The microbiome and antibiotic resistance in integrated fishfarm water: Implications of environmental public health

Klase, Gary L; Lee, Seungjun; Liang, Song; Kim, Jinnam; Zo, Young-Gun; Lee, Ji-Young

doi:10.1016/j.scitotenv.2018.08.288

“…The enteric pathogens, which included Arcobacter spp., Campylobacter (targeting 16S rRNA gene of C. jejuni , C. coli , and C. lari ), Salmonella spp., and enterohemorragic E. coli (targeting virulence genes stx1 and stx2 ) were selected based on their probability of being present in stored drinking water samples in a LMIC setting (Healy‐Profitós et al, ). EvaGreen ddPCR analysis was used to quantify Arcobacter, Campylobacter , and Salmonella , (Healy‐Profitós et al, ; Klase et al, ). For enterohemorrhagic E. coli ( stx1 and stx2 ), a probe‐based ddPCR analysis was performed (Healy‐Profitós et al, ; Klase et al, ).…”

Section: Methodsmentioning

confidence: 99%

“…EvaGreen ddPCR analysis was used to quantify Arcobacter, Campylobacter , and Salmonella , (Healy‐Profitós et al, ; Klase et al, ). For enterohemorrhagic E. coli ( stx1 and stx2 ), a probe‐based ddPCR analysis was performed (Healy‐Profitós et al, ; Klase et al, ). The total mixture volume was 20 μL, which included 10 μL supermix for probes (Bio‐Rad, Hercules, California), 250 nM primes, 250 nM probe (Probe‐based ddPCR only), 2 μL DNA template (up to 330 ng), and RNase‐/DNase‐free water.…”

Section: Methodsmentioning

confidence: 99%

Characterization of the gut microbiota of Nicaraguan children in a water insecure context

Piperata

¹

,

Lee

²

,

Apaza

³

et al. 2019

American J Hum Biol

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Objectives: The gut microbiota varies across human populations. The first years of life are a critical period in its development. While delivery mode and diet contribute to observed variation, the additional contribution of specific environmental factors remains poorly understood. One factor is waterborne enteric pathogen exposure. In this pilot study, we explore the relationship between household water security and the gut microbiota of children.Methods: From Nicaraguan households (n = 39), we collected drinking water samples, as well as fecal samples from children aged one month to 5.99 years (n = 53). We tested water samples for total coliforms (CFU/mL) and the presence of common enteric pathogens. Composition and diversity of the gut microbiota were characterized by 16S rRNA sequencing. Households were classified as having drinking water that was "low" (<29 CFU/mL) or "high" (≥29 CFU/mL) in coliforms. We used permutational analyses of variance and Mann-Whitney U-tests to identify differences in the composition and diversity of the gut microbiota of children living in these two home types.Results: Insecure access led households to store drinking water and 85% tested positive for coliforms. High concentrations of Salmonella and Campylobacter were found in water and fecal samples. Controlling for age, the gut microbiota of children from high coliform homes were compositionally different and less diverse than those from low coliform homes. Conclusions:Results indicate that research exploring the ways water insecurity affects human biology should consider the gut microbiome and that investigations of inter-population variation in the gut microbial community of children should consider pathogen exposure and infection.

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“…7a). Proteobacteria, as the most abundant in the fish ponds, participated in various biogeochemical processes (for example, carbon, nitrogen, and sulfur cycling) in aquatic ecosystems [38,39]. Previous studies have indicated that Proteobacteria were one of the most abundant phyla in the intestinal samples of fish as well as in most mammals gut samples [40].…”

Section: Discussionmentioning

confidence: 99%

Comparative study on the effects of different feeding habits and diets on intestinal microbiota in Acipenser baeri Brandt and Huso huso

Xu

¹

,

Xing

²

,

Li

³

et al. 2019

Preprint

0

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Background: Siberian sturgeon ( Acipenser baeri Brandt) and Beluga sturgeon ( Huso huso ) are two important commercial fish in China, and the feeding habits of them are very different. Diets and feeding habits are two significant factors to affect the gastrointestinal microbiota in ﬁsh. The intestinal microbiota has been reported to play a key role in nutrition and immunity. However, it is rarely reported about the relationship between the intestinal microbiota and feeding habits/diets on different Acipenseridae fish. This study is to comparative analysis of gut microbial community in Siberian sturgeon and Beluga sturgeon fed with the same diet/Beluga sturgeon fed with different diets in order to determine the effects of different feeding habits/diets on the fish intestinal microbiota. Results: According to the experimental objectives, BL and BH groups were Beluga sturgeon ( Huso huso ) fed with low fishmeal diet and high fishmeal diet, respectively. SH group represented Siberian sturgeon ( Acipenser baeri Brandt) fed with the same diet as BH group. After 16 weeks feeding trial, the intestinal microbiota was examined by 16S rRNA high-throughput sequencing technology. On the phylum level, Proteobacteria and Bacteroidetes were signiﬁcantly higher in BL group than BH group, and Cyanobacteria showed the opposite trend. Compared with BH group, Proteobacteria and Firmicutes were signiﬁcantly increased in SH group, whereas Cyanobacteria were clearly decreased. At the genus level, Pseudomonas and Citrobacter in BL group were signiﬁcantly higher comparing with BH group, while Bacillus , Luteibacter , Staphylococcus and Oceanobacillus was lower in BH group than SH group. Conclusions: Alpha and beta diversities indicated that the intestinal microﬂora were significant difference between Siberian sturgeon and Beluga sturgeon when they fed with the same diet. Meanwhile, Beluga sturgeon fed with low fishmeal diet can increase the species diversity of intestinal microbiota than it fed with high fishmeal diet. Therefore, feeding habits clearly affected the gastrointestinal microbiota of sturgeons. Moreover, the impact of changes in food on the gut microbiota of sturgeons should be taken into consideration during the process of sturgeon aquaculture.

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“…7a). Proteobacteria, as the most abundant in the fish ponds, participated in various biogeochemical processes (for example, carbon, nitrogen, and sulfur cycling) in aquatic ecosystems [45,46]. Previous studies have indicated that Proteobacteria were one of the most abundant phyla in the intestinal samples of fish as well as in most mammals gut samples [47].…”

Section: Analysis Of the Differences In Gut Microbiota Among Sturgeonmentioning

confidence: 99%

Comparative study on the effects of different feeding habits and diets on intestinal microbiota in Acipenser baeri Brandt and Huso huso

Xu

¹

,

Xing

²

,

Li

³

et al. 2019

Preprint

1

0

View full text Add to dashboard Cite

Background: Siberian sturgeon ( Acipenser baeri Brandt) and Beluga sturgeon ( Huso huso ) are two important commercial fish in China, and the feeding habits of them are very different. Diets and feeding habits are two significant factors to affect the gastrointestinal microbiota in ﬁsh. The intestinal microbiota has been reported to play a key role in nutrition and immunity. However, it is rarely reported about the relationship between the intestinal microbiota and feeding habits/diets on different Acipenseridae fish. This study is to comparative analysis of gut microbial community in Siberian sturgeon and Beluga sturgeon fed with the same diet/Beluga sturgeon fed with different diets in order to determine the effects of different feeding habits/diets on the fish intestinal microbiota. Results: According to the experimental objectives, BL and BH groups were Beluga sturgeon ( Huso huso ) fed with low fishmeal diet and high fishmeal diet, respectively. SH group represented Siberian sturgeon ( Acipenser baeri Brandt) fed with the same diet as BH group. After 16 weeks feeding trial, the intestinal microbiota was examined by 16S rRNA high-throughput sequencing technology. On the phylum level, Proteobacteria and Bacteroidetes were signiﬁcantly higher in BL group than BH group, and Cyanobacteria showed the opposite trend. Compared with BH group, Proteobacteria and Firmicutes were signiﬁcantly increased in SH group, whereas Cyanobacteria were clearly decreased. At the genus level, Pseudomonas and Citrobacter in BL group were signiﬁcantly higher comparing with BH group, while Bacillus , Luteibacter , Staphylococcus and Oceanobacillus was lower in BH group than SH group. Conclusions: Alpha and beta diversities indicated that the intestinal microﬂora were significant difference between Siberian sturgeon and Beluga sturgeon when they fed with the same diet. Meanwhile, Beluga sturgeon fed with low fishmeal diet can increase the species diversity of intestinal microbiota than it fed with high fishmeal diet. Therefore, feeding habits clearly affected the gastrointestinal microbiota of sturgeons. Moreover, the impact of changes in food on the gut microbiota of sturgeons should be taken into consideration during the process of sturgeon aquaculture.

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The microbiome and antibiotic resistance in integrated fishfarm water: Implications of environmental public health

Cited by 116 publications

References 57 publications

Characterization of the gut microbiota of Nicaraguan children in a water insecure context

Characterization of the gut microbiota of Nicaraguan children in a water insecure context

Comparative study on the effects of different feeding habits and diets on intestinal microbiota in Acipenser baeri Brandt and Huso huso

Comparative study on the effects of different feeding habits and diets on intestinal microbiota in Acipenser baeri Brandt and Huso huso

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