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bioRxiv · 10.1101/2021.09.13.459686

MetaTrass: High-quality Metagenomic Taxonomic Read Assembly of Single-Species based on co-barcoding sequencing data and references

Qi, Y.·Gu, S.·Zhang, Y.·Guo, L.·Xu, M.·Cheng, X.·Wang, O.·Chen, J.·Fang, X.·Liu, X.·Deng, L.·Fan, G.
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Abstract

With the development of sequencing technologies and computational analysis in metagenomics, the genetic diversity of non-conserved regions has been receiving intensive attention to unravel the human gut microbial community. However, it remains a challenge to obtain enough microbial draft genomes at a high resolution from a single sample. In this work, we presented MetaTrass with a strategy of binning first and assembling later to assemble high-quality draft genomes based on metagenomics co-barcoding reads and the public reference genomes. We applied the tool to the single tube long fragment reads datasets for four human faecal samples, and generated more high-quality draft genomes with longer contiguity and higher resolution than the common combination strategies of genome assembling and binning. A total of 178 high-quality genomes was successfully assembled by MetaTrass, but the maximum of 58 was generated by the optimal common combination strategy in our tests. These high-quality genomes paved the way for genetic diversity and lineage analysis among different samples. With the high capability of assembling high-quality genomes of metagenomics datasets, MetaTrass will facilitate the study of spatial characters and dynamics of complex microbial communities at high resolution. The open-source code of MetaTrass is available at https://github.com/BGI-Qingdao/MetaTrass.

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Qi, Y., Gu, S., Zhang, Y., Guo, L., Xu, M., Cheng, X., Wang, O., Chen, J., Fang, X., Liu, X., Deng, L., Fan, G.. 2021-09-15. MetaTrass: High-quality Metagenomic Taxonomic Read Assembly of Single-Species based on co-barcoding sequencing data and references. https://doi.org/10.1101/2021.09.13.459686

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