Bacterial community structure in the intestinal ecosystem of rainbow trout (Oncorhynchus mykiss) as revealed by pyrosequencing-based analysis of 16S rRNA genes

Etyemez, Miray; Balcázar, José Luís

doi:10.1016/j.rvsc.2015.03.026

Cited by 61 publications

(38 citation statements)

References 31 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In gibel carp, Veilonella, Streptococcus, Lactobacillus and Rothia were important genera [4]. In rainbow trout, four genera including Acinetobacter, Cetobacterium, Pseudomonas, and Psychrobacter were predominant [26]. The results further confirmed that the composition of intestinal microbiota of the fish depended mostly on the species of the fish [2].…”

Section: Discussionsupporting

confidence: 58%

See 1 more Smart Citation

Diversity of Intestinal Microbiota in Coilia ectenes from Lake Taihu, China

Duan

Zhou

et al. 2017

Open Life Sciences

View full text Add to dashboard Cite

To investigate the community structure and species composition of intestinal microbiota in Coilia ectenes, sixty-seven samples were collected from Lake Taihu in China. The intestinal microbiota of the C. ectenes were identified by the V4 of the 16S ribosomal RNA gene using high-throughput sequencing. Furthermore, the water quality of different sampling sites was also evaluated. A total of 53 phyla and 730 classified genera were found in all the samples. The eight dominant phyla Planctomycetes, Firmicutes, Proteobacteria, Bacteroidetes, Cyanobacteria, Crenarchaeota, Actinobacteria, and Verrucomicrobia were included. The intestinal microbiota compositions of the C. ectenes obtained from the same location presented more similar profiles, and the intestinal microbiota compositions of the C. ectenes from different geographical locations showed considerable differences. The operational taxonomic units (OTUs) abundance of the intestinal microbiota was significantly correlated with both the concentrations of total nitrogen and chlorophyll-a of the aquatic environment (p<0.05). Geographical location was an important determinant for the fish’s intestinal microbiota composition. The intestinal microbiota of C. ectenes would be affected by the concentrations of total nitrogen and chlorophyll-a in the water. These findings achieve a basic understanding of fish’s gut microbiota, and are helpful for the protection of fish resources in Lake Taihu and provided the cornerstone to sustainable utlization of C. ectenes.

show abstract

Section: Discussionsupporting

confidence: 58%

“…Proteobacteria was the most predominant, followed by Firmicutes, in the intestinal microbiota of gibel carp [4]. Proteobacteria was the predominant phylum in rainbow trout [26]. Meanwhile, Proteobacteria, Firmicutes, and Actinobacteria were predominant in grass carp [27].…”

Section: Discussionmentioning

confidence: 92%

Diversity of Intestinal Microbiota in Coilia ectenes from Lake Taihu, China

Duan

Zhou

et al. 2017

Open Life Sciences

View full text Add to dashboard Cite

show abstract

“…promotes decomposition of consumed organic debris, phytoplankton, or zooplankton (Borsodi et al., ). This species was also common in intestinal tracts of goldfish, common carp, grass carp, ayu, tilapia, zebrafish, rainbow trout, channel catfish, largemouth bass, and bluegill (Adeoye et al., ; Etyemez & Balcázar, ; Larsen, Mohammed, & Arias, ; Roeselers et al., ; Tsuchiya, Sakata, & Sugita, ; Van Kessel et al., ). However, the effects of this species have never been tested in fish.…”

Section: Discussionmentioning

confidence: 99%

Comparative study of gut microbiota in wild and captive Malaysian Mahseer (Tor tambroides)

et al. 2018

View full text Add to dashboard Cite

Aims The aim of this study was to identify and compare the gut microbial community of wild and captive Tor tambroides through 16S rDNA metagenetic sequencing followed by functions prediction. Methods and results The library of 16S rDNA V3‐V4 hypervariable regions of gut microbiota was amplified and sequenced using Illumina MiSeq. The sequencing data were analyzed using Quantitative Insights into Microbial Ecology ( QIIME ) pipeline and Phylogenetic Investigation of Communities by Reconstruction of Unobserved States ( PICRUS t). The most abundant bacterial phyla in both wild and captive T. tambroides were Firmicutes, Proteobacteria, Fusobacteria and Bacteroidetes. Cetobacterium spp., Peptostreptococcaceae family, Bacteroides spp., Phosphate solubilizing bacteria PSB ‐M‐3, and Vibrio spp. were five most abundant OTU in wild T. tambroides as compared to Cetobacterium spp., Citrobacter spp., Aeromonadaceae family, Peptostreptococcaceae family and Turicibacter spp. in captive T. tambroides . Conclusion In this study, the specimens of the wild T. tambroides contain more diverse gut microbiota than of the captive ones. The results suggested that Cetobacterium spp. is one of the core microbiota in guts of T. tambroides . Besides, high abundant Bacteroides spp., Citrobacter spp., Turicibacter spp., and Bacillus spp. may provide important functions in T. tambroides guts. Significance and impact of the study The results of this study provide significant information of T. tambroides gut microbiota for further understanding of their physiological functions including growth and disease resistance.

show abstract

“…), and since then has been identified in a variety of freshwater fishes representing as much as 94% of total OTUs (Larsen et al . ; Etyemez and Balcazar ; Lyons et al . ; Gaulke et al .…”

Section: The Core Gut Microbiome Of Fishesmentioning

confidence: 99%

Fish intestinal microbiome: diversity and symbiosis unravelled by metagenomics

et al. 2017

View full text Add to dashboard Cite

Summary The gut microbiome of vertebrates plays an integral role in host health by stimulating development of the immune system, aiding in nutrient acquisition and outcompeting opportunistic pathogens. Development of next‐generation sequencing technologies allows researchers to survey complex communities of microorganisms within the microbiome at great depth with minimal costs, resulting in a surge of studies investigating bacterial diversity of fishes. Many of these studies have focused on the microbial structure of economically significant aquaculture species with the goal of manipulating the microbes to increase feed efficiency and decrease disease susceptibility. The unravelling of intricate host–microbe symbioses and identification of core microbiome functions is essential to our ability to use the benefits of a healthy microbiome to our advantage in fish culture, as well as gain deeper understanding of bacterial roles in vertebrate health. This review aims to summarize the available knowledge on fish gastrointestinal communities obtained from metagenomics, including biases from sample processing, factors influencing assemblage structure, intestinal microbiology of important aquaculture species and description of the teleostean core microbiome.

show abstract

Bacterial community structure in the intestinal ecosystem of rainbow trout (Oncorhynchus mykiss) as revealed by pyrosequencing-based analysis of 16S rRNA genes

Cited by 61 publications

References 31 publications

Diversity of Intestinal Microbiota in Coilia ectenes from Lake Taihu, China

Diversity of Intestinal Microbiota in Coilia ectenes from Lake Taihu, China

Comparative study of gut microbiota in wild and captive Malaysian Mahseer (Tor tambroides)

Fish intestinal microbiome: diversity and symbiosis unravelled by metagenomics

Contact Info

Product

Resources

About