Genomic and functional analysis of polyhydroxyalkanoates producer Rhodospirillum rubrum DSM 467

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216305%3A26220%2F22%3APU146520" target="_blank" >RIV/00216305:26220/22:PU146520 - isvavai.cz</a>

Výsledek na webu

<a href="https://www.icct.cz/cs/Amca-ICCT/media/content/2022/proceedings/ICCT2022-Proceedings.pdf" target="_blank" >https://www.icct.cz/cs/Amca-ICCT/media/content/2022/proceedings/ICCT2022-Proceedings.pdf</a>

DOI - Digital Object Identifier

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Jazyk výsledku

angličtina

Název v původním jazyce

Genomic and functional analysis of polyhydroxyalkanoates producer Rhodospirillum rubrum DSM 467

Popis výsledku v původním jazyce

Rhodospirillum rubrum is a bacterium capable of the production of polyhydroxyalkanoates (PHA). PHA are polyesters that bacteria primarily use as a storage of energy and carbon in a form of cytoplasmic granules. Nevertheless, PHA are also promising renewable and biodegradable alternatives to petrochemical polymers, which nowadays leads to extensive research of R. rubrum. In this study, we focused on the analysis of a genome sequence of Rhodospirillum rubrum DSM 467. We sequenced and assembled genome of R. rubrum DSM 467 by a hybrid approach using long (Oxford Nanopore) and short (Illumina) reads. Chromosome sequence is available under accession number CP077803.1 and plasmid sequence under CP077804.1 in the GenBank database. Chromosome sequence was 4 352 570 bp long, CG content was 65.4%, and 3 919 open reading frames (ORF) belonged to protein-coding sequences. Plasmid sequence was 53 835 bp long, CG content was 59.8%, and a number of ORF was 49. Functional annotation revealed that protein-coding sequences can be assigned a clusters of orthologous genes group in 90% cases for chromosome sequence and 80% cases for plasmid sequence, respectively. From available genome sequences of R. rubrum species, we created its pangenome with 4 572 genes, where we identified the core genome with 1 765 genes, accessory genome with 2 808 genes and 890 genes were unique. Genome annotation was also used for the construction of the genome-scale model of R. rubrum DSM 467 in Pathways tool. Our results will be used in further research of metabolic processes behind PHA biosynthesis in Rhodospirillum rubrum DSM 467.

Název v anglickém jazyce

Genomic and functional analysis of polyhydroxyalkanoates producer Rhodospirillum rubrum DSM 467

Popis výsledku anglicky

Rhodospirillum rubrum is a bacterium capable of the production of polyhydroxyalkanoates (PHA). PHA are polyesters that bacteria primarily use as a storage of energy and carbon in a form of cytoplasmic granules. Nevertheless, PHA are also promising renewable and biodegradable alternatives to petrochemical polymers, which nowadays leads to extensive research of R. rubrum. In this study, we focused on the analysis of a genome sequence of Rhodospirillum rubrum DSM 467. We sequenced and assembled genome of R. rubrum DSM 467 by a hybrid approach using long (Oxford Nanopore) and short (Illumina) reads. Chromosome sequence is available under accession number CP077803.1 and plasmid sequence under CP077804.1 in the GenBank database. Chromosome sequence was 4 352 570 bp long, CG content was 65.4%, and 3 919 open reading frames (ORF) belonged to protein-coding sequences. Plasmid sequence was 53 835 bp long, CG content was 59.8%, and a number of ORF was 49. Functional annotation revealed that protein-coding sequences can be assigned a clusters of orthologous genes group in 90% cases for chromosome sequence and 80% cases for plasmid sequence, respectively. From available genome sequences of R. rubrum species, we created its pangenome with 4 572 genes, where we identified the core genome with 1 765 genes, accessory genome with 2 808 genes and 890 genes were unique. Genome annotation was also used for the construction of the genome-scale model of R. rubrum DSM 467 in Pathways tool. Our results will be used in further research of metabolic processes behind PHA biosynthesis in Rhodospirillum rubrum DSM 467.

Druh

D - Stať ve sborníku

CEP obor

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OECD FORD obor

10606 - Microbiology

Projekt

<a href="/cs/project/GF21-15958L" target="_blank" >GF21-15958L: Biologická funkce a dynamika PHA cyklu u bakterie Rhodospirillum rubrum a jeho biotechnologické konsekvence</a><br>

Návaznosti

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

Rok uplatnění

2022

Kód důvěrnosti údajů

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

Název statě ve sborníku

Proceedings of the 9th International Conference on Chemical Technology

ISBN

978-80-88307-11-2

ISSN

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e-ISSN

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Počet stran výsledku

6

Strana od-do

367-372

Název nakladatele

Czech Society of Industrial Chemistry

Místo vydání

Prague

Místo konání akce

Mikulov

Datum konání akce

25. 4. 2022

Typ akce podle státní příslušnosti

WRD - Celosvětová akce

Kód UT WoS článku

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