ABSTRACT: This study was conducted to identify whether F. nucleatum has species or group specific transcriptional responses by analyzing dual species biofilms containing either early or late colonizers and utilizing microarrays to identify altered gene expression of F. nucleatum.
Project description:We utilized T. denticola as a model red complex organism to help determine whether red complex organisms can respond to one another upon cell-cell contact in mixed culture and the types of genes involved in such responses. We extracted RNA from combinations of T. denticola with either other P. intermedia, S. sanguinis, S. gordonii, F. nucleatum, P. gingivalis, or T. forsythia that had been centrifuged to induce cell contact, and identified the numbers and types of genes that were differentially regulated using microarrays.
Project description:Panc1 (human pancreatic adenocarcinoma cells) cells were transfected with control siRNA (targeting firefly luciferase, siLuc) or siRNA targeting GLI1 (siGLI1, Pool of four siRNAs). 72h following transfection, RNA was prepared for array analysis.
Project description:To investigate the possible range of additional RNase P substrates in vivo a strand-specific, high-density microarray was used to analyze what RNA accumulates with a mutation in the catalytic RNA subunit of nuclear RNase P in Saccharomyces cerevisiae. A wide variety of noncoding RNAs were shown to accumulate, suggesting nuclear RNase P participates in the turnover of normally unstable nuclear RNAs. In some cases, the accumulated noncoding RNAs were shown to be antisense to transcripts that commensurately decreased in abundance. Pre-mRNAs containing introns also accumulated broadly, consistent with either compromised splicing or failure to efficiently turnover pre-mRNAs that do not enter the splicing pathway. Taken together with the high complexity of the nuclear RNase P holoenzyme and its relatively non-specific capacity to bind and cleave mixed sequence RNAs, these data suggest nuclear RNase P facilitates turnover of nuclear RNAs in addition to its role in pre-tRNA biogenesis.
Project description:In the field, insects suffer multiple cold exposures during winter. When exposed to repeated low temperatures, Drosophila melanogaster females showed an increase in survival, but a reduction in reproduction. In this study, the microarrays were used to analyze the gene expression of female D. melanogaster after multiple, single sustained (or single prolonged) and single short cold treatments, which exposed the flies at 0 M-0C for repeated 2 h, single 10 h and single 2 h respectively. Candidate genes that were involved in 6 h recovery from different types of cold exposures were identified. After repeated cold exposures, candidates particularly included genes involved in muscle protein and muscle activity. Stress-related genes, Turandot A, Turandot C, and Turandot M were up-regulated in response to multiple cold exposures, and improve the cold survival in female D. melanogaster. This work also suggested a strong relationship between cold exposure and the immune system. I suggest that in fruit flies, chilling injuries after cold exposure may induce immune responses and contribute to recovery from cold.