1st International and 10th National Iranian Conference on Bioinformatics
Home Accepted Papers
Genome-Wide Identification of Conserved MiRNAs in Andrographis paniculate Nees
Paper ID : 1323-ICB10
Authors:
Heydar Rabbaniha *1, جعفر احمدی2, صدیقه فابریکی اورنگ3, داریوش طالعی4
1Departemant of Genetics and Herbal Medicine,Faculty of Agriculture and natural Resources, Imam Khomeini International University(IKIU), Qazvin.Iran
2مهندسی ژنتیک و به نژادی گیاهی دانشکده کشاورزی و منابع طبیعی دانشگاه بین المللی امام خمینی قزوین
3مهندسی ژنتیک و به نژادی گیاهی، دانشکده کشاورزی و منابع طبیعی دانشگاه بین المللی امام خمینی قزوین
4مرکز تحقیقات گیاهان دارویی، دانشگاه شاهد، تهران، ایران
Abstract:
No study has been performed on identifying microRNAs in the medicinal plant, Andrographis paniculata. Nain-e Havandi (Andrographis paniculata Nees) is a medicinal plant of the Acanthaceae family. Nain-e Havandi has numerous medicinal properties and is widely used in Chinese traditional medicine. Medicinal properties of this plant include anti-cancer, anti-diabetes and anti-hepatitis. [1]. MicroRNAs are a class of short (18 to 24 nt), non-coding regulatory RNAs that play a major role in post-transcriptional gene silencing by targeting mRNAs for degradation or inhibiting translation [2, 3]. MiRNAs are the main regulators of a wide range of biological processes, including evolution, cell differentiation, signal transduction, secondary metabolic pathways, and response to a variety of biotic and abiotic stresses [4, 5]. The purpose of this study was to identify conserved miRNAs in the genome of the Andrographis paniculata through the computational genomics homology search approach. The required genomic sequences of the Andrographis paniculata and the mature sequences of previously identified plant-conserved miRNAs were obtained from the NCBI and miRBase databases, respectively. The Blastn was performed to find identical sequences with conserved miRNAs in the genome of Andrographis paniculata. The protein-coding sequences were then deleted using the Blastx algorithm. The mfold web server software [6] was used to study the secondary structure of the remaining sequences. Also, the analysis of the minimal folding free energy index, base content, and percentage of base pairs formed in secondary structures was performed. Finally, a total of 46 conserved miRNAs were identified in the genome of Andrographis paniculata, of which 26 miRNAs belonged to 17 independent families. The miR156 family with 4 members was the largest identified family. The miR399 family had three members and the miR167_1, miR160, miR169_2 and miR5067 families each had two members. Only one member was identified for each of the 11 remaining miRNA families.
Keywords:
Andrographis paniculata, Bioinformatics, Comparative genomics, Genome, MicroRNAs.
Status : Paper Accepted (Poster Presentation)