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Article: The draft genome, transcriptome, and microbiome of Dermatophagoides farinae reveal a broad spectrum of dust mite allergens

TitleThe draft genome, transcriptome, and microbiome of Dermatophagoides farinae reveal a broad spectrum of dust mite allergens
Authors
Keywordsallergen
microbiome
ubiquinol-cytochrome c reductase binding protein
transcriptome
Der f 24
proteome
Enterobacter species
genome
House dust mite
Issue Date2015
Citation
Journal of Allergy and Clinical Immunology, 2015, v. 135, n. 2, p. 539-548 How to Cite?
Abstract© 2014 The Authors. Published by Elsevier Inc. Background A sequenced house dust mite (HDM) genome would advance our understanding of HDM allergens, a common cause of human allergies. Objective We sought to produce an annotated Dermatophagoides farinae draft genome and develop a combined genomic-transcriptomic-proteomic approach for elucidation of HDM allergens. Methods A D farinae draft genome and transcriptome were assembled with high-throughput sequencing, accommodating microbiome sequences. The allergen gene structures were validated by means of Sanger sequencing. The mite's microbiome composition was determined, and the predominant genus was validated immunohistochemically. The allergenicity of a ubiquinol-cytochrome c reductase binding protein homologue was evaluated with immunoblotting, immunosorbent assays, and skin prick tests. Results The full gene structures of 20 canonical allergens and 7 noncanonical allergen homologues were produced. A novel major allergen, ubiquinol-cytochrome c reductase binding protein-like protein, was found and designated Der f 24. All 40 sera samples from patients with mite allergy had IgE antibodies against rDer f 24. Of 10 patients tested, 5 had positive skin reactions. The predominant bacterial genus among 100 identified species was Enterobacter (63.4%). An intron was found in the 13.8-kDa D farinae bacteriolytic enzyme gene, indicating that it is of HDM origin. The Kyoto Encyclopedia of Genes and Genomes pathway analysis revealed a phototransduction pathway in D farinae, as well as thiamine and amino acid synthesis pathways, which is suggestive of an endosymbiotic relationship between D farinae and its microbiome. Conclusion An HDM genome draft produced from genomic, transcriptomic, and proteomic experiments revealed allergen genes and a diverse endosymbiotic microbiome, providing a tool for further identification and characterization of HDM allergens and development of diagnostics and immunotherapeutic vaccines.
Persistent Identifierhttp://hdl.handle.net/10722/222170
ISSN
2015 Impact Factor: 12.485
2015 SCImago Journal Rankings: 5.513

 

DC FieldValueLanguage
dc.contributor.authorChan, Ting Fung-
dc.contributor.authorJi, Kun Mei-
dc.contributor.authorYim, Aldrin Kay Yuen-
dc.contributor.authorLiu, Xiao Yu-
dc.contributor.authorZhou, Jun Wei-
dc.contributor.authorLi, Rui Qi-
dc.contributor.authorYang, Kevin Yi-
dc.contributor.authorLi, Jing-
dc.contributor.authorLi, Meng-
dc.contributor.authorLaw, Patrick Tik Wan-
dc.contributor.authorWu, Yu Lan-
dc.contributor.authorCai, Ze Lang-
dc.contributor.authorQin, Hao-
dc.contributor.authorBao, Ying-
dc.contributor.authorLeung, Ross Ka Kit-
dc.contributor.authorNg, Patrick Kwok Shing-
dc.contributor.authorZou, Ju-
dc.contributor.authorZhong, Xiao Jun-
dc.contributor.authorRan, Pi Xin-
dc.contributor.authorZhong, Nan Shan-
dc.contributor.authorLiu, Zhi Gang-
dc.contributor.authorTsui, Stephen Kwok Wing-
dc.date.accessioned2015-12-21T06:49:09Z-
dc.date.available2015-12-21T06:49:09Z-
dc.date.issued2015-
dc.identifier.citationJournal of Allergy and Clinical Immunology, 2015, v. 135, n. 2, p. 539-548-
dc.identifier.issn0091-6749-
dc.identifier.urihttp://hdl.handle.net/10722/222170-
dc.description.abstract© 2014 The Authors. Published by Elsevier Inc. Background A sequenced house dust mite (HDM) genome would advance our understanding of HDM allergens, a common cause of human allergies. Objective We sought to produce an annotated Dermatophagoides farinae draft genome and develop a combined genomic-transcriptomic-proteomic approach for elucidation of HDM allergens. Methods A D farinae draft genome and transcriptome were assembled with high-throughput sequencing, accommodating microbiome sequences. The allergen gene structures were validated by means of Sanger sequencing. The mite's microbiome composition was determined, and the predominant genus was validated immunohistochemically. The allergenicity of a ubiquinol-cytochrome c reductase binding protein homologue was evaluated with immunoblotting, immunosorbent assays, and skin prick tests. Results The full gene structures of 20 canonical allergens and 7 noncanonical allergen homologues were produced. A novel major allergen, ubiquinol-cytochrome c reductase binding protein-like protein, was found and designated Der f 24. All 40 sera samples from patients with mite allergy had IgE antibodies against rDer f 24. Of 10 patients tested, 5 had positive skin reactions. The predominant bacterial genus among 100 identified species was Enterobacter (63.4%). An intron was found in the 13.8-kDa D farinae bacteriolytic enzyme gene, indicating that it is of HDM origin. The Kyoto Encyclopedia of Genes and Genomes pathway analysis revealed a phototransduction pathway in D farinae, as well as thiamine and amino acid synthesis pathways, which is suggestive of an endosymbiotic relationship between D farinae and its microbiome. Conclusion An HDM genome draft produced from genomic, transcriptomic, and proteomic experiments revealed allergen genes and a diverse endosymbiotic microbiome, providing a tool for further identification and characterization of HDM allergens and development of diagnostics and immunotherapeutic vaccines.-
dc.languageeng-
dc.relation.ispartofJournal of Allergy and Clinical Immunology-
dc.subjectallergen-
dc.subjectmicrobiome-
dc.subjectubiquinol-cytochrome c reductase binding protein-
dc.subjecttranscriptome-
dc.subjectDer f 24-
dc.subjectproteome-
dc.subjectEnterobacter species-
dc.subjectgenome-
dc.subjectHouse dust mite-
dc.titleThe draft genome, transcriptome, and microbiome of Dermatophagoides farinae reveal a broad spectrum of dust mite allergens-
dc.typeArticle-
dc.description.natureLink_to_subscribed_fulltext-
dc.identifier.doi10.1016/j.jaci.2014.09.031-
dc.identifier.pmid25445830-
dc.identifier.scopuseid_2-s2.0-84922346609-
dc.identifier.volume135-
dc.identifier.issue2-
dc.identifier.spage539-
dc.identifier.epage548-
dc.identifier.eissn1097-6825-

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