Bacillus natronophilus sp. nov., an alkaliphilic bacterium isolated from a soda lake

Menes, Rodolfo Javier; Machin, Eliana Valentina; Iriarte, Andrés; Langleib, Mauricio

doi:10.1099/ijsem.0.003792

Cited by 16 publications

(8 citation statements)

References 22 publications

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“…However, we consider this branching to be anomalous, as the genome sequence for B. natronophilus is for the type strain and its branching with species from the Aurantiacus clade is in accordance with the original publication describing this species [60]. We are proposing transfer of these species from this Aurantiacus clade into a novel genus, Alteribacter gen. nov.…”

Section: Resultsmentioning

confidence: 82%

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Robust demarcation of 17 distinct Bacillus species clades, proposed as novel Bacillaceae genera, by phylogenomics and comparative genomic analyses: description of Robertmurraya kyonggiensis sp. nov. and proposal for an emended genus Bacillus limiting it only to the members of the Subtilis and Cereus clades of species

Gupta

Patel

Saini

et al. 2020

International Journal of Systematic and Evolutionary Microbiology

762

173

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To clarify the evolutionary relationships and classification of Bacillus species, comprehensive phylogenomic and comparative analyses were performed on >300 Bacillus/Bacillaceae genomes. Multiple genomic-scale phylogenetic trees were initially reconstructed to identify different monophyletic clades of Bacillus species. In parallel, detailed analyses were performed on protein sequences of genomes to identify conserved signature indels (CSIs) that are specific for each of the identified clades. We show that in different reconstructed trees, most of the Bacillus species, in addition to the Subtilis and Cereus clades, consistently formed 17 novel distinct clades. Additionally, some Bacillus species reliably grouped with the genera Alkalicoccus, Caldalkalibacillus, Caldibacillus, Salibacterium and Salisediminibacterium . The distinctness of identified Bacillus species clades is independently strongly supported by 128 identified CSIs which are unique characteristics of these clades, providing reliable means for their demarcation. Based on the strong phylogenetic and molecular evidence, we are proposing that these 17 Bacillus species clades should be recognized as novel genera, with the names Alteribacter gen. nov., Ectobacillus gen. nov., Evansella gen. nov., Ferdinandcohnia gen. nov., Gottfriedia gen. nov., Heyndrickxia gen. nov., Lederbergia gen. nov., Litchfieldia gen. nov., Margalitia gen. nov., Niallia gen. nov., Priestia gen. nov., Robertmurraya gen. nov., Rossellomorea gen. nov., Schinkia gen. nov., Siminovitchia gen. nov., Sutcliffiella gen. nov. and Weizmannia gen. nov. We also propose to transfer ‘ Bacillus kyonggiensi s’ to Robertmurraya kyonggiensis sp. nov. (type strain: NB22=JCM 17569T=DSM 26768). Additionally, we report 31 CSIs that are unique characteristics of either the members of the Subtilis clade (containing the type species B. subtilis ) or the Cereus clade (containing B. anthracis and B. cereus ). As most Bacillus species which are not part of these two clades can now be assigned to other genera, we are proposing an emended description of the genus Bacillus to restrict it to only the members of the Subtilis and Cereus clades.

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Section: Resultsmentioning

confidence: 82%

“…Type strain: DSM 18675=CCM 7447=NCAIM B002265=K1-5. The description of this species is the same as provided by Menes et al [60] for Bacillus natronophilus.…”

Section: Description Ofmentioning

confidence: 99%

Robust demarcation of 17 distinct Bacillus species clades, proposed as novel Bacillaceae genera, by phylogenomics and comparative genomic analyses: description of Robertmurraya kyonggiensis sp. nov. and proposal for an emended genus Bacillus limiting it only to the members of the Subtilis and Cereus clades of species

Gupta

Patel

Saini

et al. 2020

International Journal of Systematic and Evolutionary Microbiology

762

173

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“…Therefore, it seems very likely that haloarchaea obtained the gene cluster via lateral transfer from a species of this phylogenetic group. Notably, Bacillaceae include halophilic species that might coexist with halophilic archaea in the same environments, e.g., Bacillus halophilus, B. salexigens, and B. natronophilus, as well as members of the genus Halobacillus and Oceanobacillus [33][34][35][36].…”

Section: Discussionmentioning

confidence: 99%

Regulated Iron Siderophore Production of the Halophilic Archaeon Haloferax volcanii

Niessen

Soppa

2020

Biomolecules

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Iron is part of many redox and other enzymes and, thus, it is essential for all living beings. Many oxic environments have extremely low concentrations of free iron. Therefore, many prokaryotic species evolved siderophores, i.e., small organic molecules that complex Fe3+ with very high affinity. Siderophores of bacteria are intensely studied, in contrast to those of archaea. The haloarchaeon Haloferax volcanii contains a gene cluster that putatively encodes siderophore biosynthesis genes, including four iron uptake chelate (iuc) genes. Underscoring this hypothesis, Northern blot analyses revealed that a hexacistronic transcript is generated that is highly induced under iron starvation. A quadruple iuc deletion mutant was generated, which had a growth defect solely at very low concentrations of Fe3+, not Fe2+. Two experimental approaches showed that the wild type produced and exported an Fe3+-specific siderophore under low iron concentrations, in contrast to the iuc deletion mutant. Bioinformatic analyses revealed that haloarchaea obtained the gene cluster by lateral transfer from bacteria and enabled the prediction of enzymatic functions of all six gene products. Notably, a biosynthetic pathway is proposed that starts with aspartic acid, uses several group donors and citrate, and leads to the hydroxamate siderophore Schizokinen.

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“…Considering the special conditions of these habitats, culture-independent techniques, especially high throughput sequencing, have become increasingly important due to the inadequacy of microbiota determination via traditional culture-based techniques. For this reason, recent studies on culture-independent microbial community have intensified on soda lakes, which are the habitat of new species as well as new gene sources 24 , 36 – 39 . Although extensive studies have been conducted on various soda lakes 1 , 7 – 9 , 11 , 25 , 40 , it is observed that no comprehensive study has been carried out regarding Lake Van.…”

Section: Discussionmentioning

confidence: 99%

Microbial community of soda Lake Van as obtained from direct and enriched water, sediment and fish samples

Omeroglu

Sudağıdan

Yurt

et al. 2021

Sci Rep

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Soda lakes are saline and alkaline ecosystems that are considered to have existed since the first geological records of the world. These lakes support the growth of ecologically and economically important microorganisms due to their unique geochemistry. Microbiota members of lakes are valuable models to study the link between community structure and abiotic parameters such as pH and salinity. Lake Van is the largest endroheic lake and in this study, bacterial diversity of lake water, sediment, and pearl mullet (inci kefali; Alburnus tarichi), an endemic species of fish which are collected from different points of the lake, are studied directly and investigated meticulously using a metabarcoding approach after pre-enrichment. Bacterial community structures were identified using Next Generation Sequencing of the 16S rRNA gene. The analysis revealed that the samples of Lake Van contain high level of bacterial diversity. Direct water samples were dominated by Proteobacteria, Cyanobacteria, and Bacteroidota, on the other hand, pre-enriched water samples were dominated by Proteobacteria and Firmicutes at phylum-level. In direct sediment samples Proteobacteria, whereas in pre-enriched sediment samples Firmicutes and Proteobacteria were determined at highest level. Pre-enriched fish samples were dominated by Proteobacteria and Firmicutes at phylum-level. In this study, microbiota members of Lake Van were identified by taxonomic analysis.

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Bacillus natronophilus sp. nov., an alkaliphilic bacterium isolated from a soda lake

Cited by 16 publications

References 22 publications

Regulated Iron Siderophore Production of the Halophilic Archaeon Haloferax volcanii

Microbial community of soda Lake Van as obtained from direct and enriched water, sediment and fish samples

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