IHB OpenIR  > 水生生物分子与细胞生物学研究中心  > 期刊论文
De Novo Assembly of Mud Loach (Misgurnus anguillicaudatus) Skin Transcriptome to Identify Putative Genes Involved in Immunity and Epidermal Mucus Secretion
Long, Yong1; Li, Qing1; Zhou, Bolan1,2; Song, Guili1; Li, Tao1; Cui, Zongbin1; Cui, ZB (reprint author), Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Hubei, Peoples R China.
2013-02-20
Source PublicationPLOS ONE
ISSN1932-6203
Volume8Issue:2Pages:e56998
AbstractFish skin serves as the first line of defense against a wide variety of chemical, physical and biological stressors. Secretion of mucus is among the most prominent characteristics of fish skin and numerous innate immune factors have been identified in the epidermal mucus. However, molecular mechanisms underlying the mucus secretion and immune activities of fish skin remain largely unclear due to the lack of genomic and transcriptomic data for most economically important fish species. In this study, we characterized the skin transcriptome of mud loach using Illumia paired-end sequencing. A total of 40364 unigenes were assembled from 86.6 million (3.07 gigabases) filtered reads. The mean length, N50 size and maximum length of assembled transcripts were 387, 611 and 8670 bp, respectively. A total of 17336 (43.76%) unigenes were annotated by blast searches against the NCBI non-redundant protein database. Gene ontology mapping assigned a total of 108513 GO terms to 15369 (38.08%) unigenes. KEGG orthology mapping annotated 9337 (23.23%) unigenes. Among the identified KO categories, immune system is the largest category that contains various components of multiple immune pathways such as chemokine signaling, leukocyte transendothelial migration and T cell receptor signaling, suggesting the complexity of immune mechanisms in fish skin. As for mucin biosynthesis, 37 unigenes were mapped to 7 enzymes of the mucin type O-glycan biosynthesis pathway and 8 members of the polypeptide N-acetylgalactosaminyltransferase family were identified. Additionally, 38 unigenes were mapped to 23 factors of the SNARE interactions in vesicular transport pathway, indicating that the activity of this pathway is required for the processes of epidermal mucus storage and release. Moreover, 1754 simple sequence repeats (SSRs) were detected in 1564 unigenes and dinucleotide repeats represented the most abundant type. These findings have laid the foundation for further understanding the secretary processes and immune functions of loach skin mucus.; Fish skin serves as the first line of defense against a wide variety of chemical, physical and biological stressors. Secretion of mucus is among the most prominent characteristics of fish skin and numerous innate immune factors have been identified in the epidermal mucus. However, molecular mechanisms underlying the mucus secretion and immune activities of fish skin remain largely unclear due to the lack of genomic and transcriptomic data for most economically important fish species. In this study, we characterized the skin transcriptome of mud loach using Illumia paired-end sequencing. A total of 40364 unigenes were assembled from 86.6 million (3.07 gigabases) filtered reads. The mean length, N50 size and maximum length of assembled transcripts were 387, 611 and 8670 bp, respectively. A total of 17336 (43.76%) unigenes were annotated by blast searches against the NCBI non-redundant protein database. Gene ontology mapping assigned a total of 108513 GO terms to 15369 (38.08%) unigenes. KEGG orthology mapping annotated 9337 (23.23%) unigenes. Among the identified KO categories, immune system is the largest category that contains various components of multiple immune pathways such as chemokine signaling, leukocyte transendothelial migration and T cell receptor signaling, suggesting the complexity of immune mechanisms in fish skin. As for mucin biosynthesis, 37 unigenes were mapped to 7 enzymes of the mucin type O-glycan biosynthesis pathway and 8 members of the polypeptide N-acetylgalactosaminyltransferase family were identified. Additionally, 38 unigenes were mapped to 23 factors of the SNARE interactions in vesicular transport pathway, indicating that the activity of this pathway is required for the processes of epidermal mucus storage and release. Moreover, 1754 simple sequence repeats (SSRs) were detected in 1564 unigenes and dinucleotide repeats represented the most abundant type. These findings have laid the foundation for further understanding the secretary processes and immune functions of loach skin mucus.
SubtypeArticle
KeywordZebrafish Danio-rerio Antimicrobial Peptide Fish Skin Japanese Eel Mucin-type Anguilla-japonica O-glycosylation Parasin-i Expression Cells
Department[Long, Yong ; Li, Qing ; Zhou, Bolan ; Song, Guili ; Li, Tao ; Cui, Zongbin] Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Hubei, Peoples R China ; [Zhou, Bolan] Univ Chinese Acad Sci, Beijing, Peoples R China
DOI10.1371/journal.pone.0056998
WOS HeadingsScience & Technology
Funding OrganizationKnowledge Innovation Program of the Chinese 590 Academy of Sciences [Y25E05-1-501]; National Natural Science 591 Foundation of China [31101892] ; Knowledge Innovation Program of the Chinese 590 Academy of Sciences(Y25E05-1-501) ; Knowledge Innovation Program of the Chinese 590 Academy of Sciences [Y25E05-1-501]; National Natural Science 591 Foundation of China [31101892] ; Knowledge Innovation Program of the Chinese 590 Academy of Sciences(Y25E05-1-501) ; National Natural Science 591 Foundation of China(31101892) ; National Natural Science 591 Foundation of China(31101892) ; Knowledge Innovation Program of the Chinese 590 Academy of Sciences [Y25E05-1-501]; National Natural Science 591 Foundation of China [31101892] ; Knowledge Innovation Program of the Chinese 590 Academy of Sciences(Y25E05-1-501) ; Knowledge Innovation Program of the Chinese 590 Academy of Sciences [Y25E05-1-501]; National Natural Science 591 Foundation of China [31101892] ; Knowledge Innovation Program of the Chinese 590 Academy of Sciences(Y25E05-1-501) ; National Natural Science 591 Foundation of China(31101892) ; National Natural Science 591 Foundation of China(31101892)
Indexed BySCI
Language英语
WOS Research AreaScience & Technology - Other Topics
WOS SubjectMultidisciplinary Sciences
WOS IDWOS:000315184200197
WOS KeywordZEBRAFISH DANIO-RERIO ; ANTIMICROBIAL PEPTIDE ; FISH SKIN ; JAPANESE EEL ; MUCIN-TYPE ; ANGUILLA-JAPONICA ; O-GLYCOSYLATION ; PARASIN-I ; EXPRESSION ; CELLS
Funding OrganizationKnowledge Innovation Program of the Chinese 590 Academy of Sciences [Y25E05-1-501]; National Natural Science 591 Foundation of China [31101892] ; Knowledge Innovation Program of the Chinese 590 Academy of Sciences(Y25E05-1-501) ; Knowledge Innovation Program of the Chinese 590 Academy of Sciences [Y25E05-1-501]; National Natural Science 591 Foundation of China [31101892] ; Knowledge Innovation Program of the Chinese 590 Academy of Sciences(Y25E05-1-501) ; National Natural Science 591 Foundation of China(31101892) ; National Natural Science 591 Foundation of China(31101892) ; Knowledge Innovation Program of the Chinese 590 Academy of Sciences [Y25E05-1-501]; National Natural Science 591 Foundation of China [31101892] ; Knowledge Innovation Program of the Chinese 590 Academy of Sciences(Y25E05-1-501) ; Knowledge Innovation Program of the Chinese 590 Academy of Sciences [Y25E05-1-501]; National Natural Science 591 Foundation of China [31101892] ; Knowledge Innovation Program of the Chinese 590 Academy of Sciences(Y25E05-1-501) ; National Natural Science 591 Foundation of China(31101892) ; National Natural Science 591 Foundation of China(31101892)
Citation statistics
Cited Times:31[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/19343
Collection水生生物分子与细胞生物学研究中心_期刊论文
Corresponding AuthorCui, ZB (reprint author), Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Hubei, Peoples R China.
Affiliation1.Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Hubei, Peoples R China
2.Univ Chinese Acad Sci, Beijing, Peoples R China
Recommended Citation
GB/T 7714
Long, Yong,Li, Qing,Zhou, Bolan,et al. De Novo Assembly of Mud Loach (Misgurnus anguillicaudatus) Skin Transcriptome to Identify Putative Genes Involved in Immunity and Epidermal Mucus Secretion[J]. PLOS ONE,2013,8(2):e56998.
APA Long, Yong.,Li, Qing.,Zhou, Bolan.,Song, Guili.,Li, Tao.,...&Cui, ZB .(2013).De Novo Assembly of Mud Loach (Misgurnus anguillicaudatus) Skin Transcriptome to Identify Putative Genes Involved in Immunity and Epidermal Mucus Secretion.PLOS ONE,8(2),e56998.
MLA Long, Yong,et al."De Novo Assembly of Mud Loach (Misgurnus anguillicaudatus) Skin Transcriptome to Identify Putative Genes Involved in Immunity and Epidermal Mucus Secretion".PLOS ONE 8.2(2013):e56998.
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