Multi-algorithmic Cooperative For Watermelon MADS-box Gene Family Analysis In Genome-wide

With the growth of biological data,using computer processing,analysis and storage of biological data has become a trend,from the original sequence analysis to the science of genomics,gene expression research,and structural biology.MADS-box genes are an important transcriptional regulatory factor in eukaryotes,taking part in the development of flower organ and flowering time regulation,plays an important role in the growth and development of plants.Currently,studies of the mads-box gene have been published,such as Arabidopsis thaliana,Oryza sativa and Populus trichocarpa etcetera plants.The study of MADS-box gene have partial cloned in watermelon,the whole genome level study has not yet been done.And the cultivate area and production of watermelons are high,is the most popular fresh fruits in the world,have important economic value.As a result,the study of watermelon MADS-box genes is very meaningful.In plant,MADS-box gene predictions,validation,classification and evolutionary relationship research require multiple algorithms.This topic through multi-algorithmic Cooperative(Markov model,clusterW alignment,neighbor method,Poisson model),research MADS-box gene,including: gene prediction,verification,classification;explore the differences in structure,location,and expression patterns in different type MADS-box genes.The main works and innovation point is summarized as follow:(1)Consider watermelon genome data as material,through multi-algorithmic Cooperative and identify thirty-nine non-redundant MADS-box genes,classified I type(1)and II type(28)by phylogenetic analysis.At the same time,according to the classification information research different type MADS-box gene difference in gene structure,motif,chromosome location,as well as explore the expression in different organizations,the Ka/Ks calculation and the divergence time estimation.The result show that I type and II type both contain a motif but gene number,structure and chromosome location have differences.I type gene number is small,structure is relatively simple,sporadic distribution in several chromosomes;II type gene number is more,the structure is relatively complex,almost all over the entire genome.(2)Reference analysis ideas of watermelon MADS-box gene in genome,based on multi-algorithm coordination design a set of analysis process about MADS-box gene family,applicable to other plants MADS-box gene family analysis at the whole genome level.Including the design principles and architecture and the needs of the process(reference species selection,data collection,analysis software and algorithm determination),as well as analysis of the process input and output of the detailed interface and so on.This study aims to study the watermelon genome MADS-box gene by multi-algorithm coordination,sure the MADS-box genes numbers,classification,and evolutionary relationship;location,gene structure,and conserved motifs,etc.Based on the analysis of watermelon MADS-box gene family,design a set of MADS-box gene family analysis process fit other plants in genome level.Which provides an effective method for studying the MADS-box gene of plant and it is helpful to explore the similarities and evolutionary relationships of MADS-box genes in different species.