Draft Genome Sequence of Fusarium equiseti K3, a Fungal Species Isolated from Hexachlorocyclohexane-Contaminated Soil

Khan, Nelson; Toscan, Rodolfo Brizola; Lunayo, Accadius; Wamalwa, Benson; Muge, Edward K.; Mulaa, Francis; Kallies, René; Harms, Hauke; Wick, Lukas Y.; Rocha, Ulisses Nunes da

doi:10.1128/mra.00885-21

Cited by 3 publications

(3 citation statements)

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“…The copyright holder for this preprint this version posted October 10, 2022. ; https://doi.org/10.1101/2022.10.10.511588 doi: bioRxiv preprint sequence was described earlier (36). The fungus was not found to degrade HCH (see below).…”

Section: Organisms Media and Culture Conditionsmentioning

confidence: 87%

Mycelial nutrient transfer promotes bacterial co-metabolic organochlorine pesticide degradation in nutrient-deprived environments

Khan

Muge

Mulaa

et al. 2022

Preprint

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Biotransformation of soil organochlorine pesticides (OCP) is often impeded by a lack of nutrients relevant for bacterial growth and/or co-metabolic OCP biotransformation. By providing space-filling mycelia, fungi promote contaminant biodegradation by facilitating bacterial dispersal and the mobilization and release of nutrients in the mycosphere. We here tested whether mycelial nutrient transfer from nutrient-rich to nutrient-deprived areas facilitates bacterial OCP degradation in a nutrient-deficient habitat. The legacy pesticide hexachlorocyclohexane (HCH), a non-HCH-degrading fungus (Fusarium equiseti K3) and a co-metabolically HCH-degrading bacterium (Sphingomonas sp. S8) isolated from the same HCH-contaminated soil were used in spatially structured model ecosystems. Using 13C-labelled fungal biomass and protein-based stable isotope probing (protein-SIP), we traced the incorporation of 13C fungal metabolites into bacterial proteins while simultaneously determining the biotransformation of the HCH isomers. The relative isotope abundance (RIA, 7.1 - 14.2%), labeling ratio (LR, 0.13 - 0.35), and the shape of isotopic mass distribution profiles of bacterial peptides indicated the transfer of 13C-labeled fungal metabolites into bacterial proteins. Distinct 13C incorporation into the haloalkane dehalogenase (linB) and 2,5-dichloro-2,5-cyclohexadiene-1,4-diol dehydrogenase (LinC), as key enzymes in metabolic HCH degradation, underpin the role of mycelial nutrient transport and fungal-bacterial interactions for co-metabolic bacterial HCH degradation in heterogeneous habitats. Nutrient uptake from mycelia increased HCH removal by twofold as compared to bacterial monocultures. Fungal-bacterial interactions hence may play an important role in the co-metabolic biotransformation of OCP or recalcitrant micropollutants (MPs).

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Section: Organisms Media and Culture Conditionsmentioning

confidence: 87%

Mycelial nutrient transfer promotes bacterial co-metabolic organochlorine pesticide degradation in nutrient-deprived environments

Khan

Muge

Mulaa

et al. 2022

Preprint

Self Cite

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“…Such an assumption is further supported by the fact that Sphingobium sp. S8 [ 37 ] and Fusarium equiseti K3 [ 36 ] had been isolated from the same organochloride pesticide-contaminated soil.…”

Section: Discussionmentioning

confidence: 99%

“…The ascomycete Fusarium equiseti K3 was isolated from HCH-contaminated soil collected from a former obsolete pesticide store in Kitengela, Kenya (GPS: 01.49 S, 37.048E) and its draft genome sequence was described earlier [ 36 ]. The fungus was not found to degrade HCH (see below).…”

Section: Methodsmentioning

confidence: 99%

Mycelial nutrient transfer promotes bacterial co-metabolic organochlorine pesticide degradation in nutrient-deprived environments

et al. 2023

Self Cite

View full text Add to dashboard Cite

Biotransformation of soil organochlorine pesticides (OCP) is often impeded by a lack of nutrients relevant for bacterial growth and/or co-metabolic OCP biotransformation. By providing space-filling mycelia, fungi promote contaminant biodegradation by facilitating bacterial dispersal and the mobilization and release of nutrients in the mycosphere. We here tested whether mycelial nutrient transfer from nutrient-rich to nutrient-deprived areas facilitates bacterial OCP degradation in a nutrient-deficient habitat. The legacy pesticide hexachlorocyclohexane (HCH), a non-HCH-degrading fungus (Fusarium equiseti K3), and a co-metabolically HCH-degrading bacterium (Sphingobium sp. S8) isolated from the same HCH-contaminated soil were used in spatially structured model ecosystems. Using 13C-labeled fungal biomass and protein-based stable isotope probing (protein-SIP), we traced the incorporation of 13C fungal metabolites into bacterial proteins while simultaneously determining the biotransformation of the HCH isomers. The relative isotope abundance (RIA, 7.1–14.2%), labeling ratio (LR, 0.13–0.35), and the shape of isotopic mass distribution profiles of bacterial peptides indicated the transfer of 13C-labeled fungal metabolites into bacterial proteins. Distinct 13C incorporation into the haloalkane dehalogenase (linB) and 2,5-dichloro-2,5-cyclohexadiene-1,4-diol dehydrogenase (LinC), as key enzymes in metabolic HCH degradation, underpin the role of mycelial nutrient transport and fungal-bacterial interactions for co-metabolic bacterial HCH degradation in heterogeneous habitats. Nutrient uptake from mycelia increased HCH removal by twofold as compared to bacterial monocultures. Fungal-bacterial interactions hence may play an important role in the co-metabolic biotransformation of OCP or recalcitrant micropollutants (MPs).

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Microbial-mediated Pesticide Bioremediation: An Approach Through the OMIC Technologies

Rodríguez,

Castrejón-Godínez,

Mussali-Galante

et al. 2024

Microbial Bioremediation and Multiomics Technologies for Sustainable Development

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The worldwide use of pesticides has great benefits for agriculture. Pesticides offer crop protection from pests, enhance crop yields, and preserve the quality of agricultural products during storage, transport, and commercialization, generating great economic benefits for farmers. However, the extensive use of pesticides in agricultural activities is related to severe environmental pollution, mainly in soil and water bodies, constituting a menace to biodiversity, soil fertility, food supply, and human health. The use of biological systems such as microorganisms has been proposed as an effective approach to mitigate pesticide-related environmental pollution. Establishing effective pesticide bioremediation strategies requires considering important aspects of microbial physiology as well as deep knowledge of the cellular processes, enzymes, and metabolic pathways that drive the pesticide degradation process in microorganisms. Modern research technologies, like genomics, transcriptomics, proteomics, and metabolomics, have been applied to studying microorganisms involved in pesticide bioremediation. The present chapter describes relevant research on the use of OMIC approaches during pesticide microbial degradation. The analysis of this information gives us an overview of the pesticide biodegradation mechanisms, such as the cellular strategies employed by microorganisms to counteract the stress and cellular damage caused by pesticide exposure and the molecular mechanisms (genes, enzymes, metabolites) involved in pesticide degradation. The information generated from multi-omics approaches is very useful for establishing more effective pesticide bioremediation strategies.

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Draft Genome Sequence of Fusarium equiseti K3, a Fungal Species Isolated from Hexachlorocyclohexane-Contaminated Soil

Abstract: We present the draft genome sequence of Fusarium equiseti strain K3, a fungus isolated from a hexachlorocyclohexane (HCH)-contaminated soil (Kitengela, Kenya). The 37.88-Mb draft genome sequence consists of 206 contigs, 12,311 predicted protein-coding sequences, and 261 tRNA sequences.

Cited by 3 publications

References 28 publications

Mycelial nutrient transfer promotes bacterial co-metabolic organochlorine pesticide degradation in nutrient-deprived environments

Mycelial nutrient transfer promotes bacterial co-metabolic organochlorine pesticide degradation in nutrient-deprived environments

Mycelial nutrient transfer promotes bacterial co-metabolic organochlorine pesticide degradation in nutrient-deprived environments

Microbial-mediated Pesticide Bioremediation: An Approach Through the OMIC Technologies

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