Ecology, Evolution, Behavior and Systematics


Publications
589

Genomic evolution of the class Acidithiobacillia: deep-branching Proteobacteria living in extreme acidic conditions

Citation
Moya-Beltrán et al. (2021). The ISME Journal 15 (11)
Names
“Ambacidithiobacillus”
Abstract
AbstractMembers of the genus Acidithiobacillus, now ranked within the class Acidithiobacillia, are model bacteria for the study of chemolithotrophic energy conversion under extreme conditions. Knowledge of the genomic and taxonomic diversity of Acidithiobacillia is still limited. Here, we present a systematic analysis of nearly 100 genomes from the class sampled from a wide range of habitats. Some of these genomes are new and others have been reclassified on the basis of advanced genomic analysi

Novel taxa of Acidobacteriota implicated in seafloor sulfur cycling

Citation
Flieder et al. (2021). The ISME Journal 15 (11)
Names
Sulfomarinibacter kjeldsenii Ts Sulfomarinibacter Sulfomarinibacteraceae “Polarisedimenticola svalbardensis” “Polarisedimenticola” “Polarisedimenticolaceae” “Polarisedimenticolia” “Polarisedimenticolales”
Abstract
Abstract Acidobacteriota are widespread and often abundant in marine sediments, yet their metabolic and ecological properties are poorly understood. Here, we examined metabolisms and distributions of Acidobacteriota in marine sediments of Svalbard by functional predictions from metagenome-assembled genomes (MAGs), amplicon sequencing of 16S rRNA and dissimilatory sulfite reductase (dsrB) genes and transcripts, and gene expression analyses of tetrathionate-amended microcosms. Acido

Taxonomic note on the family Pseudonocardiaceae based on phylogenomic analysis and descriptions of Allosaccharopolyspora gen. nov. and Halosaccharopolyspora gen. nov

Citation
Teo et al. (2021). International Journal of Systematic and Evolutionary Microbiology 71 (10)
Names
Bounagaea Pseudonocardiaceae Amycolatopsis Actinoalloteichus cyanogriseus T Actinoalloteichus Actinoalloteichus caeruleus
Abstract
The taxonomic positions of members within the family Pseudonocardiaceae were assessed based on phylogenomic trees reconstructed using core-proteome and genome blast distance phylogeny approaches. The closely clustered genome sequences from the type strains of validly published names within the family Pseudonocardiaceae wer

An Improved Reference Gene for Detection of “Candidatus Liberibacter asiaticus” Associated with Citrus Huanglongbing by qPCR and Digital Droplet PCR Assays

Citation
Keremane et al. (2021). Plants 10 (10)
Names
Ca. Liberibacter asiaticus
Abstract
Citrus huanglongbing (HLB) disease associated with the ‘Candidatus Liberibacter asiaticus’ (CLas) bacterium has caused significant financial damage to many citrus industries. Large-scale pathogen surveys are routinely conducted in California to detect CLas early in the disease cycle by lab-based qPCR assays. We have developed an improved reference gene for the sensitive detection of CLas from plants in diagnostic duplex qPCR and analytical digital droplet PCR (ddPCR) assays. The mitochondrial cy

Exogenous Application of Polycationic Nanobactericide on Tomato Plants Reduces the Candidatus Liberibacter Solanacearum Infection

Citation
García-Sánchez et al. (2021). Plants 10 (10)
Names
“Liberibacter solanacearum” Liberibacter
Abstract
Candidatus Liberibacter solanacearum (CaLso) is associated with diseases in tomato crops and transmitted by the tomato psyllid Bactericera cockerelli. A polymeric water-dispersible nanobactericide (PNB) was evaluated against CaLso as a different alternative. PNB is a well-defined polycationic diblock copolymer designed to permeate into the vascular system of plants. Its assessment under greenhouse conditions was carried out with tomato plants previously infected with CaLso. Using a concentration

The status Candidatus for uncultured taxa of Bacteria and Archaea: SWOT analysis

Citation
Pallen (2021). International Journal of Systematic and Evolutionary Microbiology 71 (9)
Names
Abstract
The status Candidatus was introduced to bacterial taxonomy in the 1990s to accommodate uncultured taxa defined by analyses of DNA sequences. Here I review the strengths, weaknesses, opportunities and threats (SWOT) associated with the status Candidatus in the light of a quarter century of use, twinned with recent developments in bacterial taxonomy and sequence-based taxonomic discovery. Despite ambiguities as to its scope, philosophical objections to its use and practical problems in implementat