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| Item Type: | Article |
|---|---|
| Title: | Efficient recovery of complete gut viral genomes by combined short- and long-read sequencing |
| Creators Name: | Chen, J., Sun, C., Dong, Y., Jin, M., Lai, S., Jia, L., Zhao, X., Wang, H., Gao, N.L., Bork, P., Liu, Z., Chen, W.H. and Zhao, X.M. |
| Abstract: | Current metagenome assembled human gut phage catalogs contained mostly fragmented genomes. Here, comprehensive gut virome detection procedure is developed involving virus-like particle (VLP) enrichment from ≈500 g feces and combined sequencing of short- and long-read. Applied to 135 samples, a Chinese Gut Virome Catalog (CHGV) is assembled consisting of 21,499 non-redundant viral operational taxonomic units (vOTUs) that are significantly longer than those obtained by short-read sequencing and contained ≈35% (7675) complete genomes, which is ≈nine times more than those in the Gut Virome Database (GVD, ≈4%, 1,443). Interestingly, the majority (≈60%, 13,356) of the CHGV vOTUs are obtained by either long-read or hybrid assemblies, with little overlap with those assembled from only the short-read data. With this dataset, vast diversity of the gut virome is elucidated, including the identification of 32% (6,962) novel vOTUs compare to public gut virome databases, dozens of phages that are more prevalent than the crAssphages and/or Gubaphages, and several viral clades that are more diverse than the two. Finally, the functional capacities are also characterized of the CHGV encoded proteins and constructed a viral-host interaction network to facilitate future research and applications. |
| Keywords: | crAssphage, Gubaphage, Gut Virome, Long-Read Sequencing, pacBio Sequel II, Terminase, Virus-Like Particle |
| Source: | Advanced Science |
| ISSN: | 2198-3844 |
| Publisher: | Wiley |
| Volume: | 11 |
| Number: | 13 |
| Page Range: | 2305818 |
| Date: | 3 April 2024 |
| Official Publication: | https://doi.org/10.1002/advs.202305818 |
| PubMed: | View item in PubMed |
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