{"id":"https://openalex.org/W2340228533","doi":"https://doi.org/10.4238/2015.december.22.16","title":"Comparative transcriptome analysis of Nile tilapia (Oreochromis niloticus) in response to alkalinity stress","display_name":"Comparative transcriptome analysis of Nile tilapia (Oreochromis niloticus) in response to alkalinity stress","publication_year":2015,"publication_date":"2015-01-01","ids":{"openalex":"https://openalex.org/W2340228533","doi":"https://doi.org/10.4238/2015.december.22.16","mag":"2340228533","pmid":"https://pubmed.ncbi.nlm.nih.gov/26782437"},"language":"en","primary_location":{"id":"doi:10.4238/2015.december.22.16","doi":"https://doi.org/10.4238/2015.december.22.16","is_oa":true,"landing_page_url":"https://doi.org/10.4238/2015.december.22.16","pdf_url":"https://doi.org/10.4238/2015.december.22.16","source":{"id":"https://openalex.org/S206553565","display_name":"Genetics and Molecular Research","issn_l":"1676-5680","issn":["1676-5680"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-c","norway-1","poland-40","russia-white-list-4"],"host_organization":"https://openalex.org/P4322633623","host_organization_name":"Research Foundation of Ribeir\u00e3o Preto","host_organization_lineage":["https://openalex.org/P4322633623"],"host_organization_lineage_names":["Research Foundation of Ribeir\u00e3o Preto"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genetics and Molecular Research","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://doi.org/10.4238/2015.december.22.16","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5024471265","display_name":"Yuming Zhao","orcid":"https://orcid.org/0000-0002-1632-4646","observed_orcids":["https://orcid.org/0000-0002-1632-4646"]},"institutions":[{"id":"https://openalex.org/I44675526","display_name":"Shanghai Ocean University","ror":"https://ror.org/04n40zv07","country_code":"CN","type":"education","lineage":["https://openalex.org/I44675526"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Y. Zhao","raw_affiliation_strings":["Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China","institution_ids":["https://openalex.org/I44675526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5105667992","display_name":"Jun Wang","orcid":"https://orcid.org/0000-0002-6591-3316","observed_orcids":["https://orcid.org/0000-0002-6591-3316"]},"institutions":[{"id":"https://openalex.org/I44675526","display_name":"Shanghai Ocean University","ror":"https://ror.org/04n40zv07","country_code":"CN","type":"education","lineage":["https://openalex.org/I44675526"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"J. Wang","raw_affiliation_strings":["Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China","institution_ids":["https://openalex.org/I44675526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064249039","display_name":"Thammaratsuntorn Jeerawat","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I44675526","display_name":"Shanghai Ocean University","ror":"https://ror.org/04n40zv07","country_code":"CN","type":"education","lineage":["https://openalex.org/I44675526"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"J. Thammaratsuntorn","raw_affiliation_strings":["Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China","institution_ids":["https://openalex.org/I44675526"]}]},{"author_position":"middle","author":{"id":null,"display_name":"J.W. Wu","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I44675526","display_name":"Shanghai Ocean University","ror":"https://ror.org/04n40zv07","country_code":"CN","type":"education","lineage":["https://openalex.org/I44675526"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"J.W. Wu","raw_affiliation_strings":["Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China","institution_ids":["https://openalex.org/I44675526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086831639","display_name":"Jianhe Wei","orcid":"https://orcid.org/0000-0002-9168-5812","observed_orcids":["https://orcid.org/0000-0002-9168-5812"]},"institutions":[{"id":"https://openalex.org/I44675526","display_name":"Shanghai Ocean University","ror":"https://ror.org/04n40zv07","country_code":"CN","type":"education","lineage":["https://openalex.org/I44675526"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"J.H. Wei","raw_affiliation_strings":["Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China","institution_ids":["https://openalex.org/I44675526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100322775","display_name":"Yan Wang","orcid":"https://orcid.org/0000-0002-7078-1012","observed_orcids":["https://orcid.org/0000-0002-7078-1012"]},"institutions":[{"id":"https://openalex.org/I44675526","display_name":"Shanghai Ocean University","ror":"https://ror.org/04n40zv07","country_code":"CN","type":"education","lineage":["https://openalex.org/I44675526"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Y. Wang","raw_affiliation_strings":["Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China","institution_ids":["https://openalex.org/I44675526"]}]},{"author_position":"middle","author":{"id":null,"display_name":"J.W. Xu","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I44675526","display_name":"Shanghai Ocean University","ror":"https://ror.org/04n40zv07","country_code":"CN","type":"education","lineage":["https://openalex.org/I44675526"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"J.W. Xu","raw_affiliation_strings":["Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China","institution_ids":["https://openalex.org/I44675526"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100723220","display_name":"Jinliang Zhao","orcid":"https://orcid.org/0000-0002-5574-5515","observed_orcids":["https://orcid.org/0000-0002-5574-5515"]},"institutions":[{"id":"https://openalex.org/I44675526","display_name":"Shanghai Ocean University","ror":"https://ror.org/04n40zv07","country_code":"CN","type":"education","lineage":["https://openalex.org/I44675526"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"J.L. Zhao","raw_affiliation_strings":["Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Key Laboratory of Freshwater Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, China","institution_ids":["https://openalex.org/I44675526"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5100723220"],"corresponding_institution_ids":["https://openalex.org/I44675526"],"apc_list":null,"apc_paid":null,"fwci":1.9206,"has_fulltext":true,"cited_by_count":35,"citation_normalized_percentile":{"value":0.85106042,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"14","issue":"4","first_page":"17916","last_page":"17926"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11056","display_name":"Physiological and biochemical adaptations","score":0.8604000210762024,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11056","display_name":"Physiological and biochemical adaptations","score":0.8604000210762024,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10506","display_name":"Aquaculture disease management and microbiota","score":0.059300001710653305,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.03440000116825104,"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/oreochromis-niloticus","display_name":"Oreochromis niloticus","score":1.0},{"id":"https://openalex.org/keywords/alkaline-stress","display_name":"alkaline stress","score":0.9470000267028809},{"id":"https://openalex.org/keywords/gill-transcriptome","display_name":"gill transcriptome","score":0.9940000176429749},{"id":"https://openalex.org/keywords/differential-gene-expression","display_name":"differential gene expression","score":0.8759999871253967},{"id":"https://openalex.org/keywords/stress-response","display_name":"stress response","score":0.746999979019165},{"id":"https://openalex.org/keywords/heme-binding","display_name":"heme binding","score":0.9480000138282776},{"id":"https://openalex.org/keywords/energy-metabolism","display_name":"energy metabolism","score":0.843999981880188},{"id":"https://openalex.org/keywords/nitrogen-metabolism","display_name":"nitrogen metabolism","score":0.8220000267028809},{"id":"https://openalex.org/keywords/sulfur-metabolism","display_name":"sulfur metabolism","score":0.9589999914169312}],"concepts":[{"id":"https://openalex.org/C2780129523","wikidata":"https://www.wikidata.org/wiki/Q311170","display_name":"Nile tilapia","level":4,"score":0.9046246409416199},{"id":"https://openalex.org/C2778658382","wikidata":"https://www.wikidata.org/wiki/Q4621959","display_name":"Oreochromis","level":3,"score":0.8254168629646301},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.7852644920349121},{"id":"https://openalex.org/C45812177","wikidata":"https://www.wikidata.org/wiki/Q432016","display_name":"Alkalinity","level":2,"score":0.7839327454566956},{"id":"https://openalex.org/C152724338","wikidata":"https://www.wikidata.org/wiki/Q909442","display_name":"KEGG","level":5,"score":0.6856774091720581},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6189061403274536},{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.5383907556533813},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5283188223838806},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.3582366406917572},{"id":"https://openalex.org/C31903555","wikidata":"https://www.wikidata.org/wiki/Q1637030","display_name":"Food science","level":1,"score":0.33824747800827026},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.33302009105682373},{"id":"https://openalex.org/C2909208804","wikidata":"https://www.wikidata.org/wiki/Q127282","display_name":"Fish <Actinopterygii>","level":2,"score":0.21760061383247375},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.2083638608455658},{"id":"https://openalex.org/C505870484","wikidata":"https://www.wikidata.org/wiki/Q180538","display_name":"Fishery","level":1,"score":0.17173120379447937},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000222","descriptor_name":"Adaptation, Physiological","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D000222","descriptor_name":"Adaptation, Physiological","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000468","descriptor_name":"Alkalies","qualifier_ui":"Q000633","qualifier_name":"toxicity","is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":true},{"descriptor_ui":"D005880","descriptor_name":"Gills","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D005880","descriptor_name":"Gills","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D013312","descriptor_name":"Stress, Physiological","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D017210","descriptor_name":"Tilapia","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.4238/2015.december.22.16","doi":"https://doi.org/10.4238/2015.december.22.16","is_oa":true,"landing_page_url":"https://doi.org/10.4238/2015.december.22.16","pdf_url":"https://doi.org/10.4238/2015.december.22.16","source":{"id":"https://openalex.org/S206553565","display_name":"Genetics and Molecular Research","issn_l":"1676-5680","issn":["1676-5680"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-c","norway-1","poland-40","russia-white-list-4"],"host_organization":"https://openalex.org/P4322633623","host_organization_name":"Research Foundation of Ribeir\u00e3o Preto","host_organization_lineage":["https://openalex.org/P4322633623"],"host_organization_lineage_names":["Research Foundation of Ribeir\u00e3o Preto"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genetics and Molecular Research","raw_type":"journal-article"},{"id":"pmid:26782437","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26782437","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genetics and molecular research : GMR","raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.4238/2015.december.22.16","doi":"https://doi.org/10.4238/2015.december.22.16","is_oa":true,"landing_page_url":"https://doi.org/10.4238/2015.december.22.16","pdf_url":"https://doi.org/10.4238/2015.december.22.16","source":{"id":"https://openalex.org/S206553565","display_name":"Genetics and Molecular Research","issn_l":"1676-5680","issn":["1676-5680"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-c","norway-1","poland-40","russia-white-list-4"],"host_organization":"https://openalex.org/P4322633623","host_organization_name":"Research Foundation of Ribeir\u00e3o Preto","host_organization_lineage":["https://openalex.org/P4322633623"],"host_organization_lineage_names":["Research Foundation of Ribeir\u00e3o Preto"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genetics and Molecular Research","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2340228533.pdf","grobid_xml":"https://content.openalex.org/works/W2340228533.grobid-xml"},"referenced_works_count":36,"referenced_works":["https://openalex.org/W1969784672","https://openalex.org/W1970511872","https://openalex.org/W1985226690","https://openalex.org/W1999196806","https://openalex.org/W2000861968","https://openalex.org/W2002494427","https://openalex.org/W2002636911","https://openalex.org/W2015173256","https://openalex.org/W2021242983","https://openalex.org/W2024608742","https://openalex.org/W2025412736","https://openalex.org/W2029305571","https://openalex.org/W2043286160","https://openalex.org/W2045328342","https://openalex.org/W2049549066","https://openalex.org/W2050486347","https://openalex.org/W2089906223","https://openalex.org/W2091805564","https://openalex.org/W2097065948","https://openalex.org/W2100448568","https://openalex.org/W2101995089","https://openalex.org/W2121224532","https://openalex.org/W2124985265","https://openalex.org/W2127484064","https://openalex.org/W2133579817","https://openalex.org/W2141458291","https://openalex.org/W2149095998","https://openalex.org/W2153413659","https://openalex.org/W2168573304","https://openalex.org/W2170081751","https://openalex.org/W2170766140","https://openalex.org/W2173513692","https://openalex.org/W2323000565","https://openalex.org/W2357142253","https://openalex.org/W2483175156","https://openalex.org/W4229699708"],"related_works":["https://openalex.org/W2997642271","https://openalex.org/W7095592872","https://openalex.org/W1825711373","https://openalex.org/W2981313934","https://openalex.org/W2144159618","https://openalex.org/W4414208851","https://openalex.org/W6976786271","https://openalex.org/W2149095998","https://openalex.org/W1999196806","https://openalex.org/W4306655044"],"abstract_inverted_index":{"To":[0],"identify":[1],"genes":[2,63,72],"of":[3,33,110,127,129],"potential":[4],"importance":[5],"to":[6,14,50,82,114,121,131],"alkalinity":[7],"tolerance,":[8],"RNA":[9],"sequencing":[10],"(RNA-Seq)":[11],"was":[12],"performed":[13],"survey":[15],"gill":[16],"transcriptome":[17],"profiles":[18],"from":[19],"freshwater":[20],"(FW)":[21,36,45],"and":[22,60,66,87,102,116],"alkaline":[23,132],"water":[24],"(AW)":[25],"exposed":[26,113],"Nile":[27,111],"tilapia":[28,112],"(Oreochromis":[29],"niloticus).":[30],"A":[31],"total":[32],"22,724,036":[34],"(AW)/16,461,040":[35],"single-end":[37],"reads":[38,46],"were":[39,48,73,95],"generated":[40],"in":[41,75,97],"which":[42],"20,304,348":[43],"(AW)/14,681,290":[44],"(90.0/89.72%)":[47],"aligned":[49],"the":[51,108,124],"reference":[52],"genome.":[53],"Differential":[54],"expression":[55],"analysis":[56],"revealed":[57],"302":[58],"up-regulated":[59],"193":[61],"down-regulated":[62],"between":[64],"AW-":[65],"FW-exposed":[67],"fish.":[68],"These":[69,105],"differentially":[70],"expressed":[71],"enriched":[74,96],"several":[76],"Gene":[77],"Ontology":[78],"(GO)":[79],"terms":[80],"related":[81],"\"stress":[83],"response\",":[84],"\"heme":[85],"binding\",":[86],"\"carbonate":[88],"dehydratase":[89],"activity\".":[90],"Meanwhile,":[91],"significant":[92],"KEGG":[93],"pathways":[94],"energy":[98],"metabolism,":[99],"including":[100],"nitrogen":[101],"sulfur":[103],"metabolism.":[104],"results":[106],"demonstrate":[107],"response":[109],"alkaline-water":[115],"might":[117],"provide":[118],"valuable":[119],"information":[120],"further":[122],"understand":[123],"molecular":[125],"mechanisms":[126],"adaptation":[128],"fish":[130],"environments.":[133]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":1}],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2016-06-24T00:00:00"}