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The impact of the halogenated phenazine HP-29 on the transcriptome of Streptococcus mutans with or without zinc supplementation

ABSTRACT: The impact of the halogenated phenazine HP-29 on the transcriptome of Streptococcus mutans with or without zinc supplementation

PROVIDER: PRJNA1258077 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR33408983_1.fastq.gz	Fastqsanger.gz
	SRR33408983_2.fastq.gz	Fastqsanger.gz
	SRR33408984_1.fastq.gz	Fastqsanger.gz
	SRR33408984_2.fastq.gz	Fastqsanger.gz
	SRR33408985_1.fastq.gz	Fastqsanger.gz

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The impact of the halogenated phenazine HP-29 on the transcriptome of Streptococcus mutans with or without zinc supplementation

Project description:We sought to identify transcriptomic changes that arise when S. mutans is cultivated in the presence of HP-29 with or without zinc supplementation. Mid-logarithmic broth cultures of Streptococcus mutans UA159 were exposed to 0.025uM HP-29 or to 0.025uM HP-29 and 0.5mM ZnSO4 for 30 minutes. We compared this transcriptomic data to that of control cultures that were grown in medium (BHI) without exposure to HP-29 or ZnSO4

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Project description:We applied a custom 2k micro-array with 2232 oligonucleotide sequences (50-70 nt) to a factorial with 29 parental inbred lines (14 Dent, 15 Flint, 26 hybrids selected for their heterosis levels so that the extreme values and also the average values were covered) of European maize (Zea mays L.). The selection of oligonucleotides was based on 47k-array expression data from a 14x7 factorial with 98 hybrids (GSE17754). The main fraction of oligonucleotides (1639) represents genes that showed differential expression between the parental genotypes in the 14x7 factorial and consistent association with HP for GY in cross validation runs to estimate prediction accuracies for this trait. In addition the array contains partial overlapping fractions of genes that correlated with HP/GY (378), HP/GDMC (200), or MPH/GY (345) and 205 representatives of the 6 most overrepresented biological processes among genes correlated with HP/GY in the 14x7 factorial.

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