De novo Genome Assembly of Yersinia pestis Strain12
Abstract: Recent advancement in next generation sequencing technology have made possible to sequence whole genome but assembling a large number of short sequence reads is still big challenge. Yersinia pestis is one of the most prominent human pathogens and the causative agent which cause plague disease. Yersinia contains three species Yersinia pestis, Yersinia pseudotuberculosis, and Yersinia enterocolitica which cause plague disease in humans. In this research work, the comparative study of two assemblers namely Velvet and SPAdes using Yersinia pestis 12 paired end data sets from illumina platform consisting of 358 million base pairs reads. Overall, the best assembly was generated using Velvet which consumed the least amount of memory than any other assembler, total contig are found 3530 and G+C content was 48.40 %. The resulting best assembly leads to predication of the gene which reveals 5011 total genes, including a total of 4243 protein coding sequencing in the bacterial genome. We annotated this assembly using three different platforms RAST, BLAST2GO and PROKKA. Additionally functional analysis using KEGG pathway from BLAST2GO provides 108 metabolic pathways. Since Genome Assembly leads to development of new therapeutic targets, it is obligatory to annotate these genomes. Comparison among Yersinia species by de novo assembly makes it possible to annotate the genome for better understanding of pharmacological targets.
Keywords: Genome assembly, Annotation, Yersinia pestis 12
How to Cite?: Mandeep Kaur, "De novo Genome Assembly of Yersinia pestis Strain12", Volume 8 Issue 6, June 2019, International Journal of Science and Research (IJSR), Pages: 2000-2006, https://www.ijsr.net/getabstract.php?paperid=ART20199017, DOI: https://dx.doi.org/10.21275/ART20199017