Draft genome analysis of Dietzia sp. 111N12-1, isolated from the South China Sea with bioremediation activity

Yang, Shanjun; Yu, Mingjia; Chen, Jianming

doi:10.1016/j.bjm.2016.10.029

Cited by 10 publications

(5 citation statements)

References 14 publications

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“…At the genus level, Dietzia is an aerobic denitrifying bacterium with a strong petroleum hydrocarbon degradation activity. 45,46 It was only enriched in Rb, with a relative abundance of more than 1%, consistent with the higher DO level in Rb. It can be deduced from the major microbial communities that the higher DO level in the system with sodium succinate as the carbon source is due to more rapid COD depletion.…”

Section: Microbial Community Analysis In the Systemsupporting

confidence: 60%

Simultaneous nitrate and sulfate biotransformation driven by different substrates: comparison of carbon sources and metabolic pathways at different C/N ratios

Wang

Huang

et al. 2023

RSC Adv.

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Section: Microbial Community Analysis In the Systemsupporting

confidence: 60%

Simultaneous nitrate and sulfate biotransformation driven by different substrates: comparison of carbon sources and metabolic pathways at different C/N ratios

Wang

Huang

et al. 2023

RSC Adv.

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“…The genus Dietzia has been reported to degrade a wide range of hydrocarbons, including aliphatic, aromatic, and diesel oil [ 8 ]. Several draft/complete genomes have been reported involving the hydrocarbon degradation [ 17 , 18 , 37 ] of the genus Dietzia .…”

Section: Discussionmentioning

confidence: 99%

Assessment of the Degradation Potential and Genomic Insights towards Phenanthrene by Dietzia psychralcaliphila JI1D

et al. 2021

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Extreme marine environments are potential sources of novel microbial isolations with dynamic metabolic activity. Dietzia psychralcaliphila J1ID was isolated from sediments originated from Deception Island, Antarctica, grown over phenanthrene. This strain was also assessed for its emulsifying activity. In liquid media, Dietzia psychralcaliphila J1ID showed 84.66% degradation of phenanthrene examined with HPLC-PDA. The identification of metabolites by GC-MS combined with its whole genome analysis provided the pathway involved in the degradation process. Whole genome sequencing indicated a genome size of 4,216,480 bp with 3961 annotated genes. The presence of a wide range of monooxygenase and dioxygenase, as well as dehydrogenase catabolic genes provided the genomic basis for the biodegradation. The strain possesses the genetic compartments for a wide range of toxic aromatic compounds, which includes the benABCD and catABC clusters. COG2146, COG4638, and COG0654 through COG analysis confirmed the genes involved in the oxygenation reaction of the hydrocarbons by the strain. Insights into assessing the depletion of phenanthrene throughout the incubation process and the genetic components involved were obtained. This study indicates the degradation potential of the strain, which can also be further expanded to other model polyaromatic hydrocarbons.

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“…Nevertheless, other bacteria not associated to obligate or specific hydrocarbon degrading groups have been related to hydrocarbon degradation in marine environments, such as Bacillus ( Zhuang et al, 2002 ; Hentati et al, 2016 ), Pseudomonas, Acinetobacter ( Tarhriz et al, 2019 ), Alcanivorax , Marinobacter and Rhodococcus ( Wang W. et al, 2014 ; Catania et al, 2015 ) Dietza and Rhodococcus ( Wang W. et al, 2014 ; Yang et al, 2017 ).…”

Section: Pah Biodegradation In Midstream Activities: Consequences On mentioning

confidence: 99%

Metagenomic Insights Into the Mechanisms for Biodegradation of Polycyclic Aromatic Hydrocarbons in the Oil Supply Chain

et al. 2020

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Petroleum is a very complex and diverse organic mixture. Its composition depends on reservoir location and in situ conditions and changes once crude oil is spilled into the environment, making the characteristics associated with every spill unique. Polycyclic aromatic hydrocarbons (PAHs) are common components of the crude oil and constitute a group of persistent organic pollutants. Due to their highly hydrophobic, and their low solubility tend to accumulate in soil and sediment. The process by which oil is sourced and made available for use is referred to as the oil supply chain and involves three parts: (1) upstream, (2) midstream and (3) downstream activities. As consequence from oil supply chain activities, crude oils are subjected to biodeterioration, acidification and souring, and oil spills are frequently reported affecting not only the environment, but also the economy and human resources. Different bioremediation techniques based on microbial metabolism, such as natural attenuation, bioaugmentation, biostimulation are promising approaches to minimize the environmental impact of oil spills. The rate and efficiency of this process depend on multiple factors, like pH, oxygen content, temperature, availability and concentration of the pollutants and diversity and structure of the microbial community present in the affected (contaminated) area. Emerging approaches, such as (meta-)taxonomics and (meta-)genomics bring new insights into the molecular mechanisms of PAH microbial degradation at both single species and community levels in oil reservoirs and groundwater/seawater spills. We have scrutinized the microbiological aspects of biodegradation of PAHs naturally occurring in oil upstream activities (exploration and production), and crude oil and/or by-products spills in midstream (transport and storage) and downstream (refining and distribution) activities. This work addresses PAH biodegradation in different stages of oil supply chain affecting diverse environments (groundwater, seawater, oil reservoir) focusing on genes and pathways as well as key players involved in this process. In depth understanding of the biodegradation process will provide/improve knowledge for optimizing and monitoring bioremediation in oil spills cases and/or to impair the degradation in reservoirs avoiding deterioration of crude oil quality.

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Draft genome analysis of Dietzia sp. 111N12-1, isolated from the South China Sea with bioremediation activity

Cited by 10 publications

References 14 publications

Simultaneous nitrate and sulfate biotransformation driven by different substrates: comparison of carbon sources and metabolic pathways at different C/N ratios

Simultaneous nitrate and sulfate biotransformation driven by different substrates: comparison of carbon sources and metabolic pathways at different C/N ratios

Assessment of the Degradation Potential and Genomic Insights towards Phenanthrene by Dietzia psychralcaliphila JI1D

Metagenomic Insights Into the Mechanisms for Biodegradation of Polycyclic Aromatic Hydrocarbons in the Oil Supply Chain

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