Progress 08/15/08 to 08/14/10
Outputs
OUTPUTS: This project has been successfully completed and has resulted in significant output for the researcher. The purpose of this sabbattical grant was to learn new techniques for the study of pathogens and the application of genomics and genome sequening in pahtogens of animal production which could be applied to food safety research. Some of the highlights of the research include publications in pathogenesis and food safety (see below), an additional research grant to support genome sequening inititives at NDSU which is currently ongoing. The PI was able to train for one year with mentors at Iowa State University and then continue research projects started the following summer after the initial one year placement was completed. Training included undestanding the process of sequening, how to design approaches for genome alignment, software use, gap closure and annotation. The PI was able to work directy on projects already in the mentors' labs and work on their genomes as well as receive hands on training in how to handle genomes that were brought with her. The PI was also able to avail of training workshops offered during the sabbattical including a training workshop in genome annotation through the J Craig Venter Institute (JCVI) and in the College of Veterinary Medicine at ISU for writing research grants for different federal agencies such as the NIH and NSF. Results of the research were primarily disseminated to scientific audiences through professional meeting participation where the data and research was presented in an oral or poster format. The information was also disseminated through peer reviewed publications in professional journals of the PIs field. Finally the PI of the grant has implemented some of the training received in her home lab and has been able to icorporate training and research for her current graduate students. PARTICIPANTS: The PI of project Catherine M. Logue (NDSU), Mentors Lisa K. Nolan and Qijing Zhang (ISU) other students who have benefited as a result of the PIs training include Shana Petermann, Ellen Lutgen Ryan Koslofsky, Ryan Stepan, Valeria Velasco, and Esra Buyukangaz TARGET AUDIENCES: Target audiences for this research include fellow researchers in food safety and foodborne pathogen research, individuals in the field of genomes and genomic research, regulators and federal agencies with an interest in the genoomic basis of foodborne disease and its control. PROJECT MODIFICATIONS: Not relevant to this project.
Impacts
This project has trained the PI in approaches in the use sequencing and genome sequening for the characterization of pathogens. Although most of the training involved E. coli, the PI was able to translate the research to pathogens that are currently being studied in her lab - these indlude Salmonella and Campylobacter. Because of the training, the PI was able to bring back to NDSU new expertise in genome sequencing and analysis, a paper is in progress using molecular aproaches and sequence analysis for Salmonella from humans and animals. This data was presented to fellow researchers at the bacterial pathogenesis conference, Prato, Italy (Oct 2010) and will become a paper in Veterinary Microbiology as part of the proceedings of the meeting. In addition, the PI has started to train her current graduate students in the use of molecular tools such as genome sequening for research projects ongoing in the lab, one student will use the training to close the genome of a Campylobacter fetus, another will use the training to help in completing the closure of a Salmonella genome and its associated plasmids. The PI of this grant has shared the research with fellow researchers at the national and international level and was able to use the data and experience to secure additional resarch funding through the NDSU Advance FORWARD program to sequence two additional genomes of Campylobacter implicated in a human disease outbreak and from a bovine host. Genome closure and annotation of these new genomes is currently ongoing and may be completed by early 2011. The PI also anticipates using her experiences to develop training modules at the graduate level for students interested in learning of sequence-based approaches in comparative analysis of genomes. It is anticipated that these modules will beocme available later in 2011. The PI has also gained new experiences in the study of pathogenesis of E. coli in avian models. This entailed learning approaches for modeling the growth and infection patterns of disease in poultry and embryos. This training will have application in the use of animal models for studying pathogens of human disease from food animal sources. Based on the experiences gained through this sabbattical our research lab now has the knowledge and expertise in place to expand our research capabilities to include genome based analysis of foodborne pathogens.
Publications
- Noormohamed, A.M., Johnson, E.M., Fakhr, M.K., Sherwood, J.S., and Logue, C.M. (2009) Integrons in Salmonella and E. coli from Healthy and Diagnostic Food Animals. ASM Annual General Meeting Philadelphia PA, May 2009.
- Logue, C.M., Wannemuehler, Y.M., and Nolan, L.K. (2008) Does the Use of Arsenic-Containing Compounds Promote the Selection of Multidrug-Resistant APEC AAAP/AVMA Annual General Meeting, Seattle WA, July 11-15 2009
- Logue, C.M., Sherwood, J.S., Stepan, R.S., and Petermann, S.R. (2010) Comparative Analysis of Salmonella enterica Senftenberg from Humans and Animals. Prato Conference on the Pathogenesis of Bacterial Diseases of Animals, Prato, Italy, 10/10.
- Logue, C.M., Sherwood, J.S., Stepan, R.M., Petermann, S.R. (2010) Comparative Analysis of Salmonella enterica Senftenberg from Humans and Animals. One Health Symposium: People Plants and Animals. Iowa State University, IA 09/10.
- Nolan, L.K., Li, G., Tivendale, K.A., Johnson, T.J., Wannemuehler, Y., Mangiamele, P., Logue, C.M. (2010) Are APEC a Source of Human EXPEC. One Health Symposium: People Plants and Animals. Iowa State University, IA 09/10.
- Logue, C.M., Petermann, S.R., Sherwood, J.S., Stepan, R.S. (2010) Comparative Analysis of S. Senftenberg from Poultry and Humans. AAAP Annual General Meeting 08/10.
- Nolan, L.K., Li, G., Tivendale, K.A., Johnson, T.J., Wannemuehler, Y., Mangiamele, P.M., Logue, C.M. (2010) Are APEC a Source of Human ExPEC. AAAP Annual General Meeting 08/10.
- Wang, B., Logue, C.M., Tivendale, K.A., McKean, J.D., OConnor, A.M. (2009) Mulitlocus Sequence Typing for Characterization of Nontyphoidal Salmonella Strains in Swine Isolated on Farm and at Slaughter. Submitted CRWAD, Chicago IL 08/09.
- Wang, B., Logue, C.M., Tivendale, K.A., McKean, J., OConnor, A.M. (2009) Multilocus Sequence Typing for Characterization of Non-typhoidal Salmonella Strains in Swine Isolated on Farm and at Slaughter. Submitted (04/09) to Safe Pork Annual Meeting, Quebec, CA Sep 30-Oct 2 2009
- Mangiamele, P., Johnson, T.J., Wannemuehler, Y., Logue, C.M., Nolan, L.K. (2010) Resistance Plasmids Found Among Emergent APEC Strains. One Health Symposium: People Plants and Animals. Iowa State University, IA 09/10.
- Nicholson, B., Tivendale, K., Mangiamele, P., Li, G., Wannemuehler, Y., Logue, C.M., and Nolan, L.K. (2010) Characterization of Neonatal Meningitis Causing E. coli Virulence Plasmids in Animal Models. One Health Symposium: People Plants and Animals. Iowa State University, IA 09/10.
- Logue, C.M., Sherwood, J.S., Lutgen, E.M., Petermann, S.R. (2010) Plasmid Analysis of Campylobacter coli from Midwest Production Turkeys. ASM Annual General Meeting 05/10.
- Fakhr, M.K., Johnson, E.M., Logue, C.M. (2009) Prevalence of pVir like plasmids in Campylobacter jejuni and Campylobacter coli strains isolated from turkeys. ASM Annual General Meeting Philadelphia PA May 2009.
- Nolan, L.K., Johnson, T.J., Wannemuehler, Y.M., Li, G., Tivendale, K., Kariyawasam, S., Logue, C.M., Mangiamele, P. (2008) APEC Virulence Plasmids: Multi-Purpose Contributors to Disease. AAAP/AVMA Annual General Meeting, Seattle WA, July 11-15 2009
- Qijing Zhang, Teresa Y. Morishita, Catherine M. Logue, and Jun Lin (2009) Incidence and Ecology of Macrolide-resistant Campylobacter in Chickens and Turkeys. PIs meeting at IAFP Annual General Meeting, Grapevine, TX July 12-15.
- Tivendale, K.A., Logue, C.M., Kariyawasam, S., Jordan, D., Hussein, A., Li, G., Wannemuehler, Y., Nolan, L.K. (2010) Avian pathogenic Escherichia coli are similar to neonatal meningitis E. coli strains and are able to cause meningitis in the rat model of human disease. Infection and Immunity 78:8:3412-3419.
- Logue, C.M., Danzeisen, G.T., Sherwood, J.S., Thorsness, J.L., Mercier, B., Axtmann, J., (2010) Repeated therapeutic dosing selects macrolide resistance in Campylobacter spp. in a turkey facility. Journal of Applied Microbiology 109, 1379-1388.
- Johnson, T.J., Kariyawasam, S., Stell, A., Bell, N., Wannemuehler, Y., Jordan, D., Li, G., Tivendale, K., Logue, C.M., Nolan, L.K. (2010) Sequence Analysis and Characterization of a Transferable Hybrid Plasmid Encoding Multidrug Resistance and Exhibiting Zoonotic Potential for Extraintestinal Escherichia coli Infection and Immunity 78, 1931-42.
- Li,G., Feng, Y., Kariyawasam, S., Tivendale, K.A., Wannemuehler, Y.M., Fang, H., Logue, C.M., Nolan, L.K. (2010). AesA is a novel autotransporter and virulence factor in avian pathogenic Escherichia coli. Infection and Immunity 78, 898-906.
- Nolan, L.K., Li, G., Tivendale, K.A., Wannemuehler, Y., Mangiamele, P., Logue, C.M., and Cai, W. (2010) Exploring EXPEC virulence, evolution and host specificity using pathogenomic approaches. Prato Conference on the Pathogenesis of Bacterial Diseases of Animals, Prato, Italy, 10/10.
- Wang, B., Logue, C.M., Tivendale, K.A., McKean, J.D., OConnor, A.M. (2010) Serotyping and 7 housekeeping gene multilocus sequence typing have similar discriminatory ability to differentiate Salmonella enterica. ASM Annual General Meeting 05/10.
- Tivendale, K.A., Logue, C.M., Kariyawasam, S., Jordan, D., Hussein, A., Li, G., Wannemuehler, Y., Nolan, L.K. (2010) Avian Pathogenic Escherichia coli as a causative agent of neonatal meningitis in rats. ASM Annual General Meeting 05/10.
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Progress 08/15/08 to 08/14/09
Outputs
OUTPUTS: During this past year the PI of this grant (Logue) has successfully completed a research sabbattical at Iowa State University. The purpose of the sabbattical was to receive training in genome analysis and annotation and microbial analysis to understand the basis of virulence in pathogens and foodborne pathogens. The PI worked in the labs of two research mentors gaining experience in Campylobacter from Dr Qijing Zhang and his research group and from Dr Lisa Nolan in the pathogenesis of E. coli and genome sequencing and annotation of genomes. During this time the PI worked "hands on" with these research groups learning new techinques in molecular methods and how to approach pathogenesis studies using live animals as well as how to approach genome analysis and annotation. Outputs of this training have resulted in the PI becoming proficient in the analysis of genomes. Additional training was received through the J Craig Venter Institute in genome annotation and analysis workshop. Since this time the PI has also submitted some research grants to continue research in genome analysis of foodborne pathogens. Additional funding has been secured through an internal NDSU grant (LEAP; NSF) to sequence an additional two Campylobacter genomes. Work is currently ongoing in the preparation of these samples for sequencing which will be carried out in collaboraiton with the University of Iowa and Iowa State University. It is aniticipated that the genomes will be submitted before the end of the year and sequence analysis should be complete by the end of January 2010. Finally, the PI has been able to "bring back home" some new techniques learned and has begun to implement them in her home lab - this has entailed training a research support staff and two graduate students as well as a number of undergraduate researchers also working in the lab in molecular techiques and genome analysis. It is anticipated that the full outcomes of this sabbattical will be envident within the coming year as genomes that are currently in analysis become completed. The research carried out while on sabbattical was presented at national and international meetings for audiences in research and food production animals including the American Society for Microbiology and The American Veterinary Medical Association. PARTICIPANTS: The participants were the PI Catherine M Logue and research Mentors Lisa K. Nolan and Qijing Zhang. TARGET AUDIENCES: Target audiences for this research are fellow researchers in animal disease and human health. Producers and graduate and postdococtoral resarchers. PROJECT MODIFICATIONS: Nothing significant to report during this reporting period.
Impacts
Significant Outcomes and Impacts of this project is the re-training of a faculty member so that she has developed new tools for use in the study of foodborne pathogens at the molecular and genomic levels. This has resulted in significant changes in our research lab and we are currently involved in the genomic analysis of three bacterial genomes of foodborne risk. In addition, the PI has secured funding to sequence two more genomes which will provide significant new information into the pathogenesis and persistence of such pathogens and the risk they pose for human disease. Some of the PIs research experiences gained and projects that were worked on during this time were presented at National and international meetings. The training received has since been brought back to NDSU and the lab has undergone retraining of staff and students so that the experience gained can be put into practice.
Publications
- Logue, C.M., Nolan, L.K., and Zhang, Q. 2008 Sabbatical to explore molecular and functional genomics approaches for food safety research. USDA Project Directors Meeting, Biological Approaches for Food Safety Program, NRI CSREES, Washington DC.
- Logue, C.M., Fakhr, M.K., Sherwood, J.S., Johnson, E.M., Petermann, S.R. 2009 Genome Analysis of Campylobacter coli from Midwest Production Turkeys. ASM Annual General Meeting Philadelphia PA.
- Logue, C.M., Wannemuehler, Y.M., and Nolan, L.K. 2009 Does the Use of Arsenic-Containing Compounds Promote the Selection of Multidrug-Resistant APEC AAAP/AVMA Annual General Meeting, Seattle WA. Nolan, L.K., Johnson, T.J., Wannemuehler, Y.M., Li, G., Tivendale, K., Kariyawasam, S., Logue, C.M., Mangiamele, P. 2009 APEC Virulence Plasmids: Multi-Purpose Contributors to Disease. AAAP/AVMA Annual General Meeting, Seattle WA.
- Mangiamele, P., Johnson, T.J., Wannemuehler, Y.M., Logue, C.M., Nolan, L.K. 2009 R Plasmids Found Among Emergent APEC Strains. AAAP/AVMA Annual General Meeting, Seattle WA
- Mou, K.T., Tivendale, K.A., Wannemuehler, Y.W., Logue, C.M., and Nolan, L.K. 2009 Characterizing APEC from a highly mixed cluster of human and avian ExPEC by serogroup, phylogenetic group, pulsed field gel electrophoresis, and multilocus sequencing typing. AAAP/AVMA Annual General Meeting, Seattle WA
- Kelly A. Tivendale, Catherine M. Logue, Yvonne Wannemuehler, Ganwu Li, Ashraf Hussein, Subhashinie Kariyawasam, Kathy T. Mou and Lisa K. Nolan 2009 E. coli serogroup O18: Emerging isolates that are highly pathogenic in poultry. AAAP/AVMA Annual General Meeting Seattle WA
- Ganwu Li, Yaping Feng, Subhashinie Kariyawasam, Kelly A. Tivendale, Yvonne M. Wannemuehler, Fanghong Zhou, Catherine M. Logue and Lisa K. Nolan 2009 AesA is a Novel Autotransporter and Virulence Factor of APEC. AAAP/AVMA Annual General Meeting Seattle WA
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