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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| Format: | Article |
| Language: | English |
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Nature Portfolio
2021-01-01
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| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-020-80236-x |
| _version_ | 1818346229631811584 |
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| author | Mohamed A. A. Mahmoud Mahmoud Magdy |
| author_facet | Mohamed A. A. Mahmoud Mahmoud Magdy |
| author_sort | Mohamed A. A. Mahmoud |
| collection | DOAJ |
| 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. |
| first_indexed | 2024-12-13T17:14:57Z |
| format | Article |
| id | doaj.art-b2bb22bd34bd4db8bc33638c5e52974f |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-12-13T17:14:57Z |
| publishDate | 2021-01-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj.art-b2bb22bd34bd4db8bc33638c5e52974f2022-12-21T23:37:27ZengNature PortfolioScientific Reports2045-23222021-01-0111111110.1038/s41598-020-80236-xMetabarcoding profiling of microbial diversity associated with trout fish farmingMohamed A. A. Mahmoud0Mahmoud Magdy1Chair of Aroma and Smell Research, Department of Chemistry and Pharmacy, Emil Fischer Center, Friedrich-Alexander-Universität Erlangen-NürnbergGenetics Department, Faculty of Agriculture, Ain Shams UniversityAbstract 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.https://doi.org/10.1038/s41598-020-80236-x |
| spellingShingle | Mohamed A. A. Mahmoud Mahmoud Magdy Metabarcoding profiling of microbial diversity associated with trout fish farming Scientific Reports |
| title | 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_short | Metabarcoding profiling of microbial diversity associated with trout fish farming |
| title_sort | metabarcoding profiling of microbial diversity associated with trout fish farming |
| url | https://doi.org/10.1038/s41598-020-80236-x |
| work_keys_str_mv | AT mohamedaamahmoud metabarcodingprofilingofmicrobialdiversityassociatedwithtroutfishfarming AT mahmoudmagdy metabarcodingprofilingofmicrobialdiversityassociatedwithtroutfishfarming |