Progress 09/01/05 to 08/31/10
Outputs
OUTPUTS: Outouts: We developed web resources for recruiting students, and we now have a website (http://www.cals.cornell.edu/cals/plpath/research/plant-microbe-biolo gy.cfm) that highlights Functional Genomics and Proteomics research that is associated with both the Department and the Field of Plant-Pathology and Plant-Microbe Biology at Cornell. DISSEMINATION: Students participate in national meetings and present student seminars for their respective graduate fields. PARTICIPANTS: INDIVIDUALS: PIs: Rosemary Loria, Alan Collmer Graduate students: Alan Chambers, Jay Worley PARTNER ORGANIZATIONS: USDA/ARS TRAINING: Graduate student training TARGET AUDIENCES: Graduate students studying plant-microbe interactions. PROJECT MODIFICATIONS: Not relevant to this project.
Impacts
OUTCOMES: Alan Chambers and Jay Worley, who are members of the Graduate Field of Plant Pathology and Plant-Microbe Biology and the Graduate Field of Microbiology, respectively. Both students performed multiple rotations in labs using genomic approaches and both students took PLPA608/BIOMI608 Genomics of Bacterium-Host Interactions, in which a capstone activity was identification and annotation of candidate virulence genes in the draft genome of the potential multikingdom pathogen Pseudomonas mendocina. Both students are pursuing genome-enabled research involving the plant pathogen Pseudomonas syringae pv. tomato DC3000: Chambers in the lab of Samuel Cartinhour, focusing on the regulatory networks controlling virulence, and Worley in the lab of Alan Collmer, focusing on the functional genomics of type III effectors. Student training is fostered through presentations in lab meetings and research progress seminars in their respective fields. One lesson learned in project management is the importance of web resources for recruiting students, and we now have a website (http://www.cals.cornell.edu/cals/plpath/research/plant-microbe-biolo gy.cfm) that highlights Functional Genomics and Proteomics research that is associated with both the Department and the Field of Plant-Pathology and Plant-Microbe Biology at Cornell.
Publications
- No publications reported this period
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Progress 09/01/08 to 08/31/09
Outputs
Alan Chambers and Jay Worley, who are members of the Graduate Field of Plant Pathology and Plant-Microbe Biology and the Graduate Field of Microbiology, respectively. Both students performed multiple rotations in labs using genomic approaches and both students took PLPA608/BIOMI608 Genomics of Bacterium-Host Interactions, in which a capstone activity was identification and annotation of candidate virulence genes in the draft genome of the potential multikingdom pathogen Pseudomonas mendocina. Both students are pursuing genome-enabled research involving the plant pathogen Pseudomonas syringae pv. tomato DC3000: Chambers in the lab of Samuel Cartinhour, focusing on the regulatory networks controlling virulence, and Worley in the lab of Alan Collmer, focusing on the functional genomics of type III effectors. Student training is fostered through presentations in lab meetings and research progress seminars in their respective fields. One lesson learned in project management is the importance of web resources for recruiting students, and we now have a website (http://www.cals.cornell.edu/cals/plpath/research/plant-microbe-biolo gy.cfm) that highlights Functional Genomics and Proteomics research that is associated with both the Department and the Field of Plant-Pathology and Plant-Microbe Biology at Cornell. PRODUCTS: We developed web resources for recruiting students, and we now have a website (http://www.cals.cornell.edu/cals/plpath/research/plant-microbe-biolo gy.cfm) that highlights Functional Genomics and Proteomics research that is associated with both the Department and the Field of Plant-Pathology and Plant-Microbe Biology at Cornell. OUTCOMES: Alan Chambers and Jay Worley, who are members of the Graduate Field of Plant Pathology and Plant-Microbe Biology and the Graduate Field of Microbiology, respectively. Both students performed multiple rotations in labs using genomic approaches and both students took PLPA608/BIOMI608 Genomics of Bacterium-Host Interactions, in which a capstone activity was identification and annotation of candidate virulence genes in the draft genome of the potential multikingdom pathogen Pseudomonas mendocina. Both students are pursuing genome-enabled research involving the plant pathogen Pseudomonas syringae pv. tomato DC3000: Chambers in the lab of Samuel Cartinhour, focusing on the regulatory networks controlling virulence, and Worley in the lab of Alan Collmer, focusing on the functional genomics of type III effectors. Student training is fostered through presentations in lab meetings and research progress seminars in their respective fields. One lesson learned in project management is the importance of web resources for recruiting students, and we now have a website (http://www.cals.cornell.edu/cals/plpath/research/plant-microbe-biolo gy.cfm) that highlights Functional Genomics and Proteomics research that is associated with both the Department and the Field of Plant-Pathology and Plant-Microbe Biology at Cornell. DISSEMINATION ACTIVITIES: Students participate in national meetings and present student seminars for their respective graduate fields. FUTURE INITIATIVES: Nothing new to report.
Impacts
We are training two students in the genomics of bacterium-host interactions, an important national need:
Publications
- Bignell, R.D., R.F. Seipke, J. Huguet-Tapia, A. H. Chambers, R. J. Parry, and R. Loria . 2009. 4-Nitrotryptophan is a substrate for the non-ribosomal peptide synthetase TxtB in the thaxtomin A biosynthetic pathway. Mol Micro 73:409-418.
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Progress 09/01/07 to 08/31/08
Outputs
We are developing a comprehensive graduate training program in the genomics of plant pathogenic microbes. We have recruited two highly qualified PhD students to this program. This graduate program is a collaborative effort of the graduate fields of Plant Pathology and Microbiology at Cornell University, allowing students to obtain a PhD degree either in Microbiology or Plant Pathology. We have recruited one student into each of these graduate fields. The Microbiology degree candidate is working in Alan Collmer's laboratory on the bioinformatic and functional analysis of Type III effector proteins in Pseudomonas syringae. The Plant Pathology degree candidate is working in the laboratory of Samuel Cartinhour, a USDA scientist and adjunct professor in the Department of Plant Pathology at Cornell Universtiy. Work in the Cartinhour laboratory focuses on bioinformatic and high through put functional genomics of bacterial physiology, as affected by environmental influences. faculty members who have been selected to participate in this training program are all conducting genomics research on bacterial or fungal plant pathogens, have competitively funded, productive research programs, and are actively engaged in graduate education. PRODUCTS: A graduate level seminar course for discussion of cutting edge genomics technologies has been established and is attended by PhD level students, Postdoctoral scientists, and faculty. Faculty mentors for bioinformatic research are available to participants. OUTCOMES: Two students have been recruited to the program with funding from the grant. One female PhD student who has participated in this training program, though is funded from other sources, has completed her dissertation based on genomic analysis of microbial pathogenicity. Another minority student who is also participating is getting specialized training in bioinformatics of prokaryotes DISSEMINATION ACTIVITIES: CONFERENCES AND SEMINARS Students and postdoctoral scientists have presented posters and presentations at national and international scientific meetings. Students and postdoctoral scientists have presented seminars at retreats and in department seminar series at Cornell University. FUTURE INITIATIVES: We intend to expand graduate level course offerings in bioinformatics and integrate undergraduate research into the training program.
Impacts
We will provide highly trained PhD level scientists for university and USDA positions that support the success of US agriculture in the area of genomics research and education.
Publications
- No publications reported this period
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Progress 09/01/06 to 08/31/07
Outputs
We are developing a comprehensive graduate training program in the genomics of plant pathogenic microbes. We are recruiting highly qualified students. This graduate program will be a collaborative effort of the graduate fields of Plant Pathology and Microbiology at Cornell University, allowing students to obtain a PhD degree either in Microbiology or Plant Pathology. The faculty members who have been selected to participate in this training program are all conducting genomics research on bacterial or fungal plant pathogens, have competitively funded, productive research programs, and are actively engaged in graduate education.
PRODUCTS: A graduate level seminar course for discussion of cutting edge genomics technologies has been established and is attended by PhD level students, Postdoctoral scientists, and faculty. Faculty mentors for bioinformatic research are available to participants.
OUTCOMES: Two students have been recruited to the program with funding from the grant. One female PhD student who has participated in this training program, though is funded from other sources, has completed her dissertation based on genomic analysis of microbial pathogenicity. Another minority student who is also participating is getting specialized training in bioinformatics of prokaryotes.
DISSEMINATION ACTIVITIES: Students and postdoctoral scientists have presented posters and presentations at national and international scientific meetings. Students and postdoctoral scientists have presented seminars at retreats and in department seminar series at Cornell University.
FUTURE INITIATIVES: We intend to expand graduate level course offerings in bioinformatics and integrate undergraduate research into the training program.
Impacts
We will provide highly trained PhD level scientists for university and USDA positions that support the success of US agriculture in the area of genomics research and education.
Publications
- No publications reported this period
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Progress 09/01/05 to 09/01/06
Outputs
The primary objective was to establish a new graduate training program in the genomics of plant pathogenic microbes and to train PhD level students to utilize rich genomic resources in the development of sustainable agricultural practices. We have established this program and are implementing a novel, participatory curriculum. The training program has been the impetus for increased collaboration of Cornell and USDA/ARS researchers in graduate student and postgraduate training. This program is attracting high caliber students to agriculturally relevant careers. Through this grant we have partial support for two PhD students. One has been recruited and we are in the process of recruiting an additional student.
PRODUCTS: The products of the project are: 1) partial funding for two PhD graduate students 2) A new and novel graduate student training program 3) Several new graduate level courses in genomics and bioinformatics 4) The development of a cross disciplinary group of faculty mentors from several departments and the USDA/ARS.
OUTCOMES: A model graduate training program in the genomics of plant pathogenic microbes which will be emulated at other universities. The program will produce two outstanding PhD scientists who will contribute to the development of a technologically advanced agricultural industry, through the utilization of genomics technologies for sustainable plant disease control.
DISSEMINATION ACTIVITIES: The project is not yet at the stage where dissemination activities involving the public are appropriate.
FUTURE INITIATIVES: This model training program that will allow us to attract additional internal and external funding for graduate education in the genomics of plant pathogenic microbes. The students trained will play an important role in improving the competitiveness of agriculture in the United States.
Impacts
The project is attracting high caliber students to PhD this training program. This will result in at least two additional scientists available to serve agriculture and the public in academic or goverment positions in the future, when there will be a deficit in appropriately trained scientists for agricultural positions.
Publications
- No publications reported this period
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