The DOI matches its Crossref record; 54 of the 54 references it cites were found in a registry or an index.
phyloFlash: Rapid Small-Subunit rRNA Profiling and Targeted Assembly from Metagenomes
Open accessAbstract
To track organisms across all domains of life, the SSU rRNA gene is the gold standard. Many environmental microbes are known only from high-throughput sequence data, but the SSU rRNA gene, the key to visualization by molecular probes and link to existing literature, is often missing from metagenome-assembled genomes (MAGs). The easy-to-use phyloFlash software suite tackles this gap with rapid, SSU rRNA-centered taxonomic classification, targeted assembly, and graph-based linking to MAGs. Starting from a cleaned reference database, phyloFlash profiles the taxonomic diversity and assembles the sorted SSU rRNA reads. The phyloFlash design is domain agnostic and covers eukaryotes, archaea, and bacteria alike. phyloFlash also provides utilities to visualize multisample comparisons and to integrate the recovered SSU rRNAs in a metagenomics workflow by linking them to MAGs using assembly graph parsing.
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Urayama, S.-I., Fukudome, A., Hirai, M., Okumura, T., Nishimura, Y., Takaki, Y., Kurosawa, N., Koonin, E. V., Krupovic, M., & Nunoura, T. (2024) · Nature Microbiology · doi:10.1038/s41564-023-01579-5 · Cited by 34
Metadata
- Authors
- Gruber-Vodicka, H. R., Seah, B. K. B., & Pruesse, E.
- Venue
- mSystems
- Publisher
- American Society for Microbiology
- Published
- 2020-10-27
- Volume
- 5
- Issue
- 5
- ISSN
- 2379-5077 (ISSN-L)
- OpenAlex
- W3097237112
- Cited by
- 365
- References
- 54
- FWCI
- 13.62
- Type
- journal article
- Language
- en
- Open access
- gold
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