Development of nanofiber biomass carriers for effective sampling: differences in microbial community on carries and groundwater

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F46747885%3A24620%2F16%3A00000831" target="_blank" >RIV/46747885:24620/16:00000831 - isvavai.cz</a>

Výsledek na webu

<a href="http://www.soil-metagenomics.org/" target="_blank" >http://www.soil-metagenomics.org/</a>

DOI - Digital Object Identifier

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Jazyk výsledku

angličtina

Název v původním jazyce

Development of nanofiber biomass carriers for effective sampling: differences in microbial community on carries and groundwater

Popis výsledku v původním jazyce

Because a pollution of groundwater and soil represents serious problem, different treatment process were developed to date. Recently, mechanical or chemical treatment has been applied. Nowadays, biological or combined treatment is typically used. As biological processes are involved in remediation, molecular genetic methods provide effective tool allowing monitoring and prediction of natural biodegradation. However, proper sampling is a crucial step prior to analysis. This study is, therefore, focus on acceleration, automatization and enhancement of precis pre-treatment of biomass sampling prior to DNA isolation. Different shapes of biomass carriers made of nanofibers varying in nanofibers density were developed in order to replace expensive and time consuming filtration of groundwater. Due to the very high specific surface of nanofibers, such carriers should result in fast and high biomass grow, thus high DNA yield. Moreover, their main advantages lie in easy transport and subsequent sample preparation. Four different shapes, each shape with five different nanofiber density were placed into contaminated wells at actual site and tested. All samples were analysed using NGS targeted at the 16S rRNA gene. Amplification of the region V4 of eubacterial 16S rRNA gene was performed with barcode primers 515F and 802R. Subsequently, an in-house prepared mock community was sequenced to verify the experimental conditions. NGS analysis showed differences between individual carriers, as well as groundwater and carriers. The biggest differences were mainly in quantity of detected families than in composition of autochthonous microorganisms. Families able to easily form biofilms were more common on carriers. Although the influence of nanofiber density on DNA yield was not clearly proven, shape of carriers impacted the composition of autochthonous microorganism’s. Tassel shape of nanofiber carrier showed the best fit with groundwater sample.

Název v anglickém jazyce

Development of nanofiber biomass carriers for effective sampling: differences in microbial community on carries and groundwater

Popis výsledku anglicky

Because a pollution of groundwater and soil represents serious problem, different treatment process were developed to date. Recently, mechanical or chemical treatment has been applied. Nowadays, biological or combined treatment is typically used. As biological processes are involved in remediation, molecular genetic methods provide effective tool allowing monitoring and prediction of natural biodegradation. However, proper sampling is a crucial step prior to analysis. This study is, therefore, focus on acceleration, automatization and enhancement of precis pre-treatment of biomass sampling prior to DNA isolation. Different shapes of biomass carriers made of nanofibers varying in nanofibers density were developed in order to replace expensive and time consuming filtration of groundwater. Due to the very high specific surface of nanofibers, such carriers should result in fast and high biomass grow, thus high DNA yield. Moreover, their main advantages lie in easy transport and subsequent sample preparation. Four different shapes, each shape with five different nanofiber density were placed into contaminated wells at actual site and tested. All samples were analysed using NGS targeted at the 16S rRNA gene. Amplification of the region V4 of eubacterial 16S rRNA gene was performed with barcode primers 515F and 802R. Subsequently, an in-house prepared mock community was sequenced to verify the experimental conditions. NGS analysis showed differences between individual carriers, as well as groundwater and carriers. The biggest differences were mainly in quantity of detected families than in composition of autochthonous microorganisms. Families able to easily form biofilms were more common on carriers. Although the influence of nanofiber density on DNA yield was not clearly proven, shape of carriers impacted the composition of autochthonous microorganism’s. Tassel shape of nanofiber carrier showed the best fit with groundwater sample.

Druh

O - Ostatní výsledky

CEP obor

EI - Biotechnologie a bionika

OECD FORD obor

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Projekt

<a href="/cs/project/TA04021210" target="_blank" >TA04021210: Mikrobiální kolonizace povrchu vláken pro analyticko-diagnostickou praxi a technické aplikace</a><br>

Návaznosti

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

Rok uplatnění

2016

Kód důvěrnosti údajů

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