Institute of Ecological Science, School of Life Science, South China Normal University, Guangzhou, Guangdong Province, China.
School of Life Sciences, Sun Yat-Sen University, Guangzhou, Guangdong Province, China.
Methods Mol Biol. 2021;2242:139-152. doi: 10.1007/978-1-0716-1099-2_9.
Assembly of metagenomic sequence data into microbial genomes is of critical importance for disentangling community complexity and unraveling the functional capacity of microorganisms. The rapid development of sequencing technology and novel assembly algorithms have made it possible to reliably reconstruct hundreds to thousands of microbial genomes from raw sequencing reads through metagenomic assembly. In this chapter, we introduce a routinely used metagenomic assembly workflow including read quality filtering, assembly, contig/scaffold binning, and postassembly check for genome completeness and contamination. We also describe a case study to reconstruct near-complete microbial genomes from metagenomes using our workflow.
组装宏基因组序列数据成微生物基因组对于揭示群落复杂性和阐明微生物的功能能力至关重要。测序技术和新型组装算法的快速发展使得通过宏基因组组装从原始测序reads 中可靠地重建数百到数千个微生物基因组成为可能。在本章中，我们介绍了一种常用的宏基因组组装工作流程，包括读质量过滤、组装、contig/scaffold -bin 划分和组装后检查基因组的完整性和污染情况。我们还描述了一个使用我们的工作流程从宏基因组中重建近乎完整的微生物基因组的案例研究。
