How to Cite PhytoBacExplorer?

If you use data or metadata from PhytoBacExplorer, or perform analyses based on these data, please cite the following:

Zhou Z, Charlesworth J, Achtman M. (2021). HierCC: A multi-level clustering scheme for population assignments based on core genome MLST, Bioinformatics, 37(20):3645–3646.

Zhou Z, Alikhan NF, Mohamed K, the Agama Study Group, Achtman M (2020). The EnteroBase user's guide, with case studies on Salmonella transmissions, Yersinia pestis phylogeny, and Escherichia core genomic diversity, Genome Research, 30:138-152.

Zhou Z, Alikhan NF, et al. (2018). GrapeTree: visualization of core genomic relationships among 100,000 bacterial pathogens, Genome Research, 28:1395-1404.

Publications Using EnteroBase

Kolte B, Nübel U.(2024) Genetic determinants of resistance to antimicrobial therapeutics are rare in publicly available Clostridioides difficile genome sequences, Journal of Antimicrobial Chemotherapy, Volume 79, Issue 6, June 2024, Pages 1320–1328.
Frentrup M, Zhou Z, et al. (2020). A publicly accessible database for Clostridioides difficile genome sequences supports tracing of transmission chains and epidemics, Microbial Genomics, 6: e000410.
Achtman M, Zhou Z, Alikhan NF, et al. (2020). Genomic diversity of Salmonella enterica - The UoWUCC 10K genomes project, Wellcome Open Research, 5:223.
Alikhan NF, Zhou Z, Sergeant MJ, Achtman M. (2018). A genomic overview of the population structure of Salmonella, PLoS Genetics, 14(4): e1007261.