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Sponge metagenome

ABSTRACT: Uncultured bacterium genome sequencing

PROVIDER: PRJNA229984 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	SRR1039500.fastq.gz	Fastqsanger.gz
	SRR1039451.fastq.gz	Fastqsanger.gz
	SRR1039471.fastq.gz	Fastqsanger.gz
	SRR1039481.fastq.gz	Fastqsanger.gz
	SRR1039501.fastq.gz	Fastqsanger.gz

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Screening of Neutrophil Activating Factors from a Metagenome Library of Sponge-Associated Bacteria.

Project description:Marine sponge-associated bacteria are known as bio-active compound produce. We have constructed metagenome libraries of the bacteria and developed a metagenomic screening approach. Activity-based screening successfully identified novel genes and novel enzymes; however, the efficiency was only in 1 out of 104 clones. Therefore, in this study, we thought that bioinformatics could help to reduce screening efforts, and combined activity-based screening with database search. Neutrophils play an important role for the immune system to recognize excreted bacterial by-products as chemotactic factors and are recruited to infection sites to kill pathogens via phagocytosis. These excreted by-products are considered critical triggers that engage the immune system to mount a defense against infection, and identifying these factors may guide developments in medicine and diagnostics. We focused on genes encoding amino acid ligase and peptide synthetase and selected from an in-house sponge metagenome database. Cell-free culture medium of each was used in a neutrophil chemiluminescence assay in luminol reaction. The clone showing maximum activity had a genomic sequence expected to produce a molecule like a phospho-N-acetylmuramyl pentapeptide by the metagenome fragment analysis.

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