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Freshwater sediment metagenome

ABSTRACT: Study on the functional bacterial communities and functional genes rivers

PROVIDER: PRJNA437697 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR6823680.fastq.gz	Fastqsanger.gz
	SRR6823671.fastq.gz	Fastqsanger.gz
	SRR6823681.fastq.gz	Fastqsanger.gz
	SRR6823672.fastq.gz	Fastqsanger.gz
	SRR6823682.fastq.gz	Fastqsanger.gz

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freshwater sediment metagenome

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Project description:Understanding the bacterial community structure, and their functional analysis for active bioremediation process is essential to design better and cost effective strategies. Microarray analysis enables us to simultaneously study the functional and phylogenetic markers of hundreds of microorganisms which are involved in active bioremediation process in an environment. We have previously described development of a hybrid 60-mer multibacterial microarray platform (BiodegPhyloChip) for profiling the bacterial communities and functional genes simultaneously in environments undergoing active bioremediation process (Pathak et al; Appl Microbiol Biotechnol,Vol. 90, 1739-1754). The present study involved profiling the status of bacterial communities and functional (biodegradation) genes using the developed 60-mer oligonucleotide microarray BiodegPhyloChip at five contaminated hotspots in the state of Gujarat, in western India. The expression pattern of functional genes (coding for key enzymes in active bioremediation process) at these sites was studied to understand the dynamics of biodegradation in the presence of diverse group of chemicals. The results indicated that the nature of pollutants and their abundance greatly influence the structure of bacterial communities and the extent of expression of genes involved in various biodegradation pathways. In addition, site specific factors also play a pivotal role to affect the microbial community structure as was evident from results of 16S rRNA gene profiling of the five contaminated sites, where the community structure varied from one site to another drastically.

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Project description:Freshwater sediment bacterial and archeal communities from Indian Creek, Illinois, USA to study Microbial Dark Matter (Phase II) - Sed-PBS metaG metagenome

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