Nicole Donofrio

Works (7)

Updated: July 5th, 2023 15:57

2018 article

Characterizing Small RNAs in Filamentous Fungi Using the Rice Blast Fungus, Magnaporthe oryzae, as an Example

Raman, V., Meyers, B. C., Dean, R. A., & Donofrio, N. M. (2018, January 1). Methods in Molecular Biology, Vol. 1848, pp. 53–66.

By: V. Raman *, B. Meyers *, R. Dean n  & N. Donofrio*

author keywords: sRNAs; Small interfering RNAs; CPA-sRNAs; RNAseq; Fungus
MeSH headings : Computational Biology / methods; Gene Library; Magnaporthe / genetics; Oryza / microbiology; Plant Diseases / microbiology; RNA, Fungal; RNA, Small Untranslated; Software; User-Computer Interface
topics (OpenAlex): Genomics and Phylogenetic Studies; Plant-Microbe Interactions and Immunity; Protist diversity and phylogeny
TL;DR: Protocols for comparative analysis of sRNAs in different conditions, comparisons of sRNA libraries to RNAseq data and identification and analysis of methylguanosine-capped and polyadenylated s RNAs (CPA-sRNAs) are presented. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: May 13, 2019

2008 article

Transcriptome analysis reveals new insight into appressorium formation and function in the rice blast fungus Magnaporthe oryzae

Oh, Y., Donofrio, N., Pan, H., Coughlan, S., Brown, D. E., Meng, S., … Dean, R. A. (2008, May 20). Genome Biology, Vol. 9.

By: Y. Oh n, N. Donofrio n, H. Pan n, S. Coughlan*, D. Brown n, S. Meng n, T. Mitchell n, R. Dean n 

MeSH headings : Cell Wall / chemistry; Cell Wall / metabolism; Fungal Proteins / genetics; Fungal Proteins / metabolism; Gene Expression Profiling; Gene Expression Regulation, Fungal; Lipid Metabolism; Magnaporthe / cytology; Magnaporthe / genetics; Magnaporthe / physiology; Signal Transduction; Spores, Fungal / cytology; Spores, Fungal / genetics
topics (OpenAlex): Fungal and yeast genetics research; Plant-Microbe Interactions and Immunity; Microbial Natural Products and Biosynthesis
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2007 article

A systematic analysis of T-DNA insertion events in Magnaporthe oryzae

Meng, Y., Patel, G., Heist, M., Betts, M. F., Tucker, S. L., Galadima, N., … Farman, M. L. (2007, April 17). Fungal Genetics and Biology, Vol. 44, pp. 1050–1064.

By: Y. Meng *, G. Patel *, M. Heist*, M. Betts *, S. Tucker*, N. Galadima*, N. Donofrio n, D. Brown n ...

author keywords: agrobacterium-mediated transformation; insertional mutagenesis; inverse PCR
MeSH headings : 3' Flanking Region; 5' Flanking Region; Agrobacterium tumefaciens / genetics; Chromosomes, Fungal; DNA, Bacterial / analysis; DNA, Bacterial / genetics; Genome, Fungal; Magnaporthe / genetics; Mutagenesis, Insertional; Repetitive Sequences, Nucleic Acid; Transformation, Genetic
topics (OpenAlex): Protist diversity and phylogeny; Fungal and yeast genetics research; CRISPR and Genetic Engineering
TL;DR: Analysis of random T-DNA insertions that were generated as part of a large-scale insertional mutagenesis project for Magnaporthe oryzae found that the distribution of T- DNA inserts among the M.Oryzae chromosomes was not random and significant insertion bias was detected. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2007 article

Development of a high throughput transformation system for insertional mutagenesis in Magnaporthe oryzae

Betts, M. F., Tucker, S. L., Galadima, N., Meng, Y., Patel, G., Li, L., … Orbach, M. J. (2007, May 19). Fungal Genetics and Biology, Vol. 44, pp. 1035–1049.

By: M. Betts *, S. Tucker*, N. Galadima*, Y. Meng *, G. Patel *, L. Li *, N. Donofrio n, A. Floyd n ...

author keywords: Magnaporthe oryzae; Insertional mutagenesis; Agrobacterium tumefaciens-mediated transformation; CaCl2/PEG-mediated transformation; pathogenicity
MeSH headings : 3' Flanking Region; 5' Flanking Region; Agrobacterium tumefaciens / genetics; Magnaporthe / genetics; Mutagenesis, Insertional / methods; Phenotype; Protoplasts; Transformation, Genetic
topics (OpenAlex): Plant Pathogens and Fungal Diseases; Fungal Biology and Applications; Plant tissue culture and regeneration
TL;DR: A description of the high throughput transformation and analysis pipeline used to create the most comprehensive insertional mutagenesis analysis of a fungal pathogen is provided. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2006 article

Global gene expression during nitrogen starvation in the rice blast fungus, Magnaporthe grisea

Donofrio, N. M., Oh, Y., Lundy, R., Pan, H., Brown, D. E., Jeong, J. S., … Dean, R. A. (2006, June 1). Fungal Genetics and Biology, Vol. 43, pp. 605–617.

By: N. Donofrio n, Y. Oh  n, R. Lundy n, H. Pan n, D. Brown n, J. Jeong n, S. Coughlan*, T. Mitchell n, R. Dean n 

author keywords: nitrogen limitation; GATA transcription factors; metabolism; SPM1; protease; targeted gene disruption; pathogenicity
MeSH headings : Amino Acids / metabolism; Binding Sites; Biological Transport / genetics; DNA-Binding Proteins / genetics; GATA Transcription Factors / metabolism; Gene Expression; Gene Expression Regulation, Fungal; Genes, Fungal; Magnaporthe / genetics; Magnaporthe / pathogenicity; Nitrogen / metabolism; Oligonucleotide Array Sequence Analysis; Oryza / metabolism; Oryza / microbiology; Plant Diseases / microbiology; Promoter Regions, Genetic; Serine Endopeptidases / genetics
topics (OpenAlex): Fungal and yeast genetics research; Mycorrhizal Fungi and Plant Interactions; Plant-Microbe Interactions and Immunity
TL;DR: A genome-wide analysis of gene expression under nitrogen-limiting conditions in the rice blast pathogen Magnaporthe grisea resulted in targeted gene replacement on the vacuolar serine protease, SPM1, resulting in decreased sporulation and appressorial development as well as a greatly attenuated ability to cause disease. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2005 journal article

PACLIMS: A component LIM system for high-throughput functional genomic analysis

BMC Bioinformatics, 6.

By: N. Donofrio, R. Rajagopalon, D. Brown, S. Diener, D. Windham, S. Nolin, A. Floyd, T. Mitchell ...

Source: NC State University Libraries
Added: August 6, 2018

2005 article

The genome sequence of the rice blast fungus Magnaporthe grisea

Dean, R. A., Talbot, N. J., Ebbole, D. J., Farman, M. L., Mitchell, T. K., Orbach, M. J., … Birren, B. W. (2005, April 1). Nature, Vol. 434, pp. 980–986.

By: R. Dean n , N. Talbot *, D. Ebbole *, M. Farman *, T. Mitchell n, M. Orbach *, M. Thon *, R. Kulkarni n ...

MeSH headings : Fungal Proteins / genetics; Fungal Proteins / metabolism; Genes, Fungal / genetics; Genome, Fungal; Guanosine Diphosphate / metabolism; Guanosine Triphosphate / metabolism; Magnaporthe / classification; Magnaporthe / genetics; Magnaporthe / metabolism; Magnaporthe / pathogenicity; Oryza / microbiology; Plant Diseases / microbiology; Point Mutation / genetics; Proteome / genetics; Proteome / metabolism; Receptors, G-Protein-Coupled / genetics; Repetitive Sequences, Nucleic Acid / genetics; Saccharomyces cerevisiae / metabolism; Signal Transduction; Virulence / genetics
topics (OpenAlex): Fungal and yeast genetics research; Plant-Microbe Interactions and Immunity; Microbial Natural Products and Biosynthesis
TL;DR: The draft sequence of the M. grisea genome is reported, reflecting the clonal nature of this fungus imposed by widespread rice cultivation and analysis of the gene set provides an insight into the adaptations required by a fungus to cause disease. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

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