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gndDb, a Database of Partial gnd Sequences To Assist with Analysis of Escherichia coli Communities Using High-Throughput Sequencing

journal contribution
posted on 2024-06-21, 03:49 authored by Adrian CooksonAdrian Cookson, David Lacher, Flemming Scheutz, David Wilkinson, Patrick Biggs, Jonathan Marshall, Gale BrightwellGale Brightwell
The use of culture methods to detect Escherichia coli diversity does not provide sufficient resolution to identify strains present at low levels. Here, we target the hypervariable gnd gene and describe a database containing 534 distinct partial gnd sequences and associated O groups for use with culture-independent E. coli community analysis. The DNA sequences of the 534 distinct gSTs are available in FASTA format from GitHub (https://github.com/mEpiLab/gnd).

Funding

Funded by the New Zealand Ministry for Business, Innovation and Employment's Our Land and Water National Science Challenge (Toitū te Whenua, Toiora te Wai) as part of project Faecal Source Tracking

History

Publication date

2019-08-07

Language

  • English

Does this contain Māori information or data?

  • No

Journal title

Microbiology Resource Announcements

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