Genome-wide identification of target genes of a mating-type α-domain transcription factor reveals functions beyond sexual development

Targets of the Sex Inducer homeodomain proteins are required for fungal development and virulence inCryptococcus neoformans

(2015) Matthew E. Mead et al.   MOLECULAR MICROBIOLOGY

Six Hydrophobins Are Involved in Hydrophobin Rodlet Formation in Aspergillus nidulans and Contribute to Hydrophobicity of the Spore Surface

(2014) André Grünbacher et al.   PLoS One

Transcription factors: specific DNA binding and specific gene regulation

(2014) Anne-Laure Todeschini et al.   TRENDS IN GENETICS

Mating type genes and cryptic sexuality as tools for genetically manipulating industrial molds

(2013) Ulrich Kück et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Tpo1-mediated spermine and spermidine export controls cell cycle delay and times antioxidant protein expression during the oxidative stress response

(2013) Antje Krüger et al.   EMBO REPORTS

Shared and distinct functions of two Gti1/Pac2 family proteins in growth, morphogenesis and pathogenicity ofMagnaporthe oryzae

(2013) Yue Chen et al.   ENVIRONMENTAL MICROBIOLOGY

Global Gene Expression and Focused Knockout Analysis Reveals Genes Associated with Fungal Fruiting Body Development in Neurospora crassa

(2013) Zheng Wang et al.   EUKARYOTIC CELL

Molecular Determinants of Sporulation in Ashbya gossypii

(2013) L. Wasserstrom et al.   GENETICS

A tripartite transcription factor network regulates primordial germ cell specification in mice

(2013) Erna Magnúsdóttir et al.   NATURE CELL BIOLOGY

Sexual reproduction and mating-type–mediated strain development in the penicillin-producing fungusPenicillium chrysogenum

(2013) Julia Böhm et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-scale Analysis of Escherichia coli FNR Reveals Complex Features of Transcription Factor Binding

(2013) Kevin S. Myers et al.   PLoS Genetics

Presence and Functionality of Mating Type Genes in the Supposedly Asexual Filamentous Fungus Aspergillus oryzae

(2012) Ryuta Wada et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

Protein Modularity, Cooperative Binding, and Hybrid Regulatory States Underlie Transcriptional Network Diversification

(2012) Christopher R. Baker et al.   CELL

Members of the Penicillium chrysogenum Velvet Complex Play Functionally Opposing Roles in the Regulation of Penicillin Biosynthesis and Conidiation

(2012) Katarina Kopke et al.   EUKARYOTIC CELL

Mating-Type Genes and MAT Switching in Saccharomyces cerevisiae

(2012) J. E. Haber   GENETICS

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

(2012) S. G. Landt et al.   GENOME RESEARCH

Transcription factors: from enhancer binding to developmental control

(2012) François Spitz et al.   NATURE REVIEWS GENETICS

Inferring direct DNA binding from ChIP-seq

(2012) Timothy L. Bailey et al.   NUCLEIC ACIDS RESEARCH

FIMO: scanning for occurrences of a given motif

(2011) Charles E. Grant et al.   BIOINFORMATICS

Iron homeostasis—Achilles’ heel of Aspergillus fumigatus?

(2011) Markus Schrettl et al.   CURRENT OPINION IN MICROBIOLOGY

The MAT1-2-1 mating-type gene upregulates photo-inducible carotenoid biosynthesis in Fusarium verticillioides

(2011) Attila L. Ádám et al.   FEMS MICROBIOLOGY LETTERS

Pioneer transcription factors: establishing competence for gene expression

(2011) K. S. Zaret et al.   GENES & DEVELOPMENT

PcchiB1, encoding a class V chitinase, is affected by PcVelA and PcLaeA, and is responsible for cell wall integrity in Penicillium chrysogenum

(2011) J. Kamerewerd et al.   MICROBIOLOGY-SGM

Heterochromatin Is Required for Normal Distribution of Neurospora crassa CenH3

(2011) K. M. Smith et al.   MOLECULAR AND CELLULAR BIOLOGY

Aspergillus nidulans transcription factor AtfA interacts with the MAPK SakA to regulate general stress responses, development and spore functions

(2011) Fernando Lara-Rojas et al.   MOLECULAR MICROBIOLOGY

Genome-Wide Gene Expression Profiling of Fertilization Competent Mycelium in Opposite Mating Types in the Heterothallic Fungus Podospora anserina

(2011) Frédérique Bidard et al.   PLoS One

Extensive DNA-binding specificity divergence of a conserved transcription regulator

(2011) C. R. Baker et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-wide MyoD Binding in Skeletal Muscle Cells: A Potential for Broad Cellular Reprogramming

(2010) Yi Cao et al.   DEVELOPMENTAL CELL

Two Components of avelvet-Like Complex Control Hyphal Morphogenesis, Conidiophore Development, and Penicillin Biosynthesis in Penicillium chrysogenum

(2010) Birgit Hoff et al.   EUKARYOTIC CELL

Transcription Factors in Light and Circadian Clock Signaling Networks Revealed by Genomewide Mapping of Direct Targets for Neurospora White Collar Complex

(2010) Kristina M. Smith et al.   EUKARYOTIC CELL

Fission yeast ATF/CREB family protein Atf21 plays important roles in production of normal spores

(2010) Tomohiko Morita et al.   GENES TO CELLS

The Evolution of Sex: a Perspective from the Fungal Kingdom

(2010) S. C. Lee et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

GUIDANCE: a web server for assessing alignment confidence scores

(2010) O. Penn et al.   NUCLEIC ACIDS RESEARCH

Tracing the Origin of the Fungal α1 Domain Places Its Ancestor in the HMG-Box Superfamily: Implication for Fungal Mating-Type Evolution

(2010) Tom Martin et al.   PLoS One

Homologous recombination in the antibiotic producer Penicillium chrysogenum: strain ΔPcku70 shows up-regulation of genes from the HOG pathway

(2009) Birgit Hoff et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Sin3: Master scaffold and transcriptional corepressor

(2009) Adrienne Grzenda et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Jalview Version 2--a multiple sequence alignment editor and analysis workbench

(2009) A. M. Waterhouse et al.   BIOINFORMATICS

Class III Chitin Synthase ChsB ofAspergillus nidulansLocalizes at the Sites of Polarized Cell Wall Synthesis and Is Required for Conidial Development

(2009) Kazuharu Fukuda et al.   EUKARYOTIC CELL

ChIP–seq: advantages and challenges of a maturing technology

(2009) Peter J. Park   NATURE REVIEWS GENETICS

Diversity and Complexity in DNA Recognition by Transcription Factors

(2009) G. Badis et al.   SCIENCE

Different gene regulation strategies revealed by analysis of binding motifs

(2009) Zeba Wunderlich et al.   TRENDS IN GENETICS

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Cross-Species Hybridization withFusarium verticillioidesMicroarrays Reveals New Insights intoFusarium fujikuroiNitrogen Regulation and the Role of AreA and NMR

(2008) Birgit Schönig et al.   EUKARYOTIC CELL

E2F in vivo binding specificity: Comparison of consensus versus nonconsensus binding sites

(2008) A. Rabinovich et al.   GENOME RESEARCH

Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data

(2008) Anton Valouev et al.   NATURE METHODS

VelB/VeA/LaeA Complex Coordinates Light Signal with Fungal Development and Secondary Metabolism

(2008) O. Bayram et al.   SCIENCE

Choose your partners: dimerization in eukaryotic transcription factors

(2008) Grigoris D. Amoutzias et al.   TRENDS IN BIOCHEMICAL SCIENCES

Iron and siderophores in fungal–host interactions

(2008) Linda Johnson  

The Evolution of Combinatorial Gene Regulation in Fungi

(2008) Brian B Tuch et al.   PLOS BIOLOGY