Draft Genome Sequence of Neurospora crassa Strain FGSC 73

Baker, Scott E.; Schackwitz, Wendy; Lipzen, Anna; Martin, Joel; Haridas, Sajeet; LaButti, Kurt; Grigoriev, Igor V.; Simmons, Blake A.; McCluskey, Kevin

doi:10.1128/genomeA.00074-15

Title: Draft Genome Sequence of Neurospora crassa Strain FGSC 73

Abstract

We report the elucidation of the complete genome of the Neurospora crassa (Shear and Dodge) strain FGSC 73, a mat-a, trp-3 mutant strain. The genome sequence around the idiotypic mating type locus represents the only publicly available sequence for a mat-a strain. 40.42 Megabases are assembled into 358 scaffolds carrying 11,978 gene models.

Authors:

^[1]; Schackwitz, Wendy ^[2]; Lipzen, Anna ^[2]; Martin, Joel ^[2]; Haridas, Sajeet ^[2]; LaButti, Kurt ^[2]; Grigoriev, Igor V. ^[2]; Simmons, Blake A. ^[3]; McCluskey, Kevin ^[4]

DOE Joint BioEnergy Institute, Emeryville, CA (United States); Pacific Northwest National Lab. (PNNL), Richland, WA (United States)
Pacific Northwest National Lab. (PNNL), Richland, WA (United States). Environmental Molecular Sciences Lab. (EMSL)
DOE Joint BioEnergy Institute, Emeryville, CA (United States); Sandia National Lab. (SNL-CA), Livermore, CA (United States)
Kansas State Univ., Manhattan, KS (United States). Fungal Genetics Stock Center

Publication Date:: Thu Apr 02 00:00:00 EDT 2015

Research Org.:: Sandia National Laboratories (SNL), Albuquerque, NM, and Livermore, CA (United States); Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Genomics Division

Sponsoring Org.:: USDOE Office of Science (SC), Biological and Environmental Research (BER); National Science Foundation (NSF)

OSTI Identifier:: 1214769

Alternate Identifier(s):: OSTI ID: 1214773; OSTI ID: 1215421; OSTI ID: 1221650; OSTI ID: 1242699

Report Number(s):: LBNL-177815
Journal ID: ISSN 2169-8287

Grant/Contract Number:: AC04-94AL85000; AC05-76RL01830; AC02-05CH11231

Resource Type:: Accepted Manuscript

Journal Name:: Genome Announcements

Additional Journal Information:: Journal Volume: 3; Journal Issue: 2; Journal ID: ISSN 2169-8287

Publisher:: American Society for Microbiology

Country of Publication:: United States

Language:: English

Subject:: 59 BASIC BIOLOGICAL SCIENCES

Citation Formats


                    Baker, Scott E., Schackwitz, Wendy, Lipzen, Anna, Martin, Joel, Haridas, Sajeet, LaButti, Kurt, Grigoriev, Igor V., Simmons, Blake A., and McCluskey, Kevin. Draft Genome Sequence of Neurospora crassa Strain FGSC 73.  United States: N. p., 2015. 
Web.  doi:10.1128/genomeA.00074-15.

Copy to clipboard


                    Baker, Scott E., Schackwitz, Wendy, Lipzen, Anna, Martin, Joel, Haridas, Sajeet, LaButti, Kurt, Grigoriev, Igor V., Simmons, Blake A., & McCluskey, Kevin. Draft Genome Sequence of Neurospora crassa Strain FGSC 73.  United States.  https://doi.org/10.1128/genomeA.00074-15

Copy to clipboard


                    Baker, Scott E., Schackwitz, Wendy, Lipzen, Anna, Martin, Joel, Haridas, Sajeet, LaButti, Kurt, Grigoriev, Igor V., Simmons, Blake A., and McCluskey, Kevin. Thu .  
"Draft Genome Sequence of Neurospora crassa Strain FGSC 73".  United States.  https://doi.org/10.1128/genomeA.00074-15.  https://www.osti.gov/servlets/purl/1214769.

Copy to clipboard


                    
@article{osti_1214769,

  title        = {Draft Genome Sequence of Neurospora crassa Strain FGSC 73},

  author       = {Baker, Scott E. and Schackwitz, Wendy and Lipzen, Anna and Martin, Joel and Haridas, Sajeet and LaButti, Kurt and Grigoriev, Igor V. and Simmons, Blake A. and McCluskey, Kevin},

  abstractNote = {We report the elucidation of the complete genome of the Neurospora crassa (Shear and Dodge) strain FGSC 73, a mat-a, trp-3 mutant strain. The genome sequence around the idiotypic mating type locus represents the only publicly available sequence for a mat-a strain. 40.42 Megabases are assembled into 358 scaffolds carrying 11,978 gene models.},

  doi          = {10.1128/genomeA.00074-15},

  journal      = {Genome Announcements},

  number       = 2,

  volume       = 3,

  place        = {United States},

  year         = {Thu Apr 02 00:00:00 EDT 2015},

  month        = {Thu Apr 02 00:00:00 EDT 2015}

}

Copy to clipboard

Journal Article:

Free Publicly Available Full Text

Accepted Manuscript (DOE)

Publisher's Version of Record

https://doi.org/10.1128/genomeA.00074-15

Other availability

Search WorldCat to find libraries that may hold this journal

Save / Share:

Export Metadata

Save to My Library

Works referenced in this record:

The genome sequence of the filamentous fungus Neurospora crassa
journal, April 2003

Galagan, James E.; Calvo, Sarah E.; Borkovich, Katherine A.
Nature, Vol. 422, Issue 6934
DOI: 10.1038/nature01554

Genetic Control of Biochemical Reactions in Neurospora
journal, November 1941

Beadle, G. W.; Tatum, E. L.
Proceedings of the National Academy of Sciences, Vol. 27, Issue 11
DOI: 10.1073/pnas.27.11.499

Indole and Serine in the Biosynthesis and Breakdown of Tryptophane
journal, February 1944

Tatum, E. L.; Bonner, D.
Proceedings of the National Academy of Sciences, Vol. 30, Issue 2
DOI: 10.1073/pnas.30.2.30

Effects of radiation on fungi
journal, June 1950

Tatum, E. L.
Journal of Cellular and Comparative Physiology, Vol. 35, Issue S1
DOI: 10.1002/jcp.1030350409

The Effects of Gene Change on Tryptophan Desmolase Formation
journal, March 1952

Yanofsky, C.
Proceedings of the National Academy of Sciences, Vol. 38, Issue 3
DOI: 10.1073/pnas.38.3.215

Bulk Segregant Analysis Followed by High-Throughput Sequencing Reveals the Neurospora Cell Cycle Gene, ndc-1 , To Be Allelic with the Gene for Ornithine Decarboxylase, spe-1
journal, April 2011

Pomraning, Kyle R.; Smith, Kristina M.; Freitag, Michael
Eukaryotic Cell, Vol. 10, Issue 6
DOI: 10.1128/EC.00016-11

Rediscovery by Whole Genome Sequencing: Classical Mutations and Genome Polymorphisms in Neurospora crassa
journal, September 2011

McCluskey, Kevin; Wiest, Aric E.; Grigoriev, Igor V.
G3: Genes|Genomes|Genetics, Vol. 1, Issue 4
DOI: 10.1534/g3.111.000307

Selection to sequence: opportunities in fungal genomics
journal, December 2009

Baker, Scott E.
Environmental Microbiology, Vol. 11, Issue 12
DOI: 10.1111/j.1462-2920.2009.02112.x

Molecular analysis of intragenic recombination at the tryptophan synthetase locus in Neurospora crassa
journal, December 2013

Wiest, A.; Barchers, D.; Eaton, M.
Journal of Genetics, Vol. 92, Issue 3
DOI: 10.1007/s12041-013-0305-4

Works referencing / citing this record:

Diverse data supports the transition of filamentous fungal model organisms into the post-genomics era
journal, January 2017

McCluskey, Kevin; Baker, Scott E.
Mycology, Vol. 8, Issue 2
DOI: 10.1080/21501203.2017.1281849

OcculterCut: A Comprehensive Survey of AT-Rich Regions in Fungal Genomes
journal, June 2016

Testa, Alison C.; Oliver, Richard P.; Hane, James K.
Genome Biology and Evolution, Vol. 8, Issue 6
DOI: 10.1093/gbe/evw121

Evolution and functional characterization of pectate lyase PEL12, a member of a highly expanded Clonostachys rosea polysaccharide lyase 1 family
journal, November 2018

Atanasova, Lea; Dubey, Mukesh; Grujić, Marica
BMC Microbiology, Vol. 18, Issue 1
DOI: 10.1186/s12866-018-1310-9

Similar Records in DOE PAGES and OSTI.GOV collections:

Draft Genome Sequence of Neurospora crassa Strain FGSC 73

Journal Article Baker, Scott E. ; Schackwitz, Wendy ; Lipzen, Anna ; ... - Genome Announcements

We report the elucidation of the complete genome of the Neurospora crassa (Shear and Dodge) strain FGSC 73, a mat-a, trp-3 mutant strain. The genome sequence around the idiotypic mating type locus represents the only publicly available sequence for a mat-a strain. 40.42 Megabases are assembled into 358 scaffolds carrying 11,978 gene models.
https://doi.org/10.1128/genomeA.00074-15
eth-1, the Neurospora crassa locus encoding S-adenosylmethionine synthetase: Molecular cloning, sequence analysis and in vivo overexpression

Journal Article Mautino, M R ; Barra, J L ; Rosa, A L - Genetics

Intense biochemical and genetic research on the eth-1 mutant of Neurospora crassa suggested that this locus might encode S-adenosylmethionine synthetase (S-Adomet synthetase). We have used protoplast transformation and phenotypic rescue of a thermosensitive phenotype associated with the eth-1 mutation to clone the locus. Nucleotide sequence analysis demonstrated that it encodes S-Adomet synthetase. Homology analyses of prokaryotic, fungal and higher eukaryotic S-Adomet synthetase polypeptide sequences show a remarkable evolutionary conservation of the enzyme. N. crassa strains carrying S-Adomet synthetase coding sequences fused to a strong heterologous promoter were constructed to assess the phenotypic consequences of in vivo S-Adomet synthetase overexpression. Studiesmore »« less
Massive Changes in Genome Architecture Accompany the Transition to Self-Fertility in the filamentous Fungus Neurospora tetrasperma

Journal Article Ellison, Christoper ; Stajich, Jason ; Jacobson, David ; ... - Genetics

A large region of suppressed recombination surrounds the sex-determining locus of the self-fertile fungus Neurospora tetrasperma. This region encompasses nearly one-fifth of the N. tetrasperma genome and suppression of recombination is necessary for self-fertility. The similarity of the N. tetrasperma mating chromosome to plant and animal sex chromosomes and its recent origin (5 MYA), combined with a long history of genetic and cytological research, make this fungus an ideal model for studying the evolutionary consequences of suppressed recombination. Here we compare genome sequences from two N. tetrasperma strains of opposite mating type to determine whether structural rearrangements are associated withmore »« less
https://doi.org/10.1534/genetics.111.130690

Full Text Available
Cloning and characterization of centromeric DNA from Neurospora crassa

Journal Article Centola, M ; Carbon, J - Molecular and Cellular Biology

The centromere locus from linkage group VII of Neurospora crassa has been cloned, characterized, and physically mapped. The centromeric DNA is contained within a 450-kb region that is recombination deficient, A+T-rich, and contains repetitive sequences. Repetitive sequences from within this region hybridize to a family of repeats located at or near centromeres in all seven linkage groups of N. crassa. Genomic Southern blots and sequence analysis of these repeats revealed a unique centromere structure containing a divergent family of centromere-specific repeats. The predominantly transitional differences between copies of the centromere-specific sequence repeats and their high A+T content suggest that theirmore »« less
https://doi.org/10.1128/MCB.14.2.1510
Inactivation of genes encoding subunits of the peripheral and membrane arms of neurospora mitochondrial complex I and effects on enzyme assembly

Journal Article Duarte, M ; Videira, A ; Sousa, R - Genetics

We have isolated and characterized the nuclear genes encoding the 12.3-kD subunit of the membrane arm and the 29.9-kD subunit of the peripheral arm of complex I from Neurospora crassa. The former gene was known to be located in linkage group I and the latter is now assigned to linkage group IV of the fungal genome. The genes were separately transformed into different N. crassa strains and transformants with duplicated DNA sequences were isolated. Selected transformants were then mated with other strains to generate repeat-induced point mutations in both copies of the genes present in the nucleus of the parentalmore »« less

Similar Records

Title: Draft Genome Sequence of Neurospora crassa Strain FGSC 73

Abstract

Citation Formats

The genome sequence of the filamentous fungus Neurospora crassa journal, April 2003

Genetic Control of Biochemical Reactions in Neurospora journal, November 1941

Indole and Serine in the Biosynthesis and Breakdown of Tryptophane journal, February 1944

Effects of radiation on fungi journal, June 1950

The Effects of Gene Change on Tryptophan Desmolase Formation journal, March 1952

Bulk Segregant Analysis Followed by High-Throughput Sequencing Reveals the Neurospora Cell Cycle Gene, ndc-1 , To Be Allelic with the Gene for Ornithine Decarboxylase, spe-1 journal, April 2011

Rediscovery by Whole Genome Sequencing: Classical Mutations and Genome Polymorphisms in Neurospora crassa journal, September 2011

Selection to sequence: opportunities in fungal genomics journal, December 2009

Molecular analysis of intragenic recombination at the tryptophan synthetase locus in Neurospora crassa journal, December 2013

Diverse data supports the transition of filamentous fungal model organisms into the post-genomics era journal, January 2017

OcculterCut: A Comprehensive Survey of AT-Rich Regions in Fungal Genomes journal, June 2016

Evolution and functional characterization of pectate lyase PEL12, a member of a highly expanded Clonostachys rosea polysaccharide lyase 1 family journal, November 2018

The genome sequence of the filamentous fungus Neurospora crassa
journal, April 2003

Genetic Control of Biochemical Reactions in Neurospora
journal, November 1941

Indole and Serine in the Biosynthesis and Breakdown of Tryptophane
journal, February 1944

Effects of radiation on fungi
journal, June 1950

The Effects of Gene Change on Tryptophan Desmolase Formation
journal, March 1952

Bulk Segregant Analysis Followed by High-Throughput Sequencing Reveals the Neurospora Cell Cycle Gene, ndc-1 , To Be Allelic with the Gene for Ornithine Decarboxylase, spe-1
journal, April 2011

Rediscovery by Whole Genome Sequencing: Classical Mutations and Genome Polymorphisms in Neurospora crassa
journal, September 2011

Selection to sequence: opportunities in fungal genomics
journal, December 2009

Molecular analysis of intragenic recombination at the tryptophan synthetase locus in Neurospora crassa
journal, December 2013

Diverse data supports the transition of filamentous fungal model organisms into the post-genomics era
journal, January 2017

OcculterCut: A Comprehensive Survey of AT-Rich Regions in Fungal Genomes
journal, June 2016

Evolution and functional characterization of pectate lyase PEL12, a member of a highly expanded Clonostachys rosea polysaccharide lyase 1 family
journal, November 2018