Metabarcoding profiling of microbial diversity associated with trout fish farming

Abstract Earthy and musty off-flavors are routinely observed in farmed trout worldwide. The microbial association to the production of those off-flavors was previously reported. The current manuscript aimed to catalog the microbial enrichment (eukaryotes and prokaryotes) in semi-intensive aquacultur...

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Autores principales:	Mohamed A. A. Mahmoud, Mahmoud Magdy
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/b2bb22bd34bd4db8bc33638c5e52974f
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spelling	oai:doaj.org-article:b2bb22bd34bd4db8bc33638c5e52974f2021-12-02T15:22:59ZMetabarcoding profiling of microbial diversity associated with trout fish farming10.1038/s41598-020-80236-x2045-2322https://doaj.org/article/b2bb22bd34bd4db8bc33638c5e52974f2021-01-01T00:00:00Zhttps://doi.org/10.1038/s41598-020-80236-xhttps://doaj.org/toc/2045-2322Abstract Earthy and musty off-flavors are routinely observed in farmed trout worldwide. The microbial association to the production of those off-flavors was previously reported. The current manuscript aimed to catalog the microbial enrichment (eukaryotes and prokaryotes) in semi-intensive aquaculture freshwater sources that might influence the trout aquaculture quality production. The 16S rRNA and ITS metabarcoding analyses were applied on the inflow- and pond-water samples from trout farms previously recorded a malodor fish products and located alongside Moosach and Sempt Rivers in Bavaria province, Germany. The results showed that more than 99% of the detected prokaryotic OTUs (Operational Taxonomic Unit identification) were bacteria as of ~ 75.57% were Proteobacteria, and ~ 14.4% were Bacteroidetes. Meanwhile, 118 out of 233 of the eukaryotic OTUs were known species. Of these, ~ 45% were plant pathogens, and ~ 28% were mushroom/yeasts. Based on the comparative analysis between inflow- and pond-water samples, several pro- and eukaryotic microorganisms that affect the trout aquaculture water quality and industry have been detected, including the malodor-producing microorganisms, e.g., Cyanobacteria and Actinobacteria, along with fish infectious microorganisms, e.g., Chilodonella cyprinid, Metschnikowia bicuspidate. Additionally, the effect of the human- and industrial-related activities around the sampling area on the microbiota of the investigated farms were highlighted.Mohamed A. A. MahmoudMahmoud MagdyNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-11 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Mohamed A. A. Mahmoud Mahmoud Magdy Metabarcoding profiling of microbial diversity associated with trout fish farming
description	Abstract Earthy and musty off-flavors are routinely observed in farmed trout worldwide. The microbial association to the production of those off-flavors was previously reported. The current manuscript aimed to catalog the microbial enrichment (eukaryotes and prokaryotes) in semi-intensive aquaculture freshwater sources that might influence the trout aquaculture quality production. The 16S rRNA and ITS metabarcoding analyses were applied on the inflow- and pond-water samples from trout farms previously recorded a malodor fish products and located alongside Moosach and Sempt Rivers in Bavaria province, Germany. The results showed that more than 99% of the detected prokaryotic OTUs (Operational Taxonomic Unit identification) were bacteria as of ~ 75.57% were Proteobacteria, and ~ 14.4% were Bacteroidetes. Meanwhile, 118 out of 233 of the eukaryotic OTUs were known species. Of these, ~ 45% were plant pathogens, and ~ 28% were mushroom/yeasts. Based on the comparative analysis between inflow- and pond-water samples, several pro- and eukaryotic microorganisms that affect the trout aquaculture water quality and industry have been detected, including the malodor-producing microorganisms, e.g., Cyanobacteria and Actinobacteria, along with fish infectious microorganisms, e.g., Chilodonella cyprinid, Metschnikowia bicuspidate. Additionally, the effect of the human- and industrial-related activities around the sampling area on the microbiota of the investigated farms were highlighted.
format	article
author	Mohamed A. A. Mahmoud Mahmoud Magdy
author_facet	Mohamed A. A. Mahmoud Mahmoud Magdy
author_sort	Mohamed A. A. Mahmoud
title	Metabarcoding profiling of microbial diversity associated with trout fish farming
title_short	Metabarcoding profiling of microbial diversity associated with trout fish farming
title_full	Metabarcoding profiling of microbial diversity associated with trout fish farming
title_fullStr	Metabarcoding profiling of microbial diversity associated with trout fish farming
title_full_unstemmed	Metabarcoding profiling of microbial diversity associated with trout fish farming
title_sort	metabarcoding profiling of microbial diversity associated with trout fish farming
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/b2bb22bd34bd4db8bc33638c5e52974f
work_keys_str_mv	AT mohamedaamahmoud metabarcodingprofilingofmicrobialdiversityassociatedwithtroutfishfarming AT mahmoudmagdy metabarcodingprofilingofmicrobialdiversityassociatedwithtroutfishfarming
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Metabarcoding profiling of microbial diversity associated with trout fish farming

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