNA sequences of two chloroplast regions (trnL-trnF, rbcL) and the nuclear ribosomal ITS region were obtained for two accessions of Leiolejeunea to enable the inference of the phylogenetic relationships of these plants. Based on Bayesian inference of phylogeny as well as maximum parsimony and maximum likelihood analyses of a dataset including 87 representatives of Lejeuneaceae, Leiolejeunea was found as the putative sister to either Echinolejeuneinae or Cheilolejeuneinae. Thus, we propose the new monogeneric subtribe Leiolejeuneinae with relationships to Cheilolejeuneinae and Echinolejeuneinae. The analyses included also one accession of the generitype of Cheilolejeunea, C. decidua [= Cheilolejeunea adnata]. This species was found in a well supported sister relationship with Cystolejeunea. To avoid nomenclatural confusion, we propose a wide genus concept for Cheilolejeunea including Aureolejeunea, Cyrtolejeunea, Cystolejeunea, Evansiolejeunea, Leucolejeunea, and Omphalanthus.

Towards a monophyletic classification of Lejeuneaceae V: the systematic position of Pictolejeunea

Phytotaxa ◽  
2016 ◽  
Vol 280 (3) ◽  
pp. 259 ◽  
Author(s):  
JULIA BECHTELER ◽  
GAIK EE LEE ◽  
ALFONS SCHÄFER-VERWIMP ◽  
MATT A. M. RENNER ◽  
DENILSON F. PERALTA ◽  
...  
Keyword(s):  
Maximum Likelihood ◽  
Phylogenetic Analyses ◽  
Systematic Position ◽  
Sister Relationship ◽  
Bayesian Analyses ◽  
Outgroup Species ◽  
Made In

With more than 1,000 species in some 70 genera, Lejeuneaceae represent the largest family of liverworts. Although much progress has been made in recent years, the supraspecific classification of Lejeuneaceae has not yet been satisfactorily solved. Maximum likelihood and Bayesian analyses of a three marker dataset (nrITS, cp DNA rbcL and trnL-trnF) derived from 85 accessions of Lejeuneeae and 13 outgroup species revealed Pictolejeunea picta in a sister relationship to the remainder of Lejeuneeae, the most speciose tribe of Lejeuneaceae. Based on the outcome of the phylogenetic analyses, we establish subtribe Pictolejeuneinae subtr. nov.

Systematic status of Campydora Cobb, 1920 (Nematoda: Campydorina)

Nematology ◽  
2003 ◽  
Vol 5 (5) ◽  
pp. 699-711 ◽  
Author(s):  
Peter Mullin ◽  
Timothy Harris ◽  
Thomas Powers
Keyword(s):  
Maximum Likelihood ◽  
Ribosomal Dna ◽  
Dna Sequences ◽  
Maximum Parsimony ◽  
Phylogenetic Analyses ◽  
Small Subunit ◽  
Systematic Position ◽  
Nominal Species ◽  
Competing Hypotheses ◽  
Small Subunit Ribosomal Dna

AbstractThe systematic position of Campydora Cobb, 1920, which possesses many unique morphological features, especially in pharyngeal structure and stomatal armature, has long been a matter of uncertainty with the 'position of the Campydorinae' (containing only Campydora) being questionable. A review of the morphology of C. demonstrans, the only nominal species of Campydora concluded that the species warranted placement as the sole member of a monotypic suborder, Campydorina, in the order Dorylaimida. Others placed Campydorina in the order Enoplida. We conducted phylogenetic analyses, using 18s small subunit ribosomal DNA sequences generated from a number of taxa in the subclasses Enoplia and Dorylaimia, to evaluate these competing hypotheses. Although precise taxonomic placement of the genus Campydora and the identity of its closest living relatives is in need of further investigation, our analyses, under maximum parsimony, distance, and maximum likelihood criteria, unambiguously indicate that Campydora shares a common, more recent, ancestry with genera such as Alaimus, Pontonema, Tripyla and Ironus (Enoplida), rather than with any members of Dorylaimida, Mononchida or Triplonchida.

Mitochondrial DNA dataset suggest that the genus Sphaerirostris Golvan, 1956 is a synonym of the genus Centrorhynchus Lühe, 1911

Parasitology ◽  
2020 ◽  
Vol 147 (10) ◽  
pp. 1149-1157 ◽  
Author(s):  
Nehaz Muhammad ◽  
Suleman ◽  
Munawar Saleem Ahmad ◽  
Liang Li ◽  
Qing Zhao ◽  
...  
Keyword(s):  
Phylogenetic Analyses ◽  
Systematic Position ◽  
Likelihood Methods ◽  
Sister Relationship ◽  
Protein Coding ◽  
Maximum Likelihood Methods ◽  
Relationship Of ◽  
First Time ◽  
Mt Genome ◽  
Rna Genes

AbstractOur present genetic data of Acanthocephala, especially the mitochondrial (mt) genomes, remains very limited. In the present study, the nearly complete mt genome sequences of Sphaerirostris lanceoides (Petrochenko, 1949) was sequenced and determined for the first time based on specimens collected from the Indian pond heron Ardeola grayii (Sykes) (Ciconiiformes: Ardeidae) in Pakistan. The mt genome of S. lanceoides is 13 478 bp in size and contains 36 genes, including 12 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs) and two ribosomal RNA genes (rRNAs). Moreover, in order to clarify the phylogenetic relationship of the genera Centrorhynchus and Sphaerirostris, and to test the systematic position of S. lanceoides in the Centrorhynchidae, the phylogenetic analyses were performed using Bayesian inference and maximum likelihood methods, based on concatenated nucleotide sequences of 12 PCGs, rRNAs and tRNAs. The phylogenetic results further confirmed the monophyly of the order Polymorphida and the paraphyly of the order Echinorhynchida in the class Palaeacanthocephala. Our results also challenged the validity of the genus Sphaerirostris (Polymorphida: Centrorhynchidae) and showed a sister relationship between S. lanceoides and S. picae (Rudolphi, 1819).

Phylogenetic relationships and a new sectional classification of Croton (Euphorbiaceae) in Australia

2015 ◽  
Vol 28 (4) ◽  
pp. 219 ◽  
Author(s):  
Benjamin W. van Ee ◽  
Paul I. Forster ◽  
Paul E. Berry
Keyword(s):  
Maximum Likelihood ◽  
Dna Sequences ◽  
Pacific Islands ◽  
Australian Species ◽  
Molecular Phylogenetic ◽  
Species Lists ◽  
Nuclear Its ◽  
Australian Flora ◽  
Sectional Classification

A molecular phylogeny, morphological descriptions, species lists and a key to the sections of Croton L. (Euphorbiaceae) recognised for Australia are presented. The molecular phylogenetic results supported the recognition of six sections, to account for the 29 native Australian species. The monophyly of each of these sections was highly supported in the Bayesian and maximum-likelihood analyses of nuclear ITS and plastid trnL–F DNA sequences, whereas their relationships to each other and to other groups were less well resolved. Croton may represent one, two or three separate arrivals to Australia, with support for hypotheses of subsequent dispersals from Australia to Pacific islands and to Asia. Croton sections Argyrati, Arnhemici, Caudati, Dockrilliorum and Insulares are newly described. Croton section Gymnocroton Baill., previously placed in synonymy, is again recognised. Croton armstrongii S.Moore is excluded from the Australian flora.

scholarly journals A phylogenetic analysis and new delimitation of Crepidiastrum (Asteraceae, tribe Cichorieae)

Phytotaxa ◽  
2014 ◽  
Vol 159 (4) ◽  
pp. 241 ◽  
Author(s):  
Yu-lan Peng ◽  
Yu Zhang ◽  
Xin-fen Gao ◽  
Lin-jing Tong ◽  
Liang Li ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Maximum Likelihood ◽  
Chloroplast Dna ◽  
Maximum Parsimony ◽  
Phylogenetic Analyses ◽  
Systematic Position ◽  
Likelihood Inference ◽  
Nuclear Its ◽  
Chloroplast Dna Regions

The systematic position of Paraixeris humifusa (Asteraceae) is hard to define, because the circumscription of Paraixeris, Youngia and Crepidiastrum, three closely related genera in subtribe Crepidinae (Cichorieae), is not clear. This paper reports on the relationships between 30 species in subtribe Crepidinae, based on an analysis of nucleotides from one nuclear (ITS) and three chloroplast DNA regions ( trnL-F, rps16 and atpB-rbcL). The phylogenetic analyses used maximum parsimony with maximum likelihood inference. The monophyly of Crepidiastrum in the most recent generic classification of Shih & Kilian (2011) is explored. The results show that 12 species in Crepidiastrum constitute a monophyletic group, and that Paraixeris humifusa should be treated as Youngia humifusa.

Revisiting the phylogeny and taxonomy of Osmanthus (Oleaceae) including description of the new genus Chengiodendron

Phytotaxa ◽  
2020 ◽  
Vol 436 (3) ◽  
pp. 283-292 ◽  
Author(s):  
YONG-FU LI ◽  
MIN ZHANG ◽  
XIAN-RONG WANG ◽  
STEVEN PAUL SYLVESTER ◽  
QI-BAI XIANG ◽  
...  
Keyword(s):  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Phylogenetic Relationships ◽  
Maximum Parsimony ◽  
New Genus ◽  
Morphological Character ◽  
Strong Support ◽  
Its Region ◽  
Phylogenetic Placement ◽  
Morphological Patterns

Osmanthus (Oleaceae) is considered one of the most confusing genera with regards to circumscription and phylogenetic placement of taxa within the subtribe Oleinae of Oleaceae, with controversies mainly focused on the attribution of section Leiolea. In the present study, we analyzed 71 samples that represent the broad taxonomic, biogeographic, and morphological patterns in the subtribe Oleinae. Based on concatenation of four plastid genes (trnL-F, trnT-L, trnS-G, and matK) and comparison with the ITS region, Bayesian Inference, Maximum Likelihood and Maximum Parsimony phylogenies were inferred. Morphological character traits and geographical distributions of taxa were also studied. These results provide strong support for the segregation of the Leiolea clade (Osmanthus marginatus, O. matsumuranus and O. minor) of sect. Leiolea from Osmanthus. Therefore, the Leiolea clade is instated as the new genus Chengiodendron, with a taxonomic treatment provided. This study provides a clearer understanding of the phylogenetic relationships of genera in the subtribe Oleinae.

Sanghuangporus vitexicola sp. nov. (Hymenochaetales, Basidiomycota) from tropical Taiwan

Phytotaxa ◽  
2020 ◽  
Vol 475 (1) ◽  
pp. 43-51
Author(s):  
SHENG-HUA WU ◽  
CHIA-LING WEI ◽  
CHIUNG-CHIH CHANG
Keyword(s):  
New Species ◽  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Internal Transcribed Spacer ◽  
Its Region ◽  
Identification Key ◽  
Monophyletic Group ◽  
Pore Surface ◽  
Vitex Negundo ◽  
A New Species

Sanghuangporus vitexicola (Hymenochaetales) is described as a new species based on collections made from Pingtung County, tropical South Taiwan. All studied basidiocarps grew on living trunks of Vitex negundo. This new species is characterized by having perennial, pileate basidiocarps; pore surface yellowish brown, pores 6–8 per mm; context 0.7–1.5 cm thick; setae ventricose to subulate, dark brown, 17–30 × 5–8 μm; basidiospores broadly ellipsoid, brownish, smooth, 4.2–4.8 × 3.2–3.7 μm, with 0.2–0.5 μm thick walls. Maximum likelihood and Bayesian inference phylogenies inferred from the internal transcribed spacer (ITS) region of rDNA indicated that six strains of Sanghuangporus viexicola formed a monophyletic group which is sister to S. zonatus. An identification key to known species of Sanghuangporus is provided.

Molecular evidence for the systematic positions of two enigmatic mosses: Pterogonidium pulchellum (Sematophyllaceae, Musci) and Piloecium pseudorufescens (Myuriaceae, Musci)

2006 ◽  
Vol 84 (3) ◽  
pp. 501-507
Author(s):  
Ying Chang ◽  
Chan Woon Khiong ◽  
Sean W. Graham ◽  
Benito C. Tan
Keyword(s):  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Maximum Parsimony ◽  
Phylogenetic Analyses ◽  
Systematic Position ◽  
Molecular Evidence ◽  
Rbcl Gene ◽  
Branch Support ◽  
New Evidence ◽  
Rbcl Gene Sequences

The systematic position of Pterogonidium pulchellum (W.J. Hooker) Muell. Hal. in the Sematophyllaceae and Piloecium pseudorufescens (Hampe) Muell. Hal. in the Myuriaceae is reexamined with new evidence derived from rbcL gene sequences. A total of 18 taxa from Sematophyllaceae, Hypnaceae, Myuriaceae, and Hookeriaceae were included, 11 of which were newly sequenced for the rbcL gene. Analyses were done using maximum parsimony, maximum likelihood (TrN + Γ + I model and GTR + Γ + I model), and Bayesian inference (GTR + Γ + I model). The results show that Pterogonidium pulchellum has a closer relationship with members of Hypnaceae than with Sematophyllaceae, while Piloecium pseudorufescens forms a clade with the Sematophyllaceae in all phylogenetic analyses, with robust branch support. Two SOWH tests were carried out and the results show that it is not appropriate to classify Pterogonidium pulchellum in Sematophyllaceae and it is also not appropriate to classify Piloecium pseudorufescens in Myuriaceae.

Towards a monophyletic classification of Lejeuneaceae I: subtribe Leptolejeuneinae subtr. nov.

Phytotaxa ◽  
2014 ◽  
Vol 156 (3) ◽  
pp. 165 ◽  
Author(s):  
JOCHEN HEINRICHS ◽  
ALFONS SCHÄFER-VERWIMP ◽  
ALEKSANDRA CZUMAY ◽  
SHANSHAN DONG ◽  
ARMIN SCHEBEN ◽  
...  
Keyword(s):  
Maximum Likelihood ◽  
Maximum Parsimony ◽  
Its Region ◽  
Bootstrap Support ◽  
Phylogenetic Position ◽  
Likelihood Methods ◽  
Monophyletic Lineage ◽  
Current Classification ◽  
Maximum Likelihood Methods

We employed sequences of two chloroplast regions (trnL-trnF, rbcL) and the nuclear ribosomal ITS region of seven accessions of Leptolejeunea to explore its phylogenetic position. Maximum parsimony and maximum likelihood analyses led to similar topologies but deeper nodes received good bootstrap support only with maximum likelihood methods. Leptolejeunea formed an early diverging, robust monophyletic lineage within Lejeuneaceae tribe Lejeuneeae. Contrary to earlier belief, it is not closely related to Drepanolejeunea. To amend the current classification of Lejeuneeae into subtribes, we propose Leptolejeuneinae, subtr. nov.

Phylogeny of the Micareaceae inferred from nrSSU DNA sequences

2004 ◽  
Vol 36 (1) ◽  
pp. 27-35 ◽  
Author(s):  
Heidi L. ANDERSEN ◽  
Stefan EKMAN
Keyword(s):  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Dna Sequences ◽  
Phylogenetic Analyses ◽  
Sister Group ◽  
Small Subunit ◽  
Sensu Stricto ◽  
Confidence Set ◽  
Tree Topologies ◽  
Small Subunit Ribosomal Dna

The phylogeny of the Micareaceae and the genus Micarea Fr. was studied using 39 nuclear small subunit ribosomal DNA sequences. Phylogenetic analyses were carried out using maximum parsimony, maximum likelihood, and Bayesian inference. A confidence set of trees was estimated using expected likelihood weights to investigate a series of hypotheses of monophyly. Tree topologies were very similar between methods and differed only in the placement of a few poorly supported branches. The results indicate that the Micareaceae in its current circumscription belongs in the Lecanorales, but that it is not monophyletic. Psilolechia, Micarea with a ‘non-micareoid’ photobiont, Micarea sensu stricto and Byssoloma form a paraphyletic grade in this study. Micarea sensu stricto and Byssoloma (Pilocarpaceae) form a strongly supported monophyletic group, which constitutes the sister group to the Bacidiaceae. Scoliciosporum A. Massal has sometimes been considered close to Micarea, but no support was found for that hypothesis.

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