Description of Corynebacterium nasorum sp. nov. and Corynebacterium hallucis sp. nov. isolated from human nasal passages and skin
  1. References
  • Introduction
  • Methods
    • Genomes Summary
    • Prokka Annotations
    • Average Nucleotide Identity (ANI)
    • Digital DNA:DNA hybridization (dDDH)
    • Phylogenies
    • Anvio
  • References

References

Delmont, T. O. and Eren, A. M. (2018). Linking pangenomes and metagenomes: the Prochlorococcus metapangenome. PeerJ 6, e4320.
Eren, A. M., Kiefl, E., Shaiber, A., Veseli, I., Miller, S. E., Schechter, M. S., Fink, I., Pan, J. N., Yousef, M., Fogarty, E. C., et al. (2020). Community-led, integrated, reproducible multi-omics with anvi’o. Nature Microbiology 6, 3–6.
Hyatt, D., Chen, G.-L., LoCascio, P. F., Land, M. L., Larimer, F. W. and Hauser, L. J. (2010). Prodigal: prokaryotic gene recognition and translation initiation site identification. BMC Bioinformatics 11,.
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Kanehisa, M., Furumichi, M., Sato, Y., Kawashima, M. and Ishiguro-Watanabe, M. (2022). KEGG for taxonomy-based analysis of pathways and genomes. Nucleic Acids Research 51, D587–D592.
Meier-Kolthoff, J. P., Auch, A. F., Klenk, H.-P. and Göker, M. (2013). Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 14,.
Meier-Kolthoff, J. P., Carbasse, J. S., Peinado-Olarte, R. L. and Göker, M. (2021). TYGS and LPSN: a database tandem for fast and reliable genome-based classification and nomenclature of prokaryotes. Nucleic Acids Research 50, D801–D807.
Seemann, T. (2014). Prokka: rapid prokaryotic genome annotation. Bioinformatics 30, 2068–2069.
Shaiber, A., Willis, A. D., Delmont, T. O., Roux, S., Chen, L.-X., Schmid, A. C., Yousef, M., Watson, A. R., Lolans, K., Esen, Ö. C., et al. (2020). Functional and genetic markers of niche partitioning among enigmatic members of the human oral microbiome. Genome Biology 21,.
Veseli, I., Chen, Y. T., Schechter, M. S., Vanni, C., Fogarty, E. C., Watson, A. R., Jabri, B., Blekhman, R., Willis, A. D., Yu, M. K., et al. (2023). Microbes with higher metabolic independence are enriched in human gut microbiomes under stress. biorxiv.
Anvio
Source Code
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