In silico prediction of genes coding efllux pumps in Clostridium beijerinckii NRRL B-598

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F60461373%3A22330%2F18%3A43917345" target="_blank" >RIV/60461373:22330/18:43917345 - isvavai.cz</a>

Výsledek na webu

<a href="https://www.icct.cz/AngiologyKlon-ICCT/media/system/2018/ICCT-2018-Proceedings.pdf" target="_blank" >https://www.icct.cz/AngiologyKlon-ICCT/media/system/2018/ICCT-2018-Proceedings.pdf</a>

DOI - Digital Object Identifier

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Jazyk výsledku

angličtina

Název v původním jazyce

In silico prediction of genes coding efllux pumps in Clostridium beijerinckii NRRL B-598

Popis výsledku v původním jazyce

Predicting gene function can be very challenging. However, various in silico tools are available for this purpose. Here, we present a bioinformatics study focused on identifying potential genes that code efflux pumps in the strain Clostridium beijerinckii NRRL B-598. This rod-shaped, oxygen-tolerant, spore-forming bacterium is studied especially for its ability to produce acetone-butanol fermentation, with butanol being the main product. Current knowledge suggests that small uncharged molecules, including butanol, are transported out of the clostridial cell not only through a passive process of diffusion, but also due to the activity of efflux pumps. However, an ineffective excretion system together with low butanol tolerance currently present the most significant obstacles for industrial exploitation of butanol production in bacteria. Bioinformatics analysis of the strain C. beijerinckii NRRL B-598 can help us to understand these mechanisms in more detail not only for the studied strain, but also for Gram positive species in general. In this study, we used several online bioinformatics tools for the prediction of genes coding efflux pumps based on sequence information. Our results were verified by comparison with transcriptomic data using RNA-Seq technology. In silico identification of genes coding putative efflux pumps in C. beijerinckii NRRL B-598 will be further investigated in our future work, which will involve performing in vivo and in vitro lab experiments.

Název v anglickém jazyce

In silico prediction of genes coding efllux pumps in Clostridium beijerinckii NRRL B-598

Popis výsledku anglicky

Predicting gene function can be very challenging. However, various in silico tools are available for this purpose. Here, we present a bioinformatics study focused on identifying potential genes that code efflux pumps in the strain Clostridium beijerinckii NRRL B-598. This rod-shaped, oxygen-tolerant, spore-forming bacterium is studied especially for its ability to produce acetone-butanol fermentation, with butanol being the main product. Current knowledge suggests that small uncharged molecules, including butanol, are transported out of the clostridial cell not only through a passive process of diffusion, but also due to the activity of efflux pumps. However, an ineffective excretion system together with low butanol tolerance currently present the most significant obstacles for industrial exploitation of butanol production in bacteria. Bioinformatics analysis of the strain C. beijerinckii NRRL B-598 can help us to understand these mechanisms in more detail not only for the studied strain, but also for Gram positive species in general. In this study, we used several online bioinformatics tools for the prediction of genes coding efflux pumps based on sequence information. Our results were verified by comparison with transcriptomic data using RNA-Seq technology. In silico identification of genes coding putative efflux pumps in C. beijerinckii NRRL B-598 will be further investigated in our future work, which will involve performing in vivo and in vitro lab experiments.

Druh

D - Stať ve sborníku

CEP obor

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OECD FORD obor

10606 - Microbiology

Projekt

<a href="/cs/project/GA17-00551S" target="_blank" >GA17-00551S: Vztah mezi efluxem butanolu a tolerancí k butanolu u klostridií</a><br>

Návaznosti

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Rok uplatnění

2018

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název statě ve sborníku

PROCEEDINGS of the 6th International Conference on Chemical Technology

ISBN

978-80-86238-77-7

ISSN

2336-8128

e-ISSN

neuvedeno

Počet stran výsledku

5

Strana od-do

86-90

Název nakladatele

Česká společnost průmyslové chemie (ČSPCH)

Místo vydání

Praha

Místo konání akce

Mikulov

Datum konání akce

16. 4. 2018

Typ akce podle státní příslušnosti

WRD - Celosvětová akce

Kód UT WoS článku

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