A study into the transcriptomic effect of commonly found laboratory mutations to RNAP in E. coli. Mutations largely decrease expression of stress-related genes and increase ribosomal content. bit.ly/3yN2lbM NIH Funding DTU Biosustain UCSD Engineering

Stressing about what you eat? You're not alone. We discovered that common nutrients can induce stresses in microbes: bit.ly/3VuCBtH. Food for thought for media optimization! UCSD Engineering DTU Biosustain

New tricks from our old favorite microbe: A pathway for extracellular electron transfer in E. coli is uncovered in our new preprint: bit.ly/3Rr7xs7 UCSD Engineering

Bacterial proteomes & transcriptomes can be modularized similarly, revealing previously characterized regulatory relationships and opening up the possibility of predicting proteome allocation from transcriptomic data go.nature.com/4cNjUr1 NIH Funding DTU Biosustain UCSD Engineering

Our new paper reveals Lactobacillaceae metabolic properties & their genomic basis & will have profound implications for the food industry and biosustainability, offering new insights and tools for strain selection & manipulation. bit.ly/4cSx7Pc DTU Biosustain UCSD Engineering

Shu Chien-Gene Lay Department of Bioengineering researchers, Bernhard Palsson and Adam Feist, participate in Bio-5 Coalition a new White House initiative to address the global crisis of drug shortages.today.ucsd.edu/photo-essays/u…

'Machine Learning of All Mycobacterium tuberculosis H37Rv RNA-seq Data Reveals a Structured Interplay between Metabolism, Stress Response, and Infection' was highlighted as an ASM Highly Cited paper in 2024! journals.asm.org/doi/10.1128/ms… ASM Journals

The program for the 2024 COBRA conference is nearly complete. Check it out here. bit.ly/4fppuBL Hope to see you all in San Diego in October! UCSD Engineering DTU Biosustain

Planning a genome engineering or designing genetic circuits in bacteria? Using iModulons—sets of co-expressed genes—instead of individual genes could be a great strategy to enhance scale and predictability in your designs. bit.ly/3yKCMbO UCSD Engineering DTU Biosustain

Wondering how light impacts gene regulation in cyanobacteria? Our new study reveals how S. elongatus regulates its genes to thrive in dynamic environments, offering valuable insights into its circadian rhythms & photosynthesis. bit.ly/3B5EsgR UCSD Engineering DTU Biosustain

Multi-omics data can be incorporated into genome-scale metabolic models; highly curated knowledgebases that explicitly account for genes, transcripts, proteins & metabolites.  Recent advances in applying this approach now reviewed. go.nature.com/4gArBTW UCSD Engineering

A combo of data analytic & synthetic bio has now revealed the transcriptional regulation of 25 of S. coelicolor’s biosynthetic gene clusters, an important advance towards the goal of controlling the production rate of these metabolites bit.ly/4eAnplc UCSD Engineering

"Ask the Authors" is back! In Episode 17, Annie Yuan takes us through her recently published paper in PNAS on the circadian dynamics of Synechococcus elongatus PCC 7942. youtu.be/5J17K6LNtzk. bit.ly/3Y2VRjf PNASNews UCSD Engineering

Congratulations to Heera Bajpe on winning the Microbial Genomics poster prize for their poster on comparing iModulons across Pseudomonas species at the International Biennial Pseudomonas Conference!

ALE at scale - E. coli shows off its resourcefulness in adapting to the deletion of different transcription factors. bit.ly/3UPtpze DTU Biosustain UCSD Engineering

Revolutionizing blood health and transfusion medicine! Check out our new publication on the red blood cell as we move towards a new era of personalized medicine! bit.ly/3DCGCGp UCSD Engineering Angelo D'Alessandro.bsky.social Angelo D'Alessandro

Professor Palsson speaking about the future of Genome Engineering at KAIST on April 2.

Using bacteria as living test tubes to study human gene mutations and find new drug leads 🚀📷 UCSD Today Story: bit.ly/4jWn0MM Paper: bit.ly/4jsSpqc UC San Diego Bioengineering UCSD Engineering #Bioengineering #DrugDiscovery

Bernhard Palsson was awarded an honorary doctorate from the DTU on Friday, May 2 as part of the DTU's Commemoration Day. Congratulations to Bernhard for a well-deserved honor. bit.ly/4jIT7Qo UCSD Engineering DTU Biosustain

Late notice: Bernhard Palsson will be presenting a zoom talk at 9AM PDT at the NIH's May Data Sharing and Reuse Seminar: datascience.nih.gov/news/may-data-… UCSD Engineering