Transcriptome analysis of Solanum melongena L. (eggplant) fruit to identify putative allergens and their epitopes.
作者： Kumar Ramagoni Ramesh , R Hemalatha , Chary Anchoju Vijayendra , Uz Zaman Syed Arshi , Singh Baghel Dushyant
DOI: 10.1016/J.GENE.2015.09.064
关键词: Biology 、 Transcriptome 、 Epitope 、 Solanum 、 Botany 、 Linear epitope 、 Genetics 、 Polyclonal antibodies 、 Solanum tuberosum 、 Solanaceae 、 Gene
摘要: Eggplant is the third most important Solanaceae crop after tomato and potato, particularly in India China. A transcriptome analysis of eggplant's fruit was performed to study genes involved medicinal importance allergies. Illumina HiSeq 2000 system generated 89,763,638 raw reads (~18 Gb) from eggplant. High quality (59,039,694) obtained trimming process, were assembled into a total 149,224 non redundant set transcripts. Out 80,482 annotated sequences eggplant (BLASTx results against nr-green plant database), 40,752 transcripts showed significant similarity with predicted proteins Solanum tuberosum (51%) followed by lycopersicum (34%) other sequenced genomes. With BLASTx top hit existing allergens, 1986 homologous allergen found, which had >37% 48 different allergens database. From putative 526 B-cell linear epitopes identified using BepiPred epitope prediction tool. Transcript this can be used map monoclonal antibodies polyclonal sera patients. support whole catalogue fruit, complete list based on secondary structures may modeled.
sci-hub.se 参考文章(52)
John Parkinson, Mark Blaxter, Expressed sequence tags: an overview. Methods of Molecular Biology. ,vol. 533, pp. 1- 12 ,(2009) , 10.1007/978-1-60327-136-3_1
Dan Norback, Yahong Mi, Zhuanhua Wang, Zheng Zhang, Rufa Lin, Gunilla Wieslander, Buckwheat allergy and reports on asthma and atopic disorders in Taiyuan city, northern china Asian Pacific Journal of Allergy and Immunology. ,vol. 18, pp. 147- 152 ,(2000)
Hemalatha Rajkumar Hemalatha Rajkumar, RK Ramagoni, VC Anchoju, RN Vankudavath, Arshi-uz-Zaman Syed Arshi-uz-Zaman Syed, De Novo Transcriptome Analysis of Allium cepa L. (Onion) Bulb to Identify Allergens and Epitopes PLOS ONE. ,vol. 10, pp. e0135387- ,(2015) , 10.1371/JOURNAL.PONE.0135387
A. E. Vinogradov, DNA helix: the importance of being GC-rich. Nucleic Acids Research. ,vol. 31, pp. 1838- 1844 ,(2003) , 10.1093/NAR/GKG296
Riccardo Asero, Stefano Amato, Beatrice Alfieri, Silvia Folloni, Gianni Mistrello, Rice: another potential cause of food allergy in patients sensitized to lipid transfer protein. International Archives of Allergy and Immunology. ,vol. 143, pp. 69- 74 ,(2007) , 10.1159/000098226
Michael Levitt, Conformational preferences of amino acids in globular proteins Biochemistry. ,vol. 17, pp. 4277- 4285 ,(1978) , 10.1021/BI00613A026
GT SILVA, CBC SILVA, L JANK, AP SOUZA, De Novo Transcriptome Assembly for the Tropical Grass Panicum maximum Jacq PLoS ONE. ,vol. 8, pp. e70781- ,(2013) , 10.1371/JOURNAL.PONE.0070781
Sangita P. Patil, Pramod V. Niphadkar, Mrinal M. Bapat, Chickpea: a major food allergen in the Indian subcontinent and its clinical and immunochemical correlation Annals of Allergy Asthma & Immunology. ,vol. 87, pp. 140- 145 ,(2001) , 10.1016/S1081-1206(10)62209-0
Shengcai Liu, Huaqin Kuang, Zhongxiong Lai, Transcriptome Analysis by Illumina High-Throughout Paired-End Sequencing Reveals the Complexity of Differential Gene Expression during In Vitro Plantlet Growth and Flowering in Amaranthus tricolor L. PLoS ONE. ,vol. 9, pp. e100919- ,(2014) , 10.1371/JOURNAL.PONE.0100919
Xiu-Qing Li, Donglei Du, Variation, Evolution, and Correlation Analysis of C+G Content and Genome or Chromosome Size in Different Kingdoms and Phyla PLoS ONE. ,vol. 9, pp. e88339- ,(2014) , 10.1371/JOURNAL.PONE.0088339