{"id":"https://openalex.org/W4408647495","doi":"https://doi.org/10.1016/j.microb.2025.100299","title":"A review on modulation of gut microbiome interaction for the management of shrimp aquaculture and proposal of the introduction of deep learning-based approach for shrimp disease detection","display_name":"A review on modulation of gut microbiome interaction for the management of shrimp aquaculture and proposal of the introduction of deep learning-based approach for shrimp disease detection","publication_year":2025,"publication_date":"2025-03-19","ids":{"openalex":"https://openalex.org/W4408647495","doi":"https://doi.org/10.1016/j.microb.2025.100299"},"language":"en","primary_location":{"id":"doi:10.1016/j.microb.2025.100299","doi":"https://doi.org/10.1016/j.microb.2025.100299","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.microb.2025.100299","pdf_url":null,"source":{"id":"https://openalex.org/S4387290354","display_name":"The Microbe","issn_l":"2950-1946","issn":["2950-1946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","norway-1"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The Microbe","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1016/j.microb.2025.100299","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5111044679","display_name":"Md. Zakaria","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I205746353","display_name":"University of Dhaka","ror":"https://ror.org/05wv2vq37","country_code":"BD","type":"education","lineage":["https://openalex.org/I205746353"]}],"countries":["BD"],"is_corresponding":false,"raw_author_name":"Md. Zakaria","raw_affiliation_strings":["Department of Fisheries, University of Dhaka, Dhaka 1000, Bangladesh"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Fisheries, University of Dhaka, Dhaka 1000, Bangladesh","institution_ids":["https://openalex.org/I205746353"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062610579","display_name":"Micanaldo Ernesto Francisco","orcid":"https://orcid.org/0000-0002-3337-7432","observed_orcids":["https://orcid.org/0000-0002-3337-7432"]},"institutions":[{"id":"https://openalex.org/I3129864162","display_name":"L\u00fario University","ror":"https://ror.org/03sbnrq14","country_code":"MZ","type":"education","lineage":["https://openalex.org/I3129864162"]},{"id":"https://openalex.org/I43545212","display_name":"Ehime University","ror":"https://ror.org/017hkng22","country_code":"JP","type":"education","lineage":["https://openalex.org/I43545212"]},{"id":"https://openalex.org/I4405286249","display_name":"Center for Marine Environmental Studies, Ehime University","ror":"https://ror.org/01kt66879","country_code":"JP","type":"facility","lineage":["https://openalex.org/I43545212","https://openalex.org/I4405286249"]}],"countries":["JP","MZ"],"is_corresponding":false,"raw_author_name":"Micanaldo Ernesto Francisco","raw_affiliation_strings":["Center for Marine Environmental Studies (CMES), Ehime University, Matsuyama, Japan","Faculty of Architecture and Physical Planning (FAPF), Lurio University, Nampula, Mozambique"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Marine Environmental Studies (CMES), Ehime University, Matsuyama, Japan","institution_ids":["https://openalex.org/I43545212","https://openalex.org/I4405286249"]},{"raw_affiliation_string":"Faculty of Architecture and Physical Planning (FAPF), Lurio University, Nampula, Mozambique","institution_ids":["https://openalex.org/I3129864162"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052554131","display_name":"Santonu Kumar Sanyal","orcid":"https://orcid.org/0000-0001-5049-4297","observed_orcids":["https://orcid.org/0000-0001-5049-4297"]},"institutions":[{"id":"https://openalex.org/I1292875679","display_name":"Commonwealth Scientific and Industrial Research Organisation","ror":"https://ror.org/03qn8fb07","country_code":"AU","type":"government","lineage":["https://openalex.org/I1292875679","https://openalex.org/I2801453606","https://openalex.org/I4387156119"]},{"id":"https://openalex.org/I4405257511","display_name":"CSIRO Environment","ror":"https://ror.org/05bgxxb69","country_code":"AU","type":"government","lineage":["https://openalex.org/I1292875679","https://openalex.org/I2801453606","https://openalex.org/I4387156119","https://openalex.org/I4405257511"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Santonu K. Sanyal","raw_affiliation_strings":["CSIRO Environment Research Unit, Clunies Ross Street, Australian Capital Territory, 2601, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CSIRO Environment Research Unit, Clunies Ross Street, Australian Capital Territory, 2601, Australia","institution_ids":["https://openalex.org/I1292875679","https://openalex.org/I4405257511"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012824041","display_name":"Anwar Hossain","orcid":"https://orcid.org/0000-0002-0962-3605","observed_orcids":["https://orcid.org/0000-0002-0962-3605"]},"institutions":[{"id":"https://openalex.org/I205746353","display_name":"University of Dhaka","ror":"https://ror.org/05wv2vq37","country_code":"BD","type":"education","lineage":["https://openalex.org/I205746353"]},{"id":"https://openalex.org/I43545212","display_name":"Ehime University","ror":"https://ror.org/017hkng22","country_code":"JP","type":"education","lineage":["https://openalex.org/I43545212"]},{"id":"https://openalex.org/I4405286249","display_name":"Center for Marine Environmental Studies, Ehime University","ror":"https://ror.org/01kt66879","country_code":"JP","type":"facility","lineage":["https://openalex.org/I43545212","https://openalex.org/I4405286249"]}],"countries":["BD","JP"],"is_corresponding":false,"raw_author_name":"Anwar Hossain","raw_affiliation_strings":["Center for Marine Environmental Studies (CMES), Ehime University, Matsuyama, Japan","Department of Fisheries, University of Dhaka, Dhaka 1000, Bangladesh"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Marine Environmental Studies (CMES), Ehime University, Matsuyama, Japan","institution_ids":["https://openalex.org/I43545212","https://openalex.org/I4405286249"]},{"raw_affiliation_string":"Department of Fisheries, University of Dhaka, Dhaka 1000, Bangladesh","institution_ids":["https://openalex.org/I205746353"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029742041","display_name":"Shankar Chandra Mandal","orcid":"https://orcid.org/0000-0002-0466-4440","observed_orcids":["https://orcid.org/0000-0002-0466-4440"]},"institutions":[{"id":"https://openalex.org/I205746353","display_name":"University of Dhaka","ror":"https://ror.org/05wv2vq37","country_code":"BD","type":"education","lineage":["https://openalex.org/I205746353"]}],"countries":["BD"],"is_corresponding":false,"raw_author_name":"Shankar C. Mandal","raw_affiliation_strings":["Department of Fisheries, University of Dhaka, Dhaka 1000, Bangladesh"],"raw_orcid":"https://orcid.org/0000-0002-0466-4440","affiliations":[{"raw_affiliation_string":"Department of Fisheries, University of Dhaka, Dhaka 1000, Bangladesh","institution_ids":["https://openalex.org/I205746353"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5082558230","display_name":"Md. Inja-Mamun Haque","orcid":"https://orcid.org/0000-0003-0953-5530","observed_orcids":["https://orcid.org/0000-0003-0953-5530"]},"institutions":[{"id":"https://openalex.org/I205746353","display_name":"University of Dhaka","ror":"https://ror.org/05wv2vq37","country_code":"BD","type":"education","lineage":["https://openalex.org/I205746353"]}],"countries":["BD"],"is_corresponding":true,"raw_author_name":"Md. Inja-Mamun Haque","raw_affiliation_strings":["Department of Fisheries, University of Dhaka, Dhaka 1000, Bangladesh"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Fisheries, University of Dhaka, Dhaka 1000, Bangladesh","institution_ids":["https://openalex.org/I205746353"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5082558230"],"corresponding_institution_ids":["https://openalex.org/I205746353"],"apc_list":{"value":2150,"currency":"USD","value_usd":2150},"apc_paid":{"value":2150,"currency":"USD","value_usd":2150},"fwci":4.5052,"has_fulltext":false,"cited_by_count":15,"citation_normalized_percentile":{"value":0.95664219,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":99},"biblio":{"volume":"7","issue":null,"first_page":"100299","last_page":"100299"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10506","display_name":"Aquaculture disease management and microbiota","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/2403","display_name":"Immunology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10506","display_name":"Aquaculture disease management and microbiota","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/2403","display_name":"Immunology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10450","display_name":"Aquaculture Nutrition and Growth","score":0.00019999999494757503,"subfield":{"id":"https://openalex.org/subfields/1104","display_name":"Aquatic Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10066","display_name":"Gut microbiota and health","score":0.0,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/gut-microbiota","display_name":"gut microbiota","score":0.8949999809265137},{"id":"https://openalex.org/keywords/shrimp-farming","display_name":"shrimp aquaculture","score":0.9860000014305115},{"id":"https://openalex.org/keywords/penaeus-monodon","display_name":"Penaeus monodon","score":0.9890000224113464},{"id":"https://openalex.org/keywords/dysbiosis","display_name":"dysbiosis","score":0.949999988079071},{"id":"https://openalex.org/keywords/eubiosis","display_name":"eubiosis","score":0.9710000157356262},{"id":"https://openalex.org/keywords/probiotics","display_name":"probiotics","score":0.9869999885559082},{"id":"https://openalex.org/keywords/deep-learning","display_name":"deep learning","score":0.9190000295639038},{"id":"https://openalex.org/keywords/sediment-microbial-communities","display_name":"sediment microbial communities","score":0.7549999952316284},{"id":"https://openalex.org/keywords/host-microbe-interactions","display_name":"host-microbe interactions","score":0.7080000042915344}],"concepts":[{"id":"https://openalex.org/C2776841996","wikidata":"https://www.wikidata.org/wiki/Q1517781","display_name":"Shrimp","level":2,"score":0.9515875577926636},{"id":"https://openalex.org/C86909935","wikidata":"https://www.wikidata.org/wiki/Q188989","display_name":"Aquaculture","level":3,"score":0.6055657863616943},{"id":"https://openalex.org/C3019978661","wikidata":"https://www.wikidata.org/wiki/Q739734","display_name":"Gut microbiome","level":3,"score":0.6032803654670715},{"id":"https://openalex.org/C505870484","wikidata":"https://www.wikidata.org/wiki/Q180538","display_name":"Fishery","level":1,"score":0.6003279089927673},{"id":"https://openalex.org/C143121216","wikidata":"https://www.wikidata.org/wiki/Q1330402","display_name":"Microbiome","level":2,"score":0.495065838098526},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.40522393584251404},{"id":"https://openalex.org/C2909208804","wikidata":"https://www.wikidata.org/wiki/Q127282","display_name":"Fish <Actinopterygii>","level":2,"score":0.2623111605644226},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.1973377764225006}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1016/j.microb.2025.100299","doi":"https://doi.org/10.1016/j.microb.2025.100299","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.microb.2025.100299","pdf_url":null,"source":{"id":"https://openalex.org/S4387290354","display_name":"The Microbe","issn_l":"2950-1946","issn":["2950-1946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","norway-1"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The Microbe","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1016/j.microb.2025.100299","doi":"https://doi.org/10.1016/j.microb.2025.100299","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.microb.2025.100299","pdf_url":null,"source":{"id":"https://openalex.org/S4387290354","display_name":"The Microbe","issn_l":"2950-1946","issn":["2950-1946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","norway-1"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The Microbe","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/14","display_name":"Life below water","score":1.0},{"id":"https://metadata.un.org/sdg/2","display_name":"Zero hunger","score":0.8409000039100647}],"study_designs":[],"awards":[{"id":"https://openalex.org/G7840013974","display_name":null,"funder_award_id":"Reg/Admin-3/25401","funder_id":"https://openalex.org/F4320323933","funder_display_name":"University of Dhaka"}],"funders":[{"id":"https://openalex.org/F4320316035","display_name":"University Grants Commission of Bangladesh","ror":"https://ror.org/04jtt0w10"},{"id":"https://openalex.org/F4320323933","display_name":"University of Dhaka","ror":"https://ror.org/05wv2vq37"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":87,"referenced_works":["https://openalex.org/W228436677","https://openalex.org/W239897422","https://openalex.org/W1916067805","https://openalex.org/W1965823759","https://openalex.org/W1977267343","https://openalex.org/W2020616960","https://openalex.org/W2023449424","https://openalex.org/W2036495967","https://openalex.org/W2047653150","https://openalex.org/W2048502267","https://openalex.org/W2058337054","https://openalex.org/W2081736282","https://openalex.org/W2092174734","https://openalex.org/W2100516522","https://openalex.org/W2110235509","https://openalex.org/W2116184599","https://openalex.org/W2116827175","https://openalex.org/W2118880026","https://openalex.org/W2148277151","https://openalex.org/W2150602072","https://openalex.org/W2171008933","https://openalex.org/W2172537579","https://openalex.org/W2176371198","https://openalex.org/W2181654814","https://openalex.org/W2320528850","https://openalex.org/W2329273808","https://openalex.org/W2336762859","https://openalex.org/W2477663929","https://openalex.org/W2493352845","https://openalex.org/W2512452970","https://openalex.org/W2587097375","https://openalex.org/W2588658987","https://openalex.org/W2604625843","https://openalex.org/W2735973305","https://openalex.org/W2736218432","https://openalex.org/W2746218153","https://openalex.org/W2753420550","https://openalex.org/W2769418101","https://openalex.org/W2791606870","https://openalex.org/W2791904618","https://openalex.org/W2799633175","https://openalex.org/W2804182980","https://openalex.org/W2882991524","https://openalex.org/W2883315737","https://openalex.org/W2886324797","https://openalex.org/W2890760682","https://openalex.org/W2891182582","https://openalex.org/W2893736503","https://openalex.org/W2894810937","https://openalex.org/W2898646976","https://openalex.org/W2912260766","https://openalex.org/W2918971366","https://openalex.org/W2924688737","https://openalex.org/W2934306424","https://openalex.org/W2936513609","https://openalex.org/W2979031090","https://openalex.org/W2988126587","https://openalex.org/W2991381007","https://openalex.org/W3006298314","https://openalex.org/W3010723724","https://openalex.org/W3011711248","https://openalex.org/W3019734846","https://openalex.org/W3040245690","https://openalex.org/W3100479569","https://openalex.org/W3112793859","https://openalex.org/W3134069698","https://openalex.org/W3172694422","https://openalex.org/W3188114969","https://openalex.org/W3191934927","https://openalex.org/W3197994380","https://openalex.org/W3198576039","https://openalex.org/W3198947870","https://openalex.org/W3206292130","https://openalex.org/W3211527264","https://openalex.org/W3216358157","https://openalex.org/W4200395856","https://openalex.org/W4210958593","https://openalex.org/W4224438925","https://openalex.org/W4294794016","https://openalex.org/W4306786984","https://openalex.org/W4309884145","https://openalex.org/W4312054898","https://openalex.org/W4366692103","https://openalex.org/W4380084309","https://openalex.org/W4387499686","https://openalex.org/W4390065012","https://openalex.org/W4392474047"],"related_works":["https://openalex.org/W4388635850","https://openalex.org/W2855287449","https://openalex.org/W3019734846","https://openalex.org/W7082654590","https://openalex.org/W4399723891","https://openalex.org/W3081488572","https://openalex.org/W4288096508","https://openalex.org/W4386050706","https://openalex.org/W2588658987","https://openalex.org/W2885726992"],"abstract_inverted_index":{"Microbial":[0],"communities":[1],"inhabiting":[2],"the":[3,16,24,30,49,94,99,103,115,118,139,146,150,158,169,190,210,220,241],"gut":[4,37,76,100,159,170,265,276],"of":[5,18,29,34,62,67,102,120,138,145,154,173,196,243,255],"host":[6,50,104,140],"species":[7],"have":[8,167,186,208],"been":[9],"recognized":[10],"as":[11,20,59,253],"a":[12,121],"significant":[13],"factor":[14],"influencing":[15],"success":[17],"aquaculture":[19],"they":[21],"directly/indirectly":[22],"control":[23],"overall":[25],"physiology":[26],"and":[27,46,69,132,152,192,215,258],"biochemistry":[28],"host.":[31],"In":[32,163,204,228],"terms":[33],"shrimp":[35,85,88,197,226,244,270,282,289,306],"aquaculture,":[36,86],"microbiome":[38,77,171,195,266],"changes":[39],"(i.e.,":[40,51],"periodic":[41],"succession)":[42],"during":[43],"development":[44],"phases":[45],"interacts":[47],"with":[48],"shrimp),":[52],"contributing":[53],"to":[54,218,259,267,287],"several":[55],"physiological":[56],"processes":[57],"such":[58,252],"digestion,":[60],"absorption":[61],"nutrients,":[63],"intestinal":[64],"homeostasis,":[65],"inhibition":[66],"pathogens":[68],"more":[70],"importantly":[71],"immunity.":[72],"Therefore,":[73],"periodically":[74],"analyzing":[75],"can":[78],"be":[79,303],"considered":[80],"an":[81,232,292],"attractive":[82],"proposal":[83],"for":[84,109,117,225,240,280,305],"especially":[87],"health":[89,110,245,290],"management.":[90],"Any":[91],"change":[92],"in":[93,98,157],"normal":[95,122],"microbial":[96,123],"flora":[97],"system":[101],"is":[105,126,160,278,291],"termed":[106,127],"\u201cdysbiosis.\u201d":[107],"As":[108],"management,":[111],"utilizing":[112],"probiotics":[113,134],"paves":[114],"way":[116],"restoration":[119],"community,":[124],"which":[125,177],"\u201ceubiosis.\u201d":[128],"However,":[129],"screening,":[130],"designing,":[131],"applying":[133],"requires":[135],"prior":[136],"knowledge":[137],"microbiome.":[141],"A":[142],"proper":[143],"understanding":[144],"driving":[147],"factors":[148],"determining":[149],"selection":[151],"colonization":[153],"specific":[155],"microbes":[156,277],"also":[161],"essential.":[162],"this":[164],"review,":[165],"we":[166,185,207,230],"compiled":[168],"data":[172,188],"Penaeus":[174],"monodon":[175],",":[176],"was":[178],"reported":[179,200],"from":[180,201],"different":[181],"geographical":[182],"locations.":[183],"Besides,":[184],"integrated":[187],"on":[189,248],"sediment":[191],"rearing":[193],"water":[194,216],"culture":[198],"ponds":[199],"previous":[202],"studies.":[203],"doing":[205],"so,":[206],"constructed":[209],"networking":[211],"between":[212],"gut,":[213],"sediment,":[214],"microbiota":[217,286],"determine":[219],"eubiosis":[221],"or":[222],"dysbiosis":[223],"state-of-art":[224],"health.":[227],"addition,":[229],"propose":[231],"Artificial":[233,297],"Intelligence":[234,298],"Deep":[235,299],"Learning":[236],"(AI-DL)":[237],"based":[238,247],"approach":[239,301],"identification":[242],"status":[246],"external":[249],"anatomy":[250],"features":[251],"detection":[254],"disease":[256,307],"symptoms":[257],"take":[260],"preventive":[261],"measures":[262],"by":[263],"modulating":[264],"achieve":[268],"sustainable":[269],"production.":[271],"Graphical":[272],"abstract":[273],"\u2022":[274,284,295],"Monitoring":[275],"essential":[279],"eco-friendly":[281],"farming.":[283],"Manipulating":[285],"support":[288],"effective":[293],"strategy.":[294],"An":[296],"learning-based":[300],"could":[302],"used":[304],"diagnosis.":[308]},"counts_by_year":[{"year":2026,"cited_by_count":10},{"year":2025,"cited_by_count":5}],"updated_date":"2026-11-13T13:42:25.865203","created_date":"2025-03-20T00:00:00"}
