Metataxonomic comparison between internal transcribed spacer and 26S ribosomal large subunit (LSU) rDNA gene

AbstractFour new Keratinophyton species (Ascomycota, Pezizomycotina, Onygenales), K. gollerae, K. lemmensii, K. straussii, and K. wagneri, isolated from soil samples originating from Europe (Austria, Italy, and Slovakia) are described and illustrated. The new taxa are well supported by phylogenetic analysis of the internal transcribed spacer region (ITS) region, the combined data analysis of ITS and the nuclear large subunit (LSU) rDNA, and their phenotype. Based on ITS phylogeny, within the Keratinophyton clade, K. lemmensii is clustered with K. durum, K. hubeiense, K. submersum, and K. siglerae, while K. gollerae, K. straussii and K. wagneri are resolved in a separate terminal cluster. All four new species can be well distinguished from other species in the genus based on phenotype characteristics alone. Ten new combinations are proposed for Chrysosporium species which are resolved in the monophyletic Keratinophyton clade. A new key to the recognized species is provided herein.

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Genetic diversity and biogeography in Chaetomorpha melagonium (Ulvophyceae, Cladophorales) based on internal transcribed spacer (ITS rDNA) sequences

10.26686/wgtn.12847607 ◽

2020 ◽

Author(s):

C Boedeker ◽

F Leliaert ◽

Giuseppe Zuccarello

Keyword(s):

Genetic Diversity ◽

Dna Sequences ◽

Base Pair ◽

Internal Transcribed Spacer ◽

Large Subunit ◽

Point Mutations ◽

Its Sequences ◽

The Arctic ◽

Lsu Rdna ◽

The North

© 2017 Walter de Gruyter GmbH, Berlin/Boston. Chaetomorpha melagonium is a morphologically distinct species of green algae that occurs throughout the North Atlantic, the North Pacific and the Arctic Ocean. In this study, we analyzed the intraspecific genetic diversity among 14 samples of C. melagonium from across the distribution range based on nuclear large subunit ribosomal DNA (LSU rDNA) and rDNA internal transcribed spacer (ITS) DNA sequences. All samples had identical LSU sequences. The ITS sequences had very few mutations that nevertheless divided the specimens into two groups: one included samples from Iceland, Svalbard, Massachusetts and Alaska with identical ITS sequences; members of this group differed in samples from Europe (France, Germany, Scotland, Sweden, and Wales) by three mutations (two point mutations and one five base pair indel). The European specimens had identical ITS sequences with the exception of a single sample from Brittany that differed by one base pair. The maximum ITS sequence divergence within the samples of C. melagonium was less than 0.5%. This low intraspecific variation in the frequently used highly variable ITS region is discussed in the context of past geological and climatic scenarios.

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Rhodotorula rosulata sp. nov., Rhodotorula silvestris sp. nov. and Rhodotorula straminea sp. nov., novel myo-inositol-assimilating yeast species in the Microbotryomycetes

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY ◽

10.1099/ijs.0.016303-0 ◽

2010 ◽

Vol 60 (10) ◽

pp. 2501-2506 ◽

Cited By ~ 6

Author(s):

Wladyslav I. Golubev ◽

Gloria Scorzetti

Keyword(s):

New Species ◽

Internal Transcribed Spacer ◽

Type Strain ◽

Yeast Species ◽

Novel Species ◽

Its Region ◽

Lsu Rdna ◽

Rdna Gene ◽

Physiological Characterization ◽

Needle Litter

Three novel species are described as Rhodotorula rosulata sp. nov. (type strain VKM Y-2962T =CBS 10977T), Rhodotorula silvestris sp. nov. (type strain VKM Y-2971T =CBS 11420T) and Rhodotorula straminea sp. nov. (type strain VKM Y-2964T =CBS 10976T) based on the study of eight isolates from needle litter. The new species, phylogenetically located within the Microbotryomycetes, are related to glucuronate-assimilating species of the genus Rhodotorula. Sequencing of the D1/D2 domains of the LSU rDNA gene and the internal transcribed spacer (ITS) region, as well as physiological characterization, revealed their distinct taxonomic positions.

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Four new Keratinophyton species (Onygenaceae) from Europe

10.21203/rs.3.rs-74808/v2 ◽

2021 ◽

Author(s):

Roman Labuda ◽

Andreas Bernreiter ◽

Doris Hochenauer ◽

Alena Kubátová ◽

Hazal Kandemir ◽

...

Keyword(s):

Internal Transcribed Spacer ◽

Large Subunit ◽

Its Region ◽

Soil Samples ◽

Lsu Rdna ◽

Internal Transcribed Spacer Region ◽

Its Phylogeny ◽

Asexual Morphs ◽

Combined Data ◽

Terminal Cluster

Abstract Four new Keratinophyton species (Ascomycota, Pezizomycotina, Onygenales), K. gollerae, K. lemmensii, K. straussii and K. wagneri, isolated from soil samples originating from Europe (Austria, Italy and Slovakia) are described and illustrated. The new taxa are well supported by phylogenetic analysis of the internal transcribed spacer region (ITS) region, the combined data analysis of ITS and the nuclear large subunit (LSU) rDNA, and their phenotype. Based on ITS phylogeny, within the Keratinophyton clade, K. lemmensii is clustered with K. durum, K. hubeiense, K. submersum and K. siglerae, while K. gollerae, K. straussii and K. wagneri are resolved in a separate terminal cluster. All four new species can be well distinguished from other asexual morphs in the genus Keratinophyton based on phenotypical characteristics alone. Ten new combinations are proposed for Chrysosporium asexual morphs which are resolved in the monophyletic Keratinophyton clade.

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Four New Keratinophyton Species (Onygenaceae) From Europe

10.21203/rs.3.rs-74808/v1 ◽

2020 ◽

Author(s):

Roman Labuda ◽

Andreas Bernreiter ◽

Doris Hochenauer ◽

Christoph Schüller ◽

Alena Kubatova

Keyword(s):

Internal Transcribed Spacer ◽

Large Subunit ◽

Its Region ◽

Soil Samples ◽

The Other ◽

Lsu Rdna ◽

New Combinations ◽

Internal Transcribed Spacer Region ◽

Asexual Morphs ◽

Terminal Cluster

Abstract Four new Keratinophyton species (Ascomycota: Pezizomycotina, Onygenales), K. gollerae, K. lemmensii, K. straussii and K. wagneri, isolated from soil samples originating from Europe (Austria, Italy and Slovakia) are described and illustrated. The new taxa are well supported by phylogenetic analysis of the internal transcribed spacer region (ITS) region, the nuclear large subunit (LSU) rDNA, and their phenotype. Within the Keratinophyton clade, K. lemmensii is clustered with K. durum, K. hubeiense, K. submersum and K. siglerae, while K. gollerae, K. straussii and K. wagneri are resolved in a separate terminal cluster along with K. minutisporosum. All four new species can be well distinguished from the other asexual taxa in the genus Keratinophyton based on phenotypical characteristics alone. Ten new combinations are proposed for all other Chrysosporium asexual morphs which are resolved in the monophyletic Keratinophyton clade.

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Morph-molecular characterization of Meira nicotianae sp. nov., a novel basidiomycetous, anamorphic yeast-like fungus associated with growth improvement in tobacco plant

Phytotaxa ◽

10.11646/phytotaxa.365.2.4 ◽

2018 ◽

Vol 365 (2) ◽

pp. 169 ◽

Cited By ~ 1

Author(s):

YICHEN CAO ◽

PU-DONG LI ◽

JIAMIN ZHAO ◽

HONG-KAI WANG ◽

RAJESH JEEWON ◽

...

Keyword(s):

Novel Species ◽

Tobacco Plant ◽

Large Subunit ◽

Guizhou Province ◽

Lsu Rdna ◽

Scanning Electron Micrographs ◽

The Novel ◽

Rdna Gene ◽

Anamorphic Yeast ◽

Sequence Region

A novel yeast-like species was isolated from the rhizosphere of tobacco root collected in Guizhou province, China. Sequence analysis of the large subunit (LSU) rDNA gene indicates that the isolate represents a novel species and most closely related to Meira siamensis. The phylogenetic analysis based on the Internal Transcribed Spacer (ITS) rDNA gene also confirmed the placement of the novel species within Meira. However, the novel species differs from M. siamensis by 9.1% bp difference in the LSU rDNA sequence region and also in terms of physiological characteristics as compared to other species. This species is proposed as M. nicotianae sp. nov. Co-incubation of M. nicotianae strain CY-1 and tobacco plantlets demonstrates that this fungal strain can promote growth of tobacco plant. Scanning electron micrographs and other morphological illustrations along with phylogenies are presented in this paper.

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Genetic diversity and biogeography in Chaetomorpha melagonium (Ulvophyceae, Cladophorales) based on internal transcribed spacer (ITS rDNA) sequences

10.26686/wgtn.12847607.v1 ◽

2020 ◽

Author(s):

C Boedeker ◽

F Leliaert ◽

Giuseppe Zuccarello

Keyword(s):

Genetic Diversity ◽

Dna Sequences ◽

Base Pair ◽

Internal Transcribed Spacer ◽

Large Subunit ◽

Point Mutations ◽

Its Sequences ◽

The Arctic ◽

Lsu Rdna ◽

The North

© 2017 Walter de Gruyter GmbH, Berlin/Boston. Chaetomorpha melagonium is a morphologically distinct species of green algae that occurs throughout the North Atlantic, the North Pacific and the Arctic Ocean. In this study, we analyzed the intraspecific genetic diversity among 14 samples of C. melagonium from across the distribution range based on nuclear large subunit ribosomal DNA (LSU rDNA) and rDNA internal transcribed spacer (ITS) DNA sequences. All samples had identical LSU sequences. The ITS sequences had very few mutations that nevertheless divided the specimens into two groups: one included samples from Iceland, Svalbard, Massachusetts and Alaska with identical ITS sequences; members of this group differed in samples from Europe (France, Germany, Scotland, Sweden, and Wales) by three mutations (two point mutations and one five base pair indel). The European specimens had identical ITS sequences with the exception of a single sample from Brittany that differed by one base pair. The maximum ITS sequence divergence within the samples of C. melagonium was less than 0.5%. This low intraspecific variation in the frequently used highly variable ITS region is discussed in the context of past geological and climatic scenarios.

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Morphology and Phylogeny of Scrippsiella precaria Montresor & Zingone (Thoracosphaerales, Dinophyceae) from Korean Coastal Waters

Journal of Marine Science and Engineering ◽

10.3390/jmse9020154 ◽

2021 ◽

Vol 9 (2) ◽

pp. 154

Author(s):

Hyun Jung Kim ◽

Zhun Li ◽

Nam Seon Kang ◽

Haifeng Gu ◽

Daekyung Kim ◽

...

Keyword(s):

Coastal Waters ◽

Internal Transcribed Spacer ◽

Large Subunit ◽

Coastal Sediments ◽

Lsu Rdna ◽

Spine Length ◽

Korean Waters ◽

Rdna Sequences ◽

Resting Cysts ◽

Scanning Electron

The dinoflagellate genus Scrippsiella is a common member of phytoplankton and their cysts are also frequently reported in coastal sediments worldwide. However, the diversity of Scrippsiella in Korean waters has not been fully investigated. Here, several isolates of Scrippsiella precaria collected from Korean waters and germinated from resting cysts were examined using light and scanning electron microscopy. The resting cysts were characterized by pointed calcareous spines and one or two red accumulation bodies, and the archeopyle was mesoepicystal, representing the loss of 2–4′ and 1–3a paraplates. Rounded resting cysts were found in culture, and an increase in spine length was observed until 8 days of development. Korean isolates of S. precaria had the plate formula of Po, X, 4′, 3a, 7″, 6C, 4S, 5‴, 2⁗. There were differences in the cell size and location of the red body between Korean isolates and previously described cells of S. precaria. In addition, the Korean isolates of S. precaria had two types of the 5″ plate that either contacted the 2a plate or not. Molecular phylogeny based on internal transcribed spacer (ITS) and large subunit (LSU) rDNA sequences revealed that the Korean isolates were nested within the subclade of PRE (S. precaria and related species) in the clade of Scrippsiella sensu lato, and that the PRE subclade had two ribotypes: ribotype 1 consisting of the isolates from Korea, China, and Australia, and ribotype 2 consisting of the isolates from Italy and Greece. Lineages between isolates of ribotype 1 were likely to be related to the dispersal by ocean currents and ballast waters from international shipping, and the two types of spine shapes and locations of the 5″ plates may be a distinct feature for ribotype 1.

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Cryptococcus rajasthanensis sp. nov., an anamorphic yeast species related to Cryptococcus laurentii, isolated from Rajasthan, India

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY ◽

10.1099/ijs.0.64543-0 ◽

2007 ◽

Vol 57 (2) ◽

pp. 414-418 ◽

Cited By ~ 11

Author(s):

Puja Saluja ◽

G. S. Prasad

Keyword(s):

Large Subunit ◽

Its Region ◽

Molecular Data ◽

Lsu Rdna ◽

Cryptococcus Laurentii ◽

The Novel ◽

D2 Domain ◽

Its Regions ◽

Anamorphic Yeast ◽

Physiological Tests

Two novel anamorphic yeast strains (S-15LT and 3-C1) were isolated from the inflorescences of plants collected in two different towns in Rajasthan State, India. Sequencing of the D1/D2 domains of the large-subunit (LSU) rDNA and the internal transcribed spacer (ITS) regions suggested they are strains of the same species. Phenotypic characteristics such as the absence of fermentation, the absence of sexual structures and ballistoconidia, the assimilation of myo-inositol and d-glucuronate, and positive Diazonium blue B and urease reactions indicated that these strains belong to the genus Cryptococcus. The novel strains differed from Cryptococcus laurentii in six physiological tests and differed from other related species in more than six tests. A phylogenetic analysis of the sequences of the D1/D2 domains of the LSU rDNA and the ITS regions placed these strains in the Bulleromyces clade within the order Tremellales, with C. laurentii as their closest described relative. The novel strains showed 1.6 and 7.5 % divergence in the D1/D2 domain of the LSU rDNA and ITS regions, respectively, with respect to C. laurentii. The divergence from other species was more than 3 % for the D1/D2 domain and more than 9 % for the ITS region. On the basis of the phenotypic and molecular data, strains S-15LT and 3-C1 represent a novel species within the genus Cryptococcus, for which the name Cryptococcus rajasthanensis sp. nov. is proposed. The type strain is S-15LT (=MTCC 7075T=CBS 10406T).

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Morphometrics and molecular analysis ofOzolaimus linstowin. sp. (Oxyuroidea: Pharyngodonidae) from the green lizardIguana iguana

Journal of Helminthology ◽

10.1017/s0022149x15000061 ◽

2015 ◽

Vol 90 (2) ◽

pp. 186-198 ◽

Cited By ~ 2

Author(s):

S.V. Malysheva

Keyword(s):

Body Size ◽

Large Subunit ◽

Buccal Capsule ◽

Small Subunit ◽

Present Species ◽

Lsu Rdna ◽

Adult Males ◽

Spicule Length ◽

Males And Females ◽

Characteristic Features

AbstractOzolaimus linstowin. sp. is described from the large intestine ofIguana iguanaLinnaeus, 1758 from Mexico. The present species can be easily distinguished fromO. megatyphlonandO. cirratusby the presence of a long and slender pharynx not divided into sections, more similar to the remaining two species,O. monhysteraandO. ctenosauri. Ozolaimus linstowin. sp. can be differentiated fromO. monhysteraby the shorter spicule length and smaller body size of both males and females. Males ofO. linstowin. sp. are morphologically close to those ofO. ctenosauri, but females possess a markedly smaller body size and differ in the organization of the oral cuticular armature. Adult males ofO. linstowin. sp. bear some characteristic features of the J3 juvenile morphology in terms of the cuticular organization of the oral and buccal capsule. Phylogenetic analysis ofO.linstowin. sp. using partial small subunit (SSU) and D2–D3 large subunit (LSU) rDNA shows relationships with several Oxyuridae genera.

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