Supplementary information
From the following article:
Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae
James E. Galagan,
Sarah E. Calvo,
Christina Cuomo,
Li-Jun Ma,
Jennifer R. Wortman,
Serafim Batzoglou,
Su-In Lee,
Meray Ba
türkmen,
Christina C. Spevak,
John Clutterbuck,
Vladimir Kapitonov,
Jerzy Jurka,
Claudio Scazzocchio,
Mark Farman,
Jonathan Butler,
Seth Purcell,
Steve Harris,
Gerhard H. Braus,
Oliver Draht,
Silke Busch,
Christophe D'Enfert,
Christiane Bouchier,
Gustavo H. Goldman,
Deborah Bell-Pedersen,
Sam Griffiths-Jones,
John H. Doonan,
Jaehyuk Yu,
Kay Vienken,
Arnab Pain,
Michael Freitag,
Eric U. Selker,
David B. Archer,
Miguel Á. Peñalva,
Berl R. Oakley,
Michelle Momany,
Toshihiro Tanaka,
Toshitaka Kumagai,
Kiyoshi Asai,
Masayuki Machida,
William C. Nierman,
David W. Denning,
Mark Caddick,
Michael Hynes,
Mathieu Paoletti,
Reinhard Fischer,
Bruce Miller,
Paul Dyer,
Matthew S. Sachs,
Stephen A. Osmani
&
Bruce W. Birren
Nature 438, 1105-1115(22 December 2005)
doi:10.1038/nature04341
Supplementary Methods
Detailed descriptions of methods and materials
Supplementary Data
The data and description of methods used to derive the phylogenetic relationship of the the three Aspergilli
Supplementary Data
Description of Hierarchical Synteny Clustering method, detailed discussion of sytenic breaks near to repeats and telomeres, description of fit of genome breakage to random break model, data supporting lack of decelerated evolution in A. oryzae, and data supporting similar rates of protein evolution in A. oryzae and A. fumigatus
Supplementary Data
Description of methods for uORF comparative analysis. Raw data with all uORFs and conserved uORFs.
Supplementary Data
Description of methods used for prediction of Non-coding conserved patterns. List of all patterns, locations of patterns, and known Aspergillus and yeast transcription factor binding sites.
Supplementary Data
Description and table summarizing transposable elements in the three Aspergilli
Supplementary Data
Description of A. nidulans assembly and integration with the genetic map.
Supplementary Data
Comparative analysis of Aspergillus peroxisomes
Supplementary Data
Comparative analysis of hyphal growth
Supplementary Data
Description of A. nidulans gene prediction methodology and gene accuracy statistics.
Supplementary Data
215 genes implicated in sex in fungi and their presence in all three Aspergilli
Supplementary Data
Description of predicted TPP Riboswitches
Supplementary Figure
High resolution version of Figure 2
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