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A way of discovering novel antibiotics

Resumo do projeto

The purpose of this study was to examine the antibacterial potential of the bacterium Pseudoalteromonas piscicida strain B39bio and thereby determine if it can be a source of novel antibiotics. The bacterium has been isolated from Danish coastal waters (Nete Bernbom et al., 2011)) and was grown in Marine Broth and on Marine Agar (Difco 2016(at 25C. Bacterial DNA extracted using: NuclioSpin (740952.250), Maxwell (AS1290) and genomic tip (10223 & 19060). The genome was sequenced using Oxford Nanopore (R9.4.1). The reads from the sequence were of superior quality and gave good coverage. The genome was mined using antiSMASH (antiSMASH 6.0) (Kai Blin, 2021) that searches for gene sequences related to enzymes involved in producing antibiotics and other bioactives. Gene clusters, so-called biosynthetic gene clusters BGCs, likely encoding two secondary metabolites of interest were found in the genome. The BGCs were predicted to encode xenematid and a tolasin variant. By comparing xenemarid with penicillin G theoretically, a shared chemical group (2-phenylacetamid) was found of interest, to have a possible use in semisynthetic antibiotic production. Furthermore, the tolasin variant found was theoretically concluded to be a new variant of an already known antibacterial tolasin molecules, which concludes that is possible to discover novel antibiotic variants using antiSMASH and genome mining. Keywords: Bioinformatics, Antibiotic resistance, antibiotics, bacteria, Nanopore sequencing, antiSMASH, secondary metabolites

Alunos

Philip Fischer von Staffeldt
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Orientadores

Martin Haurballe Olsen

Instituição

H.C. Ørsted Gymnasium Lyngby
Lyngby /
  Lyngby –  
  Kongens Lyngby –
  Denmark

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E.M.A.
E.M.A.
10 meses atrás

Philip
Initially, I congratulate you on the objective of the work: we actually have a serious problem for the coming years, due to bacterial resistance.
If you allow me a suggestion, I would employ the technique you used to do exactly the opposite and I would employ the similarity to rule out bacteria that have machinery capable of producing already known antibiotics because the discovery of new antibiotics lies in the innovation and introduction of new carbon skeletons.
Congratulations one more time

1+
ETB
ETB
9 meses atrás

Truly amazing, even more for someone like me who does not have this as their studying subject XD

0

Alunos

Philip Fischer von Staffeldt
- - - - - - - - - - - - - - - - - - - - - - - - -
- - - - - - - - - - - - - - - - - - - - - - - - -

Orientadores

Martin Haurballe Olsen

Instituição

H.C. Ørsted Gymnasium Lyngby
  Lyngby –  
  Kongens Lyngby –
  Denmark

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