Improvement of RNA-SIP by pyrosequencing to identify putative 4-n-nonylphenol degraders in activated sludge

Zemb, Olivier; Lee, M.; Gutierrez-Zamora, Maria-Luisa; Hamelin, Jérôme; Coupland, Kirsten; Hazrin-Chong, Nur Hazlin; Taleb, I.; Manefield, Mike

doi:10.1016/j.watres.2011.10.047

Cited by 25 publications

(19 citation statements)

References 35 publications

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“…Microbacteriaceae remained below 5% and their abundance did not increase with time during incubations, while frequencies increase by nearly 500% in heavy SIP fractions from surface seawater incubations. Similar observations have been reported elsewhere (Zemb et al, 2012), and indicate that some bacteria can be highly enriched in 13 C, but they may represent only a small proportion of the overall community. These rare bacteria may have long generation time with 10s of hour or more (Brock, 1971).…”

Section: Discussionsupporting

confidence: 90%

Different Bacterial Communities Involved in Peptide Decomposition between Normoxic and Hypoxic Coastal Waters

2017

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Proteins and peptides are key components of the labile dissolved organic matter pool in marine environments. Knowing which types of bacteria metabolize peptides can inform the factors that govern peptide decomposition and further carbon and nitrogen remineralization in marine environments. A 13C-labeled tetrapeptide, alanine-valine-phenylalanine-alanine (AVFA), was added to both surface (normoxic) and bottom (hypoxic) seawater from a coastal station in the northern Gulf of Mexico for a 2-day incubation experiment, and bacteria that incorporated the peptide were identified using DNA stable isotope probing (SIP). The decomposition rate of AVFA in the bottom hypoxic seawater (0.018–0.035 μM h-1) was twice as fast as that in the surface normoxic seawater (0.011–0.017 μM h-1). SIP experiments indicated that incorporation of 13C was highest among the Flavobacteria, Sphingobacteria, Alphaproteobacteria, Acidimicrobiia, Verrucomicrobiae, Cyanobacteria, and Actinobacteria in surface waters. In contrast, highest 13C-enrichment was mainly observed in several Alphaproteobacteria (Thalassococcus, Rhodobacteraceae, Ruegeria) and Gammaproteobacteria genera (Colwellia, Balneatrix, Thalassomonas) in the bottom water. These data suggest that a more diverse group of both oligotrophic and copiotrophic bacteria may be involved in metabolizing labile organic matter such as peptides in normoxic coastal waters, and several copiotrophic genera belonging to Alphaproteobacteria and Gammaproteobacteria and known to be widely distributed may contribute to faster peptide decomposition in the hypoxic waters.

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Section: Discussionsupporting

confidence: 90%

Different Bacterial Communities Involved in Peptide Decomposition between Normoxic and Hypoxic Coastal Waters

2017

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“…Afipia sp. is known to degrade haloacetic acids [32] and was isolated, for example, from alkylated phenol degrading activated sludge or drinking water [32,33]. Several OTUs within the 3-CBA batch sample set are related to Sphingobacteriales (Fig.…”

Section: Community Analysismentioning

confidence: 99%

Biodegradation of chloro- and bromobenzoic acids: Effect of milieu conditions and microbial community analysis

Gaza

Felgner

Otto

et al. 2015

Journal of Hazardous Materials

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“…At the genus level, 11 and 14 bacterial genera were negatively and positively correlated, respectively, with NP remaining percentages (Table 2). Only 2 of the 11 negatively correlated bacterial genera Rhodanobacter and Clostridium have been isolated from sediment (Chang et al, 2009;De Weert et al, 2010) and activated sludge (Zemb et al, 2012;Villemur et al, 2013) used for NP degradation.…”

Section: Bacteria Associated With Np Degradation In Experiments Set Amentioning

confidence: 99%

“…At the genus level, 23 and 32 bacterial genera were positively and negatively correlated, respectively, with NP remaining percentage (Table 3). Six of the 23 positively correlated bacterial genera Clostridium, Hyphomicrobium, Ochrobactrum, Propionibacterium, Rhizobium and Staphylococcus were isolated from sediment (Chang et al, 2009;De Weert et al, 2011), soil (Chang et al, 2007), crude oil (Van Hamme et al, 2000) and activated sludge (Chang et al, 2005;Di Gioia et al, 2008;Gu et al, 2010;Zemb et al, 2012;Villemur et al, 2013) used for NP degradation. Moreover, short ethoxy chain NP found be dehydrogenated by a flavoprotein alcohol dehydrogenase isolated from Ensifer sp.…”

Section: Bacteria Associated With Np Degradation In Experiments Set Bmentioning

confidence: 99%

Removal of nonylphenol by earthworms and bacterial community change

Yang

Tang

Chen

et al. 2014

International Biodeterioration & Biodegradation

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Improvement of RNA-SIP by pyrosequencing to identify putative 4-n-nonylphenol degraders in activated sludge

Cited by 25 publications

References 35 publications

Different Bacterial Communities Involved in Peptide Decomposition between Normoxic and Hypoxic Coastal Waters

Different Bacterial Communities Involved in Peptide Decomposition between Normoxic and Hypoxic Coastal Waters

Biodegradation of chloro- and bromobenzoic acids: Effect of milieu conditions and microbial community analysis

Removal of nonylphenol by earthworms and bacterial community change

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