Microbiome patterns reveal the transmission of pathogenic bacteria in hilsa fish (<i>Tenualosa ilisha</i>) marketed for human consumption in Bangladesh

Foysal, Javed; Momtaz, Farhana; Kawser, A. Q. M. Robiul; Chaklader, Reaz; Siddik, Muhammad A.B.; Lamichhane, Binit; Tay, Chin Yen; Rahman, Mahbubur; Fotedar, Ravi

doi:10.1111/jam.14257

Cited by 20 publications

(24 citation statements)

References 48 publications

(97 reference statements)

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“…While most of the current research is targeted at fish species with commercial relevance [2,[26][27][28][29] or food safety [30], a few studies have dissected wild fish communities or populations, utilizing deep-sequencing culture-independent methods [15,16,31] and leaving the vast majority of wild habitats unexamined [32]. In the wild, particularly in fragmented and heterogenous inland water systems, it is difficult to test the effect of geographically varying abiotic conditions on a given species, since the fish community composition often covaries with them [25].…”

Section: Introductionmentioning

confidence: 99%

Dissecting the factors shaping fish skin microbiomes in a heterogeneous inland water system

Krotman¹,

Yergaliyev

Shani

et al. 2020

Microbiome

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Background: Fish skin microbiomes are rarely studied in inland water systems, in spite of their importance for fish health and ecology. This is mainly because fish species distribution often covaries with other biotic and abiotic factors, complicating the study design. We tackled this issue in the northern part of the Jordan River system, in which a few fish species geographically overlap, across steep gradients of water temperature and salinity. Results: Using 16S rRNA metabarcoding, we studied the water properties that shape the skin bacterial communities, and their interaction with fish taxonomy. To better characterise the indigenous skin community, we excluded bacteria that were equally abundant in the skin samples and in the water samples, from our analysis of the skin samples. With this in mind, we found alpha diversity of the skin communities to be stable across sites, but higher in benthic loaches, compared to other fish. Beta diversity was found to be different among sites and to weakly covary with the dissolved oxygen, when treated skin communities were considered. In contrast, water temperature and conductivity were strong factors explaining beta diversity in the untreated skin communities. Beta diversity differences between co-occurring fish species emerged only for the treated skin communities. Metagenomics predictions highlighted the microbiome functional implications of excluding the water community contamination from the fish skin communities. Finally, we found that human-induced eutrophication promotes dysbiosis of the fish skin community, with signatures relating to fish health. Conclusions: Consideration of the background water microbiome when studying fish skin microbiomes, across varying fish species and water properties, exposes patterns otherwise undetected and highlight among-fish-species differences. We suggest that sporadic nutrient pollution events, otherwise undetected, drive fish skin communities to dysbiosis. This finding is in line with a recent study, showing that biofilms capture sporadic pollution events, undetectable by interspersed water monitoring.

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Section: Introductionmentioning

confidence: 99%

Dissecting the factors shaping fish skin microbiomes in a heterogeneous inland water system

Krotman¹,

Yergaliyev

Shani

et al. 2020

Microbiome

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show abstract

Section: Introductionmentioning

confidence: 99%

Dissecting the factors shaping fish skin microbiomes in a heterogeneous inland water system

Krotman

Yergaliyev

Alexander

et al. 2019

Preprint

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Fish skin microbiomes are rarely studied in inland water systems, in spite of their importance for fish health and ecology. This is mainly because fish species distribution often covaries with other biotic and abiotic factors, complicating the study-design. We tackled this issue in the northern part of the Jordan River system, in which a few fish species geographically overlap, across a steep gradients of water temperature and salinity. Using 16S rRNA metabarcoding, we studied the water properties that shape the skin bacterial communities, and their interaction with fish taxonomy. We found that considering the skin-community contamination by water microbial community is important, even when the water and skin communities are apparently different. With this in mind, we found alpha diversity of the skin-communities to be stable across sites, but higher in bentic loaches, compared to other fish.Beta diversity was found to be different among sites and to weakly covary with the dissolved oxygen, when treated skin-communities were considered. In contrast, water temperature and conductivity were strong factors explaining beta diversity in the untreated skin-communities. Beta diversity differences between co-occurring fish species emerged only for the treated skin-communities.Metagenomics predictions highlighted the microbiome functional implications of excluding the watercommunities contamination from the fish skin-communities. Finally, we found that human induced eutrophication promotes dysbiosis of the fish skin-community, with signatures relating to fish health. This finding was in line with recent studies, showing that biofilms capture sporadic pollution events, undetectable by interspersed water monitoring.

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“…Therefore, further investigation is needed (Chan et al ). Drug‐resistant enteric bacteria have been reported in IMC farming ponds and in hilsa fish ( Tenualosa ilisha ) in Bangladesh, indicating transmission of clinical pathogens to aquatic environments (Godara et al ; Hossain et al ; Foysal et al ). Therefore, in‐vivo pathogenicity assays are required to determine the virulence and pathogenicity of Enterobacteriaceae in IMCs because pathogenic bacteria may occasionally be present in fish guts without having any virulence.…”

Section: Resultsmentioning

confidence: 99%

Next‐generation sequencing reveals significant variations in bacterial compositions across the gastrointestinal tracts of the Indian major carps, rohu ( Labeo rohita ), catla ( Catla catla ) and mrigal ( Cirrhinus cirrhosis )

Foysal

Momtaz

Kawsar

et al. 2019

Lett Appl Microbiol

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Next-generation sequencing reveals significant variations in bacterial compositions across the gastrointestinal tracts of the Indian major carps, rohu (Labeo rohita), catla (Catla catla) and mrigal (Cirrhinus cirrhosis)Significance and Impact of the Study: This study investigates the microbial communities of the gastrointestinal tracts (GITs) of three Indian major carp (IMC) species-rohu, catla and mrigal, obtained from a polyculture pond under the same feeding regime. Diverse microbial communities were found, with significantly different relative abundances and diversities of phyla and genera. The results provide valuable information on GIT microbial communities that may be useful for nutrition and health management in IMCs. AbstractBacterial communities strongly influence the digestion, health and immune status of fish. This study investigates the microbial distribution of the anterior, middle and distal gut sections of three economically important carp species in Bangladesh, rohu, catla and mrigal (commonly known as Indian major carps), using 16S rRNA-based Illumina sequencing technology. The alpha-diversity measurement with one-way ANOVA indicated high species richness, Shannon and Simpson indices in the middle and distal gut, while the anterior gut of IMCs had the lowest diversity. At the phylum level, there was high abundance of Proteobacteria in the GITs of rohu and mrigal, whereas Fusobacteria was dominant in the anterior and middle guts of catla. At the genus level, diverse microbial communities were identified across the three GIT sections, with six indicator genera found in rohu, catla and mrigal, as revealed by linear discriminant analysis (LDA) at a 0Á05 level of significance. Of the 218 genera identified, only 33 were common across the anterior, middle and distal guts of all three species. Bacterial diversity was significantly higher (P < 0Á05) in mrigal, followed by catla and rohu, respectively. Alongside the common bacteria Aeromonas, Enterobacter and Serratia, the overwhelming abundance of Cetobacterium, Shewanella and Plesiomonas warrants further investigation.

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Microbiome patterns reveal the transmission of pathogenic bacteria in hilsa fish (Tenualosa ilisha) marketed for human consumption in Bangladesh

Cited by 20 publications

References 48 publications

Dissecting the factors shaping fish skin microbiomes in a heterogeneous inland water system

Dissecting the factors shaping fish skin microbiomes in a heterogeneous inland water system

Dissecting the factors shaping fish skin microbiomes in a heterogeneous inland water system

Next‐generation sequencing reveals significant variations in bacterial compositions across the gastrointestinal tracts of the Indian major carps, rohu ( Labeo rohita ), catla ( Catla catla ) and mrigal ( Cirrhinus cirrhosis )

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