"Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae" by James E. Galagan

Selected Works of Li-Jun Ma

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Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae

Department of Plant Pathology: Faculty Publications

James E. Galagan, Broad Institute of MIT and Harvard
Sarah E. Calvo, Broad Institute of MIT and Harvard
Christina Cuomo, Broad Institute of MIT and Harvard
Li-Jun Ma, Broad Institute of MIT and Harvard
Jennifer R. Wortman, The Institute for Genomic Research, Rockville, Maryland
Serafim Batzoglou, Stanford University
Su-In Lee, Stanford University
Meray Baştürkmen, Oregon Health & Science University
Christina C. Spevak, Oregon Health & Science University
Vladimir Kapitonov, Genetic Information Research Institute, Mountain View, California
Jerzy Jurka, Genetic Information Research Institute, Mountain View, California
Claudio Scazzocchio, Université Paris-Sud , France
Mark Farman, University of Kentucky
Jonathan Butler, Broad Institute of MIT and Harvard
Seth Purcell, Broad Institute of MIT and Harvard
Steven D. Harris, University of Nebraska–Lincoln
Gerhard H. Braus, Georg-August-University Gottingen, Germany
Oliver Draht, Georg-August-University Gottingen, Germany
Silke Busch, Georg-August-University Gottingen, Germany
Christophe D'Enfert, Institut Pasteur, Paris, France
Christiane Bouchier, Institut Pasteur, Paris, France
Gustavo H. Goldman, Universidade de Sao Paulo, Brazil
Deborah Bell-Pedersen, Texas A&M University
Sam Griffiths-Jones, The Wellcome Trust Sanger Institute, Hinxton, UK
John H. Doonan, John Innes Centre, Norwich, UK
Jaehyuk Yu, University of Wisconsin-Madison
Kay Vienken, University of Karlsruhe, Germany
Arnab Pain, The Wellcome Trust Sanger Institute, Hinxton, UK
Michael Freitag, Oregon State University
Eric U. Selker, University of Oregon
David B. Archer, University of Nottingham, UK
Miguel Á. Peñalva, Consejo Superior de Investigaciones Científicas, Madrid, Spain
Berl R. Oakley, Ohio State University
Michelle Momany, University of Georgia
Toshihiro Tanaka, National Institute of Technology and Evaluation, Tokyo, Japan
Toshitaka Kumagai, National Institute of Advanced Industrial Science and Technology, Tsukuba, Japan
Kiyoshi Asai, National Institute of Advanced Industrial Science and Technology, Tsukuba, Japan
Masayuki Machida, National Institute of Advanced Industrial Science and Technology, Tsukuba, Japan
William C. Nierman, The Institute for Genomic Research, Rockville, Maryland
David W. Denning, University of Manchester, UK
Mark Caddick, University of Liverpool, UK
Michael Hynes, University of Melbourne, Australia
Mathieu Paoletti, University of Nottingham, UK
Reinhard Fischer, University of Karlsruhe, Germany
Bruce Miller, University of Idaho
Paul Dyer, University of Nottingham, UK
Matthew S. Sachs, Oregon Health & Science University
Stephen A. Osmani, Ohio State University
Bruce W. Birren, The Broad Institute of MIT and Harvard

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Date of this Version

12-22-2005

Disciplines

Plant Pathology

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Abstract

The aspergilli comprise a diverse group of filamentous fungi spanning over 200 million years of evolution. Here we report the genome sequence of the model organism Aspergillus nidulans, and a comparative study with Aspergillus fumigatus, a serious human pathogen, and Aspergillus oryzae, used in the production of sake, miso, and soy sauce. Our analysis of genome structure provided a quantitative evaluation of forces driving long-term eukaryotic genome evolution. It also led to an experimentally validated model of mating-type locus evolution, suggesting the potential for sexual reproduction in A. fumigatus and A. oryzae. Our analysis of sequence conservation revealed over 5,000 non-coding regions actively conserved across all three species. Within these regions, we identified potential functional elements including a previously uncharacterized TPP riboswitch and motifs suggesting regulation in filamentous fungi by Puf family genes. We further obtained comparative and experimental evidence indicating widespread translational regulation by upstream open reading frames. These results enhance our understanding of these widely studied fungi as well as provide new insight into eukaryotic genome evolution and gene regulation.

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Citation Information

James E. Galagan, Sarah E. Calvo, Christina Cuomo, Li-Jun Ma, et al.. "Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae" (2005)
Available at: http://works.bepress.com/li-jun_ma/1/