scholarly journals Molecular Phylogenetic Analysis of Vicia L. (Fabaceae) Taxa Growing in the Southeastern Anatolia Region of Turkey: Based on Internal Transcribed Spacer (ITS)

2021 ◽  
Vol 9 (10) ◽  
pp. 1831-1839
Author(s):  
Alevcan Kaplan ◽  
Alaattin Selçuk Ertekin ◽  
Esra Gündüzler
Keyword(s):  
Phylogenetic Analysis ◽  
Internal Transcribed Spacers ◽  
Flowering Plant ◽  
Nuclear Ribosomal Dna ◽  
Molecular Phylogenetic Analysis ◽  
Conservation Strategies ◽  
Attractive Alternative ◽  
Accurate Identification ◽  
Molecular Phylogenetic ◽  
Species Specific

Leguminosae or Fabaceae is the third-largest flowering plant family and is important in terms of both food production and soil fertility. Wild Vicia species and the genetic diversity of the Southeastern Anatolia Region provide an invaluable resource for the improvement of cultivated temperate feed and legume crops. The rapid progress of technology in recent years has nowmade it possible to use modern techniques in phylogenetic studies and to examine plants in a greater detail using biochemical, cytological and molecular methods to supplement purely systematic studies. The use of molecular phylogenetic analysis is the most attractive alternative strategy for a more accurate identification of the species of the Vicia genus. In the current study, some Vicia L. taxa growing naturally in the Southeastern Anatolia Region were investigated using molecular phylogenetic analysis. Internal transcribed spacers (ITS) of nuclear ribosomal DNA were sequenced in order to study the phylogenetic relationships of Vicia L. taxa. Lathyrus inconspicuous L. and Lathyrus cassius Boiss. were used as an outgroup. The ITS area was determined to be approximately 479- 672 bp. The ITS sequences were submitted to the NCBI database and accession numbers obtained. The resulting tree clearly groups and separates the sect. Narbonensis, Ervilia, Peregrinae, Lathyroides, Vicia and Cracca species but was less able to distinguish species from sect. Hypechusa and Lentopsis. The data acquired were observed to be reliable in terms of solving the taxonomical problems of the Vicia L. taxa. The morphological distinctions are greatly supported by DNA sequence studies. The species-specific markers developed in this study are useful for early detection of targeted Vicia taxa and can act as a guide to the basic data required for the evolution of systematic breeding and conservation strategies, as well as for germplasm resources.

A morphological and molecular phylogenetic analysis of relationships between genera of the nematode sub-family Cloacininae (Stossich) (Strongyloidea: Chabertiidae) parasitic in kangaroos, wallabies and rat-kangaroos (Marsupialia: Macropodoidea) 

Zootaxa ◽  
2020 ◽  
Vol 4851 (2) ◽  
pp. 271-288
Author(s):  
I. BEVERIDGE ◽  
A. JABBAR ◽  
A. KOEHLER ◽  
T. SUKEE
Keyword(s):  
Phylogenetic Analysis ◽  
Ribosomal Dna ◽  
Morphological Characteristics ◽  
Internal Transcribed Spacers ◽  
Nuclear Ribosomal Dna ◽  
Molecular Phylogenetic Analysis ◽  
Molecular Phylogenetic ◽  
Phenetic Classification

A phylogenetic analysis of the genera of the strongyloid sub-family Cloacininae from macropodoid marsupials in Australasia was undertaken based on morphological characteristics and analysis of concatenated sequences (ITS+) of the first (ITS-1) and second (ITS-2) internal transcribed spacers of nuclear ribosomal DNA. Neither approach provided a robust phylogeny, but similarities between the two methods in terms of generic groupings suggested that substantial revision is needed of the current phenetic classification, with some of the key morphological characteristics currently used to define genera and tribes proving to be homoplasious. 

Pilaira australis sp. nov. (Mucorales, Mucoromycota) isolated from emu faeces in Australia

Phytotaxa ◽  
2017 ◽  
Vol 329 (3) ◽  
pp. 277 ◽  
Author(s):  
ANDREW S. URQUHART ◽  
PAULINE M. L. COULON ◽  
ALEXANDER IDNURM
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Species Identification ◽  
Internal Transcribed Spacers ◽  
Molecular Phylogenetic Analysis ◽  
Unique Combination ◽  
Dromaius Novaehollandiae ◽  
Molecular Phylogenetic ◽  
Carbon Utilisation ◽  
A New Species

Pilaira australis, a new species of fungus in the coprophilous genus Pilaira, was isolated from emu (Dromaius novaehollandiae) faeces and is described. Morphologically, the species resembles other species in the genus, particularly P. moreaui, except differs in its unique combination of sporangiophore height and sporangiospore length. Molecular phylogenetic analysis indicates that P. australis is distinct from other species in the genus with two regions, the internal transcribed spacers (ITS) and a fragment of the pyrG gene, showing 91% and 90% identity to the nearest species, respectively. Ultrastructure features and carbon utilisation were determined for P. australis, and may provide characteristics for species identification in this genus.

A framework for a phylogenetic classification in the genus Cortinarius (Basidiomycota, Agaricales) derived from morphological and molecular data

2005 ◽  
Vol 83 (11) ◽  
pp. 1457-1477 ◽  
Author(s):  
Sigisfredo Garnica ◽  
Michael Weiß ◽  
Bernhard Oertel ◽  
Franz Oberwinkler
Keyword(s):  
Phylogenetic Analysis ◽  
Molecular Data ◽  
Internal Transcribed Spacers ◽  
Molecular Phylogenetic Analysis ◽  
Nuclear Rdna ◽  
Ecological Data ◽  
Natural Classification ◽  
Geographical Patterns ◽  
Rdna Sequences ◽  
Molecular Phylogenetic

Phylogenetic relationships in the genus Cortinarius with emphasis on European species were studied by integrating a molecular phylogenetic analysis of nuclear rDNA sequences with morphological, chemical, and ecological data. Internal transcribed spacers (ITS1 and ITS2, including 5.8S) and the D1–D2 regions of nuclear rDNA of 262 Cortinarius species including most of the recognised subgenera from Europe, South America, Australia, Tasmania, New Zealand, and Asia were sequenced and analysed by maximum likelihood and neighbour joining. Our morphological and molecular analyses showed considerable disagreement with earlier morphology-based hypotheses concerning the infrageneric delimitations in Cortinarius. We propose a new base for a more natural classification system in Cortinarius involving the taxonomic rearrangement of the species into the following major lineages that we informally designate as “clades” at this time: (1) phlegmacioid species are included in Alluti, Amarescentes, Arguti, Calochroi, Caerulescentes, Percomes, Phlegmacioides, Phlegmacium, Purpurascentes, Scauri, and Vulpini; (2) the Heterocliti clade includes species of the subgenera Leprocybe and Cystogenes ; (3) most of the Myxacium species are included in the Delibuti and Myxacium clades; (4) part of Rozites are included in the Rozites clade; (5) the north-hemispheric species of subgenus Dermocybe are included in the Dermocybe clade and part of the south-hemispheric species in the Splendidi clade; (6) part of Sericeocybe are integrated in the Anomali and Telamonia clades; (7) members of subgenus Cortinarius are assigned to the Cortinarius clade; (8) telamonioid taxa are included in the Obtusi, Renidentes, and Telamonia clades. Several Cortinarius species with peculiar patterns of morphology and basidiome coloration had isolated positions in the sequence analysis, and the evolutionary relationships among the major lineages remained unresolved. Our results suggest the convergent evolution of certain morphological traits across phylogenetically divergent lineages in Cortinarius. However, combinations of features such as pileipellis anatomy, spore shape, veil coloration, basidiome pigments, and stipe shape appear useful to circumscribe clades. Our molecular phylogenetic analysis allows insights in global geographical patterns of species distribution within the major lineages in the genus Cortinarius. The clade structure proposed here could be used as backbone for further more detailed systematic studies.

scholarly journals Euphorbia mbuinzauensis, a new succulent species in Kenya from the Synadenium group in Euphorbia sect. Monadenium (Euphorbiaceae)

PhytoKeys ◽  
2021 ◽  
Vol 183 ◽  
pp. 21-35
Author(s):  
Neng Wei ◽  
Fredrick Munyao Mutie ◽  
Geoffrey Mwachala ◽  
Olwen M. Grace ◽  
Guang-Wan Hu ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Ribosomal Dna ◽  
Phylogenetic Inference ◽  
Distinct Species ◽  
Nuclear Ribosomal Dna ◽  
Molecular Phylogenetic Analysis ◽  
Molecular Phylogenetic ◽  
Smooth Margin ◽  
Iucn Criteria

Euphorbia mbuinzauensis, a succulent new species of the Synadenium group in Euphorbiaceae from Makueni County, Kenya, is described and illustrated. Morphologically, it is most similar to E. pseudomollis, but differs mainly by its shrubby habit (up to 4 m), abaxial leaves surfaces with densely stellate hairs, 2–4-forked cymes, smaller bracts (ca. 2.5 × 3.0 mm), smaller cyathia (6 mm wide), crimson glands without narrow smooth margin, smaller fruits (ca. 8 × 7 mm) and ovoid seeds (ca. 1.8 × 2.2 mm). Furthermore, we performed a molecular phylogenetic analysis of the Synadenium group in Euphorbia sect. Monadenium, based on complete nuclear ribosomal DNA (nrDNA) datasets. This phylogenetic inference also supports it to be a distinct species. The new species is assessed as Endangered using the IUCN criteria.

Inocybe pakistanensis, a new species in section Rimosae s. str. from Pakistan

Phytotaxa ◽  
2018 ◽  
Vol 348 (4) ◽  
pp. 279 ◽  
Author(s):  
ZIA ULLAH ◽  
SANA JABEEN ◽  
HABIB AHMAD ◽  
ABDUL NASIR KHALID
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Ribosomal Dna ◽  
Internal Transcribed Spacer ◽  
Morphological Characters ◽  
Nuclear Ribosomal Dna ◽  
Molecular Phylogenetic Analysis ◽  
Its Regions ◽  
Molecular Phylogenetic ◽  
A New Species

Inocybe pakistanensis is described and illustrated as a new species based on morphological characters and molecular phylogenetic analysis of nuclear ribosomal DNA including the internal transcribed spacer (ITS) regions along with larger subunit (LSU). The distinctive basidiomata have a highly rimose and fibrillose golden brown pileus with a reddish brown, prominent umbo; ellipsoid to amygdaliform, slightly phasoeliform smooth basidiospores; and clamped septa in all the tissues. Molecular phylogenetic analysis supports the placement of I. pakistanensis in section Rimosae s. str.

­Phylogenetic Analysis of the Genus Pohlia (Bryophyta, Bryaceae) Using Chloroplast and Nuclear Ribosomal DNA

Phytotaxa ◽  
2018 ◽  
Vol 351 (2) ◽  
pp. 141 ◽  
Author(s):  
JING-YUAN NIU ◽  
☆LIN LI Li ◽  
SHUO SHI ◽  
HUI LI ◽  
XIAO-RUI WANG ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Ribosomal Dna ◽  
Future Study ◽  
Nuclear Ribosomal Dna ◽  
Molecular Phylogenetic Analysis ◽  
Monophyletic Clade ◽  
Molecular Phylogenetic ◽  
High Support

The genus Pohlia Hedwig is a large moss genus that has been placed in the Bryaceae family as traditionally determined. However, a molecular phylogenetic analysis has indicated that the Pohlia genus is more closely related to genera that are traditionally classified into the Mniaceae or Mielichhoferiaceae families. In this study, we performed a molecular phylogenetic analysis using evidence from four chloroplast regions (atpB-rbcL, rps4, trnG, and trnL-trnF) and one nuclear ribosomal intragenic spacer region (ITS) using different methods (maximum parsimony, maximum likelihood, and Bayesian inference). The phylogenetic relationships between Pohlia and its related genera are discussed.         Two large clades among our samples were well supported in all of the datasets. The traditionally defined Bryaceae species, including Brachymenium pendulum, Bryum caespiticium, Bryum capillare, Anomobryum gemmigerum, and Rhodobryum ontariense, formed a monophyletic clade with high support. The second clade corresponding to the Mielichhoferiaceae-Mniaceae complex also had high support. All of the Pohlia, Mielichhoferia and Mniaceae samples were included in this latter clade.         The clearest result from the phylogenetic analysis is that the Pohlia genus is non-monophyletic. The analysis is identical when using three methods and concludes that Pohlia is closer to the genera in Mielichhoferiaceae and Mniaceae. A formal taxonomic treatment of this clade was not performed because we lacked sufficient specimens of the species, although this work will be included in a future study.

A new species of Ophiocordyceps (Ophiocordycipitaceae) from Mizoram, India

Phytotaxa ◽  
2021 ◽  
Vol 500 (1) ◽  
pp. 11-20
Author(s):  
ZOHMANGAIHA CHAWNGTHU ◽  
JOSIAH MC VABEIKHOKHEI ◽  
RITA ZOMUANPUII ◽  
SURAJIT DE MANDAL ◽  
JOHN ZOTHANZAMA
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Elongation Factor ◽  
Morphological Characters ◽  
Internal Transcribed Spacers ◽  
Paper Wasp ◽  
Molecular Phylogenetic Analysis ◽  
Translation Elongation ◽  
Molecular Phylogenetic ◽  
A New Species

Ophiocordyceps mizoramensisis described as a new species from Mizoram by using a combination of morphological and molecular phylogenetic analysis. The molecular phylogenetic analysis include both the subunits (LSU and SSU), the internal transcribed spacers (ITS1 and ITS2) with the 5.8S gene region, along with Tef (Translation elongation factor). The new species Ophiocordyceps mizoramensis, differs from other closely related species based on molecular phylogenetic relationships, genetic distance, and minor morphological characters related to sexual structures. The entomopathogenic Ophiocordyceps mizoramensis infected the host Polistes olivaceus (paper wasp) causing death to the whole colony of the hive.

Twenty-six new species of Saussurea (Asteraceae, Cardueae) from the Qinghai-Tibetan Plateau and adjacent regions

Phytotaxa ◽  
2015 ◽  
Vol 213 (3) ◽  
pp. 159 ◽  
Author(s):  
Yousheng Chen ◽  
Qian Yuan
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Tibetan Plateau ◽  
Chloroplast Dna ◽  
Ribosomal Dna ◽  
Internal Transcribed Spacer ◽  
Nuclear Ribosomal Dna ◽  
Molecular Phylogenetic Analysis ◽  
Molecular Tree ◽  
Molecular Phylogenetic

Twenty-six new species of Saussurea (Asteraceae, Cardueae) from the Qinghai-Tibetan Plateau and adjacent regions are described and illustrated. Our molecular phylogenetic analysis based on the nuclear ribosomal DNA internal transcribed spacer (ITS) and two chloroplast DNA fragments (trnL-F and psbA-trnH) has shown that most of the new species are well recognized in the molecular tree, with their taxonomic affinities also largely revealed.

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