The central goal of the three interdependent efforts in this Program Project builds upon successful functional genomics, annotation, and expression analyses of Neurospora crassa, a premier filamentous fungus model for over 250,000 species of non-yeast fungi. A primary goal, targeted through molecular, cell biological, genomic and computational approaches, will be to understand how N. crassa transitions from mycelial growth to complete asexual spore development. We will focus on two key triggers of asexual development: light and desiccation. In addition, we will leverage our prior successes to expand systematic knockouts to an additional prominent model system, Aspergillus nidulans. Neurospora is a salient model for basic research in eukaryotes, as is Aspergillus, and fungi allied to these species include most animal and plant pathogens as well as industrial strains yielding antibiotics, chemicals, enzymes, and Pharmaceuticals. Gene predictions among the 9846 genes encoded by the fully sequenced 43 Mb Neurospora genome are supported by over 250,000 ESTs derived from this P01. During the past 4 years, we revolutionized the tools and techniques for gene knockouts in filamentous fungi and exceeded our initial goal by over 40%. Project #1 will complete the Neurospora gene knockouts and extend the systematic disruption of genes to Aspergillus. We will develop strains, tools, and background information in support of Projects #2 and #3, and of the overarching goal of understanding regulatory pathways governing filamentous fungal development. Projects #2 and #3 will aim to describe and reconstruct the cascading regulatory programs that underlie N. crassa's developmental response to light and air, from the level of chromatin structure through the gene regulatory network. Project #3 will use ChIP-seq mapping of histone modifications, transcription factor binding sites, sites of DNA methylation and nucleosome occupancy with corresponding transcriptome measurements to generate a deep description of genome and epigenome dynamics. Project #2, in an informatic-intensive systems biology approach, will integrate these data and use computational modeling to develop predictive models of the interconnected light and asexual development gene regulatory networks. These models will be fleshed out tested through incorporation of new data arising from Project #3 and refined via perturbation analyses facilitated through the use of strains developed in Project #1 and characterized using the tools employed in Project #3. This effort will anchor, promote, and exploit genomic exploration within model systems that provide gateways to the Kingdom of the Fungi.

Public Health Relevance

Filamentous fungi, typically known as molds, are common animal and plant pathogens, but they are also widely used as industrial strains to provide antibiotics, chemicals, enzymes, and Pharmaceuticals. We'd be dead without them but they can kill us. We seek to understand how genes and proteins work together to regulate fungal growth and development, so as to enhance the good things and control the bad things produced by fungi.

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Research Program Projects (P01)
Project #
5P01GM068087-10
Application #
8466985
Study Section
Special Emphasis Panel (ZRG1-GGG-M)
Project Start
Project End
Budget Start
2013-04-01
Budget End
2014-03-31
Support Year
10
Fiscal Year
2013
Total Cost
$531,927
Indirect Cost
$25,457
Name
Dartmouth College
Department
Type
DUNS #
041027822
City
Hanover
State
NH
Country
United States
Zip Code
03755
Wang, Zheng; Wang, Junrui; Li, Ning et al. (2017) Light sensing by opsins and fungal ecology: NOP-1 modulates entry into sexual reproduction in response to environmental cues. Mol Ecol :
Decker, Logan M; Xiao, Hua; Boone, Erin C et al. (2017) The Nuclear Cap-Binding Complex Mediates Meiotic Silencing by Unpaired DNA. G3 (Bethesda) 7:1149-1155
Ivanov, Ivaylo P; Wei, Jiajie; Caster, Stephen Z et al. (2017) Translation Initiation from Conserved Non-AUG Codons Provides Additional Layers of Regulation and Coding Capacity. MBio 8:
Havlik, David; Brandt, Ulrike; Bohle, Kathrin et al. (2017) Establishment of Neurospora crassa as a host for heterologous protein production using a human antibody fragment as a model product. Microb Cell Fact 16:128
Dekhang, Rigzin; Wu, Cheng; Smith, Kristina M et al. (2017) The Neurospora Transcription Factor ADV-1 Transduces Light Signals and Temporal Information to Control Rhythmic Expression of Genes Involved in Cell Fusion. G3 (Bethesda) 7:129-142
Nguyen, Tu Anh; Cissé, Ousmane H; Yun Wong, Jie et al. (2017) Innovation and constraint leading to complex multicellularity in the Ascomycota. Nat Commun 8:14444
De Souza, Colin P; Hashmi, Shahr B; Hage, Natalie et al. (2017) Location and functional analysis of the Aspergillus nidulans Aurora kinase confirm mitotic functions and suggest non-mitotic roles. Fungal Genet Biol 103:1-15
Samarajeewa, Dilini A; Manitchotpisit, Pennapa; Henderson, Miranda et al. (2017) An RNA Recognition Motif-Containing Protein Functions in Meiotic Silencing by Unpaired DNA. G3 (Bethesda) 7:2871-2882
Carrillo, Alexander J; Schacht, Patrick; Cabrera, Ilva E et al. (2017) Functional Profiling of Transcription Factor Genes in Neurospora crassa. G3 (Bethesda) 7:2945-2956
Weichert, Martin; Lichius, Alexander; Priegnitz, Bert-Ewald et al. (2016) Accumulation of specific sterol precursors targets a MAP kinase cascade mediating cell-cell recognition and fusion. Proc Natl Acad Sci U S A 113:11877-11882

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