Relics of repeat-induced point mutation direct heterochromatin formation in Neurospora crassa (2009)
Lewis, Zachary A., Honda, Shinji, Khlafallah, Tamir K., Jeffress, Jennifer K., Freitag, Michael, Mohn, Fabio, ...
Both RNAi-dependent and -independent mechanisms have been implicated in the establishment of heterochromatin domains, which may be stabilized by feedback loops involving chromatin proteins and...
Smith, Kristina M, Kothe, Gregory O, Matsen, Cindy B, Khlafallah, Tamir K, Adhvaryu, Keyur K, Hemphill, Melissa, ...
Abstract Background Silencing of genes inserted near telomeres provides a model to investigate the function of heterochromatin. We initiated a study of telomeric silencing in Neurospora crassa , a...
Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae (2005)
Galagan, James E., Calvo, Sarah E., Cuomo, Christina, Ma, Li-Jun, Wortman, Jennifer R., Batzoglou, Serafim, ...
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...
The methylated component of the Neurospora crassa genome (2003)
Selker, Eric U, Tountas, Nikolaos A, Cross, Sally H, Margolin, Brian S, Murphy, Jonathan G, Bird, Adrian P, ...
Cytosine methylation is common, but not ubiquitous, in eukaryotes. Mammals (1) and the fungus Neurospora crassa (2,3) have about 2–3% of cytosines methylated. In mammals, methylation is almost...
The methylated component of the Neurospora crassa genome (2003)
Selker, Eric U, Tountas, Nikolaos A, Cross, Sally H, Margolin, Brian S, Murphy, Jonathan G, Bird, Adrian P, ...
Cytosine methylation is common, but not ubiquitous, in eukaryotes. Mammals (1) and the fungus Neurospora crassa (2,3) have about 2–3% of cytosines methylated. In mammals, methylation is almost...
Roberts,Richard J., Belfort,Marlene, Bestor,Timothy, Bhagwat,Ashok S., Bickle,Thomas A., Bitinaite,Jurate, ...
A nomenclature is described for restriction endonucleases, DNA methyltransferases, homing endonucleases and related genes and gene products. It provides explicit categories for the many different...
Roberts, Richard J, Belfort, Marlene, Bestor, Timothy, Bhagwat, Ashok S, Bickle, Thomas A, Bitinaite, Jurate, ...
A nomenclature is described for restriction endonucleases, DNA methyltransferases, homing endonucleases and related genes and gene products. It provides explicit categories for the many different...
Roberts, Richard J., Belfort, Marlene, Bestor, Timothy, Bhagwat, Ashok S., Bickle, Thomas A., Bitinaite, Jurate, ...
A nomenclature is described for restriction endonucleases, DNA methyltransferases, homing endonucleases and related genes and gene products. It provides explicit categories for the many different...
Roberts, Richard J, Belfort, Marlene, Bestor, Timothy, Bhagwat, Ashok S, Bickle, Thomas A, Bitinaite, Jurate, ...
A nomenclature is described for restriction endonucleases, DNA methyltransferases, homing endonucleases and related genes and gene products. It provides explicit categories for the many different...
Inhibition of DNA Methylation and Reactivation of Silenced Genes by Zebularine (2003)
Cheng, Jonathan C., Matsen, Cindy B., Gonzales, Felicidad A., Ye, Wei, Greer, Sheldon, Marquez, Victor E., ...
Background: Gene silencing by abnormal methylation of promoter regions of regulatory genes is commonly associated with cancer. Silenced tumor suppressor genes are obvious targets for reactivation by...
Roberts, Richard J., Belfort, Marlene, Bestor, Timothy, Bhagwat, Ashok S., Bickle, Thomas A., Bitinaite, Jurate, ...
A nomenclature is described for restriction endonucleases, DNA methyltransferases, homing endonucleases and related genes and gene products. It provides explicit categories for the many different...
Roberts, Christopher J., Selker, Eric U.
A temperature-sensitive methionine auxotroph of Neurospora crassa was found in a collection of conditional mutants and shown to be deficient in DNA methylation when grown under semipermissive...
Trichostatin A causes selective loss of DNA methylation in Neurospora
Both DNA methylation and hypoacetylation of core histones are frequently associated with repression of gene expression. Possible connections between these processes were investigated by taking...
Freitag, Michael, Williams, Rebecca L., Kothe, Gregory O., Selker, Eric U.
During sexual development, Neurospora crassa inactivates genes in duplicated DNA segments by a hypermutation process, repeat-induced point mutation (RIP). RIP introduces C:G to T:A transition...
Induction and maintenance of nonsymmetrical DNA methylation in Neurospora
Selker, Eric U., Freitag, Michael, Kothe, Gregory O., Margolin, Brian S., Rountree, Michael R., Allis, C. David, ...
One can imagine a variety of mechanisms that should result in self-perpetuating biological states. It is generally assumed that cytosine methylation is propagated in eukaryotes by enzymes that...
dim-2 encodes a DNA methyltransferase responsible for all known cytosine methylation in Neurospora
Kouzminova, Elena, Selker, Eric U.
To understand better the control of DNA methylation, we cloned and characterized the dim-2 gene of Neurospora crassa, the only eukaryotic gene currently known in which mutations appear to eliminate...
Synthesis of Signals for De Novo DNA Methylation in Neurospora crassa
Tamaru, Hisashi, Selker, Eric U.
Most 5-methylcytosine in Neurospora crassa occurs in A:T-rich sequences high in TpA dinucleotides, hallmarks of repeat-induced point mutation. To investigate how such sequences induce methylation, we...
Roberts, Richard J., Belfort, Marlene, Bestor, Timothy, Bhagwat, Ashok S., Bickle, Thomas A., Bitinaite, Jurate, ...
A nomenclature is described for restriction endonucleases, DNA methyltransferases, homing endonucleases and related genes and gene products. It provides explicit categories for the many different...
Folco, H. Diego, Freitag, Michael, Ramón, Ana, Temporini, Esteban D., Alvarez, María E., García, Irene, ...
We show that Neurospora crassa has a single histone H1 gene, hH1, which encodes a typical linker histone with highly basic N- and C-terminal tails and a central globular domain. A green fluorescent...
DNA methylation inhibits elongation but not initiation of transcription in Neurospora crassa
Rountree, Michael R., Selker, Eric U.
In plants, animals, and fungi, DNA methylation is frequently associated with gene silencing, yet little is known about the role of the methylation in silencing. In Neurospora crassa, repeated...
Borkovich, Katherine A., Alex, Lisa A., Yarden, Oded, Freitag, Michael, Turner, Gloria E., Read, Nick D., ...
We present an analysis of over 1,100 of the ∼10,000 predicted proteins encoded by the genome sequence of the filamentous fungus Neurospora crassa. Seven major areas of Neurospora genomics and...
Methylation of Histone H3 Lysine 36 Is Required for Normal Development in Neurospora crassa
Adhvaryu, Keyur K., Morris, Stephanie A., Strahl, Brian D., Selker, Eric U.
The SET domain is an evolutionarily conserved domain found predominantly in histone methyltransferases (HMTs). The Neurospora crassa genome includes nine SET domain genes (set-1 through set-9) in...
Perkins, David D., Metzenberg, Robert L., Raju, Namboori B., Selker, Eric U., Barry, Edward G.
In translocation OY321 of Neurospora crassa, the nucleolus organizer is divided into two segments, a proximal portion located interstitially in one interchange chromosome, and a distal portion now...
Hays, Shan M, Swanson, Johanna, Selker, Eric U
We have identified and characterized the complete complement of genes encoding the core histones of Neurospora crassa. In addition to the previously identified pair of genes that encode histones H3...
Grimaldi, Benedetto, Coiro, Pierluca, Filetici, Patrizia, Berge, Emanuela, Dobosy, Joseph R., Freitag, Michael, ...
Blue light-induced transcription in Neurospora crassa is regulated by the White Collar-1 (WC-1) photoreceptor. We report that residue K14 of histone H3 associated with the light-inducible albino-3...
Trichostatin A causes selective loss of DNA methylation in Neurospora
Both DNA methylation and hypoacetylation of core histones are frequently associated with repression of gene expression. Possible connections between these processes were investigated by taking...
Freitag, Michael, Williams, Rebecca L., Kothe, Gregory O., Selker, Eric U.
During sexual development, Neurospora crassa inactivates genes in duplicated DNA segments by a hypermutation process, repeat-induced point mutation (RIP). RIP introduces C:G to T:A transition...
Induction and maintenance of nonsymmetrical DNA methylation in Neurospora
Selker, Eric U., Freitag, Michael, Kothe, Gregory O., Margolin, Brian S., Rountree, Michael R., Allis, C. David, ...
One can imagine a variety of mechanisms that should result in self-perpetuating biological states. It is generally assumed that cytosine methylation is propagated in eukaryotes by enzymes that...
dim-2 encodes a DNA methyltransferase responsible for all known cytosine methylation in Neurospora
Kouzminova, Elena, Selker, Eric U.
To understand better the control of DNA methylation, we cloned and characterized the dim-2 gene of Neurospora crassa, the only eukaryotic gene currently known in which mutations appear to eliminate...
Synthesis of Signals for De Novo DNA Methylation in Neurospora crassa
Tamaru, Hisashi, Selker, Eric U.
Most 5-methylcytosine in Neurospora crassa occurs in A:T-rich sequences high in TpA dinucleotides, hallmarks of repeat-induced point mutation. To investigate how such sequences induce methylation, we...
Roberts, Richard J., Belfort, Marlene, Bestor, Timothy, Bhagwat, Ashok S., Bickle, Thomas A., Bitinaite, Jurate, ...
A nomenclature is described for restriction endonucleases, DNA methyltransferases, homing endonucleases and related genes and gene products. It provides explicit categories for the many different...
Folco, H. Diego, Freitag, Michael, Ramón, Ana, Temporini, Esteban D., Alvarez, María E., García, Irene, ...
We show that Neurospora crassa has a single histone H1 gene, hH1, which encodes a typical linker histone with highly basic N- and C-terminal tails and a central globular domain. A green fluorescent...
DNA methylation inhibits elongation but not initiation of transcription in Neurospora crassa
Rountree, Michael R., Selker, Eric U.
In plants, animals, and fungi, DNA methylation is frequently associated with gene silencing, yet little is known about the role of the methylation in silencing. In Neurospora crassa, repeated...
Borkovich, Katherine A., Alex, Lisa A., Yarden, Oded, Freitag, Michael, Turner, Gloria E., Read, Nick D., ...
We present an analysis of over 1,100 of the ∼10,000 predicted proteins encoded by the genome sequence of the filamentous fungus Neurospora crassa. Seven major areas of Neurospora genomics and...
Perkins, David D., Metzenberg, Robert L., Raju, Namboori B., Selker, Eric U., Barry, Edward G.
In translocation OY321 of Neurospora crassa, the nucleolus organizer is divided into two segments, a proximal portion located interstitially in one interchange chromosome, and a distal portion now...
Methylation of Histone H3 Lysine 36 Is Required for Normal Development in Neurospora crassa
Adhvaryu, Keyur K., Morris, Stephanie A., Strahl, Brian D., Selker, Eric U.
The SET domain is an evolutionarily conserved domain found predominantly in histone methyltransferases (HMTs). The Neurospora crassa genome includes nine SET domain genes (set-1 through set-9) in...
Hays, Shan M, Swanson, Johanna, Selker, Eric U
We have identified and characterized the complete complement of genes encoding the core histones of Neurospora crassa. In addition to the previously identified pair of genes that encode histones H3...
Grimaldi, Benedetto, Coiro, Pierluca, Filetici, Patrizia, Berge, Emanuela, Dobosy, Joseph R., Freitag, Michael, ...
Blue light-induced transcription in Neurospora crassa is regulated by the White Collar-1 (WC-1) photoreceptor. We report that residue K14 of histone H3 associated with the light-inducible albino-3...
Recurrent Locus-Specific Mutation Resulting From a Cryptic Ectopic Insertion in Neurospora
Perkins, David D., Freitag, Michael, Pollard, Virginia C., Bailey-Shrode, Lori A., Selker, Eric U., Ebbole, Daniel J.
New mutations are found among ∼20% of progeny when one or both parents carry eas allele UCLA191 (easUCLA, easily wettable, hydrophobin-deficient, linkage group II). The mutations inactivate the...
Lewis, Zachary A., Shiver, Anthony L., Stiffler, Nicholas, Miller, Michael R., Johnson, Eric A., Selker, Eric U.
The wealth of sequence information available for Neurospora crassa and other fungi has greatly facilitated evolutionary and molecular analyses of this group. Although “reverse” genetics, in which...
A Cytosine Methyltransferase Homologue Is Essential for Sexual Development in Aspergillus nidulans
Lee, Dong W., Freitag, Michael, Selker, Eric U., Aramayo, Rodolfo
Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers
Baird, Nathan A., Etter, Paul D., Atwood, Tressa S., Currey, Mark C., Shiver, Anthony L., Lewis, Zachary A., ...
Single nucleotide polymorphism (SNP) discovery and genotyping are essential to genetic mapping. There remains a need for a simple, inexpensive platform that allows high-density SNP discovery and...
Smith, Kristina M, Kothe, Gregory O, Matsen, Cindy B, Khlafallah, Tamir K, Adhvaryu, Keyur K, Hemphill, Melissa, ...
Honda, Shinji, Selker, Eric U.
DNA methylation is involved in gene silencing and genomic stability in mammals, plants, and fungi. Genetics studies of Neurospora crassa have revealed that a DNA methyltransferase (DIM-2), a histone...
Characterization of Chromosome Ends in the Filamentous Fungus Neurospora crassa
Wu, Cheng, Kim, Yun-Sik, Smith, Kristina M., Li, Weixi, Hood, Heather M., Staben, Chuck, ...
Telomeres and subtelomere regions have vital roles in cellular homeostasis and can facilitate niche adaptation. However, information on telomere/subtelomere structure is still limited to a small...
Protein phosphatase PP1 is required for normal DNA methylation in Neurospora
Adhvaryu, Keyur K., Selker, Eric U.
Covalent modifications of histones integrate intracellular and extracellular cues to regulate the genome. H3 Lys 9 methylation (H3K9me) can direct heterochromatin formation and DNA methylation, while...
Honda, Shinji, Selker, Eric U.
The completion of genome-sequencing projects for a number of fungi set the stage for detailed investigations of proteins. We report the generation of versatile expression vectors for detection and...
The Genome of Nectria haematococca: Contribution of Supernumerary Chromosomes to Gene Expansion
Coleman, Jeffrey J., Rounsley, Steve D., Rodriguez-Carres, Marianela, Kuo, Alan, Wasmann, Catherine C., Grimwood, Jane, ...
The ascomycetous fungus Nectria haematococca, (asexual name Fusarium solani), is a member of a group of >50 species known as the “Fusarium solani species complex”. Members of this complex have...
Relics of repeat-induced point mutation direct heterochromatin formation in Neurospora crassa
Lewis, Zachary A., Honda, Shinji, Khlafallah, Tamir K., Jeffress, Jennifer K., Freitag, Michael, Mohn, Fabio, ...
Both RNAi-dependent and -independent mechanisms have been implicated in the establishment of heterochromatin domains, which may be stabilized by feedback loops involving chromatin proteins and...