Papers and other resources on genomic surveillance

Meredith LW, Hamilton WL, Warne B, et al., 2020: Rapid implementation of SARS-CoV-2 sequencing to investigate cases of health-care associated COVID-19: a prospective genomic surveillance study

Houldcroft et al, 2017: Clinical and biological insights from viral genome sequencing

Grubaugh et al, 2019: Tracking virus outbreaks in the twenty-first century

Wyres et al (2020): Genomic surveillance for hypervirulence and multi-drug resistance in invasive Klebsiella pneumoniae from South and Southeast Asia.

Yahara et al (2018): Genomic surveillance of Neisseria gonorrhoeae to investigate the distribution and evolution of antimicrobial-resistance determinants and lineages

Directory of protocols from CDC: https://github.com/CDCgov/SARS-CoV-2_Sequencing

#training:

https://coursesandconferences.wellcomegenomecampus.org/our-events/train-the-trainer-capacity-building-genomic-surveillance-of-amr-2019/

#blogpost

https://bedford.io/blog/zibra-project/

#lecture #towatch

https://vimeo.com/365990594

See and Sequence: Integrating Whole-Genome Sequencing Within the National Antimicrobial Resistance Surveillance Program in the Philippines Silvia Argimón, Melissa A. L. Masim, June M. Gayeta, Marietta L. Lagrada, Polle K. V. Macaranas, Victoria Cohen, Marilyn T. Limas, Holly O. Espiritu, Janziel C. Palarca, Jeremiah Chilam, Manuel C. Jamoralín Jr., Alfred S. Villamin, Janice B. Borlasa, Agnettah M. Olorosa, Lara F.T. Hernandez, Karis D. Boehme, Benjamin Jeffrey, Khalil Abudahab, Charmian M. Hufano, Sonia B. Sia, John Stelling, Matthew T.G. Holden, David M. Aanensen, Celia C. Carlos, on behalf of the Philippines Antimicrobial Resistance Surveillance Program bioRxiv 808378; doi: https://doi.org/10.1101/808378

#philippines #toread #preprint