کد مقاله | کد نشریه | سال انتشار | مقاله انگلیسی | نسخه تمام متن |
---|---|---|---|---|
5905419 | 1159886 | 2015 | 9 صفحه PDF | دانلود رایگان |
عنوان انگلیسی مقاله ISI
In silico prediction and validation of potential gene targets for pospiviroid-derived small RNAs during tomato infection
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کلمات کلیدی
HLVdKH2PO4MMLVPLMVdTomato apical stunt viroidta-siRNAColumnea latent viroidHSVdPSTVdCEVdpiRNARLM-RACEVMRASSVdDCLCSVdCLVDhop latent viroidCBVdCCRmRNAPVDapple scar skin viroidcDNA - cDNAComplementary DNA - DNA تکمیلیDNA - DNA یا اسید دزوکسی ریبونوکلئیکmessenger RNA - RNA messengerSmall interfering RNA - RNA تداخل کوچکNon-coding RNA - RNA غیرکد کننده، RNA غیرترجمه شوندهsmall RNA - RNA کوچکsiRNA - siRNAArgonaute - آرگونوتamino acid - آمینو اسیدdeoxyribonucleic acid - اسید deoxyribonucleicribonucleic acid - اسید ریبونوکلئیکRNA - اسید ریبونوکلئیکsingle-stranded - تک رشتهRISC - خطرdouble-stranded - دو رشتهDicer-like - دوست دیکرCVD - رسوب دهی شیمیایی بخار reverse transcription - رونویسی معکوسSRNA - سرناTair - سهVariable - متغیرRNA-Induced Silencing Complex - مجتمع خاموش کننده RNA inducedUTR یا untranslated regions - منطقه ترجمه نشدهuntranslated region - منطقه غیر ترجمهMicroRNA - میکرو RNA MiRNA - میکروRNA، ریزآرانای، miRNANucleotide - نوکلئوتیدhop stunt viroid - هویج شیرین کاریpolymerase chain reaction - واکنش زنجیره ای پلیمرازPCR - واکنش زنجیرهٔ پلیمرازChrysanthemum stunt viroid - ویروس تلخی گل داودیPotato spindle tuber viroid - ویروس سیب زمینی اسپیندل tuberCitrus exocortis viroid - ویروس عصاره مرکباتMoloney murine leukemia virus - ویروس لوئی موش MoloneyPeach latent mosaic viroid - ویروس موزاییک غنیشده هلوPathogenicity - پاتوژنزterminal - پایانهpotassium phosphate - پتاسیم فسفاتAGO - پیشComparative genomics - ژنومیک تطبیقی
موضوعات مرتبط
علوم زیستی و بیوفناوری
بیوشیمی، ژنتیک و زیست شناسی مولکولی
ژنتیک
پیش نمایش صفحه اول مقاله
![عکس صفحه اول مقاله: In silico prediction and validation of potential gene targets for pospiviroid-derived small RNAs during tomato infection In silico prediction and validation of potential gene targets for pospiviroid-derived small RNAs during tomato infection](/preview/png/5905419.png)
چکیده انگلیسی
Viroids are small, covalently closed, circular non-coding RNA pathogens of flowering plants. It is proposed that the symptoms of viroid pathogenesis result from a direct interaction between the viroid genomic RNA and unknown host plant factors. Using a comparative genomic approach we took advantage of the detailed annotation of the Arabidopsis thaliana (Arabidopsis) genome to identify sequence homologies between putative viroid-derived small RNAs (vd-sRNAs) and coding regions in the plant genome. A pool of sequence homologies among 29 species of the Pospiviroidae family and the Arabidopsis genome was analyzed. Using this strategy we identified putative host gene targets that may be involved in symptom expression in viroid-infected plants. In this communication, we report the in silico prediction and the experimental validation of pospiviroid-derived sRNAs conserved in the lower strand of the pathogenicity domain of seven viroid species infecting tomato; those vd-sRNAs targeted for cleavage the host mRNA encoding a conserved tomato WD40-repeat protein (SolWD40-repeat; SGN_U563134). Analysis of SolWD40-repeat expression indicated that this gene is down-regulated in tomato plants infected with tomato planta macho viroid (TPMVd). Furthermore, 5â² RLM-RACE revealed that the SolWD40-repeat mRNA is cleaved at the predicted target site showing complementarity to a corresponding TPMVd-sRNA identified in silico. Our approach proved to be useful for the identification of natural host genes containing sequence homologies with segments of the Pospiviroidae genome. Using this strategy we identified a functionally conserved gene in Arabidopsis and tomato, whose expression was modified during viroid infection in the host genome; regulation of this gene expression could be guided by vd-sRNA:mRNA complementarity, suggesting that the comparison of the Arabidopsis genome to viroid sequences could lead to the identification of unexpected interactions between viroid RNAs and their host.
ناشر
Database: Elsevier - ScienceDirect (ساینس دایرکت)
Journal: Gene - Volume 564, Issue 2, 15 June 2015, Pages 197-205
Journal: Gene - Volume 564, Issue 2, 15 June 2015, Pages 197-205
نویسندگان
Katia Avina-Padilla, Octavio Martinez de la Vega, Rafael Rivera-Bustamante, Juan Pablo Martinez-Soriano, Robert A. Owens, Rosemarie W. Hammond, Jean-Philippe Vielle-Calzada,