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شناسایی ریز RNAها و ژنهای هدف مرتبط در گیاه دارویی مرزه خوزستانی | ||
| تحقیقات ژنتیک و اصلاح گیاهان مرتعی و جنگلی ایران | ||
| مقاله 3، دوره 29، شماره 2 - شماره پیاپی 58، اسفند 1400، صفحه 182-195 اصل مقاله (888.65 K) | ||
| نوع مقاله: مقاله علمی - پژوهشی | ||
| شناسه دیجیتال (DOI): 10.22092/ijrfpbgr.2021.354879.1386 | ||
| نویسندگان | ||
| سمیه شمس1؛ احمد اسماعیلی* 2؛ فرهاد نظریان فیروز آبادی3؛ حسین مومیوند4 | ||
| 1دانشآموخته دکتری، گروه مهندسی تولید و ژنتیک گیاهی، دانشکده کشاورزی، دانشگاه لرستان، خرمآباد | ||
| 2نویسنده مسئول مکاتبات، استاد، گروه مهندسی تولید و ژنتیک گیاهی، دانشکده کشاورزی، دانشگاه لرستان، خرمآباد | ||
| 3استاد، گروه مهندسی تولید و ژنتیک گیاهی، دانشکده کشاورزی، دانشگاه لرستان، خرمآباد | ||
| 4استادیار، گروه علوم باغبانی، دانشکده کشاورزی، دانشگاه لرستان، خرمآباد | ||
| چکیده | ||
| میرناها (microRNAها)، دسته ای از مولکول های تنظیمکننده کوچک و غیر کدکننده هستند که بیان ژن را از طریق تخریب رونویسی یا سرکوب ترجمه تنظیم می کنند. میرناها، در تنظیم گستره وسیعی از فرایندهای متابولیکی و فیزیولوژیکی در گیاهان مشارکت دارند. خانواده نعناع بهویژه مرزه خوزستانی، گیاهان شناخته شده ای از نظر طعم، عطر و خواص دارویی هستند. تاکنون هیچگونه گزارشی از شناسایی میرنا برای گیاه دارویی مرزه خوزستانی (Jamzad khuzistanica Satureja) ثبت نشده است. ازاینرو، در این مطالعه برای پیشبینی میرنا و ژنهای هدفشان در مرزه خوزستانی، از رویکرد محاسباتی مبتنی بر جستجوی همسانی استفاده شد. یونیژن های غیر کدکننده بهعنوان توالی های کاندید پیشساز میرنا در نظر گرفته شدند. در نهایت پس از ارزیابی پارامترهای عمومی درصد باز GC، حداقل انرژی آزاد تاخوردگی (MFE)، شاخص حداقل انرژی آزاد تاخوردگی (MFEI) و ساختار ثانویه 58 میرنا شناسایی شد که از بین آنها با اعمال معیارهای شناسایی اختصاصی گیاهان و پالایش میرناهای پیشبینی شده از چند رونوشت، در نهایت 10 میرنا شناسایی شد. سپس 930 رونوشت هدف با استفاده از وبسایت psRNATarget برای آنها پیشبینی و با استفاده از ابزار BLASTx نرمافزار (v2.6.0) Blast+ NCBI تفسیر کارکردی شد. بررسی ژنهای هدف نشان داد که ژنهای پاسخدهنده اکسین، ژنهای GRAS ((Gibberlic-acid insensitive (GAI), Rspressor of GAI (RGA) and Scarerow (SCR))، ژن AGO2 ( 2 Argonaute) و ژنهای خانواده LAC (Laccase) از اهداف عمده میرناهای شناسایی شده در مرزه خوزستانی هستند. تجزیهوتحلیل غنیسازی مسیر در ژن های هدف نشان داد که مسیر بیوسنتز متابولیتهای ثانویه بهطور معنی داری جزء اهداف میرناهای شناسایی شده هستند. این مطالعه، اولین گزارش از شناسایی میرنا در مرزه خوزستانی بوده که نقش آنها را در تنظیم ژنهای هدف توصیف می کند. | ||
| کلیدواژهها | ||
| تجزیه محاسباتی؛ مرزه خوزستانی؛ میرنا؛ غیر کدکننده | ||
| عنوان مقاله [English] | ||
| Identification of miRNAs and target genes in Satureja khuzistanica Jamzad | ||
| نویسندگان [English] | ||
| S. Shams1؛ A. Ismaili2؛ F. Nazarian Firouz-Abadi3؛ H. Mumivand4 | ||
| 1PhD graduated, Department of Production Engineering and Plant Genetics, Faculty of Agriculture, Lorestan University, Khorramabad, I.R. Iran. | ||
| 2Corresponding author, Prof., Department of Production Engineering and Plant Genetics, Faculty of Agriculture, Lorestan University, Khorramabad, I.R. Iran | ||
| 3Prof., Department of Production Engineering and Plant Genetics, Faculty of Agriculture, Lorestan University, Khorramabad, I.R. Iran. | ||
| 4Assist. Prof., Department of Horticultural Sciences, Faculty of Agriculture, Lorestan University, Khorramabad, I.R. Iran | ||
| چکیده [English] | ||
| MicroRNAs (miRNAs) are one of the small and non-coding regulatory molecules, which regulate gene expression by transcriptional cleavage or translational suppression. miRNAs are involved in regulating a wide range of metabolic and physiological processes in plants.The mint family plants, especially Satureja khuzistanica, are well known herbs for its flavor, fragrance and medicinal properties. To date, no miRNAs have been identified in Satureja species. In present study, a computational approach based on homology search was used to identify miRNAs and their targets of Satureja khuzistanica. Non-coding unigenes were identified and considered for candidates of miRNAs precursor. After evaluating the general parameters such as GC percentage, minimum folding free energy (MFE), minimum free energy index (MFEI) and secondary structure, 58 miRNAs were identified, which among them, by applying plant specific parameters and filtring the miRNAs from several transcripts, overall ten miRNAs were identified. Then, 930 target transcripts were predicted using psRNATarget website and the annotation of them was performed by using BLASTx tools of NCBI Blast+ software (v2.6.0). Examination of target genes showed that auxin-responsive genes, GRAS, AGO2 and LAC family genes are the main targets of the identified miRNAs in S. khuzistanica. Pathway enrichment analysis of the target genes revealed that the secondary metabolic pathway is significantly among the targets of the identified miRNAs. This is the first study describing miRNAs and their role in the regulation of target genes in S. khuzistanica. | ||
| کلیدواژهها [English] | ||
| Computational analysis, Satureja khuzistanica, microRNA, Non-coding | ||
| مراجع | ||
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