1st International and 10th National Iranian Conference on Bioinformatics
Home Accepted Papers
Studying relationships of subfamily Panicoideae (Poaceae) in Iran with Bayesian and Maximum Parsmony approaches using ITS and MATK sequences
Paper ID : 1456-ICB10
Authors:
Negar Karimi *, حجت اله سعیدی
گروه زیست شناسی گیاهی و جانوری، دانشکده علوم و فناوری های زیستی، دانشگاه اصفهان، اصفهان، ایران
Abstract:
Subfamily Panicoideae include agronomically important crops like rice and sorghum. Phylogenetic relationships of different members of subfamily Panicoideae occurring in Iran was analyzed using ITS and MATK genes. 62 sequences, representative of 26 species, were provided from NCBI data base. Sequences Alignment for each species was performed using Clustal W. To evaluate the compatibility of the sequences, the ILD test was performed, using Paup. Based on the heuristic search method, the P-value was calculated as 0.001 and defined as standard; P-values <0.05. Different phylogenetic trees were constructed using maximum parsimony and bayasian methods. Among which the tree based on combined data using maximum parsimony showed a more significant values as; CI = 0.3 and RI = 0.4 and was selected for further interpretations. According to the results the two species of Oryza sativa and Poa trivialis belonging to the tribes Oryzoideae and Pooideae, respectively, were grouped apart from other members of the subfamily. Aristida and Stipagrostis were sister genera belonging to the tribe Aristidoideae, which together with the members of the subfamily Panicoideae make the evolutionary clade of PACMAD and show closer kinship with members of this subfamily. Three tribes of Paspaleae, Andropogonaea and Paniceae each created specific clades, creating monophyletic groups. The species belonging to the phylogenetically known Centothecoid clade were also grouped apart from the rest taxa. However; the relationships among members showed polyphyletic situations which could be due to the low number of accessions used in the study. Finally, it is concluded that the ITS and MATK are good markers recognizing relationships in high taxonomic levels and the maximum parsimpony and bayasian methods are a good source of information for such studies.
Keywords:
Poaceae, Phylogeny, MATK, ITS, Iran
Status : Paper Accepted (Poster Presentation)