Comparison of bacterial communities in fish farm sediments along an organic enrichment gradient

Kawahara, Naoki; Shigematsu, Kotaro; Miyadai, Toshiaki; Kondo, Ryou

doi:10.1016/j.aquaculture.2008.10.003

Cited by 74 publications

(74 citation statements)

References 37 publications

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“…This is consistent with the observation that Gallionella and related FeOB of the Betaproteobacteria are found in freshwater environments, while FeOB related to the Zetaproteobacteria are marine (10). However, in coastal environments not influenced by hydrothermal venting, to our knowledge, there has been only one report of a single Zetaproteobacteria sequence found in sediments associated with a fish farm in Wakasa Bay, Japan (22), and no Mariprofundus-like FeOB have been isolated. The isolation of Mariprofundus sp.…”

Section: Discussionsupporting

confidence: 75%

“…Phylogenetic trees were constructed for SSU rRNA gene, LSU rRNA gene, and gyrB gene data sequences. Alignments were pre- Target gene and intended specificity L-C-Zeta-1541-a-S-24 CGA AGT CAG TGA TCC TAT GCT TCC LSU rRNA gene, specific for Zetaproteobacteria L-C-Zeta-1611-a-A- 22 CTC GCC TCG CCT ACC TGT GTC G LSU rRNA gene, specific for Zetaproteobacteria L-0858-a-S- 21 CTA GCC CAT CCA GTG CTC TAC LSU rRNA gene, broad specificity L-0858-a-S- 21 GTA GAG CAC TGG ATG GGC TAG LSU rRNA gene, broad specificity G-C-Zeta-2120-a-A- 23 CAG GTG ATT ATG ACC GTG CTG CA gyrB gene, modified to target Zetaproteobacteria G-C-Zeta-1099-a-S- 22 CTT GCG ATC ACG CCC CTG TTT G gyrB gene, modified to target Zetaproteobacteria a Primers were named according to the Oligonucleotide Probe Database nomenclature scheme. Base position numbers were determined by matching each primer to the sense strand of the corresponding Escherichia coli gene; the numbers reflect the E. coli 5Ј-end position number for each primer (1).…”

Section: Methodsmentioning

confidence: 99%

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Neutrophilic Iron-Oxidizing “ Zetaproteobacteria ” and Mild Steel Corrosion in Nearshore Marine Environments

McBeth

Little

Ray

et al. 2011

Appl Environ Microbiol

168

149

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Microbiologically influenced corrosion (MIC) of mild steel in seawater is an expensive and enduring problem. Little attention has been paid to the role of neutrophilic, lithotrophic, iron-oxidizing bacteria (FeOB) in MIC. The goal of this study was to determine if marine FeOB related to Mariprofundus are involved in this process. To examine this, field incubations and laboratory microcosm experiments were conducted. Mild steel samples incubated in nearshore environments were colonized by marine FeOB, as evidenced by the presence of helical iron-encrusted stalks diagnostic of the FeOB Mariprofundus ferrooxydans, a member of the candidate class "Zetaproteobacteria." Furthermore, Mariprofundus-like cells were enriched from MIC biofilms. The presence of Zetaproteobacteria was confirmed using a Zetaproteobacteria-specific small-subunit (SSU) rRNA gene primer set to amplify sequences related to M. ferrooxydans from both enrichments and in situ samples of MIC biofilms. Temporal in situ incubation studies showed a qualitative increase in stalk distribution on mild steel, suggesting progressive colonization by stalk-forming FeOB. We also isolated a novel FeOB, designated Mariprofundus sp. strain GSB2, from an iron oxide mat in a salt marsh. Strain GSB2 enhanced uniform corrosion from mild steel in laboratory microcosm experiments conducted over 4 days. Iron concentrations (including precipitates) in the medium were used as a measure of corrosion. The corrosion in biotic samples (7.4 ؎ 0.1 mM) was significantly higher than that in abiotic controls (5.0 ؎ 0.1 mM). These results have important implications for the role of FeOB in corrosion of steel in nearshore and estuarine environments. In addition, this work shows that the global distribution of Zetaproteobacteria is far greater than previously thought.

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Section: Discussionsupporting

confidence: 75%

Section: Methodsmentioning

confidence: 99%

Neutrophilic Iron-Oxidizing “ Zetaproteobacteria ” and Mild Steel Corrosion in Nearshore Marine Environments

McBeth

Little

Ray

et al. 2011

Appl Environ Microbiol

168

149

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“…Mariculture has been reported to influence the spatial and temporal distribution of bacterial communities in fish farm sediment [24,32,64]. Results of this study further confirmed this observation (Figs.…”

Section: Microbial Community Distribution In Response To Environmentasupporting

confidence: 81%

Impacts of Mariculture on the Diversity of Bacterial Communities within Intertidal Sediments in the Northeast of China

et al. 2013

Microb Ecol

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Mariculture is one of the major seafood supplies worldwide and has caused serious environmental concerns on the coastal zone. Its rapid development has been shown to disrupt the sediment ecosystems and thus influence the benthic bacterial communities. Bacterial diversity and community structure within both adjacent farms and non-cultured zones intertidal sediments along the coasts of Qinhuangdao and Dalian, China, were investigated using full-length 16S rRNA gene-based T-RFLP analyses and clone library construction. Richness and Shannon-Wiener index were significantly increased at sites adjacent the mariculture farm with mean values of 29 and 2.97 from peak profiles of T-RFLP result. Clustering analyses suggested that impacts of mariculture on bacterial diversity of sediment were significantly larger than those resulted from temporal and spatial scales. Upon comparisons of RFLP patterns from 602 clones from libraries of the selected five samples, 137 OTUs were retrieved. Members of γ-and δ-Proteobacteria, Bacilli, Flavobacteria, and Actinobacteria were recorded in all libraries. In addition, γ-Proteobacteria were dominant in all samples (21.7~45.0 %). Redundancy analysis revealed that the distribution of bacterial composition seemed to be determined by the variables of salinity, PO 4 3− -P, NH 4 + -N, and Chlorophyll a content. The phyla of γ-Proteobacteria, Clostridia, Flavobacteria, Bacilli, and Planctomycetes were principal components to contribute to the bacterial differences of clone libraries. Our finding demonstrated that these phyla could display variations of bacterial composition linked to environmental disturbance resulted from mariculture.

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“…Besides the effects on Carbon cycle pathways, marked changes have also been observed in the Sulphur cycle and the relative importance of sulphatereducing δ-Proteobacteria [13,[19][20][21]. Studying the effects of biodeposition in several fish farming areas across the Mediterranean Sea, from Cyprus to Spain, Luna et al [6] reported significantly higher prokaryotic and viral abundance and production, and rates of organic matter decomposition in the sediments beneath the cages although the differences between impact and control sediments were not consistent at all regions.…”

mentioning

confidence: 99%

“…Results showed that fish farming mainly affected the levels of microbial activities in seawater, which were significantly increased for alkaline phosphatase, while no significant variations were recorded in heterotrophic bacterial density. But generally the most evident effects are found in the benthic compartment, especially along an organic enrichment gradient [13] and with significantly changes in its biogeochemistry [14]. Significant increases in prokaryotic abundance, biomass, carbon production and enzymatic activities are reported in the sediments beneath aquaculture cages [12,[15][16][17].…”

mentioning

confidence: 99%

Effects of Aquaculture Activities on Microbial Assemblages

Caruso¹

2014

Oceanography 2014

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Comparison of bacterial communities in fish farm sediments along an organic enrichment gradient

Cited by 74 publications

References 37 publications

Neutrophilic Iron-Oxidizing “ Zetaproteobacteria ” and Mild Steel Corrosion in Nearshore Marine Environments

Neutrophilic Iron-Oxidizing “ Zetaproteobacteria ” and Mild Steel Corrosion in Nearshore Marine Environments

Impacts of Mariculture on the Diversity of Bacterial Communities within Intertidal Sediments in the Northeast of China

Effects of Aquaculture Activities on Microbial Assemblages

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