The 2008 update of the Aspergillus nidulans genome annotation: A community effort

Jennifer Russo Wortman; Jane Mabey Gilsenan; Vinita Joardar; Jennifer Deegan; John Clutterbuck; Mikael R. Andersen; David Archer; Mojca Bencina; Gerhard Braus; Pedro Coutinho; Hans von Döhren; John Doonan; Arnold J.M. Driessen; Pawel Durek; Eduardo Espeso; Erzsébet Fekete; Michel Flipphi; Carlos Garcia Estrada; Steven Geysens; Gustavo Goldman; Piet W.J. de Groot; Kim Hansen; Steven D. Harris; Thorsten Heinekamp; Kerstin Helmstaedt; Bernard Henrissat; Gerald Hofmann; Tim Homan; Tetsuya Horio; Hiroyuki Horiuchi; Steve James; Meriel Jones; Levente Karaffa; Zsolt Karányi; Masashi Kato; Nancy Keller; Diane E. Kelly; Jan A.K.W. Kiel; Jung-Mi Kim; Ida J. van der Klei; Frans M. Klis; Andriy Kovalchuk; Nada Kraševec; Christian P. Kubicek; Bo Liu; Andrew MacCabe; Vera Meyer; Pete Mirabito; Márton Miskei; Magdalena Mos; Jonathan Mullins; David R. Nelson; Jens Nielsen; Berl R. Oakley; Stephen A. Osmani; Tiina Pakula; Andrzej Paszewski; Ian Paulsen; Sebastian Pilsyk; István Pócsi; Peter J. Punt; Arthur F.J. Ram; Qinghu Ren; Xavier Robellet; Geoff Robson; Bernhard Seiboth; Piet van Solingen; Thomas Specht; Jibin Sun; Naimeh Taheri-Talesh; Norio Takeshita; Dave Ussery; Patricia A. vanKuyk; Hans Visser; Peter J.I. van de Vondervoort; Ronald P. de Vries; Jonathan Walton; Xin Xiang; Yi Xiong; An Ping Zeng; Bernd W. Brandt; Michael J. Cornell; Cees A.M.J.J. van den Hondel; Jacob Visser; Stephen G. Oliver; Geoffrey Turner

doi:10.1016/j.fgb.2008.12.003

Back

The 2008 update of the Aspergillus nidulans genome annotation: A community effort

Journal article

Peer reviewed

The 2008 update of the Aspergillus nidulans genome annotation: A community effort

Jennifer Russo Wortman, Jane Mabey Gilsenan, Vinita Joardar, Jennifer Deegan, John Clutterbuck, Mikael R. Andersen, David Archer, Mojca Bencina, Gerhard Braus, Pedro Coutinho, …

Fungal genetics and biology, Vol.46(1), pp.S2-S13

01/03/2009

DOI: https://doi.org/10.1016/j.fgb.2008.12.003

PMCID: PMC2826280

PMID: 19146970

Abstract

Annotation

Aspergilli

Aspergillus nidulans

Assembly

CADRE

Fungal community

Genome

Transcription factors

The identification and annotation of protein-coding genes is one of the primary goals of whole-genome sequencing projects, and the accuracy of predicting the primary protein products of gene expression is vital to the interpretation of the available data and the design of downstream functional applications. Nevertheless, the comprehensive annotation of eukaryotic genomes remains a considerable challenge. Many genomes submitted to public databases, including those of major model organisms, contain significant numbers of wrong and incomplete gene predictions. We present a community-based reannotation of the Aspergillus nidulans genome with the primary goal of increasing the number and quality of protein functional assignments through the careful review of experts in the field of fungal biology.

Metrics

1 Record Views

See more details

Details

Title: The 2008 update of the Aspergillus nidulans genome annotation: A community effort
Creators - without role: Jennifer Russo Wortman - Department of Medicine Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA
Jane Mabey Gilsenan - University of Manchester
Vinita Joardar - J. Craig Venter Institute
Jennifer Deegan - European Bioinformatics Institute
John Clutterbuck - University of Glasgow
Mikael R. Andersen - Technical University of Denmark
David Archer - University of Nottingham
Mojca Bencina - National Institute of Chemistry, Laboratory for Biotechnology and Industrial Mycology, Ljubljana, Slovenia
Gerhard Braus - Institut für Mikrobiologie & Genetik, Georg-August-Universität, Göttingen, Germany
Pedro Coutinho - Université de Provence (Aix- Marseille I), Marseille, France
Hans von Döhren - Technische Universität Berlin
John Doonan - John Innes Centre
Arnold J.M. Driessen - Biotechnology Institute
Pawel Durek - Technische Universität Berlin
Eduardo Espeso - Centro de Investigaciones Biológicas Margarita Salas
Erzsébet Fekete - University of Debrecen
Michel Flipphi - Instituto de Agroquímica y Tecnología de Alimentos
Carlos Garcia Estrada - Instituto de Biotecnología de León
Steven Geysens - VIB Department for Molecular Biomedical Research, Gent, Belgium
Gustavo Goldman - Universidade de São Paulo
Piet W.J. de Groot - University of Amsterdam
Kim Hansen - Novozymes A/S, Bagsvaerd, Denmark
Steven D. Harris - University of Nebraska–Lincoln
Thorsten Heinekamp - Hans Knöll Institute
Kerstin Helmstaedt - Institut für Mikrobiologie & Genetik, Georg-August-Universität, Göttingen, Germany
Bernard Henrissat - Université de Provence (Aix- Marseille I), Marseille, France
Gerald Hofmann - Technical University of Denmark
Tim Homan - Leiden University
Tetsuya Horio - University of Kansas
Hiroyuki Horiuchi - The University of Tokyo
Steve James - Gettysburg College
Meriel Jones - University of Liverpool
Levente Karaffa - University of Debrecen
Zsolt Karányi - University of Debrecen
Masashi Kato - Dept Biological Mechanisms and Functions, Graduate School of Bioagricultural Sciences, Furo-cho, Chikusa-ku, Nagoya, Japan
Nancy Keller - University of Wisconsin–Madison
Diane E. Kelly - Swansea University
Jan A.K.W. Kiel - Genomics
Jung-Mi Kim - University of California, Davis
Ida J. van der Klei - Genomics
Frans M. Klis - University of Amsterdam
Andriy Kovalchuk - Biotechnology Institute
Nada Kraševec - National Institute of Chemistry, Laboratory for Biotechnology and Industrial Mycology, Ljubljana, Slovenia
Christian P. Kubicek - TU Wien
Bo Liu - University of California, Davis
Andrew MacCabe - Instituto de Agroquímica y Tecnología de Alimentos
Vera Meyer - Genomics
Pete Mirabito - University of Kentucky
Márton Miskei - University of Debrecen
Magdalena Mos - University of Liverpool
Jonathan Mullins - Swansea University
David R. Nelson - University of Tennessee at Knoxville
Jens Nielsen - Technical University of Denmark
Berl R. Oakley - University of Kansas
Stephen A. Osmani - The Ohio State University
Tiina Pakula - VTT Technical Research Centre of Finland
Andrzej Paszewski - Institute of Biochemistry and Biophysics, Department of Genetics, Warsaw, Poland
Ian Paulsen - Macquarie University
Sebastian Pilsyk - Institute of Biochemistry and Biophysics, Department of Genetics, Warsaw, Poland
István Pócsi - University of Debrecen
Peter J. Punt - TNO Quality of Life, Industrial Biotechnology, Zeist, The Netherlands
Arthur F.J. Ram - Genomics
Qinghu Ren - J. Craig Venter Institute
Xavier Robellet - Institut de Génétique et Microbiologie, CNRS - Université Paris-Sud XI, Orsay, France
Geoff Robson - University of Manchester
Bernhard Seiboth - TU Wien
Piet van Solingen - Danisco-Genencor, Leiden, The Netherlands
Thomas Specht - Sandoz GmbH, Kundl, Tirol, Austria
Jibin Sun - Helmholtz Centre for Infection Research
Naimeh Taheri-Talesh - Institut für Mikrobiologie & Genetik, Georg-August-Universität, Göttingen, Germany
Norio Takeshita - University of Karlsruhe, Department of Applied Biosciences Applied Microbiology, Karlsruhe, Germany
Dave Ussery - Technical University of Denmark
Patricia A. vanKuyk - Leiden University
Hans Visser - Dyadic
Peter J.I. van de Vondervoort - DSM Anti-Infectives, Delft, The Netherlands
Ronald P. de Vries - Utrecht University
Jonathan Walton - Michigan State University
Xin Xiang - Department of Biochemistry, USUHS, Bethesda, MD, USA
Yi Xiong - The Ohio State University
An Ping Zeng - Hamburg University of Technology
Bernd W. Brandt - University of Amsterdam
Michael J. Cornell - Institut de Génétique et Microbiologie, CNRS - Université Paris-Sud XI, Orsay, France
Cees A.M.J.J. van den Hondel - Genomics
Jacob Visser - Leiden University
Stephen G. Oliver - University of Cambridge
Geoffrey Turner - University of Sheffield
Publication Details: Fungal genetics and biology, Vol.46(1), pp.S2-S13
Publisher: Elsevier Inc
Identifiers: 9939803508331
Academic Unit: King Abdulaziz University
Language: English
Resource Type: Journal article