Micro binfie podcast

Today we’re talking about some exciting new developments in the area of comparative genomics. We are joined by Dr. Zamin Iqbal who is a Research Group Leader at the European Bioinformatics Institute and Dr. Grace Blackwell who is jointly at the European Bioinformatics Institute, in Zam’s group and Nick Thomson’s team at Wellcome Sanger Institute

What are the major challenges for getting AMR genomics into the clinic?

This was the question poised to a panel of experts at the 7th Microbial Bioinformatics hackathon run in conjunction with JPIAMR, PHA4GE and CLIMB.

The panel were: Mark Pallen from the Quadram Institute Bioscience, UK, Finlay Maguire from Dalhousie University, Canada, Anthony Underwood from the Centre for genomic pathogen surveillance, UK and Clement Tsui from the Weill Cornell Medicine, Qatar. Andrew Page was the Chair, supported by Lee Katz.

74 SEPIA With Henk - Soup Or Salad Yes! by Microbial Bioinformatics

We are again joined by Dr Robert Petit from the Wyoming Public Health Laboratory who is talking to us about BACTOPIA, a bioinformatics workflow specifically for bacterial genomes.

Docs: https://bactopia.github.io/

Repo: https://github.com/bactopia/bactopia/

Pub: https://doi.org/10.1128/mSystems.00190-20

We are joined by Dr Robert Petit from the Wyoming Public Health Laboratory who is talking to us about BACTOPIA, a bioinformatics workflow specifically for bacterial genomes.

Docs: https://bactopia.github.io/

Repo: https://github.com/bactopia/bactopia/

Pub: https://doi.org/10.1128/mSystems.00190-20

We finish our discussion on bacterial taxonomy, this time looking at new approaches of naming the multitudes of unnamed uncultured organisms and the controversial renaming of phyla. With guests Professor Phil Hugenholtz, Professor Iain Sutcliffe and Professor Mark Pallen.

Selective bibliography:

https://github.com/MicroBinfie/MicroBinfie.github.io/blob/45db8eb57d732176449073065dbdacc88a288fe9/assets/Taxonomy_Selective_bibliography.pdf

We continue our discussion on bacterial taxonomy, this time looking at how genomics has changed taxonomy with: Professor Phil Hugenholtz, Professor Iain Sutcliffe and Professor Mark Pallen.

Selective bibliography:

https://github.com/MicroBinfie/MicroBinfie.github.io/blob/45db8eb57d732176449073065dbdacc88a288fe9/assets/Taxonomy_Selective_bibliography.pdf

There has been a lot of discussion about bacterial taxonomy recently announced regarding phyla, and this revealed a lot of misconceptions around taxonomy in general. Today we discuss the background to bacterial taxonomy with: Professor Phil Hugenholtz, Professor Iain Sutcliffe and Professor Mark Pallen.

Selective bibliography: https://github.com/MicroBinfie/MicroBinfie.github.io/raw/45db8eb57d732176449073065dbdacc88a288fe9/assets/Taxonomy_Selective_bibliography.pdf

68 Bacterial Taxonomy: what is a species, what is a strain? part 2 by Microbial Bioinformatics

We’re navigating the twisted world of bacterial taxonomy. We have some excellent guides to help us! Our guests today are:

Dr. Leighton Pritchard: Who is a Strathclyde Chancellor's Fellow at Strathclyde Institute of Pharmacy and Biomedical Sciences in the University of Strathclyde

Dr. Conor Meehan: Dr. Conor Meehan is an assistant professor in molecular microbiology at the University of Bradford.