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Clinical metagenome

ABSTRACT: Microbiota of digital dermatitis lesions from Brazilian dairy cattle

PROVIDER: PRJNA369034 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5209060.fastq.gz	Fastqsanger.gz
	SRR5209070.fastq.gz	Fastqsanger.gz
	SRR5209080.fastq.gz	Fastqsanger.gz
	SRR5209090.fastq.gz	Fastqsanger.gz
	SRR5209100.fastq.gz	Fastqsanger.gz

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Identifying host pathogenic pathways in bovine digital dermatitis by RNA-Seq analysis of lesions

Project description:Digital dermatitis is a painful foot disease compromising welfare in dairy cattle. The disease has a complex multibacterial aetiology, but little is known about its pathogenesis. In this study, gene expression in skin biopsies from five bovine digital dermatitis lesions and five healthy bovine feet was compared using RNA-Seq technology. Differential gene expression was determined after mapping transcripts to the Btau 4.0 genome. Pathway analysis identified gene networks involving differentially expressed transcripts. Bovine digital dermatitis lesions had increased expression of mRNA for a2-macroglobulin-like 1, a protein potentially involved in bacterial immune evasion and bacterial survival. There was increased expression of keratin 6A and interleukin 1b mRNA in bovine digital dermatitis lesions, but reduced expression of most other keratin and keratin-associated genes. There was little evidence of local immune reactions to the bacterial infection present in lesions. Ten samples were processed; five normal skin biopsies from the hind foot skin and five digital dermatitis lesions (large (>2cm) red raw in appearance).

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Project description:We examined 36 biopsies taken from digital dermatitis lesions of Holstein cows. The target was the V3 -V4 variable region of 16S rRNA using Treponema specific primers. We identified 20 different taxa of Treponema using this approach. Phylogenetic study of the Treponema taxa found in digital dermatitis lesions of Holstein cows.

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Project description:Skin lesions from Digital Dermatitis Metagenome

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Project description:Microbiota from Bovine digital dermatitis lesions targeted loci

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