Fast and simple protein-alignment-guided assembly of orthologous gene families from microbiome sequencing reads

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• 作者：Daniel H. Huson ; Rewati Tappu ; Adam L Bazinet ; Chao Xie ; Michael P. Cummings…
• 关键词：Sequence assembly ; String graph ; Functional analysis ; Software
• 刊名：Microbiome
• 出版年：2017
• 出版时间：December 2017
• 年：2017
• 卷：5
• 期：1
• 全文大小：4704KB
• 刊物主题：Medical Microbiology; Bioinformatics; Microbial Ecology; Microbiology; Microbial Genetics and Genomics; Virology;
• 出版者：BioMed Central
• ISSN：2049-2618
• 卷排序：5

文摘

BackgroundMicrobiome sequencing projects typically collect tens of millions of short reads per sample. Depending on the goals of the project, the short reads can either be subjected to direct sequence analysis or be assembled into longer contigs. The assembly of whole genomes from metagenomic sequencing reads is a very difficult problem. However, for some questions, only specific genes of interest need to be assembled. This is then a gene-centric assembly where the goal is to assemble reads into contigs for a family of orthologous genes.