Had a quick bacterial Oxford Nanopore assembly tutorial yesterday with a colleague and made a short summary. Not as useful as Ryan Wick spectacular repo github.com/rrwick/Perfect… but maybe good if you want assembly fast (~15 min) and are command line proficient. github.com/osilander/simp…

Congratulations to our PhD student Hannah Doherty (@Hannahmayydwon) for winning the LES Michael O’Rourke Best Publication Award for her article ‘ChemGAPP: A tool for Chemical Genomics Analysis and Phenotypic Profiling’ published in Bioinformatics. UoB Biosciences

🚨 I am proud to present the latest work from the Coombes lab, published open-access, in Royal Society of Chemistry on our efforts to combat drug-resistant invasive non-typhoidal Salmonella disease. A short 🧵on the backstory and what we found... pubs.rsc.org/en/content/art…

Mge-cluster: a reference-free plasmid typing with standardised naming option developed by Jukka Corander's team ! #Plasmid #AMR @gerrythill Dr. Rebecca Gladstone academic.oup.com/nargab/article…

New paper from lanlabUNSW, in EMI_Journal tandfonline.com/doi/full/10.10…. We described the global genomic epidemiology and evolution of B. #pertussis with >6500 isolates using MGT. Michael Payne Alice Zheng Xu Sandeep Kaur Sophie Octavia Public database -> mgtdb.unsw.edu.au/pertussis/. 1/6

Congrats hirokisuyama on your first publication in Frontiers - Microbiology lanlabUNSW #whoopingcough #proteomics #metabolicmodels #biofilms frontiersin.org/articles/10.33…

pubmed.ncbi.nlm.nih.gov/38224094/

pubmed.ncbi.nlm.nih.gov/38215267/

pubmed.ncbi.nlm.nih.gov/38211565/

pubmed.ncbi.nlm.nih.gov/38236896/

pubmed.ncbi.nlm.nih.gov/38234808/

pubmed.ncbi.nlm.nih.gov/38232495/

DODGE: Automated point source bacterial outbreak detection using cumulative long term genomic surveillance. medrxiv.org/cgi/content/sh… #medRxiv

Microbes designed and named by future microbiologists...

cool pubmed.ncbi.nlm.nih.gov/38664639/

SalComFit: We have published these thousands of fitness effects in a new #SalCom online resource bioinf.gen.tcd.ie/cgi-bin/salcom… The Gene Fitness Compendium developed in collaboration with Karsten Hokamp, Ada Luo Ada Lijuan Luo & Jay Hinton @Jay_Salsa.

Re-introducing the newest small and mighty kid on the block (with the right link I hope) journals.asm.org/doi/10.1128/mb… - fantastic collaboration with XJ Yu CBRB Imperial Department of Infectious Disease David Holden and @jay_salsa x.com/thurstonlab/st…

Martin Hunt has made Incremental release 2024-08 on AllTheBacteria - adds 507k assemblies taking us up to 2.44 million in total: github.com/AllTheBacteria… is there, please use and publish with it! allthebacteria.readthedocs.io/en/latest/inde… 1/n