{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,25]],"date-time":"2026-02-25T06:22:25Z","timestamp":1772000545913,"version":"3.50.1"},"reference-count":60,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2025,5,6]],"date-time":"2025-05-06T00:00:00Z","timestamp":1746489600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"},{"start":{"date-parts":[[2025,5,6]],"date-time":"2025-05-06T00:00:00Z","timestamp":1746489600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"}],"funder":[{"DOI":"10.13039\/501100001871","name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia","doi-asserted-by":"publisher","award":["http:\/\/doi.org\/10.54499\/UIDB\/04292\/2020"],"award-info":[{"award-number":["http:\/\/doi.org\/10.54499\/UIDB\/04292\/2020"]}],"id":[{"id":"10.13039\/501100001871","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001871","name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia","doi-asserted-by":"publisher","award":["2022.11260.BD"],"award-info":[{"award-number":["2022.11260.BD"]}],"id":[{"id":"10.13039\/501100001871","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001871","name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia","doi-asserted-by":"publisher","award":["UI\/BD\/153050\/2022"],"award-info":[{"award-number":["UI\/BD\/153050\/2022"]}],"id":[{"id":"10.13039\/501100001871","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["anim microbiome"],"DOI":"10.1186\/s42523-025-00398-9","type":"journal-article","created":{"date-parts":[[2025,5,6]],"date-time":"2025-05-06T08:38:20Z","timestamp":1746520700000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":2,"title":["Reveal your microbes, and i\u2019ll reveal your origins: geographical traceability via Scomber colias intestinal tract metagenomics"],"prefix":"10.1186","volume":"7","author":[{"given":"Bernardo","family":"Duarte","sequence":"first","affiliation":[]},{"given":"Eduardo","family":"Feij\u00e3o","sequence":"additional","affiliation":[]},{"given":"Ana","family":"Cruz-Silva","sequence":"additional","affiliation":[]},{"given":"Pedro","family":"Pascoal","sequence":"additional","affiliation":[]},{"given":"M\u00f3nica","family":"Nunes","sequence":"additional","affiliation":[]},{"given":"Marcelo","family":"Pereira","sequence":"additional","affiliation":[]},{"given":"Andreia","family":"Figueiredo","sequence":"additional","affiliation":[]},{"given":"Ricardo P.","family":"Dias","sequence":"additional","affiliation":[]},{"given":"Susanne E.","family":"Tanner","sequence":"additional","affiliation":[]},{"given":"Vanessa F.","family":"Fonseca","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2025,5,6]]},"reference":[{"key":"398_CR1","doi-asserted-by":"publisher","first-page":"172","DOI":"10.1016\/j.foodcont.2013.11.007","volume":"39","author":"MM Aung","year":"2014","unstructured":"Aung MM, Chang YS. Traceability in a food supply chain: safety and quality perspectives. Food Control. 2014;39:172\u201384.","journal-title":"Food Control"},{"key":"398_CR2","doi-asserted-by":"crossref","unstructured":"Leal MC, Pimentel T, Ricardo F, Rosa R, Calado R. Seafood traceability: Current needs, available tools, and biotechnological challenges for origin certification. 2015.","DOI":"10.1016\/j.tibtech.2015.03.003"},{"key":"398_CR3","doi-asserted-by":"publisher","first-page":"413","DOI":"10.1016\/j.foodchem.2019.02.037","volume":"286","author":"M Milan","year":"2019","unstructured":"Milan M, Maroso F, Dalla Rovere G, Carraro L, Ferraresso S, Patarnello T, et al. Tracing seafood at high Spatial resolution using NGS-generated data and machine learning: comparing Microbiome versus SNPs. Food Chem. 2019;286:413\u201320.","journal-title":"Food Chem"},{"key":"398_CR4","doi-asserted-by":"publisher","first-page":"99","DOI":"10.1016\/j.jfoodeng.2013.09.007","volume":"122","author":"A Parre\u00f1o-Marchante","year":"2014","unstructured":"Parre\u00f1o-Marchante A, Alvarez-Melcon A, Trebar M, Filippin P. Advanced traceability system in aquaculture supply chain. J Food Eng. 2014;122:99\u2013109.","journal-title":"J Food Eng"},{"key":"398_CR5","doi-asserted-by":"publisher","first-page":"2971","DOI":"10.1007\/s11277-020-07200-w","volume":"115","author":"B Chuaysi","year":"2020","unstructured":"Chuaysi B, Kiattisin S. Fishing vessels behavior identification for combating IUU fishing: enable traceability at sea. Wirel Pers Commun. 2020;115:2971\u201393.","journal-title":"Wirel Pers Commun"},{"key":"398_CR6","doi-asserted-by":"publisher","first-page":"1298","DOI":"10.3390\/molecules27041298","volume":"27","author":"B Duarte","year":"2022","unstructured":"Duarte B, Mamede R, Duarte IA, Ca\u00e7ador I, Tanner SE, Silva M, et al. Elemental chemometrics as tools to depict stalked barnacle (Pollicipes pollicipes) harvest locations and food safety. Molecules. 2022;27:1298.","journal-title":"Molecules"},{"key":"398_CR7","doi-asserted-by":"publisher","first-page":"2634","DOI":"10.3390\/molecules26092634","volume":"26","author":"T Forleo","year":"2021","unstructured":"Forleo T, Zappi A, Melucci D, Ciriaci M, Griffoni F, Bacchiocchi S, et al. Inorganic elements in mytilus galloprovincialis shells: geographic traceability by multivariate analysis of ICP-MS data. Molecules. 2021;26:2634.","journal-title":"Molecules"},{"key":"398_CR8","doi-asserted-by":"publisher","first-page":"104764","DOI":"10.1016\/j.jfca.2022.104764","volume":"114","author":"R Mamede","year":"2022","unstructured":"Mamede R, Duarte IA, Ca\u00e7ador I, Tanner SE, Silva M, Jacinto D, et al. Elemental fingerprinting of sea urchin (Paracentrotus lividus) gonads to assess food safety and trace its geographic origin. J Food Compos Anal. 2022;114:104764.","journal-title":"J Food Compos Anal"},{"key":"398_CR9","doi-asserted-by":"publisher","first-page":"107368","DOI":"10.1016\/j.foodcont.2020.107368","volume":"118","author":"R Mamede","year":"2020","unstructured":"Mamede R, Ricardo F, Santos A, D\u00edaz S, Santos SAO, Bispo R, et al. Revealing the illegal harvesting of Manila clams (Ruditapes philippinarum) using fatty acid profiles of the adductor muscle. Food Control. 2020;118:107368.","journal-title":"Food Control"},{"key":"398_CR10","doi-asserted-by":"publisher","first-page":"108017","DOI":"10.1016\/j.ecolind.2021.108017","volume":"129","author":"F Ricardo","year":"2021","unstructured":"Ricardo F, Gon\u00e7alves D, Pimentel T, Mamede R, Ros\u00e1rio M, Domingues M, Lilleb\u00f8 AI, et al. Prevalence of phylogenetic over environmental drivers on the fatty acid profiles of the adductor muscle of marine bivalves and its relevance for traceability. Ecol Ind. 2021;129:108017.","journal-title":"Ecol Ind"},{"key":"398_CR11","doi-asserted-by":"publisher","first-page":"129687","DOI":"10.1016\/j.foodchem.2021.129687","volume":"356","author":"MO Varr\u00e0","year":"2021","unstructured":"Varr\u00e0 MO, Hus\u00e1kov\u00e1 L, Pato\u010dka J, Ghidini S, Zanardi E. Multi-element signature of cuttlefish and its potential for the discrimination of different geographical provenances and traceability. Food Chem. 2021;356:129687.","journal-title":"Food Chem"},{"key":"398_CR12","doi-asserted-by":"publisher","first-page":"104479","DOI":"10.1016\/j.jfca.2022.104479","volume":"109","author":"B Duarte","year":"2022","unstructured":"Duarte B, Carreiras J, Mamede R, Duarte IA, Ca\u00e7ador I, Reis-Santos P, et al. Written in ink: elemental signatures in Octopus ink successfully trace geographical origin. J Food Compos Anal. 2022;109:104479.","journal-title":"J Food Compos Anal"},{"key":"398_CR13","doi-asserted-by":"publisher","first-page":"270","DOI":"10.3390\/foods10020270","volume":"10","author":"MO Varr\u00e0","year":"2021","unstructured":"Varr\u00e0 MO, Ghidini S, Hus\u00e1kov\u00e1 L, Ianieri A, Zanardi E. Advances in troubleshooting fish and seafood authentication by inorganic elemental composition. Foods. 2021;10:270.","journal-title":"Foods"},{"key":"398_CR14","doi-asserted-by":"publisher","first-page":"109069","DOI":"10.1016\/j.foodcont.2022.109069","volume":"139","author":"A del Rio-Lav\u00edn","year":"2022","unstructured":"del Rio-Lav\u00edn A, Weber J, Molkentin J, Jim\u00e9nez E, Artetxe-Arrate I, Pardo M\u00c1. Stable isotope and trace element analysis for tracing the geographical origin of the mediterranean mussel (Mytilus galloprovincialis) in food authentication. Food Control. 2022;139:109069.","journal-title":"Food Control"},{"key":"398_CR15","doi-asserted-by":"publisher","first-page":"129","DOI":"10.1016\/j.foodcont.2015.03.052","volume":"57","author":"S Portarena","year":"2015","unstructured":"Portarena S, Farinelli D, Lauteri M, Famiani F, Esti M, Brugnoli E. Stable isotope and fatty acid compositions of monovarietal Olive oils: implications of ripening stage and climate effects as determinants in traceability studies. Food Control. 2015;57:129\u201335.","journal-title":"Food Control"},{"key":"398_CR16","doi-asserted-by":"crossref","unstructured":"Fonseca VF, Duarte IA, Matos AR, Reis-Santos P, Duarte B. Fatty acid profiles as natural tracers of provenance and lipid quality indicators in illegally sourced fish and bivalves. Food Control. 2021; 134:108735.","DOI":"10.1016\/j.foodcont.2021.108735"},{"key":"398_CR17","doi-asserted-by":"publisher","first-page":"66","DOI":"10.1016\/j.jfca.2018.05.009","volume":"72","author":"AF Mottese","year":"2018","unstructured":"Mottese AF, Albergamo A, Bartolomeo G, Bua GD, Rando R, De Pasquale P, et al. Evaluation of fatty acids and inorganic elements by multivariate statistics for the traceability of the Sicilian capparis spinosa L. J Food Compos Anal. 2018;72:66\u201374.","journal-title":"J Food Compos Anal"},{"key":"398_CR18","doi-asserted-by":"publisher","first-page":"128","DOI":"10.1016\/j.foodcont.2018.03.041","volume":"91","author":"X Zhao","year":"2018","unstructured":"Zhao X, Liu Y, Li Y, Zhang X, Qi H. Authentication of the sea cucumber (Apostichopus japonicus) using amino acids carbon stable isotope fingerprinting. Food Control. 2018;91:128\u201337.","journal-title":"Food Control"},{"key":"398_CR19","doi-asserted-by":"publisher","first-page":"259","DOI":"10.1016\/j.aquaculture.2018.04.020","volume":"492","author":"FPA Cohen","year":"2018","unstructured":"Cohen FPA, Pimentel T, Valenti WC, Calado R. First insights on the bacterial fingerprints of live seahorse skin mucus and its relevance for traceability. Aquaculture. 2018;492:259\u201364.","journal-title":"Aquaculture"},{"key":"398_CR20","doi-asserted-by":"publisher","first-page":"11862","DOI":"10.1038\/s41598-017-11552-y","volume":"7","author":"T Pimentel","year":"2017","unstructured":"Pimentel T, Marcelino J, Ricardo F, Soares AMVM, Calado R. Bacterial communities 16S rDNA fingerprinting as a potential tracing tool for cultured Seabass dicentrarchus labrax. Sci Rep. 2017;7:11862.","journal-title":"Sci Rep"},{"key":"398_CR21","doi-asserted-by":"publisher","first-page":"13","DOI":"10.1186\/s42523-024-00300-z","volume":"6","author":"N Meriggi","year":"2024","unstructured":"Meriggi N, Russo A, Renzi S, Cerasuolo B, Nerini M, Ugolini A, et al. Enhancing seafood traceability: tracking the origin of Seabass and seabream from the Tuscan Coast area by the analysis of the gill bacterial communities. Anim Microbiome. 2024;6:13.","journal-title":"Anim Microbiome"},{"key":"398_CR22","doi-asserted-by":"publisher","first-page":"2726","DOI":"10.3390\/foods13172726","volume":"13","author":"M Nerini","year":"2024","unstructured":"Nerini M, Russo A, Decorosi F, Meriggi N, Viti C, Cavalieri D, et al. A microbial phenomics approach to determine metabolic signatures to enhance seabream Sparus aurata traceability, differentiating between Wild-Caught and farmed. Foods. 2024;13:2726.","journal-title":"Foods"},{"key":"398_CR23","doi-asserted-by":"publisher","first-page":"420","DOI":"10.1093\/bib\/bbr080","volume":"13","author":"JA Foster","year":"2012","unstructured":"Foster JA, Bunge J, Gilbert JA, Moore JH. Measuring the microbiome: perspectives on advances in DNA-based techniques for exploring microbial life. Brief Bioinform. 2012;13:420\u20139.","journal-title":"Brief Bioinform"},{"key":"398_CR24","doi-asserted-by":"publisher","first-page":"397","DOI":"10.1007\/s12088-018-0760-y","volume":"58","author":"C Talwar","year":"2018","unstructured":"Talwar C, Nagar S, Lal R, Negi RK. Fish gut microbiome: current approaches and future perspectives. Indian J Microbiol. 2018;58:397\u2013414.","journal-title":"Indian J Microbiol"},{"key":"398_CR25","doi-asserted-by":"publisher","first-page":"166","DOI":"10.1186\/s40168-021-01113-x","volume":"9","author":"PS Kim","year":"2021","unstructured":"Kim PS, Shin N-R, Lee J-B, Kim M-S, Whon TW, Hyun D-W, et al. Host habitat is the major determinant of the gut Microbiome of fish. Microbiome. 2021;9:166.","journal-title":"Microbiome"},{"key":"398_CR26","doi-asserted-by":"publisher","first-page":"115264","DOI":"10.1016\/j.lwt.2023.115264","volume":"186","author":"R Piredda","year":"2023","unstructured":"Piredda R, Mottola A, Lorusso L, Ranieri L, Catanese G, Cipriano G, et al. Microbiome-based study in wild-caught Scomber scombrus fish products at the end of the supply chain. LWT. 2023;186:115264.","journal-title":"LWT"},{"key":"398_CR27","doi-asserted-by":"crossref","unstructured":"Liu X, Teixeira JS, Ner S, Ma KV, Petronella N, Banerjee S et al. Exploring the potential of the Microbiome as a marker of the geographic origin of fresh seafood. Front Microbiol. 2020;11.","DOI":"10.3389\/fmicb.2020.00696"},{"key":"398_CR28","doi-asserted-by":"publisher","first-page":"e0290776","DOI":"10.1371\/journal.pone.0290776","volume":"18","author":"A del Rio-Lav\u00edn","year":"2023","unstructured":"del Rio-Lav\u00edn A, Monchy S, Jim\u00e9nez E, Pardo M\u00c1. Gut microbiota fingerprinting as a potential tool for tracing the geographical origin of farmed mussels (Mytilus galloprovincialis). PLoS ONE. 2023;18:e0290776.","journal-title":"PLoS ONE"},{"key":"398_CR29","doi-asserted-by":"crossref","unstructured":"Duarte B, Figueiredo A, Ramalhosa P, Canning-Clode J, Ca\u00e7ador I, Fonseca VF. Unravelling the Portuguese coastal and transitional waters\u2019 microbial resistome as a biomarker of differential anthropogenic impact. Toxics. 2022; 10:613.","DOI":"10.3390\/toxics10100613"},{"key":"398_CR30","doi-asserted-by":"publisher","unstructured":"ICES. Workshop on Atlantic chub mackerel (Scomber colias). 2020. https:\/\/doi.org\/10.17895\/ICES.PUB.5970","DOI":"10.17895\/ICES.PUB.5970"},{"key":"398_CR31","doi-asserted-by":"publisher","first-page":"341","DOI":"10.1071\/MF19389","volume":"72","author":"AA Muniz","year":"2020","unstructured":"Muniz AA, Moura A, Triay-Portella R, Moreira C, Santos PT, Correia AT. Population structure of the Chub mackerel (Scomber colias) in the North-east Atlantic inferred from otolith shape and body morphometrics. Mar Freshw Res. 2020;72:341\u201352.","journal-title":"Mar Freshw Res"},{"key":"398_CR32","unstructured":"Villamor B, Carrera P, Castro J, Ramos F, Velasco F, Sobrino I et al. The Chub Mackerel (Scomber Colias) in the Atlantic Spanish Waters (ICES Divisions 8.c and 9.a): Biological, fishery and survey data. 2017."},{"key":"398_CR33","unstructured":"DGRM, Recursos da Pesca. \/ 2022. Lisbon: Dire\u00e7\u00e3o Geral de Recursos Marinhos (DGRM); 2023."},{"key":"398_CR34","doi-asserted-by":"publisher","first-page":"7","DOI":"10.7171\/jbt.20-3101-002","volume":"31","author":"A Stortchevoi","year":"2020","unstructured":"Stortchevoi A, Kamelamela N, Levine SS. SPRI Beads-based size selection in the range of 2-10\u00a0kb. J Biomol Tech. 2020;31:7\u201310.","journal-title":"J Biomol Tech"},{"key":"398_CR35","doi-asserted-by":"publisher","first-page":"863","DOI":"10.1093\/bioinformatics\/btr026","volume":"27","author":"R Schmieder","year":"2011","unstructured":"Schmieder R, Edwards R. Quality control and preprocessing of metagenomic datasets. Bioinformatics. 2011;27:863\u20134.","journal-title":"Bioinformatics"},{"key":"398_CR36","doi-asserted-by":"publisher","first-page":"257","DOI":"10.1186\/s13059-019-1891-0","volume":"20","author":"DE Wood","year":"2019","unstructured":"Wood DE, Lu J, Langmead B. Improved metagenomic analysis with kraken 2. Genome Biol. 2019;20:257.","journal-title":"Genome Biol"},{"key":"398_CR37","doi-asserted-by":"crossref","unstructured":"Bhat AH, Department of Biotechnology K S. Rangasamy College of Technology, Tiruchengode, India, Prabhu P. Department of Biotechnology K. S. Rangasamy College of Technology, Tiruchengode, India. OTU Clustering A window to analyse uncultured microbial world. IJSRCSE. 2017;5:62\u20138.","DOI":"10.26438\/ijsrcse\/v5i6.6268"},{"key":"398_CR38","doi-asserted-by":"crossref","unstructured":"Zalewski S, Stewart CJ, Embleton ND, Berrington JE. Brief guide to the analysis, interpretation and presentation of microbiota data. Arch Dis Child Educ Pract Ed. 2018;103:327-330.","DOI":"10.1136\/archdischild-2017-313838"},{"key":"398_CR39","doi-asserted-by":"publisher","first-page":"e61217","DOI":"10.1371\/journal.pone.0061217","volume":"8","author":"PJ McMurdie","year":"2013","unstructured":"McMurdie PJ, Holmes S. Phyloseq: an R package for reproducible interactive analysis and graphics of Microbiome census data. PLoS ONE. 2013;8:e61217.","journal-title":"PLoS ONE"},{"key":"398_CR40","unstructured":"Kassambara A, ggpubr. ggplot2 Based Publication Ready Plots. 2023."},{"key":"398_CR41","doi-asserted-by":"publisher","first-page":"e1005404","DOI":"10.1371\/journal.pcbi.1005404","volume":"13","author":"ZSL Foster","year":"2017","unstructured":"Foster ZSL, Sharpton TJ, Gr\u00fcnwald NJ. Metacoder: an R package for visualization and manipulation of community taxonomic diversity data. PLoS Comput Biol. 2017;13:e1005404.","journal-title":"PLoS Comput Biol"},{"key":"398_CR42","doi-asserted-by":"publisher","first-page":"76","DOI":"10.1186\/s40168-021-01013-0","volume":"9","author":"Y Zhao","year":"2021","unstructured":"Zhao Y, Federico A, Faits T, Manimaran S, Segr\u00e8 D, Monti S, et al. Animalcules: interactive Microbiome analytics and visualization in R. Microbiome. 2021;9:76.","journal-title":"Microbiome"},{"key":"398_CR43","doi-asserted-by":"publisher","first-page":"W310","DOI":"10.1093\/nar\/gkad407","volume":"51","author":"Y Lu","year":"2023","unstructured":"Lu Y, Zhou G, Ewald J, Pang Z, Shiri T, Xia J. MicrobiomeAnalyst 2.0: comprehensive statistical, functional and integrative analysis of Microbiome data. Nucleic Acids Res. 2023;51:W310\u20138.","journal-title":"Nucleic Acids Res"},{"key":"398_CR44","first-page":"5","volume":"2","author":"A Liaw","year":"2002","unstructured":"Liaw A, Wiener M. Classification and regression by randomforest. R News. 2002;2:5.","journal-title":"R News"},{"key":"398_CR45","doi-asserted-by":"publisher","first-page":"3566","DOI":"10.1890\/08-1823.1","volume":"90","author":"MD C\u00e1ceres","year":"2009","unstructured":"C\u00e1ceres MD, Legendre P. Associations between species and groups of sites: indices and statistical inference. Ecology. 2009;90:3566\u201374.","journal-title":"Ecology"},{"key":"398_CR46","doi-asserted-by":"publisher","first-page":"1674","DOI":"10.1111\/j.1600-0706.2010.18334.x","volume":"119","author":"M De C\u00e1ceres","year":"2010","unstructured":"De C\u00e1ceres M, Legendre P, Moretti M. Improving indicator species analysis by combining groups of sites. Oikos. 2010;119:1674\u201384.","journal-title":"Oikos"},{"key":"398_CR47","doi-asserted-by":"crossref","unstructured":"De Mendiburu F, Simon R. Agricolae - Ten years of an open source statistical tool for experiments in breeding, agriculture and biology. 2015.","DOI":"10.7287\/peerj.preprints.1404v1"},{"key":"398_CR48","doi-asserted-by":"publisher","first-page":"fiaa255","DOI":"10.1093\/femsec\/fiaa255","volume":"97","author":"C Liu","year":"2021","unstructured":"Liu C, Cui Y, Li X, Yao M. Microeco: an R package for data mining in microbial community ecology. FEMS Microbiol Ecol. 2021;97:fiaa255.","journal-title":"FEMS Microbiol Ecol"},{"key":"398_CR49","doi-asserted-by":"publisher","first-page":"1272","DOI":"10.1126\/science.aaf4507","volume":"353","author":"S Louca","year":"2016","unstructured":"Louca S, Parfrey LW, Doebeli M. Decoupling function and taxonomy in the global ocean Microbiome. Science. 2016;353:1272\u20137.","journal-title":"Science"},{"key":"398_CR50","doi-asserted-by":"crossref","unstructured":"Itay P, Shemesh E, Ofek-Lalzar M, Davidovich N, Kroin Y, Zrihan S et al. An insight into gill Microbiome of Eastern mediterranean wild fish by applying next generation sequencing. Front Mar Sci. 2022;9.","DOI":"10.3389\/fmars.2022.1008103"},{"key":"398_CR51","doi-asserted-by":"publisher","first-page":"1534","DOI":"10.1016\/j.chemosphere.2009.09.052","volume":"77","author":"SN Al-Bahry","year":"2009","unstructured":"Al-Bahry SN, Mahmoud IY, Al-Belushi KIA, Elshafie AE, Al-Harthy A, Bakheit CK. Coastal sewage discharge and its impact on fish with reference to antibiotic resistant enteric bacteria and enteric pathogens as bio-indicators of pollution. Chemosphere. 2009;77:1534\u20139.","journal-title":"Chemosphere"},{"key":"398_CR52","doi-asserted-by":"publisher","first-page":"209","DOI":"10.3390\/microorganisms7070209","volume":"7","author":"JM Walter","year":"2019","unstructured":"Walter JM, Bagi A, Pampanin DM. Insights into the potential of the Atlantic Cod gut Microbiome as biomarker of oil contamination in the marine environment. Microorganisms. 2019;7:209.","journal-title":"Microorganisms"},{"issue":"Suppl 2","key":"398_CR53","doi-asserted-by":"publisher","first-page":"S3","DOI":"10.1186\/1476-069X-7-S2-S3","volume":"7","author":"JR Stewart","year":"2008","unstructured":"Stewart JR, Gast RJ, Fujioka RS, Solo-Gabriele HM, Meschke JS, Amaral-Zettler LA, et al. The coastal environment and human health: microbial indicators, pathogens, sentinels and reservoirs. Environ Health. 2008;7(Suppl 2):S3.","journal-title":"Environ Health"},{"key":"398_CR54","doi-asserted-by":"publisher","first-page":"738","DOI":"10.1111\/1541-4337.12671","volume":"20","author":"L Sheng","year":"2021","unstructured":"Sheng L, Wang L. The microbial safety of fish and fish products: recent advances in Understanding its significance, contamination sources, and control strategies. Comp Rev Food Sci Food Safe. 2021;20:738\u201386.","journal-title":"Comp Rev Food Sci Food Safe"},{"key":"398_CR55","doi-asserted-by":"publisher","first-page":"867","DOI":"10.1080\/10408398.2020.1749024","volume":"61","author":"J Lehel","year":"2021","unstructured":"Lehel J, Yaucat-Guendi R, Darnay L, Palot\u00e1s P, Laczay P. Possible food safety hazards of ready-to-eat Raw fish containing product (sushi, sashimi). Crit Rev Food Sci Nutr. 2021;61:867\u201388.","journal-title":"Crit Rev Food Sci Nutr"},{"key":"398_CR56","doi-asserted-by":"crossref","unstructured":"Mathieu A, Leclercq M, Sanabria M, Perin O, Droit A. Machine learning and deep learning applications in metagenomic taxonomy and functional annotation. Front Microbiol. 2022;13.","DOI":"10.3389\/fmicb.2022.811495"},{"key":"398_CR57","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/S0044-8486(99)00250-1","volume":"182","author":"B Spanggaard","year":"2000","unstructured":"Spanggaard B, Huber I, Nielsen J, Nielsen T, Appel KF, Gram L. The microflora of rainbow trout intestine: a comparison of traditional and molecular identification. Aquaculture. 2000;182:1\u201315.","journal-title":"Aquaculture"},{"key":"398_CR58","doi-asserted-by":"publisher","first-page":"425","DOI":"10.1007\/s00248-007-9288-0","volume":"55","author":"B Wilson","year":"2008","unstructured":"Wilson B, Danilowicz BS, Meijer WG. The diversity of bacterial communities associated with Atlantic Cod Gadus Morhua. Microb Ecol. 2008;55:425\u201334.","journal-title":"Microb Ecol"},{"key":"398_CR59","doi-asserted-by":"crossref","unstructured":"Spilsbury F, Foysal MJ, Tay A, Gagnon MM. Gut Microbiome as a potential biomarker in fish: dietary exposure to petroleum hydrocarbons and metals, metabolic functions and cytokine expression in juvenile lates calcarifer. Front Microbiol. 2022;13.","DOI":"10.3389\/fmicb.2022.827371"},{"key":"398_CR60","doi-asserted-by":"publisher","first-page":"736175","DOI":"10.1016\/j.aquaculture.2020.736175","volume":"533","author":"O Burtseva","year":"2021","unstructured":"Burtseva O, Kublanovskaya A, Fedorenko T, Lobakova E, Chekanov K. Gut Microbiome of the white sea fish revealed by 16S rRNA metabarcoding. Aquaculture. 2021;533:736175.","journal-title":"Aquaculture"}],"container-title":["Animal Microbiome"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/s42523-025-00398-9.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1186\/s42523-025-00398-9\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/s42523-025-00398-9.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,5,6]],"date-time":"2025-05-06T09:04:06Z","timestamp":1746522246000},"score":1,"resource":{"primary":{"URL":"https:\/\/animalmicrobiome.biomedcentral.com\/articles\/10.1186\/s42523-025-00398-9"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,5,6]]},"references-count":60,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2025,12]]}},"alternative-id":["398"],"URL":"https:\/\/doi.org\/10.1186\/s42523-025-00398-9","relation":{},"ISSN":["2524-4671"],"issn-type":[{"value":"2524-4671","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,5,6]]},"assertion":[{"value":"19 November 2024","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"17 March 2025","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"6 May 2025","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Declarations"}},{"value":"The authors declare no competing interests.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}],"article-number":"43"}}