Exophiala pseudooligosperma sp. nov., a novel black yeast from soil in southern China

2021 ◽  
Vol 71 (11) ◽  
Author(s):  
Xiao-qian Yang ◽  
Man-yao Feng ◽  
Ze-fen Yu
Keyword(s):  
Internal Transcribed Spacer ◽  
Fungal Diversity ◽  
Yunnan Province ◽  
Southern China ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
Aerial Hyphae ◽  
Molecular Phylogenetic ◽  
Pr China ◽  
Soil Fungal Diversity

Exophiala is an important genus, with several species associated with infections in humans and animals. In a survey of soil fungal diversity in Yunnan province, PR China, a novel taxon, Exophiala pseudooligosperma sp. nov., was identified based on combined morphological and molecular phylogenetic features. Morphologically, this species is characterized by having torulose, septate hyphae and swollen, terminal or intercalary conidiogenous cells arising at acute angles from aerial hyphae. Phylogenetic analysis of the combined sequences of the internal transcribed spacer, the small and large nuclear subunit of the rRNA gene and part of the β-tubulin gene confirmed the phylogenetic position of the new species within the genus Exophiala.

scholarly journals An ITS-based phylogenetic framework for the genus Vorticella : finding the molecular and morphological gaps in a taxonomically difficult group

2013 ◽  
Vol 280 (1771) ◽  
pp. 20131177 ◽  
Author(s):  
Ping Sun ◽  
John C. Clamp ◽  
Dapeng Xu ◽  
Bangqin Huang ◽  
Mann Kyoon Shin ◽  
...  
Keyword(s):  
Ribosomal Rna ◽  
Phylogenetic Relationships ◽  
Internal Transcribed Spacer ◽  
Small Subunit ◽  
Rrna Gene ◽  
Ssu Rrna ◽  
Branching Order ◽  
Close Relationship ◽  
Molecular Phylogenetic ◽  
Phylogenetic Framework

Vorticella includes more than 100 currently recognized species and represents one of the most taxonomically challenging genera of ciliates. Molecular phylogenetic analysis of Vorticella has been performed so far with only sequences coding for small subunit ribosomal RNA (SSU rRNA); only a few of its species have been investigated using other genetic markers owing to a lack of similar sequences for comparison. Consequently, phylogenetic relationships within the genus remain unclear, and molecular discrimination between morphospecies is often difficult because most regions of the SSU rRNA gene are too highly conserved to be helpful. In this paper, we move molecular systematics for this group of ciliates to the infrageneric level by sequencing additional molecular markers—fast-evolving internal transcribed spacer (ITS) regions—in a broad sample of 66 individual samples of 28 morphospecies of Vorticella collected from Asia, North America and Europe. Our phylogenies all featured two strongly supported, highly divergent, paraphyletic clades (I, II) comprising the morphologically defined genus Vorticella . Three major lineages made up clade I, with a relatively well-resolved branching order in each one. The marked divergence of clade II from clade I confirms that the former should be recognized as a separate taxonomic unit as indicated by SSU rRNA phylogenies. We made the first attempt to elucidate relationships between species in clade II using both morphological and multi-gene approaches, and our data supported a close relationship between some morphospecies of Vorticella and Opisthonecta , indicating that relationships between species in the clade are far more complex than would be expected from their morphology. Different patterns of helix III of ITS2 secondary structure were clearly specific to clades and subclades of Vorticella and, therefore, may prove useful for resolving phylogenetic relationships in other groups of ciliates.

Gerhardtia sinensis (Agaricales, Lyophyllaceae), a new species and a newly recorded genus for China

Phytotaxa ◽  
2017 ◽  
Vol 332 (2) ◽  
pp. 172 ◽  
Author(s):  
TING LI ◽  
TAIHUI LI ◽  
CHAOQUN WANG ◽  
WANGQIU DENG ◽  
BIN SONG
Keyword(s):  
New Species ◽  
Related Species ◽  
Internal Transcribed Spacer ◽  
Southern China ◽  
Phylogenetic Analyses ◽  
Large Subunit ◽  
Pale Yellow ◽  
Molecular Phylogenetic ◽  
A New Species

Gerhardtia sinensis, as a new species discovered from southern China, is described, illustrated and compared with morphologically similar and phylogenetically related species. Morphologically, it is characterized by its white to yellowish or partially pale yellow pileus with faint striae, subdistant to fairly distant lamellae with intervenose veins, and slightly verruculose basidiospores (4.7–)5.2–6.2(–6.6) × (2.5–)3.0–3.4(–3.8) μm in size. Molecular phylogenetic analyses of the new species and related taxa are performed based on the sequences of nuclear ribosomal large subunit (nrLSU) and nuclear ribosomal internal transcribed spacer (ITS).

scholarly journals Identification of Medically RelevantTrichosporon Species Based on Sequences of Internal Transcribed Spacer Regions and Construction of a Database forTrichosporon Identification

1999 ◽  
Vol 37 (6) ◽  
pp. 1985-1993 ◽  
Author(s):  
Takashi Sugita ◽  
Akemi Nishikawa ◽  
Reiko Ikeda ◽  
Takako Shinoda
Keyword(s):  
Sequence Analysis ◽  
Internal Transcribed Spacer ◽  
Phylogenetic Trees ◽  
Comparative Sequence Analysis ◽  
Nucleotide Sequences ◽  
Its Sequences ◽  
Rrna Gene ◽  
Comparative Sequence ◽  
Internal Transcribed Spacer Regions ◽  
Molecular Phylogenetic

The nucleotide sequences of the internal transcribed spacer (ITS) 1 and 2 regions in the rRNA gene were determined by directly sequencing PCR-amplified fragments for all of the species (17 species and five varieties) in the genus Trichosporon. Comparative sequence analysis suggests that six medically relevant species, T. asahii, T. asteroides, T. cutaneum,T. inkin, T. mucoides, and T. ovoides, can be readily identified by their ITS sequences. In addition, the sequence analysis showed that conspecific strains have fewer than 1% nucleotide differences in the ITS 1 and 2 regions overall. Molecular phylogenetic trees are also presented.

scholarly journals Brevilactibacter Soli Sp. Nov., a Novel Member of the Genus Brevilactibacter Isolated from Soil in China

2021 ◽  
Author(s):  
Le Le Li ◽  
Jiang Yuan Zhao ◽  
Yu Geng ◽  
Yu Guang Zhou ◽  
Hui Ren Yuan ◽  
...  
Keyword(s):  
Type Strain ◽  
Yunnan Province ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Genome Data ◽  
Pr China ◽  
Diamino Acid ◽  
Sequence Similarity Analysis

Abstract A Gram-stain-positive, cocci-shaped, facultatively anaerobic, non-motile bacterial strain, designated YIM S02567T, was isolated from a forest soil sample collected from Gejiu City, Yunnan Province, south-west PR China. Growth was observed at 10–45°C, at pH 6.0-9.5, in the presence of up to 4.0 % (w/v) NaCl on R2A medium. Through the results of 16S rRNA gene sequence similarity analysis showed that strain YIM S02567T was most closely related to the type strain of Brevilactibacter sinopodophylli (95.38 %) and Propioniciclava tarda (94.67%), phylogenetic analysis based on genome data showed that strain YIM S02567T should be assigned to the genus Brevilactibacter. The cell-wall diamino acid was meso-diaminopimelic acid. The major cellular fatty acids were identified as anteiso-C15:0 and C16:0, and the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, and two unidentified glycolipids. The predominant menaquinone was MK-9(H4). The genomic DNA G + C content was 71.20 mol%. Based on the polyphasic taxonomic evidence, strain YIM S02567T is assigned to a novel member of the genus Brevilactibacter, for which the name Brevilactibacter soli sp. nov., (type strain YIM S02567T = CCTCC AB 2020128T = CGMCC 1.18504T = KCTC 49478T) is proposed.

Phylogenetic position of Coronastrum ellipsoideum and description of Parachlorella hussii sp. nov.

Biologia ◽  
2011 ◽  
Vol 66 (4) ◽  
Author(s):  
Christina Bock ◽  
Marie Pažoutová ◽  
Lothar Krienitz
Keyword(s):  
Molecular Data ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
Combined Approach ◽  
Molecular Analyses ◽  
Phylogenetic Studies ◽  
The Family ◽  
Its Rrna Gene ◽  
Molecular Phylogenetic ◽  
First Time

AbstractFollowing traditional morphological concepts, the genus Coronastrum is considered to be a rare member of the Scenedesmaceae (Chorophyceae). This classification may be called into question when molecular data are taken into account as well. Recent molecular phylogenetic studies revealed the polyphyletic origin of the family Scenedesmaceae within the Chlorophyceae and Trebouxiophyceae. In a combined approach of morphological analyses, SSU/ITS rRNA gene phylogeny and comparison of the ITS secondary structure, we analysed the systematics of Coronastrum strains available in public strain collections. Our molecular analyses revealed a new subclade within the Chlorella clade of the Chlorellaceae consisting of Coronastrum ellipsoideum, two strains with Dictyosphaerium-like morphology and one strain which fits the description of the genus Parachlorella. Four additional strains formed together a new lineage within the genus Parachlorella in the Parachlorella clade of the Chlorellaceae. These strains differ from the already known Parachlorella species in complementary base changes within the ITS2 and are here described for the first time as Parachlorella hussii sp. nov.

scholarly journals Two new scuticociliates from southern China: Uronema apomarinum sp. nov. and Homalogastra parasetosa sp. nov., with improved diagnoses of the genus Homalogastra and its type species Homalogastra setosa (Ciliophora, Oligohymenophorea)

2020 ◽  
Vol 70 (4) ◽  
pp. 2405-2419 ◽  
Author(s):  
Mingjian Liu ◽  
Lifang Li ◽  
Tengteng Zhang ◽  
Xinpeng Fan ◽  
Zhenzhen Yi ◽  
...  
Keyword(s):  
Type Species ◽  
Southern China ◽  
Phylogenetic Analyses ◽  
18S Rrna Gene ◽  
Its2 Region ◽  
Rrna Gene ◽  
Basal Bodies ◽  
Impregnation Method ◽  
Pr China

The morphology of two new scuticociliates, Uronema apomarinum sp. nov. and Homalogastra parasetosa sp. nov., isolated from a mangrove wetland in Shenzhen, PR China, was studied using live observation and the protargol impregnation method. Uronema apomarinum is characterized by a body size of about 20–35×10–15 µm in vivo, a partly two-rowed membranelle 1, and 12 or 13 somatic kineties. Homalogastra parasetosa is distinguished by a membranelle 1 comprising two longitudinal rows of basal bodies. Three Homalogastra setosa populations are suggested as subjective synonyms of the new species. Improved diagnoses of the genus Homalogastra Kahl, 1926 and its type species Homalogastra setosa Kahl, 1926 are provided. Results of phylogenetic analyses based on 18S rRNA gene and ITS1-5.8S–ITS2 region sequences indicate that U. apomarinum is most closely related to U. marinum, while the closest relative of H. parasetosa is H. setosa.

scholarly journals Proposal of Mingxiaea gen. nov. for the anamorphic basidiomycetous yeast species in the Bulleribasidium clade (Tremellales) based on molecular phylogenetic analysis, with six new combinations and four novel species

2011 ◽  
Vol 61 (1) ◽  
pp. 210-219 ◽  
Author(s):  
Qi-Ming Wang ◽  
Feng-Yan Bai ◽  
Bundit Fungsin ◽  
Teun Boekhout ◽  
Takashi Nakase
Keyword(s):  
Phylogenetic Analysis ◽  
Type Strain ◽  
Yeast Species ◽  
Novel Species ◽  
Southern China ◽  
Basidiomycetous Yeast ◽  
Molecular Phylogenetic Analysis ◽  
Rrna Gene ◽  
New Combinations ◽  
Molecular Phylogenetic

The distinction and monophyletic property of the basidiomycetous yeast species in the Bulleribasidium clade of the order Tremellales was resolved by molecular phylogenetic analysis based on the combined sequences of the 18S rRNA gene, internal transcribed spacer (ITS) region including 5.8S rRNA gene and 26S rRNA gene D1/D2 domain. The addition to the clade of new anamorphic species identified among ballistoconidium-forming yeasts isolated from China confirmed and strengthened the separation of this clade from other clades or lineages in the order Tremellales. A new anamorphic genus, Mingxiaea gen. nov. (type species Mingxiaea variabilis comb. nov.) is therefore proposed to accommodate the anamorphic species in the Bulleribasidium clade. Six new combinations are proposed for the described species of this clade which were formerly assigned to the genus Bullera. Four novel species in the new genus were identified among 16 ballistoconidium-forming yeast strains isolated from plant leaves collected in Hainan province, southern China, by D1/D2 and ITS sequence analyses. The novel species are described as Mingxiaea sanyaensis sp. nov. (type strain SY-3.23T =AS 2. 3623T =CBS 11408T), Mingxiaea hainanensis (type strain WZS-8.13T =AS 2.4161T =CBS 11409T), Mingxiaea foliicola (type strain WZS-8.14T =AS 2.3518T =CBS 11407T) and Mingxiaea wuzhishanensis (type strain WZS-29.8T =AS 2.4163T =CBS 11411T).

Hoplotylus femina s’Jacob, 1960 (Nematoda: Pratylenchidae) from Spain with molecular phylogenetic relationships inferred by D2-D3 expansion fragments of 28S and the partial 18S rRNA gene sequences

Nematology ◽  
2016 ◽  
Vol 18 (5) ◽  
pp. 559-569 ◽  
Author(s):  
Juan E. Palomares-Rius ◽  
Carolina Cantalapiedra-Navarrete ◽  
Antonio Archidona-Yuste ◽  
Pablo Castillo
Keyword(s):  
Intraspecific Variability ◽  
Original Description ◽  
Alnus Glutinosa ◽  
Morphological Characters ◽  
18S Rrna Gene ◽  
Rrna Genes ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
Likelihood Analysis ◽  
Molecular Phylogenetic

This is the first report of Hoplotylus femina in Spain. It was collected from the rhizosphere and roots of common alder (Alnus glutinosa) in La Alberca, Salamanca Province, in Spain. The morphology and morphometrics of the Spanish population of H. femina agree closely with the original description of the species and other descriptions from The Netherlands, USA, New Zealand, Poland, Japan and Mexico. Only small differences in some morphological characters were found probably due to geographical intraspecific variability and/or different methods of fixing nematodes. This study provides new molecular markers for species identification (D2-D3 expansion regions of 28S and ITS-rRNA genes) and a new phylogenetic position for the D2-D3 region marker. Maximum likelihood analysis using the Shimodaira-Hasegawa test did not support the inclusion of Radopholus and Hoplotylus in the Pratylenchidae and both genera were more related phylogenetically to Hoplolaimidae.

scholarly journals Internal transcribed spacer rRNA gene sequencing analysis of fungal diversity in Kansas City indoor environments

2014 ◽  
Vol 16 (1) ◽  
pp. 33-43 ◽  
Author(s):  
William R. Rittenour ◽  
Christina E. Ciaccio ◽  
Charles S. Barnes ◽  
Michael L. Kashon ◽  
Angela R. Lemons ◽  
...  
Keyword(s):  
Internal Transcribed Spacer ◽  
Fungal Diversity ◽  
Kansas City ◽  
Gene Sequencing ◽  
Rrna Gene ◽  
Indoor Environments ◽  
Sequencing Analysis ◽  
Rrna Gene Sequencing
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