杭州浙大迪迅生物基因工程有限公司JACI：基因组和转录组的高质装配揭示了多种新的尘螨过敏原
发布日期：2019-06-06
原标题：Der p 基因组和转录组的高质装配揭示了多种新的尘螨过敏原
延伸阅读
JACI
[IF:13.1]
High-quality assembly of Dermatophagoides pteronyssinus genome and transcriptome reveals a wide range of novel allergens
DOI: https://doi.org/10.1016/j.jaci.2017.12.910
Abstract:
Rationale
House dust mites (HDM) are a predominant source of inhalant allergens that attribute to over 50% of worldwide allergy cases, while the full spectrum of HDM allergens remains unknown. Here we sequenced a high-quality genome of Dermatophagoides (D.) pteronyssinus to find known canonical allergens and allergen orthologs inferred from D. farinae genome.
Methods
The D. pteronyssinus genome was assembled by a hybrid assembly approach using PacBio, Illumina and Ion Torrent reads. Transcriptomes of D. pteronyssinus and D. farinae were compared using Cufflinks. Allergens were identified by two-dimensional gel electrophoresis and MALDI-ToF MS. Allergenicities of the novel allergens were detected by ELISA using patients’ sera against bacteria expressing recombinant proteins.
Results
Genomic, transcriptomic, and proteomic approaches revealed full gene structures of 21 known allergens, and uncovered 11 putative allergen homologs. A high-quality D. pteronyssinus genome of 66.8 Mb was constructed. This genome assembly represented 98.2% of estimated genome size, with contig N50 being 80kb. The first comprehensive transcriptomic analysis of D. pteronyssinus and D. farinae revealed distinctively expressed allergen genes between the two dust mites, in which Der p 1, 5, 10, 21 and 24 were highly expressed in D. pteronyssinus, while Der f 10, 13, 21, 26 and 31 expressed higher in D. farinae. From ELISA, IgE binding rates of Der p 25, 26, 28, 32, and 33 were 38.5-65.3%, in which Der p 33 had the highest allergenicity.
Conclusions
Bioinformatics and experimental characterizations of D. pteronyssinus genome and allergens provide important resources for future investigation of HDM allergens
All Author:
Angel Tsz-Yau Wan Xiao-Yu Liu Kevin Yi Yang Mingqiang Wang Jamie Sui-Lam Kwok Zhiyuan Yang Xiao-Jun Xiao Carol Po-Ying Lau Ying Li Zhi-ming Huang Jin-ge Ba Aldrin Kay-Yuen Yim Chun-Yan Ouyang Sai-Ming Ngai x
Sai-Ming Ngai
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Ting-Fung Chan Elaine Lai-Han Leung x
Elaine Lai-Han Leung
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Liang Liu Zhi-Gang Liu Stephen Kwok-Wing Tsui
——浙大迪迅 译
①屋尘螨(HDM)是吸入性过敏原的主要来源，占全球过敏病例的50%以上，而屋尘螨过敏原的全谱尚不清楚。在这里，我们测序了一个高质量的户尘螨（Der p）基因组，以发现已知的典型过敏原和从粉尘螨在（Der f）基因组衍生出的过敏原同源物。②采用PacBio、Illumina和离子激流读的混合组装方法组装了户尘螨（Der p）基因组。用Cufflinks比较Der p和Der f 的转录组。采用二维凝胶电泳法和MALDI-ToF MS鉴定过敏原，通过ELISA法用病人血清与细菌表达的重组蛋白结合的方法检测新过敏原的变应原性。③基因组学、转录组学和蛋白质组学方法揭示了21种已知过敏原的完整基因结构，并揭示了11种假定的过敏原同源物。构建了66.8 Mb的高质Der p 基因组。该基因组组合估计占基因组大小的98.2%，其中重叠群N50为80kb。第一个全面的Der p和Der f转录组分析揭示了D. pteronyssinus and D. farinae两种尘螨独特的过敏原基因表达，其中,Der p 1、5、10、21和24在 d . pteronyssinus中高度表达,而Der f 10, 13,21,2至31在d . farinae表达更高。ELISA检测，Der p25、26、28、32、33的IgE结合率为38.5-65.3%，其中Der p33的过敏原性最高。④Der p基因组和过敏原的生物信息学和实验表征为今后HDM过敏原的研究提供了重要的资源延伸阅读
JACI
[IF:13.1]
High-quality assembly of Dermatophagoides pteronyssinus genome and transcriptome reveals a wide range of novel allergens
DOI: https://doi.org/10.1016/j.jaci.2017.12.910
Abstract:
Rationale
House dust mites (HDM) are a predominant source of inhalant allergens that attribute to over 50% of worldwide allergy cases, while the full spectrum of HDM allergens remains unknown. Here we sequenced a high-quality genome of Dermatophagoides (D.) pteronyssinus to find known canonical allergens and allergen orthologs inferred from D. farinae genome.
Methods
The D. pteronyssinus genome was assembled by a hybrid assembly approach using PacBio, Illumina and Ion Torrent reads. Transcriptomes of D. pteronyssinus and D. farinae were compared using Cufflinks. Allergens were identified by two-dimensional gel electrophoresis and MALDI-ToF MS. Allergenicities of the novel allergens were detected by ELISA using patients’ sera against bacteria expressing recombinant proteins.
Results
Genomic, transcriptomic, and proteomic approaches revealed full gene structures of 21 known allergens, and uncovered 11 putative allergen homologs. A high-quality D. pteronyssinus genome of 66.8 Mb was constructed. This genome assembly represented 98.2% of estimated genome size, with contig N50 being 80kb. The first comprehensive transcriptomic analysis of D. pteronyssinus and D. farinae revealed distinctively expressed allergen genes between the two dust mites, in which Der p 1, 5, 10, 21 and 24 were highly expressed in D. pteronyssinus, while Der f 10, 13, 21, 26 and 31 expressed higher in D. farinae. From ELISA, IgE binding rates of Der p 25, 26, 28, 32, and 33 were 38.5-65.3%, in which Der p 33 had the highest allergenicity.
Conclusions
Bioinformatics and experimental characterizations of D. pteronyssinus genome and allergens provide important resources for future investigation of HDM allergens
All Author:
Angel Tsz-Yau Wan Xiao-Yu Liu Kevin Yi Yang Mingqiang Wang Jamie Sui-Lam Kwok Zhiyuan Yang Xiao-Jun Xiao Carol Po-Ying Lau Ying Li Zhi-ming Huang Jin-ge Ba Aldrin Kay-Yuen Yim Chun-Yan Ouyang Sai-Ming Ngai x
Sai-Ming Ngai
Search for articles by this author
Ting-Fung Chan Elaine Lai-Han Leung x
Elaine Lai-Han Leung
Search for articles by this author
Liang Liu Zhi-Gang Liu Stephen Kwok-Wing Tsui
2019-4-30 Artical
创建过敏性疾病的科研、科普知识交流平台，为过敏患者提供专业诊断、治疗、预防的共享平台。
