Biodegradation of petroleum hydrocarbons and changes in microbial community structure in sediment under nitrate-, ferric-, sulfate-reducing and methanogenic conditions

Zhang, Kun; Hu, Zheng; Zeng, Feifan; Yang, Xingjian; Wang, Jinjin; Jing, Ran; Zhang, Huanni; Li, Yongtao; Zhang, Zhen

doi:10.1016/j.jenvman.2019.109425

Cited by 47 publications

(15 citation statements)

References 39 publications

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“…Of Hg found in sediment from the Hackensack River, its tidal tributaries, and upstream marsh habitats, they estimated that between 21% and 82% is contributed by Upper Berry's Creek. Zhang, Hu, et al (2019) studied PAH and n-alkane degradation rates under nitrate-, ferric-, and S-reducing and methanogenic conditions. They found that overall degradation was fastest under sulfate-reducing conditions but the greatest extent of degradation was observed for low-molecular weight PAHs and short-chain alkanes degraded under ferric-and nitrate-reducing conditions.…”

Section: Contaminant Distributionmentioning

confidence: 99%

“…Zhang, Hu, et al (2019) studied PAH and n‐alkane degradation rates under nitrate‐, ferric‐, and S‐reducing and methanogenic conditions. They found that overall degradation was fastest under sulfate‐reducing conditions but the greatest extent of degradation was observed for low‐molecular weight PAHs and short‐chain alkanes degraded under ferric‐ and nitrate‐reducing conditions.…”

Section: Assessmentmentioning

confidence: 99%

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Contaminated aquatic sediments

Jaglal¹

2020

Water Environment Research

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Jawed and Krantzberg (2019) identified best practices to follow when remediating sediment sites based on experience gained at the Randle Reef Site in Ontario, Canada. The authors identify a list of challenges to overcome that fall under a broad series of headings that include issues associated with social, regulatory, political, and technical topics. Bianchini, Cento, Guzzini, Pellegrini, and Saccani (2019) reviewed more than 150 historical articles, written over the previous 50 years, to identify alternative

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Section: Contaminant Distributionmentioning

confidence: 99%

Section: Assessmentmentioning

confidence: 99%

Contaminated aquatic sediments

Jaglal¹

2020

Water Environment Research

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“…Microorganisms employ a range of enzymes to use hydrocarbons (7,8) in oxic and anoxic conditions. Catabolism of these hydrocarbons is coupled with reduction of terminal electron acceptors such as oxygen, nitrate, sulfate, and iron or via syntrophy with methanogens (9). The discovery of hydrocarbon degrading microorganisms has traditionally relied on cultivation in the laboratory using hydrocarbon substrates (10,11).…”

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

CANT-HYD: A curated database of phylogeny-derived Hidden Markov Models for annotation of marker genes involved in hydrocarbon degradation

Khot

Zorz

Gittins

et al. 2021

Preprint

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Discovery of microbial hydrocarbon degradation pathways has traditionally relied on laboratory isolation and characterization of microorganisms. Although many metabolic pathways for hydrocarbon degradation have been discovered, the absence of tools dedicated to their annotation makes it difficult to identify the relevant genes and predict the hydrocarbon degradation potential of microbial genomes and metagenomes. Furthermore, sequence homology between hydrocarbon degradation genes and genes with other functions often results in misannotation. A tool that systematically identifies hydrocarbon metabolic potential is therefore needed. We present the Calgary approach to ANnoTating HYDrocarbon degradation genes (CANT-HYD), a database containing HMMs of 37 marker genes involved in anaerobic and aerobic degradation pathways of aliphatic and aromatic hydrocarbons. Using this database, we show that hydrocarbon metabolic potential is widespread in the tree of life and identify understudied or overlooked hydrocarbon degradation potential in many phyla. We also demonstrate scalability by analyzing large metagenomic datasets for the prediction of hydrocarbon utilization in diverse environments. To the best of our knowledge, CANT-HYD is the first comprehensive tool for robust and accurate identification of marker genes associated with aerobic and anaerobic hydrocarbon degradation.

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“…In the absence of oxygen, petroleum hydrocarbons can be biodegraded with , , and as alterative electron acceptors, which link to four typical reducing conditions [13]. In the past two decades, researchers have started to compare the performance of petroleum hydrocarbons degradation when different electron acceptors are employed, and it was indicated that the biodegradation behaviours of petroleum hydrocarbons may vary under various reducing conditions [14].…”

Section: Introductionmentioning

confidence: 99%

Anaerobic oxidation of petroleum hydrocarbons in enrichment cultures from sediments of the Gorevoy Utes natural oil seep under methanogenic and sulfate-reducing conditions

et al. 2021

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This article presents the rst experimental data on the ability of microbial communities from sediments of the Gorevoy Utes natural oil seep to degrade petroleum hydrocarbons under anaerobic conditions. Like in marine ecosystems associated with oil discharge, available electron acceptors, in particular sulfate ions, affect the composition of the microbial community and the degree of hydrocarbon conversion. The cultivation of the surface sediments under sulfate-reducing conditions led to the formation of a more diverse bacterial community and greater loss of n-alkanes (28%) in comparison to methanogenic conditions (6%). Microbial communities of both surface and deep sediments are more oriented to degrade polycyclic aromatic hydrocarbons (PAHs), to which the degree of the PAH conversion testi es (up to 46%) irrespective of the present electron acceptors. Uncultured microorganisms with the closest homologues from thermal habitats, sediments of mud volcanoes and environments contaminated with hydrocarbons mainly represented microbial communities of enrichment cultures. The members of the phyla Firmicutes, Chloro exi, and Caldiserica (OP5), as well as the class Deltaproteobacteria and Methanomicrobia, were mostly found in enrichment cultures and belong to the "core" of microorganisms The in uence of gas-saturated uids may be responsible for the presence in the bacterial 16S rRNA gene libraries of the sequences of "rare taxa": Planctomycetes, Ca. Atribacteria (OP9), Ca. Armatimonadetes (OP10), Ca. Latescibacteria (WS3), Ca. division (AC1), Ca. division (OP11), and Ca. Parcubacteria (OD1), which can be involved in hydrocarbon oxidation.

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Biodegradation of petroleum hydrocarbons and changes in microbial community structure in sediment under nitrate-, ferric-, sulfate-reducing and methanogenic conditions

Cited by 47 publications

References 39 publications

Contaminated aquatic sediments

Contaminated aquatic sediments

CANT-HYD: A curated database of phylogeny-derived Hidden Markov Models for annotation of marker genes involved in hydrocarbon degradation

Anaerobic oxidation of petroleum hydrocarbons in enrichment cultures from sediments of the Gorevoy Utes natural oil seep under methanogenic and sulfate-reducing conditions

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