Computational Genomics Lab, Beijing Institutes of Life Science, Chinese Academy of Sciences, Beijing, 100101, China.
University of Chinese Academy of Sciences, Beijing, 100049, China.
Protein Cell. 2018 May;9(5):501-510. doi: 10.1007/s13238-018-0544-5. Epub 2018 Apr 25.
With the development of high throughput sequencing and single-cell genomics technologies, many uncultured bacterial communities have been dissected by combining these two techniques. Especially, by simultaneously leveraging of single-cell genomics and metagenomics, researchers can greatly improve the efficiency and accuracy of obtaining whole genome information from complex microbial communities, which not only allow us to identify microbes but also link function to species, identify subspecies variations, study host-virus interactions and etc. Here, we review recent developments and the challenges need to be addressed in single-cell metagenomics, including potential contamination, uneven sequence coverage, sequence chimera, genome assembly and annotation. With the development of sequencing and computational methods, single-cell metagenomics will undoubtedly broaden its application in various microbiome studies.
随着高通量测序和单细胞基因组学技术的发展，许多未培养的细菌群落已经通过将这两种技术结合起来进行了剖析。特别是，通过同时利用单细胞基因组学和宏基因组学，研究人员可以大大提高从复杂微生物群落中获取全基因组信息的效率和准确性，这不仅使我们能够识别微生物，还可以将功能与物种联系起来，识别亚种变化，研究宿主-病毒相互作用等。在这里，我们回顾了单细胞宏基因组学的最新进展和需要解决的挑战，包括潜在的污染、不均匀的序列覆盖、序列嵌合体、基因组组装和注释。随着测序和计算方法的发展，单细胞宏基因组学无疑将拓宽其在各种微生物组研究中的应用。
