Bacterial community diversity associated with four marine sponges from the South China Sea based on 16S rDNA-DGGE fingerprinting

Li, Zhiyong; He, Lin; Wu, Jie; Jiang, Qun

doi:10.1016/j.jembe.2005.08.014

Cited by 95 publications

(58 citation statements)

References 37 publications

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“…This may have occurred because members of this phylum may originate from either wastewater or soil. The dominance of g-Proteobacteria in the sewage wastefalls identified in this study included Enterobacteriaceae, Vibrionaceae, Pseudomonadaceae, Salmonella, Yersinia, Vibrio, and Pseudomonas aeruginosa, many of which are common in wastewaters and soils (Kent et al, 2001;Li et al, 2006;Schnetzer et al, 2011). This suggests that wastewater from sewage outfalls contains pathogenic bacteria.…”

Section: Structure Of Bacterial Communities In Different Samplesmentioning

confidence: 72%

“…Because of geographical reasons, little exchange occurs between this bay and the external seawater. As a result, the bay exhibits a unique microbial diversity that is distinct from that found in open seawater (Kent et al, 2001;Li et al, 2006;Schnetzer et al, 2011). Most studies to date have focused on wastewater treatment systems themselves, while reports of the bacterial diversity associated with domestic sewage are rare.…”

Section: Introductionmentioning

confidence: 99%

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Composition and structure of microbial communities associated with different domestic sewage outfalls

Wang¹,

Yang²,

Zhang³

et al. 2014

Genet. Mol. Res.

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ABSTRACT. The diversity of microbiota in waste waters has not been thoroughly examined, despite the potential impact of microbes on effluent quality. Wastewater microbial communities harbor pathogenic bacteria, viruses, and parasites. To study microbial communities in domestic sewage outfalls, 454 pyrosequencing technology was used to investigate the composition of microbial communities associated with municipal wastewater during different seasons sampled over the course of one year. A total of 195,103 16S rRNA gene sequences were obtained from 20 samples. The R software was used to calculate the number of indices describing the alpha diversity associated with each bacterial assemblage. In this study, the a-diversity index (Hꞌ, D, J), in which higher numbers represent more diversity, was found to change with seasonal cycle. The diversity of bacterial assemblages was high Microbial communities in sewage outfalls in all samples, indicating that species diversity was also very high. The taxonomic composition of the assemblages varied considerably among samples, with some dominated by Proteobacteria, while others were dominated by Bacteroidetes or Firmicutes. In 2 samples, the relative prevalence of Proteobacteria exceeded 90%. α-Proteobacteria, b-proteobacteria, and g-proteobacteria represented 90% or more of all Proteobacteria. The present characterization of wastewater from five sewage outfalls indicated the presence of some pathogenic bacteria. The g-Proteobacteria in sewage wastefalls identified in this study included Enterobacteriaceae, Vibrionaceae, Pseudomonadaceae, Salmonella, Yersinia, Vibrio, and Pseudomonas aeruginosa.

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Section: Structure Of Bacterial Communities In Different Samplesmentioning

confidence: 72%

Section: Introductionmentioning

confidence: 99%

Composition and structure of microbial communities associated with different domestic sewage outfalls

Wang¹,

Yang²,

Zhang³

et al. 2014

Genet. Mol. Res.

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“…The eukaryotic ultraplankton 558 Z.-Y. Jiang et al community in the nSCS has remained elusive, although a few studies were conducted in bacterial community (Lai et al 2006;Li et al 2006Li et al , 2007Ling et al 2012). In this paper, the aims were to (1) examine the diversity and spatial distribution of marine eukaryotic ultraplankton with DGGE of 18S rDNA in the nSCS, and (2) establish the relationship among the environmental characteristics, eukaryotic ultraplankton distribution and phylogenetic diversity.…”

Section: Introductionmentioning

confidence: 99%

Spatial structure of eukaryotic ultraplankton community in the northern South China Sea

2014

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Spatial distribution, diversity and composition of eukaryotic ultraplankton community of the northern South China Sea (nSCS) surface water and the relationship with the in situ water environment were investigated by the method of polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE). A total of 18 DGGE intensive bands were detected and the sequence analysis of these DGGE bands revealed that Alveolata was the dominant eukaryotic ultraplankton group of surface water in the nSCS (50%). Other species belonged to Bicoecea, Bolidophyceae, Polycystinea and Chlorophyta, which accounted for less proportion of eukaryotic ultraplankton in the study area. Unweighted pair group method with arithmetic averages clustering of the sampling stations indicated that all stations were classified mainly based on geographical proximity. Redundancy analysis (RDA) was employed to further investigate the relationships between DGGE band pattern and the environmental variables. Based on the RDA analysis, temperature, salinity, phosphorus and silicate were the important factors to shape the eukaryotic ultraplankton community composition in the nSCS.

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“…The major problem of cultivation-based analysis is that only a small part of the bacterial populations can be recovered from the sediments by traditional cultivation techniques (staley and Konopka, 1985;amann et al, 1995;Bürgmann et al, 2004). Most environmental bacteria cannot be cultured using current culture-based and traditional methods (Li et al, 2006). Molecular techniques based on culture-independent techniques such as denaturing gradient gel electrophoresis (dgge), automated ribosomal intergenic spacer analysis (aRisa) and terminal restriction fragment length polymorphism (TRFLP) have provided new tools for genetically identifying bacteria in all kinds of environmental systems, which has enhanced the knowledge of the in situ population structure of bacteria communities (Li et al, 2006;Liang et al, 2007;Muckian et al, 2007).…”

mentioning

confidence: 99%

“…Most environmental bacteria cannot be cultured using current culture-based and traditional methods (Li et al, 2006). Molecular techniques based on culture-independent techniques such as denaturing gradient gel electrophoresis (dgge), automated ribosomal intergenic spacer analysis (aRisa) and terminal restriction fragment length polymorphism (TRFLP) have provided new tools for genetically identifying bacteria in all kinds of environmental systems, which has enhanced the knowledge of the in situ population structure of bacteria communities (Li et al, 2006;Liang et al, 2007;Muckian et al, 2007). as dgge can separate sequences of the same length with only a base difference, 16s rRna gene-dgge fingerprinting is particularly useful as an initial investigation to compare communities and identify the qualitative or most relatively abundant community members (Muyzer et al, 1993).…”

mentioning

confidence: 99%

Bacterial community structure of mangrove sediments in relation to environmental variables accessed by 16S rRNA gene-denaturing gradient gel electrophoresis fingerprinting

et al. 2009

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suMMaRY: Bacterial community structure and the relationship between environmental variables and microbial communities in the surface sediments of tropical mangrove ecosystems were investigated in sanya, hainan island, China. Profiles of bacterial communities were generated using culture-independent PCR-denaturing gradient gel electrophoresis (dgge), and the results were interpreted with multivariate statistical analysis. Findings suggested that microbial communities varied with sample collection sites and seasons. The samples collected from the same sample sites at the same time had more similar microbial communities except samples sh3 and aB5, which also had unique sediment quality. Canonical correspondence analysis (CCa) revealed that the organic carbon concentration of the sediments accounted for a significant amount of the variability in the bacterial community composition. Phylogenetic analysis was used to identify the major groups of the predominant bacterial phylotypes. 16s rRna gene-V3 fragments from 17 individual dgge bands were sequenced and the corresponding bacteria were found in mangrove sediments for the first time based on BLasT results. Predominant bacterial phylotypes clustered with various taxonomic groups, including Proteobacteria, Bacteroidetes, Gemmatimonadetes, Actinobacteria and Firmicutes.Keywords: bacterial community, mangrove sediments, denaturing gradient gel electrophoresis, multivariate statistics.ResuMen: Estructura de la comunidad bacteriana en sedimentos de manglares en relación a variables medioambientales mediante análisis de fragmentos del gen 16S rRNA y electroforesis en geles desnaturalizantes. -La estructura de la comunidad bacteriana y la relación entre variables ambientales y las comunidades microbianas de la superficie de sedimentos de los ecosistemas tropicales de manglares fueron investigados en sanya, hainan island, China. Los perfiles de las comunidades bacterianas fueron obtenidos utilizando electroforesis de gradiente de gel desnaturalizante (dgge), cultivo-independiente, y los resultados fueron interpretados con un análisis estadístico multivariante. Los resultados sugerían que las comunidades microbianas variaban con los lugares de muestreo y las estaciones. Las muestras recogidas en el mismo lugar de muestreo y al mismo tiempo tenían comunidades microbianas similares, excepto las muestras sh3 y aB5, que tenían diferente calidad de sedimentos. el análisis de correspondencia (CCa) mostró que la concentración de carbono orgánico en sedimentos explicaba una parte importante de la variabilidad en la composición de la comunidad bacteriana. Los análisis filogenéticos fueron usados para identificar los grupos más importantes de filotipos predominantes de bacterias. se secuenciaron fragmentos 16 rRna gene-V3 de 17 bandas individuales de dgge y las bacterias correspondientes fueron encontradas por primera vez en sedimentos de manglares en base a resultados de BLasT. Los filotipos de bacterias predominantes se agrupaban con varios grupos taxonómicos que incluyen Proteobacte...

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Bacterial community diversity associated with four marine sponges from the South China Sea based on 16S rDNA-DGGE fingerprinting

Cited by 95 publications

References 37 publications

Composition and structure of microbial communities associated with different domestic sewage outfalls

Composition and structure of microbial communities associated with different domestic sewage outfalls

Spatial structure of eukaryotic ultraplankton community in the northern South China Sea

Bacterial community structure of mangrove sediments in relation to environmental variables accessed by 16S rRNA gene-denaturing gradient gel electrophoresis fingerprinting

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