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Burkholderia sp. JP2-270

ABSTRACT: Burkholderia sp. JP2-270 Genome sequencing and assembly

PROVIDER: PRJNA474762 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR8039703_subreads.fastq.gz	Fastqsanger.gz
	GCA_003233675.1_sequence_report.txt	Txt

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Burkholderia sp. JP2-270

Project description:Burkholderia sp. JP2-270 Genome sequencing and assembly

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Burkholderia sp. JP2-270

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Genome wide identification of BysR binding sites in Burkholderia sp. JP2-270

Project description:To verify genes that are directly regulated by BysR, we used DNA affinity purification sequencing analysis (DAP-seq) for genome-wide recognition of BysR binding sites in vitro. The HALO-fusion BysR protein was successfully expressed and purified. After affinity purification and sequencing, at least 22 million double-end reads per sample were generated and with > 99 % of reads uniquely mapped to the JP2-270 genome. A total of 470 enriched common peaks of two replicates with –log10(P-value) ≥ 2 were called . The mean width of DAP-seq peaks was < 1,000. In total, 367 (78%) of these peaks were found to locate in the -1 kbp to 1 kbp regions by the analysis of peak summit positions relative to the start codons of JP2-270 open reading frames.

2022-11-22 | GSE193916 | GEO

Genome wide identification of BysR binding sites in Burkholderia sp. JP2-270

Project description:Genome wide identification of BysR binding sites in Burkholderia sp. JP2-270

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RNA-seq analysis of wild type and ΔbysR in Burkholderia sp. JP2-270

Project description:RNA-seq analysis of wild type and ΔbysR in Burkholderia sp. JP2-270

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RNA-seq analysis of wild type and ΔbysR in Burkholderia sp. JP2-270

Project description:Purpose: In order to identify the differentially expressed genes between wild type and ΔbysR, we performed RNA-seq analysis.Methods：All the isolates were cultured in CM medium for 24 h at 28℃. Three repetitions were performed for each treatment. The samples were sequenced on an Illumina Hiseq 2000 platform.Clean reads were obtained by removing reads containing adapter, reads containing ploy-N and low quality reads from raw data. Results：A total of 9-13 million clean reads were obtained per replicate, each read with an average length of 150 bp. The square (R2) of Pearson correlation coefficient is greater than 0.903 between samples (supplementary Fig. S1) indicated that the data had a good reproducibility. Differential expression analysis of samples from WT and ΔbysR was performed, and revealed 350 differentially expressed genes (DEGs) consisting of up-regulated (302) and down-regulated genes (48) (with p-adj<0.05, |log2(FoldChange)|> 1) in ΔbysR compared to the WT.

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Flavobacterium sp. 270

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Comparative genomic analysis of Aggregatibacter actinomycetemcomitans of JP2 and non-JP2 genotypes using a pan-genome microarray

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Effect of recombinant IL-33s, particularly IL-3395-270, IL-3399-270,IL-33109-270, and IL-33112-270 in HRMVECs

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