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ABSTRACT: Pichia kluyveri X31-10

PROVIDER: PRJNA723478 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR14292670.fastq.gz	Fastqsanger.gz
	SRR14292671.fastq.gz	Fastqsanger.gz
	SRR14292672.fastq.gz	Fastqsanger.gz
	SRR14292673.fastq.gz	Fastqsanger.gz
	SRR14292674.fastq.gz	Fastqsanger.gz

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Pichia kluyveri strain:X31-10

Project description:Pichia kluyveri strain:X31-10 Genome sequencing and assembly

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Transcription profiling by array of Saccharomyces cerevisiae strain VL3 with or without the the co-inoculation of a second yeast species, Pichia kluyveri (PKKR1).

Project description:Replicate cultres of Saccharomyces cerevisiae strain VL3 (a commercial wine strain) were inititaed with and without the the co-inoculation of a second yeast species, Pichia kluyveri (PKKR1). In addition replicate cultures of Pichia kluyveri were initiated. The media for all cultures was sterile Sauvignon blanc grape juice. Triplicates of each treatment were destructively harvested at days 2, 9 and 16 of fermentation and RNA extracted. RNA from S. cerevisiae could not be preferentially extracted from co-ferments. P. kluyveri genome has not been sequenced and so homology to S. cerevisiae probes on the array could not be accurately estimated. We extracted RNA from the P. kluyveri single ferments and hybridised them to the S. cerevisiae arrays to control for this. These species diverged over 100 MYA, and we did not observe abundant homology by way of cross hybridisation. The mean probe intensity for P. kluyveri cDNA was 17-fold lower than for S. cerevisiae, but some probes reported reasonable signal. The intensity distribution of these probes fit a log-normal distribution (P<0.01). 97% of the distribution fell below one-thirtieth of the S. cerevisiae maximum intensity: the remaining 3%, comprising 429 probes, potentially have reasonable homology to P. kluyveri cDNA and we removed these from all analyses. Please see associated additional file 'removePKKR1.r' R code to achieve this.

2012-09-01 | E-MTAB-1235 | biostudies-arrayexpress

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Project description:THP-1 cells were infected by IAV virus strain X31 with a MOI=10, and cells were collected at 3 timepoints:0 hr, 24 hr and 48 hr post-infection. Each timepoint has 3 biological replicates.

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SBRI_AB Host response in primary mouse tracheal epitelial cells (mTEC) to influenza infection with PR8, VN or X31 at MOI of 0.015 at 12 hours

Project description:Array analysis of total RNA from mTECs 12 h post infection with influenza. Strains used were Mock, PR8, X31, VN6+2 (MOI 0.015) Time Point: 12 h post infection (Mock, PR8, X31, VN) MOI 0.015; in biological triplicates. Total samples: 12.

2012-09-26 | E-GEOD-37246 | biostudies-arrayexpress

SBRI_AC Host response in primary mouse tracheal epitelial cells (mTEC) to influenza infection with PR8, VN or X31 at MOI of 3 at 12 hours

Project description:Array analysis of total RNA from mTECs 12 h post infection with influenza. Strains used were Mock, PR8, X31, VN6+2 (MOI 3) Time Point: 12 h post infection (Mock, PR8, X31, VN) MOI 3.0; in biological triplicates. Total samples: 12.

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Sef1-dependent gene expression in Lachancea kluyveri

Project description:To understand the Sef1-dependent gene expression in Lachancea kluyveri under both fermentative and respiratory conditions, we perfomred the genome-wide gene expression profiling for the log-phase cells of Lachancea kluyveri wild type and sef1 deletion mutant under both YPD and YPGly conditions.

2019-04-26 | GSE130297 | GEO

Host response in the lung to influenza infection with PR8, VN or X31 strains at 12, 16 and 24 hours

Project description:Array analysis of total lung RNA obtained from mice 12,16,24 h post infection with influenza. Strains used were Mock, PR8, X31, VN62 (1x10^5pfu) Time Point: 12, 16, 24 h post infection (Mock, PR8, X31, VN62); Mock group has three biological replicates, virally infected groups have nine replicates.

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