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DTU Studieprojekt - Microbiome project - do you want to find out what drives the diversity of the gut community be able to modulate it in a beneficial

Microbiome project - do you want to find out what drives the diversity of the gut community be able to modulate it in a beneficial way and get the chance to dig for promising new antibiotics

Udbyder
DTU-studerende
Sted
København og omegn
This project is suitable for a Bachelor or Master thesis
For contact email: chee@biosustain.dtu.dk Goal of the project
Examine the effect of bacteriocin production on the formation and stabilisation of a gut community (bacteriocins are small antimicrobial peptides produced by bacteria). We will use E. coli as production host for characterisation of ~80 different bacteriocins in mice/human stool samples, and see how the gut community reacts on bacteriocin exposure. Potentially we will find new candidates for modulating the gut community and/or as useful new antibiotics. Impact on society
We know very little about what creates the complex diversity of the gut community, but it has been linked to various disorders such as intestinal bowel disease, Chron's disease, diabetes and overweight, depression and mood, as well as autism spectrum disorder. Bacteriocin production is one of the most obvious ways for bacteria to fight against each other in the highly competitive gut environment. With more knowledge about what drives the complexity of this community we can learn to understand why the gut microbiome differs so much from individual to individual and we can use the bacteriocins as a microbiome-editing approach to modulate the gut community in a desired way. Furthermore it is an obvious way to detect new antibiotics which are in high need due to the constant pressure of antibiotic resistance. Bacterial infections are among the top causes of mortality worldwide and WHO has declared that antimicrobial resistance is one of the top 10 global public health threats facing humanity. (Source: https://www.nature.com/articles/s41579-021-00569-w, https://www.who.int/news-room/fact-sheets/detail/antimicrobial-resistance) In short we willGrow, produce and isolate bacteriocins using an E. coli host.Cultivate samples in vitro from mice and/or humans in the presence of bacteriocins.Do metagenomic sequencing on the bacterial community before and after cultivation and compare to a negative control.Perform data analysis and maybe detect strains that are in higher/lower abundance when exposed to the different bacteriocins.If time allows, perform in vivo study using relevant bacteriocin candidates for the removal of undesired bacteria in a mouse model. Techniques you will learn in the projectCultivate and grow anaerobic gut bacteria from mice/humansProduction of recombinant proteins in an E. coli host (the bacteriocins)High throughput screening methodsMetagenomic sequencing and data analysis
Emneord

Kontakt
Virksomhed/organisation
DTU Biosustain

Navn
Carola Elisa Heesemann Rosenkilde

Stilling
PhD Student

Mail
s101971@student.dtu.dk

Forslag til
Uddannelsesretning

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DTU Studieprojekt - Microbiome project - do you want to find out what drives the diversity of the gut community be able to modulate it in a beneficial

Microbiome project - do you want to find out what drives the diversity of the gut community be able to modulate it in a beneficial way and get the chance to dig for promising new antibiotics

Udbyder
DTU-studerende
Sted
København og omegn
This project is suitable for a Bachelor or Master thesis
For contact email: chee@biosustain.dtu.dk Goal of the project
Examine the effect of bacteriocin production on the formation and stabilisation of a gut community (bacteriocins are small antimicrobial peptides produced by bacteria). We will use E. coli as production host for characterisation of ~80 different bacteriocins in mice/human stool samples, and see how the gut community reacts on bacteriocin exposure. Potentially we will find new candidates for modulating the gut community and/or as useful new antibiotics. Impact on society
We know very little about what creates the complex diversity of the gut community, but it has been linked to various disorders such as intestinal bowel disease, Chron's disease, diabetes and overweight, depression and mood, as well as autism spectrum disorder. Bacteriocin production is one of the most obvious ways for bacteria to fight against each other in the highly competitive gut environment. With more knowledge about what drives the complexity of this community we can learn to understand why the gut microbiome differs so much from individual to individual and we can use the bacteriocins as a microbiome-editing approach to modulate the gut community in a desired way. Furthermore it is an obvious way to detect new antibiotics which are in high need due to the constant pressure of antibiotic resistance. Bacterial infections are among the top causes of mortality worldwide and WHO has declared that antimicrobial resistance is one of the top 10 global public health threats facing humanity. (Source: https://www.nature.com/articles/s41579-021-00569-w, https://www.who.int/news-room/fact-sheets/detail/antimicrobial-resistance) In short we willGrow, produce and isolate bacteriocins using an E. coli host.Cultivate samples in vitro from mice and/or humans in the presence of bacteriocins.Do metagenomic sequencing on the bacterial community before and after cultivation and compare to a negative control.Perform data analysis and maybe detect strains that are in higher/lower abundance when exposed to the different bacteriocins.If time allows, perform in vivo study using relevant bacteriocin candidates for the removal of undesired bacteria in a mouse model. Techniques you will learn in the projectCultivate and grow anaerobic gut bacteria from mice/humansProduction of recombinant proteins in an E. coli host (the bacteriocins)High throughput screening methodsMetagenomic sequencing and data analysis
Emneord

Kontakt
Virksomhed/organisation
DTU Biosustain

Navn
Carola Elisa Heesemann Rosenkilde

Stilling
PhD Student

Mail
s101971@student.dtu.dk

Forslag til
Uddannelsesretning

Skriv i din ansøgning, at du fandt jobbet på ofir.dk


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