Genes whose transcripts were identified as She3-associated from RNA IP experiments.

Systemic name, standard name, and S. cerevisiae ortholog or best-hit are as listed in the Candida Genome Database (CGD, www.candidagenome.org). Predicted function and predicted biological process summarize information in the ��Description,�� ��Molecular Function,�� and ��Biological Process�� fields in CGD and/or the Saccharomyces Genome Database (www.yeastgenome.org). Growth stage(s) refers to the lysates from which transcripts were identified as She3-associated. An X indicates that at least one array element representing a given transcript passed the initial filter, as described in Results. Raw enrichment values (ratio of the medians of She3-associated RNA compared to reference) are provided in Table S3, and raw microarray data are provided in Table S4. We note that certain genes whose expression has been described as yeast- or hyphal-specific were identified in both yeast and hyphal lysates. Our IP methodology relied solely on differential She3 binding and should not require high levels of expression of bound transcripts.*The arrays spots for SAP4 (orf19.5716), SAP5 (orf19.5585), and SAP6 (orf19.5542) cross-hybridized. In order to distinguish which of these three SAP transcripts were She3-associated, we performed quantitative PCR using primers specific to each SAP gene. cDNA from the She3-TAP RNA IP from 30 minute and three hour serum inductions was compared to cDNA from total RNA or mock IP. These experiments showed consistent enrichment of SAP5 in the She3-TAP IP and more variable enrichment of SAP4 and SAP6.