Mesorhizobium tamadayense MM3441: A novel methylotroph with a great potential in degrading N,N′-dimethylformamide

Dhar, Kartik; Subashchandrabose, Suresh R.; Venkateswarlu, Kadiyala; Megharaj, Mallavarapu

doi:10.1016/j.ibiod.2020.105045

Cited by 20 publications

(16 citation statements)

References 43 publications

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“…In this regard, our results further strengthen our recent statement that when isolating xenobiotic degraders, the presence of the carrier solvent should not be ignored (26). For instance, Mesorhizobium tamadayense MM3441 was initially enriched and isolated to degrade pyrene with DMF as the carrier solvent (22), however it is also able to degrade DMF. The 28 MAGs harboring genes encoding DMFase included in this study were also enriched to degrade other xenobiotic compounds in the presence of DMF (27).…”

Section: Discussionmentioning

confidence: 99%

“…The 28 MAGs harboring genes encoding DMFase included in this study were also enriched to degrade other xenobiotic compounds in the presence of DMF (27). DMF should be cautiously used as carrier solvent for enriching microbial cultures to degrade other xenobiotic compounds due to it may result in the co-selection of other bacteria which are capable of utilizing DMF as substrates and/or the target xenobiotic compounds (22, 26).…”

Section: Discussionmentioning

confidence: 99%

“…Various physicochemical methods have been investigated to remove DMF from wastewater, including photocatalytic oxidation (8,9), plasma oxidation (10), catalytic wet oxidation (11,12), physical adsorption (13,14), membrane separation (15,16), and chemical extraction (17). Microbial degradation is considered to be a superior alternative as it is economical, eco-friendly, and highly efficient (18)(19)(20)(21)(22). So far, limited bacterial isolates are capable of utilizing DMF as the sole carbon and nitrogen source, including members of Paracoccus, Methylobacterium, Mesorhizobium, Ochrobactrum, Alcaligenes, Pseudomonas, Mycobacterium, and Bacillus (Table 1).…”

Section: Introductionmentioning

confidence: 99%

“…Therefore, most of the studies have been centered on the aerobic degradation of DMF. Nevertheless, a capability of DMF degraders to conduct denitrification would offer additional advantage for removal of DMF in environments with low oxygen availability (22). Anaerobic degradation of DMF is possible for denitrifiers, utilizing nitrate as an electron acceptor.…”

Section: Introductionmentioning

confidence: 99%

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Genomics-informed insights into microbial degradation ofN,N-dimethylformamide

Dijkstra

et al. 2021

Preprint

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Effective degradation of N,N-Dimethylformamide (DMF) is challenging as only few bacterial isolates are known to be capable of degrading DMF. Here, we analyzed 20,762 complete genomes and 28 constructed draft genomes for the genes associated with DMF degradation. We identified 952 genomes that harbor genes involved in DMF degradation, expanding the known diversity of prokaryotes with these metabolic capabilities. Our findings suggest horizontal acquisition of DMF-degrading gene via plasmids are important in the order Rhizobiales and genus Paracoccus, but not most other lineages. Degradation pathway analysis reveals that most putative DMF degraders using aerobic Pathway I will accumulate the methylamine (MA) intermediate, while members of the Paracoccus, Rhodococcus, Achromobacter, and Pseudomonas genera could potentially mineralize DMF completely under the aerobic condition. The aerobic DMF degradation via Pathway II is more common than thought and is primarily present in α-, β-Proteobacteria and Actinobacteria classes. Most putative DMF degraders could grow with supplied nitrate anaerobically (Pathway III), however, genes for the use of compound methyl-CoM to produce methane were not found in selected genomes. These analyses suggest that microbial consortia could be more advantageous in DMF degradation than pure culture, particularly for methane production under the anaerobic condition. The identified genomes form an important foundation for optimizing DMF degradation and have important applications for the bioremediation of DMF-containing wastewaters.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Genomics-informed insights into microbial degradation ofN,N-dimethylformamide

Dijkstra

et al. 2021

Preprint

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“…Methylotrophs have been found to be promising in applications for both industrial and environmental biotechnology, including the synthesis of biofuels and biofertilizers, production of value-added metabolites, and toxin bioremediation [10][11][12][13][14][15][16]. Methylotrophs have many advantages in terms of biomass productivity and metabolic efficiency [10,11,[17][18][19].…”

Section: Introductionmentioning

confidence: 99%

Adaption and Degradation Strategies of Methylotrophic 1,4-Dioxane Degrading Strain Xanthobacter sp. YN2 Revealed by Transcriptome-Scale Analysis

Wang

Yang

et al. 2021

IJMS

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Biodegradation of 1,4-dioxane (dioxane) contamination has gained much attention for decades. In our previous work, we isolated a highly efficient dioxane degrader, Xanthobacter sp. YN2, but the underlying mechanisms of its extraordinary degradation performance remained unresolved. In this study, we performed a comparative transcriptome analysis of YN2 grown on dioxane and citrate to elucidate its genetic degradation mechanism and investigated the transcriptomes of different dioxane degradation stages (T0, T24, T48). We also analyzed the transcriptional response of YN2 over time during which the carbon source switched from citrate to dioxane. The results indicate that strain YN2 was a methylotroph, which provides YN2 a major advantage as a pollutant degrader. A large number of genes involved in dioxane metabolism were constitutively expressed prior to dioxane exposure. Multiple genes related to the catabolism of each intermediate were upregulated by treatment in response to dioxane. Glyoxylate metabolism was essential during dioxane degradation by YN2, and the key intermediate glyoxylate was metabolized through three routes: glyoxylate carboligase pathway, malate synthase pathway, and anaplerotic ethylmalonyl–CoA pathway. Genes related to quorum sensing and transporters were significantly upregulated during the early stages of degradation (T0, T24) prior to dioxane depletion, while the expression of genes encoding two-component systems was significantly increased at late degradation stages (T48) when total organic carbon in the culture was exhausted. This study is the first to report the participation of genes encoding glyoxalase, as well as methylotrophic genes xoxF and mox, in dioxane metabolism. The present study reveals multiple genetic and transcriptional strategies used by YN2 to rapidly increase biomass during growth on dioxane, achieve high degradation efficiency and tolerance, and adapt to dioxane exposure quickly, which provides useful information regarding the molecular basis for efficient dioxane biodegradation.

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