Comparative transcriptome analysis of Anguilla japonica livers following exposure to methylene blue
The thiazine dye methylene blue is widely used as a disinfectant and antidote in veterinary medicine. Here, we compared transcriptome differences in the liver of Anguilla japonica exposed to methylene blue using Illumina RNA sequencing technology. A total of 75,953,174 and 86,499,866 clean reads wit...
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| Veröffentlicht in: | Aquaculture research 2018-03, Vol.49 (3), p.1232-1241 |
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| creator | Lv, Xin‐Mei Yang, Xian‐Le Xie, Xin‐Yan Yang, Zong‐Ying Hu, Kun Wu, Ying‐Jie Jiang, Ying‐ying Liu, Teng‐Fei Fang, Wen‐Hong Huang, Xuan‐Yun |
| description | The thiazine dye methylene blue is widely used as a disinfectant and antidote in veterinary medicine. Here, we compared transcriptome differences in the liver of Anguilla japonica exposed to methylene blue using Illumina RNA sequencing technology. A total of 75,953,174 and 86,499,866 clean reads with an average length of 126 bp from control and treatment groups respectively. A total of 148,238 transcripts were assembled, with 62,152 components were assembled. Overall, 416,991 unigenes were checked against the National Center of Biotechnology Information, Non‐redundant, Cluster of Orthologous Groups (COG), and Kyoto Encyclopedia of Genes and Genomes (KEGG) databases. Of these, 18,541 genes were judged to be differently expressed. The gene ontology (GO) terms “molecular function” and “biological process” were the most enriched in protein binding, followed by “ATP binding and regulation of transcription,” and “DNA‐dependent.” KEGG pathway analysis revealed significant enrichment of N‐glycan biosynthesis and the citrate cycle. This study determined that unigenes related to transmembrane transport and drug metabolism in A. japonica were differentially expressed following exposure to methylene blue. These findings can shed insight into the mechanism of methylene blue metabolism in this economically important species. |
| doi_str_mv | 10.1111/are.13576 |
| format | Article |
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Here, we compared transcriptome differences in the liver of Anguilla japonica exposed to methylene blue using Illumina RNA sequencing technology. A total of 75,953,174 and 86,499,866 clean reads with an average length of 126 bp from control and treatment groups respectively. A total of 148,238 transcripts were assembled, with 62,152 components were assembled. Overall, 416,991 unigenes were checked against the National Center of Biotechnology Information, Non‐redundant, Cluster of Orthologous Groups (COG), and Kyoto Encyclopedia of Genes and Genomes (KEGG) databases. Of these, 18,541 genes were judged to be differently expressed. The gene ontology (GO) terms “molecular function” and “biological process” were the most enriched in protein binding, followed by “ATP binding and regulation of transcription,” and “DNA‐dependent.” KEGG pathway analysis revealed significant enrichment of N‐glycan biosynthesis and the citrate cycle. This study determined that unigenes related to transmembrane transport and drug metabolism in A. japonica were differentially expressed following exposure to methylene blue. These findings can shed insight into the mechanism of methylene blue metabolism in this economically important species.</description><identifier>ISSN: 1355-557X</identifier><identifier>EISSN: 1365-2109</identifier><identifier>DOI: 10.1111/are.13576</identifier><language>eng</language><publisher>Oxford: Hindawi Limited</publisher><subject>Anguilla japonica ; ATP ; Binding ; Biological activity ; Biosynthesis ; Biotechnology ; Citric acid ; Deoxyribonucleic acid ; Disinfectants ; DNA ; Drug metabolism ; Drugs ; Dyes ; Economic importance ; Encyclopaedias ; Encyclopedias ; Exposure ; Gene expression ; Gene regulation ; Gene sequencing ; Genes ; Genomes ; Glycan ; Liver ; Marine fishes ; Metabolism ; Methylene blue ; Nitrogen enrichment ; Nucleic acids ; Proteins ; Ribonucleic acid ; RNA ; RNA sequencing ; Transcription ; transcriptome ; Veterinary medicine</subject><ispartof>Aquaculture research, 2018-03, Vol.49 (3), p.1232-1241</ispartof><rights>2017 John Wiley & Sons Ltd</rights><rights>Copyright © 2018 John Wiley & Sons Ltd</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c2976-183c6aaa8594fbe4cf38c34a20bff34341e843c59dd8abef5e3353a27e103303</citedby><cites>FETCH-LOGICAL-c2976-183c6aaa8594fbe4cf38c34a20bff34341e843c59dd8abef5e3353a27e103303</cites><orcidid>0000-0002-1614-6640</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://onlinelibrary.wiley.com/doi/pdf/10.1111%2Fare.13576$$EPDF$$P50$$Gwiley$$H</linktopdf><linktohtml>$$Uhttps://onlinelibrary.wiley.com/doi/full/10.1111%2Fare.13576$$EHTML$$P50$$Gwiley$$H</linktohtml><link.rule.ids>314,777,781,1412,27905,27906,45555,45556</link.rule.ids></links><search><creatorcontrib>Lv, Xin‐Mei</creatorcontrib><creatorcontrib>Yang, Xian‐Le</creatorcontrib><creatorcontrib>Xie, Xin‐Yan</creatorcontrib><creatorcontrib>Yang, Zong‐Ying</creatorcontrib><creatorcontrib>Hu, Kun</creatorcontrib><creatorcontrib>Wu, Ying‐Jie</creatorcontrib><creatorcontrib>Jiang, Ying‐ying</creatorcontrib><creatorcontrib>Liu, Teng‐Fei</creatorcontrib><creatorcontrib>Fang, Wen‐Hong</creatorcontrib><creatorcontrib>Huang, Xuan‐Yun</creatorcontrib><title>Comparative transcriptome analysis of Anguilla japonica livers following exposure to methylene blue</title><title>Aquaculture research</title><description>The thiazine dye methylene blue is widely used as a disinfectant and antidote in veterinary medicine. Here, we compared transcriptome differences in the liver of Anguilla japonica exposed to methylene blue using Illumina RNA sequencing technology. A total of 75,953,174 and 86,499,866 clean reads with an average length of 126 bp from control and treatment groups respectively. A total of 148,238 transcripts were assembled, with 62,152 components were assembled. Overall, 416,991 unigenes were checked against the National Center of Biotechnology Information, Non‐redundant, Cluster of Orthologous Groups (COG), and Kyoto Encyclopedia of Genes and Genomes (KEGG) databases. Of these, 18,541 genes were judged to be differently expressed. The gene ontology (GO) terms “molecular function” and “biological process” were the most enriched in protein binding, followed by “ATP binding and regulation of transcription,” and “DNA‐dependent.” KEGG pathway analysis revealed significant enrichment of N‐glycan biosynthesis and the citrate cycle. This study determined that unigenes related to transmembrane transport and drug metabolism in A. japonica were differentially expressed following exposure to methylene blue. These findings can shed insight into the mechanism of methylene blue metabolism in this economically important species.</description><subject>Anguilla japonica</subject><subject>ATP</subject><subject>Binding</subject><subject>Biological activity</subject><subject>Biosynthesis</subject><subject>Biotechnology</subject><subject>Citric acid</subject><subject>Deoxyribonucleic acid</subject><subject>Disinfectants</subject><subject>DNA</subject><subject>Drug metabolism</subject><subject>Drugs</subject><subject>Dyes</subject><subject>Economic importance</subject><subject>Encyclopaedias</subject><subject>Encyclopedias</subject><subject>Exposure</subject><subject>Gene expression</subject><subject>Gene regulation</subject><subject>Gene sequencing</subject><subject>Genes</subject><subject>Genomes</subject><subject>Glycan</subject><subject>Liver</subject><subject>Marine fishes</subject><subject>Metabolism</subject><subject>Methylene blue</subject><subject>Nitrogen enrichment</subject><subject>Nucleic acids</subject><subject>Proteins</subject><subject>Ribonucleic acid</subject><subject>RNA</subject><subject>RNA sequencing</subject><subject>Transcription</subject><subject>transcriptome</subject><subject>Veterinary medicine</subject><issn>1355-557X</issn><issn>1365-2109</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2018</creationdate><recordtype>article</recordtype><recordid>eNp1kD1PwzAQhi0EEqUw8A8sMTGkteM4H2NVlQ-pEhLqwBZd3HNx5cTBTij59wTCyi13w_O-0j2E3HK24OMsweOCC5mlZ2TGRSqjmLPi_OeWMpIye7skVyEcGeMJE3xG1NrVLXjozCfSzkMTlDdt52qk0IAdggnUabpqDr2xFugRWtcYBdSOAR-odta6k2kOFL9aF3o_tjhaY_c-WGyQVrbHa3KhwQa8-dtzsnvY7NZP0fbl8Xm92kYqLrI04rlQKQDkskh0hYnSIlcigZhVWotEJBzzRChZ7Pc5VKglCiEFxBlyJgQTc3I31bbeffQYuvLoej8-EUpeFHEu43jk5uR-opR3IXjUZetNDX4oOSt_FJajwvJX4cguJ_ZkLA7_g-XqdTMlvgFwZ3Sr</recordid><startdate>201803</startdate><enddate>201803</enddate><creator>Lv, Xin‐Mei</creator><creator>Yang, Xian‐Le</creator><creator>Xie, Xin‐Yan</creator><creator>Yang, Zong‐Ying</creator><creator>Hu, Kun</creator><creator>Wu, Ying‐Jie</creator><creator>Jiang, Ying‐ying</creator><creator>Liu, Teng‐Fei</creator><creator>Fang, Wen‐Hong</creator><creator>Huang, Xuan‐Yun</creator><general>Hindawi Limited</general><scope>AAYXX</scope><scope>CITATION</scope><scope>7TN</scope><scope>7U7</scope><scope>8FD</scope><scope>C1K</scope><scope>F1W</scope><scope>FR3</scope><scope>H95</scope><scope>H98</scope><scope>H99</scope><scope>L.F</scope><scope>L.G</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><orcidid>https://orcid.org/0000-0002-1614-6640</orcidid></search><sort><creationdate>201803</creationdate><title>Comparative transcriptome analysis of Anguilla japonica livers following exposure to methylene blue</title><author>Lv, Xin‐Mei ; Yang, Xian‐Le ; Xie, Xin‐Yan ; Yang, Zong‐Ying ; Hu, Kun ; Wu, Ying‐Jie ; Jiang, Ying‐ying ; Liu, Teng‐Fei ; Fang, Wen‐Hong ; Huang, Xuan‐Yun</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c2976-183c6aaa8594fbe4cf38c34a20bff34341e843c59dd8abef5e3353a27e103303</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2018</creationdate><topic>Anguilla japonica</topic><topic>ATP</topic><topic>Binding</topic><topic>Biological activity</topic><topic>Biosynthesis</topic><topic>Biotechnology</topic><topic>Citric acid</topic><topic>Deoxyribonucleic acid</topic><topic>Disinfectants</topic><topic>DNA</topic><topic>Drug metabolism</topic><topic>Drugs</topic><topic>Dyes</topic><topic>Economic importance</topic><topic>Encyclopaedias</topic><topic>Encyclopedias</topic><topic>Exposure</topic><topic>Gene expression</topic><topic>Gene regulation</topic><topic>Gene sequencing</topic><topic>Genes</topic><topic>Genomes</topic><topic>Glycan</topic><topic>Liver</topic><topic>Marine fishes</topic><topic>Metabolism</topic><topic>Methylene blue</topic><topic>Nitrogen enrichment</topic><topic>Nucleic acids</topic><topic>Proteins</topic><topic>Ribonucleic acid</topic><topic>RNA</topic><topic>RNA sequencing</topic><topic>Transcription</topic><topic>transcriptome</topic><topic>Veterinary medicine</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Lv, Xin‐Mei</creatorcontrib><creatorcontrib>Yang, Xian‐Le</creatorcontrib><creatorcontrib>Xie, Xin‐Yan</creatorcontrib><creatorcontrib>Yang, Zong‐Ying</creatorcontrib><creatorcontrib>Hu, Kun</creatorcontrib><creatorcontrib>Wu, Ying‐Jie</creatorcontrib><creatorcontrib>Jiang, Ying‐ying</creatorcontrib><creatorcontrib>Liu, Teng‐Fei</creatorcontrib><creatorcontrib>Fang, Wen‐Hong</creatorcontrib><creatorcontrib>Huang, Xuan‐Yun</creatorcontrib><collection>CrossRef</collection><collection>Oceanic Abstracts</collection><collection>Toxicology Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ASFA: Aquatic Sciences and Fisheries Abstracts</collection><collection>Engineering Research Database</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) 1: Biological Sciences & Living Resources</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) Aquaculture Abstracts</collection><collection>ASFA: Marine Biotechnology Abstracts</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) Marine Biotechnology Abstracts</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) Professional</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><jtitle>Aquaculture research</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Lv, Xin‐Mei</au><au>Yang, Xian‐Le</au><au>Xie, Xin‐Yan</au><au>Yang, Zong‐Ying</au><au>Hu, Kun</au><au>Wu, Ying‐Jie</au><au>Jiang, Ying‐ying</au><au>Liu, Teng‐Fei</au><au>Fang, Wen‐Hong</au><au>Huang, Xuan‐Yun</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Comparative transcriptome analysis of Anguilla japonica livers following exposure to methylene blue</atitle><jtitle>Aquaculture research</jtitle><date>2018-03</date><risdate>2018</risdate><volume>49</volume><issue>3</issue><spage>1232</spage><epage>1241</epage><pages>1232-1241</pages><issn>1355-557X</issn><eissn>1365-2109</eissn><abstract>The thiazine dye methylene blue is widely used as a disinfectant and antidote in veterinary medicine. Here, we compared transcriptome differences in the liver of Anguilla japonica exposed to methylene blue using Illumina RNA sequencing technology. A total of 75,953,174 and 86,499,866 clean reads with an average length of 126 bp from control and treatment groups respectively. A total of 148,238 transcripts were assembled, with 62,152 components were assembled. Overall, 416,991 unigenes were checked against the National Center of Biotechnology Information, Non‐redundant, Cluster of Orthologous Groups (COG), and Kyoto Encyclopedia of Genes and Genomes (KEGG) databases. Of these, 18,541 genes were judged to be differently expressed. The gene ontology (GO) terms “molecular function” and “biological process” were the most enriched in protein binding, followed by “ATP binding and regulation of transcription,” and “DNA‐dependent.” KEGG pathway analysis revealed significant enrichment of N‐glycan biosynthesis and the citrate cycle. This study determined that unigenes related to transmembrane transport and drug metabolism in A. japonica were differentially expressed following exposure to methylene blue. These findings can shed insight into the mechanism of methylene blue metabolism in this economically important species.</abstract><cop>Oxford</cop><pub>Hindawi Limited</pub><doi>10.1111/are.13576</doi><tpages>10</tpages><orcidid>https://orcid.org/0000-0002-1614-6640</orcidid></addata></record> |
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| source | Wiley Online Library Journals Frontfile Complete |
| subjects | Anguilla japonica ATP Binding Biological activity Biosynthesis Biotechnology Citric acid Deoxyribonucleic acid Disinfectants DNA Drug metabolism Drugs Dyes Economic importance Encyclopaedias Encyclopedias Exposure Gene expression Gene regulation Gene sequencing Genes Genomes Glycan Liver Marine fishes Metabolism Methylene blue Nitrogen enrichment Nucleic acids Proteins Ribonucleic acid RNA RNA sequencing Transcription transcriptome Veterinary medicine |
| title | Comparative transcriptome analysis of Anguilla japonica livers following exposure to methylene blue |
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