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Volume 75,
Issue 11,
2025
Volume 75, Issue 11, 2025
- New Taxa
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- Pseudomonadota
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Methylobacter arcticus sp. nov. isolated from a coal mine biofilm in the high Arctic Svalbard
More LessAn aerobic methanotroph was isolated from a biofilm of coal mine Gruve 7 (Svalbard) and designated strain G7T. Cells of strain G7T were Gram-stain-negative, pink-pigmented and motile rods. Strain G7T could grow at pH 6.8 and at temperatures ranging from 4 to 21 °C. The genome size was 4.00 Mb with a (digital) DNA G+C content of 47.7 mol%. Strain G7T represents a member of the family Methylomonadaceae of the class Gammaproteobacteria. It displayed 94.6–99.7% 16S rRNA gene sequence similarity to the type strains of the genus Methylobacter. Whole-genome comparisons based on average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH) confirmed that strain G7T represents a novel species. It showed 16S rRNA gene identity of 99.7%, 91.8% ANI and 46% dDDH to the closest type strain, Methylobacter svalbardensis LS7-T4AT, with ANI and dDDH being much lower than the typically used 95 and 70% cutoffs, respectively, to delineate different species. For methane activation, strain G7T carries genes encoding particulate methane monooxygenase (pmoCAB). Also, genes of the methane utilization pathways, i.e. oxidation of methane to carbon dioxide and assimilation of methane-carbon to biomass, were encoded in the genome. Strikingly, compared to all other Methylobacter spp. strains, strain G7T did not have nitrogenase genes for nitrogen fixation. Strain G7T also possessed genes for ectoine production, which was not observed in the genomes of its closest relatives. Based on phenotypic, genetic and phylogenetic data, strain G7T represents a novel species within the genus Methylobacter for which the name Methylobacter arcticus sp. nov. is proposed, with strain G7T (DSM: 117899; LMG: 33632) as the type strain.
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Proposal of Novosphingobium mangrovisedimenti as a replacement name for the illegitimate species name Novosphingobium mangrovi Huang et al. 2023
More LessThe species epithet Novosphingobium mangrovi Huang et al. 2023 is illegitimate under Rule 51b (5) of the International Code of Nomenclature of Prokaryotes, as it is a later homonym of Novosphingobium mangrovi Hu et al. 2023. The type strains of these two species share average nucleotide identity (84.7%; <95 %) and digital DNA–DNA hybridization (21%; <70 %) values below the recommended species delineation thresholds, substantiating their positions as two distinct species. Herein, the replacement name Novosphingobium mangrovisedimenti is proposed, preserving the original meaning related to the isolation of the type strain from mangrove sediments.
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- Eukaryotic Micro-Organisms
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Zygosaccharomyces progenitor sp. nov., a new yeast species associated with bees of the genera Apis and Bombus
More LessA novel ascomycetous yeast species of the genus Zygosaccharomyces is proposed, based on isolates obtained in Japan, Portugal and the USA, and on a combination of conventional DNA barcode sequence analyses and whole-genome phylogenies. The new species is described as Zygosaccharomyces progenitor sp. nov. (PYCC 7198T) and was found in association with bees (Apis mellifera and Bombus spp.) and their honey, besides being found in plants and soil. The novel species belongs to a Zygosaccharomyces subclade that also harbours Zygosaccharomyces rouxii. Although the two species can be differentiated at the sequence level, they cannot be distinguished at the phenotypic level. As is typical of the genus, Z. progenitor sp. nov. produces spherical ascospores after cell conjugation.
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A polyphasic approach reveals Microascus luziarum (Microascales, Microascaceae), a new species from bat living in a cave in Brazil
More LessTwo strains of Scopulariopsis-like fungi were isolated from the dorsal region of a live bat (Glossophaga soricina, nectarivore species) captured inside Gruta do Arnoud, a cave in the Caatinga biome of northeastern Brazil. These isolates presented unique morphological features, and achieving a consensus identification at the species level proved to be challenging. Phylogenetic analysis, based on nucleotide sequences from the internal transcribed spacer, large subunit ribosomal RNA gene, translation elongation factor 1-alpha (tef1) and beta-tubulin (tub2) genes, confirmed that these fungi represent previously undescribed species within the genus Microascus. The new species is named Microascus luziarum URM 9260. Phylogenetically, they grouped in a clade closely related to Microascus brunneosporus, Microascus micronesiensis and Microascus chinensis, but distinct differences were observed. Morphologically, the new species could be differentiated by their distinctive characteristics, such as reduced growth on oatmeal agar medium, reaching 15 mm after 14 days at 25 °C. Microscopically, it differs in the size of the conidiophores, which are shorter and broader compared to M. brunneosporus and M. micronesiensis. Additionally, it presents globose to subglobose conidia with diameters larger than those observed in closely related species. The use of a four-marker combination was an efficient approach to support the taxonomic novelty. This discovery enhances the understanding of Microascus diversity, particularly within cave ecosystems, and emphasizes the potential for discovering new fungal species in such specialized environments.
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Vanderwaltozyma osmotolerans sp. nov., a novel ascomycetous yeast species isolated from rotting wood and soil in Japan
More LessThree yeast strains closely related to the genus Vanderwaltozyma were isolated from rotting wood (Zelkova serrata) and soil in Japan. Based on sequence analyses of the internal transcribed spacer (ITS1–5.8S–ITS2) region, the D1/D2 domain of the LSU rRNA gene and the mitochondrial COX II gene, together with physiological characterization, these isolates were determined to represent a novel species. The ITS and D1/D2 sequences of the three strains were nearly identical, differing only by a single nucleotide, and their physiological profiles were indistinguishable, supporting their conspecificity. Notably, the strains actively fermented d-glucose and d-fructose. They exhibited tolerance to high osmotic stress, being capable of growth in media containing either 10% sodium chloride with 5% glucose or up to 50% (w/v) glucose. Furthermore, under V8 agar culture conditions, they consistently produced four ascospores per ascus. Phylogenetic analyses based on ITS and LSU D1/D2 sequences clearly placed these strains within the genus Vanderwaltozyma but distinct from other known species. In addition, comparison of COX II gene sequences further supported their separation from related species. Based on these phylogenetic and phenotypic characteristics, we propose Vanderwaltozyma osmotolerans sp. nov. to accommodate these isolates. The holotype of V. osmotolerans sp. nov. is designated as NBRC 117259T.
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- Evolution, Phylogeny and Biodiversity
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Isolation of ‘Candidatus Ferrigenium straubiae’ – a microaerophilic Fe(II)-oxidizing bacterium and nitrate-reducing Fe(II)-oxidizer within the community of culture KS
More Less‘Candidatus Ferrigenium straubiae’ strain KS (KCTC 25982, DSM 118991) is a neutrophilic, Fe(II)-oxidizing bacterium representing up to 98% of the community in culture KS, the most extensively studied mixed culture known for autotrophic nitrate-reducing Fe(II) oxidation. The phylogeny and genome of this bacterium were previously analysed and identified as ‘Candidatus Ferrigenium straubiae’. In this study, we report the first-time successful isolation of ‘Candidatus Ferrigenium straubiae’ strain KS and its experimental physiological characterization. The bacterium was identified as a non-stalk-forming, rod-shaped and non-halophilic strain with a Gram-negative classification. We characterized its physiology when grown in agarose-stabilized Fe(II)-O2 gradient tubes where Fe(II) stemming from FeS functions as the electron donor and O2 as the electron acceptor. It showed growth at temperatures of 20–30 °C (optimal at 25°C) and at pH levels of 6.0–7.5 (optimal at pH 6.5–7.0). The doubling time at 20 °C and pH 6.5 was 16 h. We further optimized the gradient tubes for sustainable culture maintenance using modified Wolfe’s mineral medium (MWMM; 1 g l−1 NH4Cl) supplemented with 7-vitamin solution, SL-10 trace elements, selenite-tungstate solution and selenite-molybdate-nickel-copper-arsenic-vanadium solution (final concentrations of 10 µM Se, 10 µM Mo, 0.1 µM Ni, 0.1 µM Cu, 0.1 µM As and 5 nM V). We also evaluated several Fe(II) sources (with O2 as electron acceptor), as well as both inorganic and organic substrates for their influence on growth. Although a known member of the denitrifying community in culture KS, the isolated strain ‘Candidatus Ferrigenium straubiae’ KS exhibited exclusively microaerobic and autotrophic growth in agarose-stabilized Fe(II)-O2 gradients, utilizing Fe(II) from FeS as the electron donor.
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Phylogenomic evidence supporting the reclassification of Cedecea sulfonylureivorans within the genus Dryocola with subdivision into Dryocola clanedunensis subsp. clanedunensis comb. nov. and Dryocola clanedunensis subsp. sulfonylureivorans comb. nov.
More LessThe bacterial order Enterobacterales has recently undergone major taxonomic revisions, with several new families and genera described. Within this framework, the rare genus Cedecea and the newly proposed genus Dryocola occupy closely related positions. The present study provides a comprehensive phylogenomic, phenotypic and functional assessment of Cedecea sulfonylureivorans LAM2020T and Dryocola clanedunensis H11S18T to clarify their taxonomic relationship. Genomic relatedness indices revealed high similarity between the two type strains, with average nucleotide identity, average amino acid identity and digital DNA–DNA hybridization values exceeding established species delineation thresholds. Phylogenetic analyses based on 16S rRNA, whole genomes and core gene sets consistently placed the two strains in a robustly supported monophyletic clade. These findings were further supported by shared metabolic and phenotypic traits. Taken together, the evidence demonstrates that C. sulfonylureivorans and D. clanedunensis represent members of the same biological species. Accordingly, and in line with Rule 42 of the International Code of Nomenclature of Prokaryotes, we propose the reclassification of C. sulfonylureivorans Li et al. 2024 as a later heterotypic synonym of D. clanedunensis Maddock et al. 2023. Furthermore, we propose two subspecies within this species: D. clanedunensis subsp. clanedunensis comb. nov. and D. clanedunensis subsp. sulfonylureivorans comb. nov.
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Volumes and issues
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Volume 75 (2025)
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Volume 74 (2024)
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Volume 73 (2023)
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Volume 72 (2022 - 2023)
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Volume 71 (2020 - 2021)
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Volume 70 (2020)
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Volume 69 (2019)
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Volume 68 (2018)
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Volume 67 (2017)
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Volume 66 (2016)
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Volume 65 (2015)
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Volume 64 (2014)
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Volume 63 (2013)
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Volume 61 (2011)
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Volume 49 (1999)
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Volume 48 (1998)
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Volume 46 (1996)
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Volume 44 (1994)
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Volume 43 (1993)
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Volume 41 (1991)
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Volume 40 (1990)
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Volume 39 (1989)
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Volume 32 (1982)
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Volume 31 (1981)
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Volume 29 (1979)
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Volume 28 (1978)
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Volume 27 (1977)
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Volume 26 (1976)
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Volume 25 (1975)
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Volume 24 (1974)
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Volume 23 (1973)
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Volume 22 (1972)
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Volume 21 (1971)
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Volume 19 (1969)
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Volume 17 (1967)
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Volume 16 (1966)
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Volume 15 (1965)
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Volume 14 (1964)
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Volume 12 (1962)
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Volume 10 (1960)
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Volume 8 (1958)
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Volume 7 (1957)
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Volume 6 (1956)
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Volume 5 (1955)
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Volume 4 (1954)
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Volume 3 (1953)
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Volume 2 (1952)
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Volume 1 (1951)
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