Transcriptional profile of Candida albicans bcr1 knockout.
Ontology highlight
ABSTRACT: Whole genome microarrays were used to compare the transcriptional profile of Candida albicans bcr1 knockout to wild type cells. RNA was isolated from DAY286 (wild type) or bcr1 delete (CJN702) grown in SD medium supplemented with 50 mM glucose and 10% feotal calf serum and labeled with Cy3 or Cy5. Four independent biological replicates were compared. Two dye swaps were perfomed so that two of the four DAY286 cultures were labeled with Cy3, and two were labeled with Cy5.
Project description:This SuperSeries is composed of the following subset Series: GSE33460: Transcriptional profile of Candida albicans bcr1 knockout. GSE33461: Transcriptional profile of Candida parapsilosis bcr1 knockout. GSE33462: Transcriptional profile of Candida parapsilosis CLIB214 culture in low iron conditions Refer to individual Series
Project description:Whole genome microarrays were used to compare the transcriptional profile of Candida parapsilosis bcr1 knockout to wild type cells. RNA was isolated from CLIB214 (wild type) or bcr1 delete (CDb71 or CDUHB6) grown in SD medium supplemented with 50 mM glucose and 10% fetal calf serum and labeled with Cy3 or Cy5. 7 independent biological replicates were compared. Two dye swaps were perfomed so that five of seven CLIB214 cultures were labeled with Cy3, and two were labeled with Cy5.
Project description:This SuperSeries is composed of the following subset Series: GSE24073: Transcriptional profile of Candida albicans during Hypoxic conditions. GSE24074: Transcriptional profile of Candida albicans DAY286 culture without ketoconazole versus DAY286 culture with 0.04 μg/ml ketoconazole, both at 20% oxygen (normoxia). GSE24075: Transcriptional profile of Candida albicans DAY286 versus UPC2 delete, both at 1% oxygen (hypoxia). Refer to individual Series
Project description:Whole genome microarray were used to generate the transcriptional profile of C.albicans UPC2 delete in hypoxia. RNA was isolated from DAY286 or UPC2 delete grown in YPD medium in hypoxia at 30 degree Celsius for 3.5 h, and labeled with Cy3 or Cy5. Nine independent biological replicates were compared. 3 dye swaps were perfomed so that 6 out of 9 samples isolated from DAY286 in hypoxic culture were labeled with Cy3, and 3 were labeled with Cy5.
Project description:Whole genome microarray were used to generate the transcriptional profile of C.albicans in the presence of ketoconazole. RNA was isolated from DAY286 grown with or without ketoconazole in YPD medium in normoxia at 30 degree Celsius for 3.5 h, and labeled with Cy3 or Cy5. Four independent biological replicates were compared. 2 dye swaps were perfomed so that 2 out of 4 samples isolated from DAY286 in normoxic culture without ketoconazole were labeled with Cy3, and 2 were labeled with Cy5.
Project description:Whole genome microarray were used to generate the transcriptional profile of C.albicans in hypoxic condition. RNA was isolated from DAY286 grown in YPD medium in normoxia or hypoxia at 30 degree Celsius for 3.5 h, and labeled with Cy3 or Cy5. Eight independent biological replicates were compared. 2 dye swaps were perfomed so that 6 out of 8 samples isolated from normoxic culture were labeled with Cy3, and 2 were labeled with Cy5.
Project description:Whole genome microarrays were used to generate the transcriptional profile of Candida parapsilosis in low iron conditions RNA was isolated from CLIB214 grown in SD medium and in SD medium supplemented with 200 μM BPS and labeled with Cy3 or Cy5. Seven independent biological replicates were compared. Three dye swaps were perfomed so that four out of seven samples grown in SD culture were labeled with Cy3, and 3 were labeled with Cy5.
Project description:Abstract: Candida parapsilosis and Candida albicans are human fungal pathogens that belong to the CUG clade in the Saccharomycotina. In contrast to C. albicans, relatively little is known about the virulence properties of C. parapsilosis, a pathogen particularly associated with infections of premature neonates. We describe here the construction of >200 C. parapsilosis strains carrying double allele deletions of transcription factors, protein kinases and species-specific genes. Two independent deletions were constructed for each target gene. Growth in > 40 conditions was tested, including carbon source, temperature, and the presence of antifungal drugs. The phenotypes were compared to C. albicans strains with deletions of orthologous transcription factors. We found that many phenotypes are shared between the two species, such as the role of Upc2 as a regulator of azole resistance. Others are unique. For example, Cph2 plays a role in the hypoxic response in C. parapsilosis and not in C. albicans. We found extensive divergence between the biofilm regulators of the two species. We identified 7 transcription factors and one protein kinase that are required for biofilm development in C. parapsilosis. Only three (Efg1, Bcr1, and Ace2) have similar effects on C. albicans biofilms, whereas Cph2, Czf1, Gzf3 and Ume6 have major roles in C. parapsilosis only. In addition, two transcription factors (Brg1 and Tec1) with well-characterized roles in biofilm formation in C. albicans do not have the same function in C. parapsilosis. We also compared the transcription profile of C. parapsilosis and C. albicans biofilms. Our analysis suggests the processes shared between the two species are predominantly metabolic. C. parapsilosis mRNA profiles of wild type (WT) at 37 degree celcius in planktonic growth conditions and ace2-/-, cph2-/-, efg1-/-, czf1-/-, ume6-/-, bcr1-/- and WT in biofilm conditions were generated by deep sequencing, in triplicate, using Illumina HiSeq2000.
Project description:Whole genome microarray was used to compare the transcriptional profile of C. parapsilosis growing in normoxic (21% oxygen) and hypoxic (1% oxygen) conditions. RNA was isolated from cells grown in SD media at 37°C for 3 h in atmosphere oxygen of 1% oxygen, and labeled with Cy5 or Cy3. Six independent biological replicates were compared. 4 out of 6 hypoxic samples were labeled with Cy5, and 2 were labeled with Cy3.
Project description:This SuperSeries is composed of the following subset Series: GSE13717: Transcriptional profile of Candida parapsilosis in SD media GSE13722: Transcriptional response of Candida parapsilosis in low oxygen (hypoxic) conditions in SD media Refer to individual Series