Crosby:Publication

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==Research Outline==
==Research Outline==
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Research interests centre on elucidating the role of the SCF subclass of E3-Ubiquitin ligases in the regulation of plant patterning and development, with an emphasis on the model plant species Arabidopsis thaliana. Additional interests include the application and development of Bioinformatics and Systems Biology tools for functional Genomics.
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Currently the lab has two main research themes:
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'''1-  Functional Analysis of SKP1 orthologs in Arabidopsis:
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Protein degradation is an important post-transcriptional gene regulatory process that allows cells to respond rapidly to changing environmental conditions by adjusting the steady state abundance of key proteins that regulate environmental responses, patterning and development. One major process for targeted proteolysis in eukaryotes involves the Ubiquitin (Ub)/26S proteasome pathway, in which proteins destined for degradation become modified by the covalent attachment of multiple Ub molecules under the action of E3 Ligase complexes, followed by degradation via the 26s proteosome.
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SCF ligase a well charctrized subclass of E3 Ligases exhibits a quaternary structure that includes Cullin1/Cdc53, Rbx1/Roc1/Hrt1, Skp1, and F-box protein subunits. Structural analysis of a human SCF complex has shown that the Skp1p component acts as an adapter that associates Cullin to the F-box protein in the functional complex.
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The Arabidopsis genome contains 21 known or predicted Skp1-like (ASK) genes compared to only a single gene in both Baker's Yeast (S. cerevisiae) and Humans. The large number of ASK genes may reflect the unique adaptive strategy of plants versus animals, where plants are well-adapted to rapidly adjust their metabolic and developmental profiles in response to changing environmental conditions. All known or predicted products of the ASK gene family are believed to be part of SCF complexes (E3 Ligases) but this has been directly demonstrated for only two of the genes in Arabidopsis - ASK1 and ASK2.
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Functional studies of a subset of the predicted ASK family of genes are being carried out using initially a reverse genetic approach. Artificial miRNA (amiRNA) constructs will be used to simultaneously interfere with the expression of single or multiple genes via a Dicer mechanism targeting common transcript sequences, we are also in the process of developing novel approacehes to assess and characterize the regulatory pathways that are subject to hierarchical control via the 26S ubiquitinylation-mediated activity of select ASK genes.
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'''2-Castor as a Next-Generation Crop for the Biorenewable Chemical and Energy Sectors:
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A combination of market pressures have resulted in significant increases in consumption and associated cost of petroleum-based energy. These forces have co-emerged with improvements in fuel production technology, such that fuels derived from biorenewable plant-based chemical feedstocks are now a viable opportunity within the global energy sector.
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The global biorenewable fuels industry, while expanding rapidly in both size and value, is nevertheless confronted with significant obstacles to future growth. Chief among these is the limited availability and cost of input agricultural feedstocks – particularly those based on food crops (e.g. corn starch, Canola oil and soybean oil) for ethanol or biodiesel production
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Castor meets all these criteria, and is particularly attractive as a novel source of biorenewable oil feedstocks for the liquid fuel transportation sector. In this project we propose to develop and use advanced genomics tools to develop the Castor plant (Ricinus communis L.) as a non-food source of biorenewable energy. The specific project objectives include completion of the Castor genome sequence to a high quality, as a prerequisite to developing expression arrays, whole genome tiling arrays and reverse-genetic resources that will accelerate development of the crop into the Ontario regional and national sectors.

Revision as of 13:57, 29 July 2010

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Research Outline

Currently the lab has two main research themes:

1- Functional Analysis of SKP1 orthologs in Arabidopsis: Protein degradation is an important post-transcriptional gene regulatory process that allows cells to respond rapidly to changing environmental conditions by adjusting the steady state abundance of key proteins that regulate environmental responses, patterning and development. One major process for targeted proteolysis in eukaryotes involves the Ubiquitin (Ub)/26S proteasome pathway, in which proteins destined for degradation become modified by the covalent attachment of multiple Ub molecules under the action of E3 Ligase complexes, followed by degradation via the 26s proteosome. SCF ligase a well charctrized subclass of E3 Ligases exhibits a quaternary structure that includes Cullin1/Cdc53, Rbx1/Roc1/Hrt1, Skp1, and F-box protein subunits. Structural analysis of a human SCF complex has shown that the Skp1p component acts as an adapter that associates Cullin to the F-box protein in the functional complex. The Arabidopsis genome contains 21 known or predicted Skp1-like (ASK) genes compared to only a single gene in both Baker's Yeast (S. cerevisiae) and Humans. The large number of ASK genes may reflect the unique adaptive strategy of plants versus animals, where plants are well-adapted to rapidly adjust their metabolic and developmental profiles in response to changing environmental conditions. All known or predicted products of the ASK gene family are believed to be part of SCF complexes (E3 Ligases) but this has been directly demonstrated for only two of the genes in Arabidopsis - ASK1 and ASK2. Functional studies of a subset of the predicted ASK family of genes are being carried out using initially a reverse genetic approach. Artificial miRNA (amiRNA) constructs will be used to simultaneously interfere with the expression of single or multiple genes via a Dicer mechanism targeting common transcript sequences, we are also in the process of developing novel approacehes to assess and characterize the regulatory pathways that are subject to hierarchical control via the 26S ubiquitinylation-mediated activity of select ASK genes.

2-Castor as a Next-Generation Crop for the Biorenewable Chemical and Energy Sectors: A combination of market pressures have resulted in significant increases in consumption and associated cost of petroleum-based energy. These forces have co-emerged with improvements in fuel production technology, such that fuels derived from biorenewable plant-based chemical feedstocks are now a viable opportunity within the global energy sector. The global biorenewable fuels industry, while expanding rapidly in both size and value, is nevertheless confronted with significant obstacles to future growth. Chief among these is the limited availability and cost of input agricultural feedstocks – particularly those based on food crops (e.g. corn starch, Canola oil and soybean oil) for ethanol or biodiesel production Castor meets all these criteria, and is particularly attractive as a novel source of biorenewable oil feedstocks for the liquid fuel transportation sector. In this project we propose to develop and use advanced genomics tools to develop the Castor plant (Ricinus communis L.) as a non-food source of biorenewable energy. The specific project objectives include completion of the Castor genome sequence to a high quality, as a prerequisite to developing expression arrays, whole genome tiling arrays and reverse-genetic resources that will accelerate development of the crop into the Ontario regional and national sectors.

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