Genome-Wide Identification, Characterization and Expression Analysis of Toll-like Receptors in Marbled Rockfish (<i>Sebastiscus marmoratus</i>)
Toll-like receptor (TLR) is a cluster of type I transmembrane proteins that plays a role in innate immunity. Based on the marbled rockfish (<i>Sebastiscus marmoratus</i>) genome database, this study used bioinformatics methods to identify and analyze its TLR gene family members. The resu...
| Main Authors: | , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2022-09-01
|
| Series: | International Journal of Molecular Sciences |
| Subjects: | |
| Online Access: | https://www.mdpi.com/1422-0067/23/19/11357 |
| _version_ | 1797479063766433792 |
|---|---|
| author | Yuan Zhang Xiaoyan Wang Fei Han Tianxiang Gao |
| author_facet | Yuan Zhang Xiaoyan Wang Fei Han Tianxiang Gao |
| author_sort | Yuan Zhang |
| collection | DOAJ |
| description | Toll-like receptor (TLR) is a cluster of type I transmembrane proteins that plays a role in innate immunity. Based on the marbled rockfish (<i>Sebastiscus marmoratus</i>) genome database, this study used bioinformatics methods to identify and analyze its TLR gene family members. The results showed that there were 11 TLR gene family members in <i>Sebastiscus marmoratus</i> (SmaTLR), which could be divided into five different subfamilies. The number of amino acids encoded by the Sma<i>tlr</i> genes ranged from 637 to 1206. The physicochemical properties of the encoded proteins of different members were also computed. The results of protein structure prediction, phylogenetic relation, and motif analysis showed that the structure and function of the SmaTLRs were relatively conserved. Quantitative Real-Time PCR (qRT-PCR) analysis revealed the expression patterns of SmaTLRs in the gill, liver, spleen, head kidney, kidney, and intestine. SmaTLRs were widely detected in the tested tissues, and they tended to be expressed higher in immune-related tissues. After polyriboinosinic polyribocytidylic acid (poly(I:C)) challenge, SmaTLR14, SmaTLR3, SmaTLR5S, SmaTLR7, and SmaTLR22 were significantly upregulated in the spleen or liver. The results of this study will help to understand the status of TLR gene family members of marbled rockfish and provide a basis for further study of the functional analysis of this gene family. |
| first_indexed | 2024-03-09T21:41:15Z |
| format | Article |
| id | doaj.art-af5a8575620d4e16a4f7d057d455d3a6 |
| institution | Directory Open Access Journal |
| issn | 1661-6596 1422-0067 |
| language | English |
| last_indexed | 2024-03-09T21:41:15Z |
| publishDate | 2022-09-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | International Journal of Molecular Sciences |
| spelling | doaj.art-af5a8575620d4e16a4f7d057d455d3a62023-11-23T20:31:45ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672022-09-0123191135710.3390/ijms231911357Genome-Wide Identification, Characterization and Expression Analysis of Toll-like Receptors in Marbled Rockfish (<i>Sebastiscus marmoratus</i>)Yuan Zhang0Xiaoyan Wang1Fei Han2Tianxiang Gao3Fisheries College, Ocean University of China, Qingdao 266003, ChinaNational Engineering Research Center for Marine Aquaculture, Zhejiang Ocean University, Zhoushan 316002, ChinaFisheries College, Ocean University of China, Qingdao 266003, ChinaFishery College, Zhejiang Ocean University, Zhoushan 316022, ChinaToll-like receptor (TLR) is a cluster of type I transmembrane proteins that plays a role in innate immunity. Based on the marbled rockfish (<i>Sebastiscus marmoratus</i>) genome database, this study used bioinformatics methods to identify and analyze its TLR gene family members. The results showed that there were 11 TLR gene family members in <i>Sebastiscus marmoratus</i> (SmaTLR), which could be divided into five different subfamilies. The number of amino acids encoded by the Sma<i>tlr</i> genes ranged from 637 to 1206. The physicochemical properties of the encoded proteins of different members were also computed. The results of protein structure prediction, phylogenetic relation, and motif analysis showed that the structure and function of the SmaTLRs were relatively conserved. Quantitative Real-Time PCR (qRT-PCR) analysis revealed the expression patterns of SmaTLRs in the gill, liver, spleen, head kidney, kidney, and intestine. SmaTLRs were widely detected in the tested tissues, and they tended to be expressed higher in immune-related tissues. After polyriboinosinic polyribocytidylic acid (poly(I:C)) challenge, SmaTLR14, SmaTLR3, SmaTLR5S, SmaTLR7, and SmaTLR22 were significantly upregulated in the spleen or liver. The results of this study will help to understand the status of TLR gene family members of marbled rockfish and provide a basis for further study of the functional analysis of this gene family.https://www.mdpi.com/1422-0067/23/19/11357<i>Sebastiscus marmoratus</i>toll-like receptorgenome-wide identificationpoly(I:C)immune response |
| spellingShingle | Yuan Zhang Xiaoyan Wang Fei Han Tianxiang Gao Genome-Wide Identification, Characterization and Expression Analysis of Toll-like Receptors in Marbled Rockfish (<i>Sebastiscus marmoratus</i>) International Journal of Molecular Sciences <i>Sebastiscus marmoratus</i> toll-like receptor genome-wide identification poly(I:C) immune response |
| title | Genome-Wide Identification, Characterization and Expression Analysis of Toll-like Receptors in Marbled Rockfish (<i>Sebastiscus marmoratus</i>) |
| title_full | Genome-Wide Identification, Characterization and Expression Analysis of Toll-like Receptors in Marbled Rockfish (<i>Sebastiscus marmoratus</i>) |
| title_fullStr | Genome-Wide Identification, Characterization and Expression Analysis of Toll-like Receptors in Marbled Rockfish (<i>Sebastiscus marmoratus</i>) |
| title_full_unstemmed | Genome-Wide Identification, Characterization and Expression Analysis of Toll-like Receptors in Marbled Rockfish (<i>Sebastiscus marmoratus</i>) |
| title_short | Genome-Wide Identification, Characterization and Expression Analysis of Toll-like Receptors in Marbled Rockfish (<i>Sebastiscus marmoratus</i>) |
| title_sort | genome wide identification characterization and expression analysis of toll like receptors in marbled rockfish i sebastiscus marmoratus i |
| topic | <i>Sebastiscus marmoratus</i> toll-like receptor genome-wide identification poly(I:C) immune response |
| url | https://www.mdpi.com/1422-0067/23/19/11357 |
| work_keys_str_mv | AT yuanzhang genomewideidentificationcharacterizationandexpressionanalysisoftolllikereceptorsinmarbledrockfishisebastiscusmarmoratusi AT xiaoyanwang genomewideidentificationcharacterizationandexpressionanalysisoftolllikereceptorsinmarbledrockfishisebastiscusmarmoratusi AT feihan genomewideidentificationcharacterizationandexpressionanalysisoftolllikereceptorsinmarbledrockfishisebastiscusmarmoratusi AT tianxianggao genomewideidentificationcharacterizationandexpressionanalysisoftolllikereceptorsinmarbledrockfishisebastiscusmarmoratusi |