Analysis of Clostridium beijerinckii NRRL B-598 coding regions using RNA-Seq data of a closely related strain

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216305%3A26220%2F17%3APU125486" target="_blank" >RIV/00216305:26220/17:PU125486 - isvavai.cz</a>

Výsledek na webu

<a href="http://www.icct.cz/AngiologyKlon-ICCT/media/system/ICCT2017-full_papers.pdf" target="_blank" >http://www.icct.cz/AngiologyKlon-ICCT/media/system/ICCT2017-full_papers.pdf</a>

DOI - Digital Object Identifier

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Jazyk výsledku

angličtina

Název v původním jazyce

Analysis of Clostridium beijerinckii NRRL B-598 coding regions using RNA-Seq data of a closely related strain

Popis výsledku v původním jazyce

Modern research in biotechnology utilizes methods of molecular biology and associated bioinformatics techniques more than in the past. Genome mining of biotechnologically relevant organisms became a standard procedure. After a genome is sequenced and annotated, more information regarding its genes, including their variant calling, and the analysis of their expression needs to be acquired. This can be achieved by additional sequencing of the transcriptome, so-called RNA-Seq. Here, we present the analysis of the coding regions for a recently reidentified strain Clostridium beijerinckii NRRL B-598, formerly misidentified as C. pasteurianum, using RNA-Seq expression data of a closely related strain C. beijerinckii NCIMB 8052. We confirm the correctness of its reidentification as the majority of reads match the genome. Although expression levels or single nucleotide variants cannot be properly explored, we are able to analyze in silico the annotation of this genome, which supports the annotation of biotechnologically relevant genes. Although this kind of analysis does not allow us to reannotate the genome, nor to reconstruct any gene regulatory networks, it still provides us with valuable information for planning our own RNA-Seq experiments that will be performed in the near future.

Název v anglickém jazyce

Analysis of Clostridium beijerinckii NRRL B-598 coding regions using RNA-Seq data of a closely related strain

Popis výsledku anglicky

Modern research in biotechnology utilizes methods of molecular biology and associated bioinformatics techniques more than in the past. Genome mining of biotechnologically relevant organisms became a standard procedure. After a genome is sequenced and annotated, more information regarding its genes, including their variant calling, and the analysis of their expression needs to be acquired. This can be achieved by additional sequencing of the transcriptome, so-called RNA-Seq. Here, we present the analysis of the coding regions for a recently reidentified strain Clostridium beijerinckii NRRL B-598, formerly misidentified as C. pasteurianum, using RNA-Seq expression data of a closely related strain C. beijerinckii NCIMB 8052. We confirm the correctness of its reidentification as the majority of reads match the genome. Although expression levels or single nucleotide variants cannot be properly explored, we are able to analyze in silico the annotation of this genome, which supports the annotation of biotechnologically relevant genes. Although this kind of analysis does not allow us to reannotate the genome, nor to reconstruct any gene regulatory networks, it still provides us with valuable information for planning our own RNA-Seq experiments that will be performed in the near future.

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

2017

Kód důvěrnosti údajů

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

Název statě ve sborníku

Proceedings of the 5th International Conference on Chemical Technology

ISBN

978-80-86238-62-3

ISSN

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e-ISSN

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Počet stran výsledku

5

Strana od-do

87-91

Název nakladatele

Ocean Design

Místo vydání

Praha

Místo konání akce

Mikulov

Datum konání akce

10. 4. 2017

Typ akce podle státní příslušnosti

WRD - Celosvětová akce

Kód UT WoS článku

000576789400016