Oxalate utilisation is widespread in the actinobacterial genus Kribbella

Robertson, Caroline F. M.; Meyers, Paul R.

doi:10.1016/j.syapm.2022.126373

Cited by 7 publications

(2 citation statements)

References 41 publications

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“…Conservation of these residues ranged from 0 to 96%. However, a gene sequenced from Kribbella albertanoniae (the only Actinobacteria sequence on this tree), recently confirmed to be an aerobic oxalotroph that utilizes the OXLT enzyme ( Bravo et al, 2013 ; Robertson and Meyers, 2022 ), showed conservation of only four of these 12 residues. Hence, we suspect that there may be greater variation in OXLT-encoding sequences than other key genes involved in oxalotrophy, and assessments of key residue conservation and subsequent conclusions about enzyme function in these organisms require more data of existing oxlT genotypes.…”

Section: Resultsmentioning

confidence: 93%

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Expanding the taxonomic and environmental extent of an underexplored carbon metabolism—oxalotrophy

Sonke

Trembath‐Reichert

2023

Front. Microbiol.

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Oxalate serves various functions in the biological processes of plants, fungi, bacteria, and animals. It occurs naturally in the minerals weddellite and whewellite (calcium oxalates) or as oxalic acid. The environmental accumulation of oxalate is disproportionately low compared to the prevalence of highly productive oxalogens, namely plants. It is hypothesized that oxalotrophic microbes limit oxalate accumulation by degrading oxalate minerals to carbonates via an under-explored biogeochemical cycle known as the oxalate-carbonate pathway (OCP). Neither the diversity nor the ecology of oxalotrophic bacteria is fully understood. This research investigated the phylogenetic relationships of the bacterial genes oxc, frc, oxdC, and oxlT, which encode key enzymes for oxalotrophy, using bioinformatic approaches and publicly available omics datasets. Phylogenetic trees of oxc and oxdC genes demonstrated grouping by both source environment and taxonomy. All four trees included genes from metagenome-assembled genomes (MAGs) that contained novel lineages and environments for oxalotrophs. In particular, sequences of each gene were recovered from marine environments. These results were supported with marine transcriptome sequences and description of key amino acid residue conservation. Additionally, we investigated the theoretical energy yield from oxalotrophy across marine-relevant pressure and temperature conditions and found similar standard state Gibbs free energy to “low energy” marine sediment metabolisms, such as anaerobic oxidation of methane coupled to sulfate reduction. These findings suggest further need to understand the role of bacterial oxalotrophy in the OCP, particularly in marine environments, and its contribution to global carbon cycling.

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Section: Resultsmentioning

confidence: 93%

“…Types II, III, and V may all rely on an oxalate:formate antiporter, encoded by the oxlT gene. oxlT is thought to mediate transmembrane uptake of oxalate, which has been identified in fungi and many anaerobic bacteria, but only two strains of aerobic bacteria ( Fu et al, 2001 ; Müller et al, 2016 ; Robertson and Meyers, 2022 ).…”

Section: Introductionmentioning

confidence: 99%

Expanding the taxonomic and environmental extent of an underexplored carbon metabolism—oxalotrophy

Sonke

Trembath‐Reichert

2023

Front. Microbiol.

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Role of oxalic acid in fungal and bacterial metabolism and its biotechnological potential

Grąz

2024

World J Microbiol Biotechnol

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Oxalic acid and oxalates are secondary metabolites secreted to the surrounding environment by fungi, bacteria, and plants. Oxalates are linked to a variety of processes in soil, e.g. nutrient availability, weathering of minerals, or precipitation of metal oxalates. Oxalates are also mentioned among low-molecular weight compounds involved indirectly in the degradation of the lignocellulose complex by fungi, which are considered to be the most effective degraders of wood. The active regulation of the oxalic acid concentration is linked with enzymatic activities; hence, the biochemistry of microbial biosynthesis and degradation of oxalic acid has also been presented. The potential of microorganisms for oxalotrophy and the ability of microbial enzymes to degrade oxalates are important factors that can be used in the prevention of kidney stone, as a diagnostic tool for determination of oxalic acid content, as an antifungal factor against plant pathogenic fungi, or even in efforts to improve the quality of edible plants. The potential role of fungi and their interaction with bacteria in the oxalate-carbonate pathway are regarded as an effective way for the transfer of atmospheric carbon dioxide into calcium carbonate as a carbon reservoir.

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Dynamic analysis of microbial community, flavor components of low-salt fermented red pepper sauce and exploring the key flavours formation

Li,

Wang,

Tian

et al. 2023

Food Bioscience

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Oxalate utilisation is widespread in the actinobacterial genus Kribbella

Cited by 7 publications

References 41 publications

Expanding the taxonomic and environmental extent of an underexplored carbon metabolism—oxalotrophy

Expanding the taxonomic and environmental extent of an underexplored carbon metabolism—oxalotrophy

Role of oxalic acid in fungal and bacterial metabolism and its biotechnological potential

Dynamic analysis of microbial community, flavor components of low-salt fermented red pepper sauce and exploring the key flavours formation

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