Epigenetics as an emerging tool for improvement of fungal strains used in biotechnology

Fungal genome sequencing: basic biology to biotechnology

(2015) Krishna Kant Sharma   CRITICAL REVIEWS IN BIOTECHNOLOGY

The expanding epigenetic landscape of non-model organisms

(2015) R. Bonasio   JOURNAL OF EXPERIMENTAL BIOLOGY

The VELVET Complex in the Gray Mold Fungus Botrytis cinerea: Impact of BcLAE1 on Differentiation, Secondary Metabolism, and Virulence

(2015) Julia Schumacher et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

One Juliet and four Romeos: VeA and its methyltransferases

(2015) Özlem Sarikaya-Bayram et al.   Frontiers in Microbiology

The role of Aspergillus flavus veA in the production of extracellular proteins during growth on starch substrates

(2014) Rocio M. Duran et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Screening of candidate regulators for cellulase and hemicellulase production in Trichoderma reesei and identification of a factor essential for cellulase production

(2014) Mari Häkkinen et al.   Biotechnology for Biofuels

The transcriptome of lae1 mutants of Trichoderma reesei cultivated at constant growth rates reveals new targets of LAE1 function

(2014) Erzsébet Fekete et al.   BMC GENOMICS

Epigenetic modifiers alter the secondary metabolite composition of a plant endophytic fungus,Pestalotiopsis crassiusculaobtained from the leaves ofFragaria chiloensis

(2014) Xiao-Long Yang et al.   JOURNAL OF ASIAN NATURAL PRODUCTS RESEARCH

Aspergillus oryzae-based cell factory for direct kojic acid production from cellulose

(2014) Ryosuke Yamada et al.   Microbial Cell Factories

Natural Antisense Transcripts and Long Non-Coding RNA in Neurospora crassa

(2014) Yamini Arthanari et al.   PLoS One

The VELVET A Orthologue VEL1 of Trichoderma reesei Regulates Fungal Development and Is Essential for Cellulase Gene Expression

(2014) Razieh Karimi Aghcheh et al.   PLoS One

High-quality genome (re)assembly using chromosomal contact data

(2014) Hervé Marie-Nelly et al.   Nature Communications

A comprehensive resource of genomic, epigenomic and transcriptomic sequencing data for the black truffle Tuber melanosporum

(2014) Pao-Yang Chen et al.   GigaScience

Substrate-Induced Transcriptional Activation of the MoCel7C Cellulase Gene Is Associated with Methylation of Histone H3 at Lysine 4 in the Rice Blast Fungus Magnaporthe oryzae

(2013) Ba Van Vu et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

An epigenetic modifier enhances the production of anti-diabetic and anti-inflammatory sesquiterpenoids from Aspergillus sydowii

(2013) Yu-Ming Chung et al.   BIOORGANIC & MEDICINAL CHEMISTRY

Genome-wide transcriptional response of Trichoderma reesei to lignocellulose using RNA sequencing and comparison with Aspergillus niger

(2013) Laure Ries et al.   BMC GENOMICS

Trichoderma reesei Histone Acetyltransferase Gcn5 Regulates Fungal Growth, Conidiation, and Cellulase Gene Expression

(2013) Qi Xin et al.   CURRENT MICROBIOLOGY

Isolation and identification of novel propoxyphenyl thiosildenafil found in natural health food product

(2013) Kyoung Moon Han et al.   Food Additives and Contaminants Part A-Chemistry Analysis Control Exposure & Risk Assessment

Is the Fungus Magnaporthe Losing DNA Methylation?

(2013) Ken-ichi Ikeda et al.   GENETICS

A Novel Automethylation Reaction in theAspergillus nidulansLaeA Protein GeneratesS-Methylmethionine

(2013) Alexander N. Patananan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Strain Improvement by Overexpression of the laeA Gene in Monascus pilosus for the Production of Monascus-Fermented Rice

(2013) Sang Sub Lee   JOURNAL OF MICROBIOLOGY AND BIOTECHNOLOGY

Interplay of the fungal sumoylation network for control of multicellular development

(2013) Rebekka Harting et al.   MOLECULAR MICROBIOLOGY

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

Functional Analyses of Trichoderma reesei LAE1 Reveal Conserved and Contrasting Roles of This Regulator

(2013) Razieh Karimi-Aghcheh et al.   G3-Genes Genomes Genetics

The Fusarium graminearum Histone H3 K27 Methyltransferase KMT6 Regulates Development and Expression of Secondary Metabolite Gene Clusters

(2013) Lanelle R. Connolly et al.   PLoS Genetics

Small Chemical Chromatin Effectors Alter Secondary Metabolite Production in Aspergillus clavatus

(2013) Christoph Zutz et al.   Toxins

Widespread Existence of Cytosine Methylation in Yeast DNA Measured by Gas Chromatography/Mass Spectrometry

(2012) Yang Tang et al.   ANALYTICAL CHEMISTRY

RNA-dependent inhibition of ribonucleotide reductase is a major pathway for 5-azacytidine activity in acute myeloid leukemia

(2012) J. Aimiuwu et al.   BLOOD

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

Chromatin and Transcription in Yeast

(2012) Oliver J. Rando et al.   GENETICS

Fungal Bioconversion of Lignocellulosic Residues; Opportunities & Perspectives

(2012) Mehdi Dashtban et al.   International Journal of Biological Sciences

Bioorganic Compounds Produced by the Fungus Monascus and their Use in Health Sciences and Medicine

(2012) Megumi Kuba-Miyara et al.   MINI-REVIEWS IN ORGANIC CHEMISTRY

How to Activate a Gene: Decap Its Associated Noncoding RNA

(2012) Madhuvanthi Ramaiah et al.   MOLECULAR CELL

Decapping of Long Noncoding RNAs Regulates Inducible Genes

(2012) Sarah Geisler et al.   MOLECULAR CELL

Natural antisense transcripts in fungi

(2012) Michael E. Donaldson et al.   MOLECULAR MICROBIOLOGY

The putative protein methyltransferase LAE1 controls cellulase gene expression in Trichoderma reesei

(2012) Bernhard Seiboth et al.   MOLECULAR MICROBIOLOGY

Heterochromatin protein 1 forms distinct complexes to direct histone deacetylation and DNA methylation

(2012) Shinji Honda et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Impact of Velvet Complex on Transcriptome and Penicillin G Production in Glucose-Limited Chemostat Cultures of a β-Lactam High-Producing Penicillium chrysogenum Strain

(2012) Tânia Veiga et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Uncovering the Genome-Wide Transcriptional Responses of the Filamentous Fungus Aspergillus niger to Lignocellulose Using RNA Sequencing

(2012) Stéphane Delmas et al.   PLoS Genetics

Characterization of an Autoinducer of Penicillin Biosynthesis in Penicillium chrysogenum

(2011) Jorge Martín et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Impact of the Penicillium chrysogenum genome on industrial production of metabolites

(2011) Marco Alexander van den Berg   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Aspergillus oryzae laeARegulates Kojic Acid Synthesis Genes

(2011) Ken ODA et al.   BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY

Identification and characterization of Penicillium citrinum VeA and LaeA as global regulators for ML-236B production

(2011) Satoshi Baba et al.   CURRENT GENETICS

RNA Interference in Fungi: Pathways, Functions, and Applications

(2011) Yunkun Dang et al.   EUKARYOTIC CELL

Mechanisms and functions of Tet protein-mediated 5-methylcytosine oxidation

(2011) H. Wu et al.   GENES & DEVELOPMENT

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Molecular Mechanisms of Long Noncoding RNAs

(2011) Kevin C. Wang et al.   MOLECULAR CELL

Jack of all nectars, master of most: DNA methylation and the epigenetic basis of niche width in a flower-living yeast

(2011) C. M. HERRERA et al.   MOLECULAR ECOLOGY

Candida albicans Dicer (CaDcr1) is required for efficient ribosomal and spliceosomal RNA maturation

(2011) D. A. Bernstein et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

CHD1 Remodels Chromatin and Influences Transient DNA Methylation at the Clock Gene frequency

(2011) William J. Belden et al.   PLoS Genetics

Comparative genome sequence analysis underscores mycoparasitism as the ancestral life style of Trichoderma

(2011) Christian P Kubicek et al.   GENOME BIOLOGY

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

(2010) Birgit Hoff et al.   EUKARYOTIC CELL

Involvement of transposon-like elements in penicillin gene cluster regulation

(2010) Mona Shaaban et al.   FUNGAL GENETICS AND BIOLOGY

Characterizing the role of RNA silencing components in Cryptococcus neoformans

(2010) Guilhem Janbon et al.   FUNGAL GENETICS AND BIOLOGY

Diverse Pathways Generate MicroRNA-like RNAs and Dicer-Independent Small Interfering RNAs in Fungi

(2010) Heng-Chi Lee et al.   MOLECULAR CELL

Heterochromatic marks are associated with the repression of secondary metabolism clusters in Aspergillus nidulans

(2010) Yazmid Reyes-Dominguez et al.   MOLECULAR MICROBIOLOGY

New improvements for lignocellulosic ethanol

(2009) Antoine Margeot et al.   CURRENT OPINION IN BIOTECHNOLOGY

Perspectives and new directions for the production of bioethanol using consolidated bioprocessing of lignocellulose

(2009) Qi Xu et al.   CURRENT OPINION IN BIOTECHNOLOGY

A SingledicerGene Is Required for Efficient Gene Silencing Associated with Two Classes of Small Antisense RNAs inMucor circinelloides

(2009) Juan P. de Haro et al.   EUKARYOTIC CELL

Epigenetics and transgenerational transfer: a physiological perspective

(2009) D. H. Ho et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Evidence for Dicer-dependent RNA interference in the industrial penicillin producer Penicillium chrysogenum

(2009) D. Janus et al.   MICROBIOLOGY-SGM

Chromatin-level regulation of biosynthetic gene clusters

(2009) Jin Woo Bok et al.   Nature Chemical Biology

Small silencing RNAs: an expanding universe

(2009) Megha Ghildiyal et al.   NATURE REVIEWS GENETICS

5-methylcytosine in RNA: detection, enzymatic formation and biological functions

(2009) Yuri Motorin et al.   NUCLEIC ACIDS RESEARCH

Aspects on evolution of fungal β-lactam biosynthesis gene clusters and recruitment of trans-acting factors

(2009) Axel A. Brakhage et al.   PHYTOCHEMISTRY

RNAi in Budding Yeast

(2009) I. A. Drinnenberg et al.   SCIENCE

Histones: Annotating Chromatin

(2008) Eric I. Campos et al.   Annual Review of Genetics

The global regulator LaeA controls penicillin biosynthesis, pigmentation and sporulation, but not roquefortine C synthesis in Penicillium chrysogenum

(2008) Katarina Kosalková et al.   BIOCHIMIE

Repeat induced point mutation in two asexual fungi, Aspergillus niger and Penicillium chrysogenum

(2008) Ilka Braumann et al.   CURRENT GENETICS

Roles of theAspergillus nidulanshomologues of Tup1 and Ssn6 in chromatin structure and cell viability

(2008) Irene García et al.   FEMS MICROBIOLOGY LETTERS

Characterization of Chromosome Ends in the Filamentous Fungus Neurospora crassa

(2008) C. Wu et al.   GENETICS

RNA-silencing in Penicillium chrysogenum and Acremonium chrysogenum: Validation studies using β-lactam genes expression

(2008) Ricardo V. Ullán et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Direct Interaction between DNA Methyltransferase DIM-2 and HP1 Is Required for DNA Methylation in Neurospora crassa

(2008) S. Honda et al.   MOLECULAR AND CELLULAR BIOLOGY

A ncRNA Modulates Histone Modification and mRNA Induction in the Yeast GAL Gene Cluster

(2008) Jonathan Houseley et al.   MOLECULAR CELL

Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina)

(2008) Diego Martinez et al.   NATURE BIOTECHNOLOGY

Genome sequencing and analysis of the filamentous fungus Penicillium chrysogenum

(2008) Marco A van den Berg et al.   NATURE BIOTECHNOLOGY

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

(2008) O. Bayram et al.   SCIENCE

Epigenetics and Complex Disease: From Etiology to New Therapeutics

(2007) Carolyn Ptak et al.   Annual Review of Pharmacology and Toxicology

DCL-1 colocalizes with other components of the MSUD machinery and is required for silencing

(2007) William G. Alexander et al.   FUNGAL GENETICS AND BIOLOGY