Beating biofilms: new study identifies essential genes for bacterial survival in the environment

17th November 2021

Scientists from the Quadram Institute at the Norwich Research Park have made an important discovery into the workings of bacterial communities.

Using a newly developed method, they have discovered the genes used by bacteria to live within complex communities called biofilms. This could lead to new ways of stopping bacterial biofilms forming, helping prevent infections.

Bacteria (salmonella) in a biofilm

Many bacteria, such as these Salmonella, live in complex communities called biofilms

Biofilms are a normal mode of life for bacteria. Communities of microbes form biofilms by exuding a sticky slime to hold them together and also to adhere to surfaces. This helps protect the community from environmental stresses, like drying out or UV light, as well as the actions of disinfectants or antibiotics.

Biofilms are important as in certain settings, such as in hospitals or in food production, they can be a significant source of infections or contamination of hospital environments and foodstuffs. On the other hand, biofilms can also be beneficial, and we use bacterial biofilms to make products including some medicines like insulin.

Dr Mark Webber from the Quadram Institute and University of East Anglia and his team used a genetic sequencing platform developed by Quadram researchers called TraDIS-Xpress. This can simultaneously analyse all of an organism’s genes to find those that are essential, as well as those which when turned on or off help the organism survive and grow under specific conditions.

The team used the model bacterium E. coli and identified which genes were important at each different stage of building the biofilm through time, at the beginning, middle and end. They then investigated how turning these genes on or off was beneficial or detrimental to the formation of these complex communities.

biofilm formation over 48 hours

Biofilm formation over time. From Fig1b Microbial Genomics DOI: 10.1099/mgen.0.000673

Some genes were important at all stages of the biofilm’s development, including those involved in regulating movement and adhesion. Others had important roles only at defined times in a biofilm. Some genes were beneficial for early biofilm formation but had a detrimental effect later as the biofilm matured, and 5 genes were identified that had never before been described to affect biofilm formation.

Understanding which genes are involved throughout the biofilm’s development will inform the development of anti-biofilm drugs to stop infections and the development of ‘biomarkers’ that alert doctors early on to the presence of a biofilm infection.

Mark WebberMark Webber said ‘Understanding how bacteria make a biofilm at this level of genetic detail gives us the chance to use this information to predict how better to control biofilm formation.

This could be to prevent biofilms forming where they may harm health, but also to encourage them in useful industrial applications’.


Emma HoldenLead author Emma Holden said ‘This work has lots of applications for preventing bacterial infection and contamination.

The next step will be to use this same approach on lots of different bacterial species forming biofilms on a range of different surface materials, to see what’s the same and what’s different. This will inform the production of broad range and situation-specific anti-biofilm drugs.‘

The study was supported by the Biotechnology and Biological Sciences Research Council, part of UKRI, and published in the journal Microbial Genomics.

Reference: Massively parallel transposon mutagenesis identifies temporally essential genes for biofilm formation in Escherichia coli Emma R. Holden, Muhammad Yasir, A. Keith Turner, John Wain, Ian G. Charles and Mark A. Webber, Microbial Genomics DOI: 10.1099/mgen.0.000673




Related Targets

Targeting food safety

Food Safety

Targeting antimicrobial resistance

Antimicrobial Resistance


Related Research Groups

John Wain

Webber group

Mark Webber

Related Research Areas