Microbiology


Publications
891

The best of both worlds: a proposal for further integration of Candidatus names into the International Code of Nomenclature of Prokaryotes

Citation
Arahal et al. (2024). International Journal of Systematic and Evolutionary Microbiology 74 (1)
Names
Abstract
The naming of prokaryotes is governed by the International Code of Nomenclature of Prokaryotes (ICNP) and partially by the International Code of Nomenclature for Algae, Fungi and Plants (ICN). Such codes must be able to determine names of taxa in a universal and unambiguous manner, thus serving as a common language across different fields and activities. This unity is undermined when a new code of nomenclature emerges that overlaps in scope with an established, time-tested code and uses the same

A comprehensive overview of the Chloroflexota community in wastewater treatment plants worldwide

Draft Genome of Nocardia canadensis sp. nov. Isolated from Petroleum-Hydrocarbon-Contaminated Soil

Citation
Alotaibi et al. (2023). Microorganisms 11 (12)
Names
Nocardia canadensis
Abstract
The bacterial strain WB46 was isolated from the rhizosphere of willow plants (Salix purpurea L.) growing in soil contaminated with petroleum hydrocarbons. The strain was subjected to whole-genome shotgun sequencing using Illumina HiSeq. Its draft genome is 7.15 Mb, with a 69.55% GC content, containing 6387 protein-coding genes and 51 tRNA and 15 rRNA sequences. The quality and reliability of the genome were assessed using CheckM, attaining an estimated genome completeness of 98.75% and an estima

Methanomethylophilus alvi gen. nov., sp. nov., a Novel Hydrogenotrophic Methyl-Reducing Methanogenic Archaea of the Order Methanomassiliicoccales Isolated from the Human Gut and Proposal of the Novel Family Methanomethylophilaceae fam. nov

Citation
Borrel et al. (2023). Microorganisms 11 (11)
Names
Methanomethylophilus alvi T Methanomethylophilus Methanomethylophilaceae
Abstract
The methanogenic strain Mx-05T was isolated from the human fecal microbiome. A phylogenetic analysis based on the 16S rRNA gene and protein marker genes indicated that the strain is affiliated with the order Methanomassiliicoccales. It shares 86.9% 16S rRNA gene sequence identity with Methanomassiliicoccus luminyensis, the only member of this order previously isolated. The cells of Mx-05T were non-motile cocci, with a diameter range of 0.4–0.7 μm. They grew anaerobically and reduced methanol, mo

Diversity and taxonomic revision of methanogens and other archaea in the intestinal tract of terrestrial arthropods

Citation
Protasov et al. (2023). Frontiers in Microbiology 14
Names
Methanogranum gryphiswaldense Ts Methanogranum Bathycorpusculaceae Methanimicrococcus labiotermitis Methanoplasma cognatum Methanofrustulum fimipullorum Ts Methanofilum Methanolapillus Methanomicula Methanomicula labiotermitis Ts Bathycorpusculum acetigenes Ts Bathycorpusculum acidaminoxidans Bathycorpusculum grumuli Bathycorpusculum terrae Methanolapillus millepedarum Ts Methanolapillus africanus Methanimicrococcus stummii Methanimicrococcus odontotermitis Methanimicrococcus hongohii Methanimicrococcus hacksteinii Methanoplasma reticulitermitis Methanoplasma porotermitis Methanoplasma glyptotermitis Methanofrustulum Bathycorpusculum fermentans Bathycorpusculum termitum Methanorbis Methanorbis rubei Methanorbis furvi Ts Methanorbis basalitermitum Methanacia Methanacia filiformis Ts Methanarmilla Bathycorpusculum Bathycorpusculum soli Methanofilum arcanum Ts Methanocatella Methanocatella smithii Ts Methanocatella gottschalkii Methanocatella millerae Methanocatella oralis Methanocatella thaueri Methanocatella woesei Methanarmilla wolinii Ts Methanarmilla boviskoreani Methanobinarius Methanobinarius arboriphilus Ts Methanobinarius endosymbioticus Methanobaculum Methanobaculum cuticulare Ts Methanoflexus Methanoflexus curvatus Ts Methanoflexus mossambicus Methanorudis Methanovirga Methanovirga aequatorialis Methanovirga australis Methanovirga basalitermitum Ts Methanovirga meridionalis Methanovirga procula Methanolapillus ohkumae Bathycorpusculum hydrogenotrophicum Methanorudis spinitermitis Ts Methanomethylophilus alvi T
Abstract
Methane emission by terrestrial invertebrates is restricted to millipedes, termites, cockroaches, and scarab beetles. The arthropod-associated archaea known to date belong to the orders Methanobacteriales, Methanomassiliicoccales, Methanomicrobiales, and Methanosarcinales, and in a few cases also to non-methanogenic Nitrososphaerales and Bathyarchaeales. However, all major host groups are severely undersampled, and the taxonomy of existing lineages is not well developed. Full-length 16S rRNA gen

Genomic delineation and description of species and within-species lineages in the genus Pantoea

Citation
Crosby et al. (2023). Frontiers in Microbiology 14
Names
Pantoea alvi Pantoea multigeneris Pantoea floridensis Pantoea haifensis Pantoea varia Pantoea rara Pantoea gossypiicola Pantoea bituminis Pantoea deserta Pantoea formicae Pantoea soli Pantoea astica Pantoea borealis Pantoea superficialis Pantoea symbiotica Pantoea communis
Abstract
As the name of the genus Pantoea (“of all sorts and sources”) suggests, this genus includes bacteria with a wide range of provenances, including plants, animals, soils, components of the water cycle, and humans. Some members of the genus are pathogenic to plants, and some are suspected to be opportunistic human pathogens; while others are used as microbial pesticides or show promise in biotechnological applications. During its taxonomic history, the genus and its species have seen many revisions

Candidatus Kirkpatrickella diaphorinae gen. nov., sp. nov., an uncultured endosymbiont identified in a population of Diaphorina citri from Hawaii

Citation
Henry et al. (2023). International Journal of Systematic and Evolutionary Microbiology 73 (11)
Names
Ca. Carsonella ruddii Ca. Kirkpatrickella diaphorinae Ca. Profftella armatura
Abstract
Diaphorina citri is the hemipteran pest and vector of a devastating bacterial pathogen of citrus worldwide. In addition to the two core bacterial endosymbionts of D. citri, Candidatus Carsonella ruddii and Candidatus Profftella armatura, the genome of a novel endosymbiont and as of yet undescribed microbe was discovered in a Hawaiian D. citri population through deep sequencing of multiple D. citri populations. Found to be closely related to the genus