An integrated approach for genome annotation of the eukaryotic thermophile Chaetomium thermophilum.
The thermophilic fungus Chaetomium thermophilum holds great promise for structural biology. To increase the efficiency of its biochemical and structural characterization and to explore its thermophilic properties beyond those of individual proteins, we obtained transcriptomics and proteomics data, and integrated them with computational annotation methods and a multitude of biochemical experiments conducted by the structural biology community. We considerably improved the genome annotation of Chaetomium thermophilum and characterized the transcripts and expression of thousands of genes. We furthermore show that the composition and structure of the expressed proteome of Chaetomium thermophilum is similar to its mesophilic relatives. Data were deposited in a publicly available repository and provide a rich source to the structural biology community.
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Thomas
T
Bock
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Wei-Hua
WH
Chen
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Alessandro
A
Ori
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Nayab
N
Malik
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Noella
N
Silva-Martin
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Jaime
J
Huerta-Cepas
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Sean T
ST
Powell
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Panagiotis L
PL
Kastritis
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany Institute of Cytology and Genetics, Laboratory of Molecular Genetic Systems, 630090 Novosibirsk, Russia.
Georgy
G
Smyshlyaev
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Ivana
I
Vonkova
European Molecular Biology Laboratory (EMBL), Proteomics Core Facility, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Joanna
J
Kirkpatrick
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Tobias
T
Doerks
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Leo
L
Nesme
Biochemie-Zentrum der Universität Heidelberg, INF328, D-69120 Heidelberg, Germany.
Jochen
J
Baßler
Biochemie-Zentrum der Universität Heidelberg, INF328, D-69120 Heidelberg, Germany.
Martin
M
Kos
Biochemie-Zentrum der Universität Heidelberg, INF328, D-69120 Heidelberg, Germany.
Ed
E
Hurt
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Teresa
T
Carlomagno
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Anne-Claude
AC
Gavin
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Orsolya
O
Barabas
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Christoph W
CW
Müller
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.
Vera
V
van Noort
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany martin.beck@embl.de.
Martin
M
Beck
European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Meyerhofstrasse 1, D-69117 Heidelberg, Germany bork@embl.de.
Peer
P
Bork
D002597:Chaetomium / Q000235:genetics*; D005656:Fungal Proteins / Q000235:genetics / Q000378:metabolism; D005800:Genes, Fungal; D016681:Genome, Fungal; D007438:Introns; D058977:Molecular Sequence Annotation; D020543:Proteome / Q000378:metabolism; D011544:Pseudogenes; D059467:Transcriptome
D005656:Fungal Proteins; D020543:Proteome