Open Access Highly Accessed Research article

Gene expression in human fungal pathogen Coccidioides immitis changes as arthroconidia differentiate into spherules and mature

Suganya Viriyakosol1, Akul Singhania2, Joshua Fierer123, Jonathan Goldberg4, Theo N Kirkland123* and Christopher H Woelk12

Author Affiliations

1 Department of Medicine, University of California San Diego, La Jolla, CA 92093, USA

2 Research Service, Veterans Affairs San Diego Healthcare System(111F), 3350 La Jolla Village Dr, San Diego, CA 92161, USA

3 Department of Pathology, University of California San Diego, La Jolla, CA 92093, USA

4 The Broad Institute, Cambridge, MA 02142, USA

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BMC Microbiology 2013, 13:121  doi:10.1186/1471-2180-13-121

Published: 28 May 2013

Additional files

Additional file 1: Table S1:

GO terms associated with C. immitis locus tags.

Format: XLSX Size: 243KB Download file

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Additional file 2: Table S3:

Classification of C. immitis protein kinases.

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Additional file 3: Figure S1:

A dendrogram showing that unsupervised clustering using the expression of all genes on the microarray revealed that mycelia samples clustered distinctly from spherule samples. Furthermore, spherule samples formed two sub-clusters based on maturity.

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Additional file 4: Table S2:

Genes identified as differentially expressed between the three experimental conditions: day 2 spherule vs mycelia, day 8 vs mycelia spherule and day 8 spherule vs day 2 spherule.

Format: XLSX Size: 181KB Download file

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Additional file 5: Figure S2:

Two Venn diagrams revealing the partially overlapping pattern of gene expression between day 2 and day 8 spherules in this study and day 4 spherules in the Whiston et al. study [13].

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Additional file 6: Figure S3:

Hierarchical depiction of GO terms significantly over-represented in the set of genes that were differentially expressed with a fold change ≥ 2 or ≤ -2 between mycelia and day 8 spherules (A) or day 2 and day 8 spherules (B). The size of the node associated with each GO term is relative to the number of differentially expressed genes belonging to that term. The color scale indicates the level of significance associated with each node with red being the most significant.

Format: PPTX Size: 202KB Download file

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Additional file 7: Table S4:

Genes overexpressed in day 2 spherules, day 8 spherules and in day 4 spherules as reported by Whiston et al. [13].

Format: XLSX Size: 28KB Download file

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