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متا-آنالیز ترانسکریپتوم ژن های مسیر موالونیک‌اسید و متیل‌اریتریتول‌فسفات برای بیوسنتز ایزوپرینوئیدها در گیاهان | ||
| فصلنامه علمی زیست فناوری گیاهان زراعی | ||
| مقاله 1، دوره 8، شماره 3 (بهار 1398) - شماره پیاپی 25، اردیبهشت 1398، صفحه 1-17 اصل مقاله (1.7 M) | ||
| نوع مقاله: علمی پژوهشی | ||
| شناسه دیجیتال (DOI): 10.30473/cb.2019.44289.1768 | ||
| نویسندگان | ||
| زهرا امین فر1؛ بابک ربیعی* 2؛ مسعود توحیدفر3؛ محمدحسین میرجلیلی4 | ||
| 1دانشجوی دکتری اصلاح نباتات، دانشکده علوم کشاورزی، دانشگاه گیلان، رشت، ایران | ||
| 2استاد، گروه اصلاح نباتات، دانشکده علوم کشاورزی، دانشگاه گیلان، رشت، ایران | ||
| 3دانشیار، گروه بیوتکنولوژی گیاهی، دانشکده علوم زیستی و زیست فناوری، دانشگاه شهید بهشتی، تهران، ایران | ||
| 4دانشیار، گروه کشاورزی، پژوهشکده گیاهان و مواد اولیه دارویی، دانشگاه شهید بهشتی، تهران، ایران | ||
| چکیده | ||
| ایزوپرینوئیدها و مشتقات آن ها بزرگترین گروه از ترکیبات طبیعی در گیاهان هستند که از واحدهای پنج کربنه ایزوپرینیل فسفات ساخته می‌شوند. این واحدهای پنچ کربنه در گیاهان از طریق دو مسیر بیوسنتزی مجزا شامل مسیر موالونات (MVA) در سیتوپلاسم و مسیر متیل اریتریتول فسفات (MEP) در پلاستید، تولید می شوند. به منظور انجام متا-آنالیز ژن‌های دو مسیر MVA و MEP از داده‌های بیانی آزمایشات ریزآرایه در بافت های مختلف، مراحل نموی، تنش های زیستی و غیرزیستی در گیاه مدل آرابیدوپسیس استفاده شد. متا-آنالیز ترانسکریپتوم با استفاده از ابزار Genevestigator به عنوان یک بانک اطلاعاتی بزرگ شامل داده‌های ترانسکریپتوم مخازن GEO در NCBI و ArrayExpress در EBI، انجام گرفت. نتایج حاصل از متا-آنالیز نشان داد که به طور کلی رونویسی ژن‌های کد کننده آنزیم‌های دو مسیر MVA و MEP گیاهی با هم هماهنگ نیست و در بافت‌ها، مراحل رشدی و شرایط مختلف الگوی بیانی متفاوتی دارند. ژن‌های مسیر MVA بیشترین بیان را در ریشه و اندام‌های زایشی نشان می‌دهند، درحالی‌که ژن‌های مسیر MEP بیشتر در بافت‌های فتوسنتزی بیان می‌شوند. این نتایج می‌تواند به درک چگونگی تولید پیش سازهای ایزوپرینوئیدها از طریق دو مسیر با جایگاه متفاوت کمک کرده و همچنین سازماندهی شبکه‌های ژنی و تنظیم آن‌ها در شرایط، بافت‌ها و مراحل نموی مختلف را آشکار می‌سازد. | ||
| کلیدواژه‌ها | ||
| ایزوپرینوئیدها؛ ترانسکریپتوم؛ ریزآرایه؛ متا-آنالیز؛ Genevestigator | ||
| موضوعات | ||
| بیوانفورماتیک | ||
| عنوان مقاله [English] | ||
| Meta-analysis of Transcriptomics related to the genes of the mevalonate (MVA) and the 2-C-methyl-D-erythritol 4-phosphate (MEP) pathways for isoprenoids biosynthesis in plants | ||
| نویسندگان [English] | ||
| Zahra Aminfar1؛ Babak Rabiei2؛ Masoud Tohidfar3؛ Mohammad Hossein Mirjalili4 | ||
| 1Ph.D. Student of Plant Breeding, Faculty of Agriculture, University of Guilan, Rasht, Iran. | ||
| 2Professor, Department of Plant Breeding, Faculty of Agriculture, University of Guilan, Rasht, Iran | ||
| 3Associate Professor, Department of Biotechnology, Faculty of Life Science and Biotechnology, Shahid Beheshti University, G.C. Tehran, Iran. | ||
| 4Associate Professor, Department of Agriculture, Medicinal Plants and Drugs Research Institute, Shahid Beheshti University, G.C., Tehran, Iran. | ||
| چکیده [English] | ||
| Isoprenoids and their derivatives represent the largest group of natural compounds in plants that are biosynthesized from isoprenyl diphosphate C5 units. These C5 units generated by two distinctive biosynthetic pathways in plants including mevalonate (MVA) pathway in the cytoplasm and methylerthritol phosphate (MEP) pathway in plastids. To perform a meta-analysis of two pathways of MVA and MEP, expression data of the microarray experiments in different tissues, developmental stages, biotic and abiotic stresses were used in Arabidopsis thaliana as a model plant. The transcriptom meta-analysis was carried out using Genevestigator as a large database containing transcriptomics data of GEO in NCBI and ArrayExpress in EBI. The results of the meta-analysis showed that the transcription of genes encoding the enzymes of MVA and MEP pathway did not coordinate and they had different expression patterns in developmental stages, various tissues and conditions. MVA pathway genes show the highest expression in the roots and reproductive organs, while the MEP pathway genes are expressed in photosynthetic tissues. The results obtained here can help to understand how the underlying pathway gene networks are organized and regulated in different conditions, tissues and developmental stages. | ||
| کلیدواژه‌ها [English] | ||
| Genevestigator, Isoprenoids, Meta-analysis, Microarray, Transcriptome | ||
| مراجع | ||
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