Diversity and Abundance of Denitrifying Bacteria in the Sediment of a Eutrophic Estuary

Ming, Hongxia; Fan, Jing-Li; Chen, Quanrui; Su, Jie; Jixue, Song; Yuan, Jing; Shi, Tingting; Li, Bochao

doi:10.1080/01490451.2020.1822959

Cited by 14 publications

(6 citation statements)

References 49 publications

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“…The differential abundance between nirS and nirK may be due to the competition for the substrates required by different enzyme synthesis (Huang et al, 2011). Moreover, compared to nirK-encoding denitrifiers, the variety of nirS-encoding denitrifiers was also greater, which is consistent with previous studies (Shi et al, 2019b;Ming et al, 2021). In general, nirS-and nirK-encoding denitrifiers had different respond to environmental parameters, and nirS denitrifiers had better adaptation to the coastal environments (Jones and Hallin, 2010;Likhitrattanapisal et al, 2021).…”

Section: Discussionsupporting

confidence: 86%

Nitrogen-loss and associated microbial communities in sediments from the Yangtze Estuary and adjacent sea

Teng

Zhen

et al. 2022

Front. Mar. Sci.

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IntroductionDenitrification and anammox play the crucial role for N removal processes in coastal ecosystems, but the ecological distribution of denitrifying and anammox microorganisms and their N removal rates in the Yangtze Estuary and its adjacent sea are required in-depth analysis.MethodsHere, we utilized high-throughput sequencing, qPCR, and 15N isotope to reveal the community structure and function of denitrifying and anammox microorganisms in the surface sediments from Yangtze Estuary and adjacent sea.ResultsThe results suggested that the gene abundances of nirS and nirK for denitrifiers were higher than AMX 16S rRNA for anammox bacteria. The genera composition of nirS- and nirK-encoding denitrifiers communities showed different distribution patterns. Furthermore, Candidatus Anammoximicrobium dominated the anammox community, implying the anammox oxidation capacity of the other genera should be noted in marine sediments.DiscussionCompared to anammox, denitrification was the dominant contributor of nitrogen removal process and contributed 73.5% on average. The sediment Chla was the key factor to regulate denitrification and anammox rates, indicating the fresh organic matter was more labile and easier to be utilized by NOx− removal processes.

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Section: Discussionsupporting

confidence: 86%

Nitrogen-loss and associated microbial communities in sediments from the Yangtze Estuary and adjacent sea

Teng

Zhen

et al. 2022

Front. Mar. Sci.

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“…In the case of nitrite reductase, the most remarkable aspect is that all the retrieved sequences code for copper-nitrite reductases type (NirK); consequently, none of them are cytochrome cd 1 -nitrite reductase type (NirS). Interestingly, many previous studies investigating the distribution of nirS and nirK along different ecosystems indicate that environmental conditions such as low oxygen availability, high water content or high salinity are favourable for the nirS carrying communities [ 23 , 48 , 49 , 50 , 51 ]. Furthermore, in these studies it is also pointed out that nirK gene is not even detectable in samples at “high salinity” [ 49 , 52 , 53 ].…”

Section: Resultsmentioning

confidence: 99%

“…Interestingly, many previous studies investigating the distribution of nirS and nirK along different ecosystems indicate that environmental conditions such as low oxygen availability, high water content or high salinity are favourable for the nirS carrying communities [ 23 , 48 , 49 , 50 , 51 ]. Furthermore, in these studies it is also pointed out that nirK gene is not even detectable in samples at “high salinity” [ 49 , 52 , 53 ]. However, it is worth highlighting that these studies are neither carried out nor focused on hypersaline environments, such as salt marshes or salty ponds, whose microbial communities differ from other less saline ecosystems and in which the Archaea domain populations are predominant [ 2 , 54 , 55 ].…”

Section: Resultsmentioning

confidence: 99%

Distribution of Denitrification among Haloarchaea: A Comprehensive Study

et al. 2021

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Microorganisms from the Halobacteria class, also known as haloarchaea, inhabit a wide range of ecosystems of which the main characteristic is the presence of high salt concentration. These environments together with their microbial communities are not well characterized, but some of the common features that they share are high sun radiation and low availability of oxygen. To overcome these stressful conditions, and more particularly to deal with oxygen limitation, some microorganisms drive alternative respiratory pathways such as denitrification. In this paper, denitrification in haloarchaea has been studied from a phylogenetic point of view. It has been demonstrated that the presence of denitrification enzymes is a quite common characteristic in Halobacteria class, being nitrite reductase and nitric oxide reductase the enzymes with higher co-occurrence, maybe due to their possible role not only in denitrification, but also in detoxification. Moreover, copper-nitrite reductase (NirK) is the only class of respiratory nitrite reductase detected in these microorganisms up to date. The distribution of this alternative respiratory pathway and their enzymes among the families of haloarchaea has also been discussed and related with the environment in which they constitute the major populations. Complete denitrification phenotype is more common in some families like Haloarculaceae and Haloferacaceae, whilst less common in families such as Natrialbaceae and Halorubraceae.

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“…The 16S NGS results showed that the distribution of potentially pathogenic bacteria in the Liaohe estuary was mainly abundant in the nearshore N area. According to previous studies (Ming et al, 2020), the estuary had the characteristics of high sewage discharge, high population density, and eutrophication which could be the main reason for the high abundance of potentially pathogenic bacteria in the nearshore N area. Our study detected Vibrio with high abundance using both 16S NGS and qPCR techniques.…”

Section: Distribution Of Potential Pathogens In the Estuarymentioning

confidence: 99%

16S Next-generation sequencing and quantitative PCR reveal the distribution of potential pathogens in the Liaohe Estuary

et al. 2022

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The existence of potentially pathogenic bacteria seriously threatens aquatic animals and human health. Estuaries are closely related to human activities, and the detection of pathogens is important for aquaculture and public health. However, monitoring only indicator microorganisms and pathogens is not enough to accurately and comprehensively estimate water pollution. Here, the diversity of potentially pathogenic bacteria in water samples from the Liaohe estuary was profiled using 16S next-generation sequencing (16S NGS) and quantitative polymerase chain reaction (qPCR) analysis. The results showed that the dominant genera of environmental pathogens were Pseudomonas, Vibrio, Mycobacterium, Acinetobacter, Exiguobacterium, Sphingomonas, and Legionella, and the abundance of enteric pathogens was significantly less than the environmental pathogens, mainly, Citrobacter, Enterococcus, Escherichia-Shigella, Enterobacter, Bacteroides. The qPCR results showed that the 16S rRNA genes of Vibrio were the most abundant, with concentrations between 7.06 and 9.48 lg copies/L, followed by oaa gene, fliC gene, trh gene, and uidA gene, and the temperature and salinity were the main factors affecting its abundance. Variance partitioning analysis (VPA) analysis of spatial factors on the potential pathogen’s distribution (19.6% vs 5.3%) was greater than environmental factors. In addition, the co-occurrence analysis of potential pathogens in the estuary revealed significant co-occurrence among the opportunistic pathogens Testosteronemonas, Brevimonas vesicularis, and Pseudomonas putida. Our findings provide an essential reference for monitoring and occurrence of potentially pathogenic bacteria in estuaries.

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Diversity and Abundance of Denitrifying Bacteria in the Sediment of a Eutrophic Estuary

Cited by 14 publications

References 49 publications

Nitrogen-loss and associated microbial communities in sediments from the Yangtze Estuary and adjacent sea

Nitrogen-loss and associated microbial communities in sediments from the Yangtze Estuary and adjacent sea

Distribution of Denitrification among Haloarchaea: A Comprehensive Study

16S Next-generation sequencing and quantitative PCR reveal the distribution of potential pathogens in the Liaohe Estuary

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