Twin Cities campus

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Twin Cities Campus

Plant Pathology Ph.D.

Plant Pathology
College of Food, Agricultural and Natural Resource Sciences
Link to a list of faculty for this program.
Contact Information
Department of Plant Pathology Graduate Program, 495 Borlaug Hall, 1991 Buford Circle, Saint Paul, MN 55108 (612-625-8200)
  • Program Type: Doctorate
  • Requirements for this program are current for Fall 2019
  • Length of program in credits: 56
  • This program requires summer semesters for timely completion.
  • Degree: Doctor of Philosophy
Along with the program-specific requirements listed below, please read the General Information section of this website for requirements that apply to all major fields.
Plant pathology focuses on the biology of plant-microbe interactions, and incorporates research involving biochemical, molecular, genetic, physiological, whole organism, population, and community levels of biological organization. Plant pathology interfaces with all plant science disciplines, and with food sciences, veterinary medicine, biobased products, and ecology. Areas of concentration include molecular plant pathology (offered as a special emphasis), plant disease management, biological control of plant disease, forest pathology and microbial degradation of wood, microbial ecology, population biology, plant-microbe interactions, disease resistance, host-parasite coevolution, plant microbe mutualisms, and virology. Students have opportunities for laboratory and field research locally as well as nationally and internationally. The course of study varies with the requirements of the area of concentration and interests of the student. Students who choose the emphasis in molecular plant pathology enhance their ability to design and use molecular approaches to investigate plant disease, increase basic knowledge, and develop new strategies for disease control.
Program Delivery
  • via classroom (the majority of instruction is face-to-face)
Prerequisites for Admission
The preferred undergraduate GPA for admittance to the program is 3.50.
Applicants must have a sound college background in the basic biological and physical sciences and mathematics.
PhD applicants must satisfy all the prerequisites for the master's degree program in plant pathology or have a master's degree in plant pathology or in a field of natural science.
Other requirements to be completed before admission:
Applicants must have completed 35 semester credits in biology with at least one course in each of the following areas: botany, zoology, genetics, plant physiology, and microbiology. Applicants must also have completed at least one course each in inorganic chemistry, organic chemistry, biochemistry, and physics. If deficiencies exist in the prerequisites, they must be corrected during the first year of the graduate program. Applicants should note that these courses cannot be counted as part of the degree program. All students accepted into the department with only a BS degree are admitted into the MS degree program. After a minimum of two semesters, students who qualify may elect to change their degree status to the PhD program. Criteria for the change include scholastic standing, potential for success in completing a PhD, and writing competency.
Special Application Requirements:
GRE scores are required for all students and TOEFL or IELTS scores are required for international students. A clearly written statement of career interests as well as three letters of recommendation are required of all students. Students may apply at any time; however, submission of all application materials by December 10 will ensure priority consideration for fellowships and research assistantships for the next academic year. Students can be admitted any semester.
Applicants must submit their test score(s) from the following:
  • GRE
    • General Test - Verbal Reasoning: 153
    • General Test - Quantitative Reasoning: 148
    • General Test - Analytical Writing: 4.5
International applicants must submit score(s) from one of the following tests:
  • TOEFL
    • Internet Based - Total Score: 79
    • Internet Based - Writing Score: 21
    • Internet Based - Reading Score: 19
    • Paper Based - Total Score: 550
  • IELTS
    • Total Score: 6.5
The preferred English language test is Test of English as Foreign Language.
Key to test abbreviations (GRE, TOEFL, IELTS).
For an online application or for more information about graduate education admissions, see the General Information section of this website.
Program Requirements
20 credits are required in the major.
12 credits are required outside the major.
24 thesis credits are required.
This program may be completed with a minor.
Use of 4xxx courses towards program requirements is not permitted.
A minimum GPA of 3.00 is required for students to remain in good standing.
At least 2 semesters must be completed before filing a Degree Program Form.
• Students must enroll in a supervised teaching or extension teaching experience, chosen in consultation with the advisor and director of graduate studies. • Degree plans are determined by the advisory committee, with approval of the director of graduate studies. • Regular attendance at weekly plant pathology seminars is expected. • Internships are encouraged as part of the graduate experience. Financial support for international or domestic internships is available on a competitive basis.
Required Coursework (13 credits)
All students take the following courses, if not completed previously. Take PLPA 8200 twice for a total of 2 credits. Take PLPA 8005 for 2 credits to fulfill the one-semester teaching experience requirement. Take GRAD 8101 concurrently with or after completing PLPA 8005.
PLPA 5480 - Principles of Plant Pathology (3.0 cr)
PLPA 8103 - Plant-Microbe Interactions (3.0 cr)
PLPA 8123 - Research Ethics in Plant and Environmental Sciences (0.5 cr)
PLPA 8200 - Plant Pathology Seminar (1.0 cr)
PLPA 8005 - Supervised Classroom or Extension Teaching Experience (1.0-2.0 cr)
GRAD 8101 - Teaching in Higher Education (3.0 cr)
Electives (12 credits)
Take at least 12 credits, in consultation with the advisor, to complete the outside credit requirement.
AGRO 8241 - Chromosomal and Molecular Genetics of Plant Improvement (3.0 cr)
ANSC 5200 - Statistical Genetics and Genomics (4.0 cr)
BIOC 5361 - Microbial Genomics and Bioinformatics (3.0 cr)
CSCI 5481 - Computational Techniques for Genomics (3.0 cr)
EEB 5221 {Inactive} (3.0 cr)
AGRO 5021 - Plant Breeding Principles (3.0 cr)
GCD 5036 - Molecular Cell Biology (3.0 cr)
GCD 8131 - Advanced Molecular Genetics and Genomics (3.0 cr)
MICA 8002 - Structure, Function, and Genetics of Bacteria and Viruses (4.0 cr)
AGRO 5431 - Applied Plant Genomics and Bioinformatics (3.0 cr)
BBE 5302 - Biodegradation of Bioproducts (3.0 cr)
PMB 5412 - Plant Physiology and Development (3.0 cr)
CSCI 5461 - Functional Genomics, Systems Biology, and Bioinformatics (3.0 cr)
Thesis Credits
Take at least 24 doctoral thesis credits.
PLPA 8888 - Thesis Credit: Doctoral (1.0-24.0 cr)
Standard Program
Standard Program Courses (7 credits)
Take the following courses:
PLPA 8104 - Plant Virology (2.0 cr)
PLPA 8105 - Plant Bacteriology (3.0 cr)
PLPA 5444 - Ecology, Epidemiology, and Evolutionary Biology of Plant-Microbe Interactions (3.0 cr)
Program Sub-plans
A sub-plan is not required for this program.
Students may not complete the program with more than one sub-plan.
Molecular Plant Pathology
Students in the molecular plant pathology track complete specialized coursework that emphasizes molecular approaches to investigating plant diseases, increase their knowledge of basic science, and explore emerging strategies for disease control. Students in the Molecular Plant Pathology track will learn about topics such as pathogen effectomics, plant phenomics, molecular plant/microbe interactions, and an ever-evolving array of molecular research techniques, strategies, and analytical approaches. At the same time, students will garner a comprehensive understanding of plant interactions with pathogenic and non-pathogenic microbes from a systems level, building a firm knowledge base of classical and contemporary plant pathology concepts. Students completing the molecular plant pathology track will be well positioned for research careers in molecular plant pathology in academia, industry, and government.
Molecular Plant Pathology Courses (7 credits)
Take the following courses. Take PLPA 5300 twice for a total of 2 credits.
PLPA 5301 - Large Scale Omic Data in Plant Biology (3.0 cr)
PLPA 5300 - Current Topics in Molecular Plant Pathology (1.0 cr)
Virology OR Bacteriology
Take one of the following courses:
PLPA 8104 - Plant Virology (2.0 cr)
or PLPA 8105 - Plant Bacteriology (3.0 cr)
 
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· College of Food, Agricultural and Natural Resource Sciences

View future requirement(s):
· Fall 2022
· Fall 2021
· Fall 2020

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PLPA 5480 - Principles of Plant Pathology
Credits: 3.0 [max 3.0]
Typically offered: Every Fall
This course is intended for graduate students and undergraduate students in their third or fourth year that are interested in learning about principles of plant pathology, diseases that affect plants, microbiology and microbial and plant interactions. In this course students will learn principles of plant pathology through lectures and demonstrations and exercises in laboratory. Students will gain knowledge of mycology and select diseases caused by fungi within Ascomycota, Basidiomycota and the fungal-like Oomycota. Diseases caused by bacteria, nematodes, viruses, parasitic plants and abiotic damage are also examined. Lectures will include information concerning the history and importance of plant pathology, mycology, bacteriology, nematology, virology, infection process, genetics of host and microorganism interactions, epidemiology of diseases and disease control strategies. In the hands-on laboratory period the student will learn laboratory skills, gain experience using the microscope, work with microorganisms, learn diagnostic skills, and be able to recognize 30 plant diseases. prereq: BIOL 1009 or equiv
PLPA 8103 - Plant-Microbe Interactions
Credits: 3.0 [max 3.0]
Typically offered: Every Spring
Genetics, physiology, and molecular biology of plant-microbe interactions. Communication between plants/microbes. Signal transduction, control of gene expression, symbiosis/parasitism, plant host response mechanisms, plant disease physiology. prereq: Intro course in plant pathology or molecular biology or equiv
PLPA 8123 - Research Ethics in Plant and Environmental Sciences
Credits: 0.5 [max 0.5]
Course Equivalencies: APSc/PBio/PlPa/Soil 8123
Grading Basis: S-N or Aud
Typically offered: Every Spring
Ethics training to graduate students enrolled in plant/environmental graduate research programs and fulfill requirement for training in responsible conduct of research. prereq: Enrolled in a plant/environmental grad research program
PLPA 8200 - Plant Pathology Seminar
Credits: 1.0 [max 1.0]
Grading Basis: A-F only
Typically offered: Every Fall & Spring
Students enrolled in PlPa 8200 will gain experience and expertise in the area of oral scientific communication. Through participation in a regular departmental seminar series, students will be exposed to a variety of seminar preparation and presentation techniques. Working one-on-one with a Seminar Advisor and the course Instructor, students will select and appropriately define a seminar topic, identify pertinent literature, prepare an effective abstract, and prepare and present a public seminar on the selected topic. Students will further interact with classmates and other participants in the departmental seminar series through public question and answer periods and by moderating individual seminar sessions. PlPA 8200 will be conducted in hybrid format, providing opportunities for in person and online (Zoom) participation in a synchronous manner.
PLPA 8005 - Supervised Classroom or Extension Teaching Experience
Credits: 1.0 -2.0 [max 2.0]
Grading Basis: S-N only
Typically offered: Every Fall & Spring
Teaching experience in Plant Pathology. Discussions about effective teaching to strengthen skills and develop a personal teaching philosophy. prereq: instr consent
GRAD 8101 - Teaching in Higher Education
Credits: 3.0 [max 3.0]
Grading Basis: OPT No Aud
Typically offered: Every Fall, Spring & Summer
Teaching methods/techniques. Active learning, critical thinking, practice teaching, and preparing a portfolio to document/reflect upon teaching. Readings, discussion, peer teaching, e-mail dialog, reflective writing, co-facilitation of course. prereq: Non-Degree Students: contact pffcollege consentumn.edu with questions about registration. If adding a section after first class meeting, contact your instructor as soon as you enroll.
AGRO 8241 - Chromosomal and Molecular Genetics of Plant Improvement
Credits: 3.0 [max 3.0]
Typically offered: Fall Even Year
Mixture of classic/current info in molecular plant genetics, biotech, and genomics. Students devise experiments in breeding, genetics, genomics, physiology, cellular/molecular biology, and other areas. prereq: Introductory Genetics course
ANSC 5200 - Statistical Genetics and Genomics
Credits: 4.0 [max 4.0]
Course Equivalencies: AnSc 5200/MVB 5200
Typically offered: Fall Even Year
Gene discovery. Genomic selection. Data analysis. Phenotypes/DNA markers. Parametric/non parametric linkage analysis. Mapping quantitative trait loci (QTL). Parentage testing. prereq: [Stat 3021 or equiv], [Biol 4003 or equiv]
BIOC 5361 - Microbial Genomics and Bioinformatics
Credits: 3.0 [max 3.0]
Typically offered: Every Fall & Spring
Introduction to genomics. Emphasizes microbial genomics. Sequencing methods, sequence analysis, genomics databases, genome mapping, prokaryotic horizontal gene transfer, genomics in biotechnology, intellectual property issues. Hands-on introduction to UNIX shell scripting, genomic data analysis using R and Excel in a computer lab setting. prereq: College-level courses in [organic chemistry, biochemistry, microbiology]
CSCI 5481 - Computational Techniques for Genomics
Credits: 3.0 [max 3.0]
Typically offered: Every Fall
Techniques to analyze biological data generated by genome sequencing, proteomics, cell-wide measurements of gene expression changes. Algorithms for single/multiple sequence alignments/assembly. Search algorithms for sequence databases, phylogenetic tree construction algorithms. Algorithms for gene/promoter and protein structure prediction. Data mining for micro array expression analysis. Reverse engineering of regulatory networks. prereq: 4041 or instr consent
AGRO 5021 - Plant Breeding Principles
Credits: 3.0 [max 3.0]
Typically offered: Every Fall
This course is intended for advanced undergraduate students and graduate students that are either: 1) not plant breeding majors who will benefit from a basic understanding of how genetics is applied to plant improvement; or 2) plant breeding majors lacking prior coursework in plant breeding. The objective of this course is to develop an understanding of the underlying principles, ideas, and concepts important to applying genetic principles to plant breeding, evaluating breeding methods, and enhancing genetic progress and efficiency.
GCD 5036 - Molecular Cell Biology
Credits: 3.0 [max 3.0]
Typically offered: Every Fall
Analysis of dynamic cellular activities at the molecular level in cell biological fields that are experiencing new research advances not yet reflected in textbooks. Significant emphasis is placed on understanding the experimental basis of our current knowledge of cellular processes through analysis of scientific papers. Project and presentation-based assessments of learning outcomes. prereq: BIOL 4004 or GCD 4005W or grad
GCD 8131 - Advanced Molecular Genetics and Genomics
Credits: 3.0 [max 3.0]
Typically offered: Every Fall & Spring
Literature-based course in modern molecular genetic and genomic analysis. Students will gain a deep understanding of the fundamental molecular mechanisms controlling inheritance in biological systems. Students will gain a facility in thinking critically and creatively about how genes work at cellular, organismal, and transgenerational levels. Course instruction emphasizes active-learning approaches, student presentations, and group projects. prereq: [3022 or BIOL 4003], [BIOC 3021 or BIOC 4331] or instr consent
MICA 8002 - Structure, Function, and Genetics of Bacteria and Viruses
Credits: 4.0 [max 4.0]
Grading Basis: A-F or Aud
Typically offered: Every Fall
Structure, function, and metabolism of microorganisms. Microbial genetics. Molecular virology. prereq: [One undergrad or grad course each in [microbiology, genetics, biochemistry]] or instr consent
AGRO 5431 - Applied Plant Genomics and Bioinformatics
Credits: 3.0 [max 3.0]
Typically offered: Every Spring
Analysis, interpretation, visualization of large plant genomic datasets. Basic computer programming, applying large-scale genomics to answer basic/applied biological questions, understanding limitations of each application, presenting concise visual findings from large-scale datasets. prereq: Grad student or [undergrad with genetics course]
BBE 5302 - Biodegradation of Bioproducts
Credits: 3.0 [max 3.0]
Course Equivalencies: BBE 4302/BBE 5302/BP 4302/5302
Typically offered: Every Spring
Organisms and their importance to bio-based products: deterioration, control, bioprocesses for benefit. prereq: Grad student or instr consent
PMB 5412 - Plant Physiology and Development
Credits: 3.0 [max 3.0]
Course Equivalencies: PMB 4412/PMB 5412
Typically offered: Every Fall
Plant physiology and development is the study of how plant cells, tissues and whole organisms grow and function in response to internal and external cues. PMB 4412/5412 covers the classic plant physiology and development processes including plant water relations, mineral nutrition, membrane transport, photosynthesis, respiration, vascular function, metabolism, growth and development, and hormone responses. The physics underlying our understanding of these physiological systems will also be addressed. Other areas of plant science such as plant genetics and biochemistry are covered in other courses and will not be emphasized this course. There are no enforced prerequisites for this course. The following preparation is recommended: PMB 2022 General Botany or PMB 3007W Plant Algal and Fungal Diversity; General Chemistry and Introductory Physics.
CSCI 5461 - Functional Genomics, Systems Biology, and Bioinformatics
Credits: 3.0 [max 3.0]
Typically offered: Every Spring
Computational methods for analyzing, integrating, and deriving predictions from genomic/proteomic data. Analyzing gene expression, proteomic data, and protein-protein interaction networks. Protein/gene function prediction, Integrating diverse data, visualizing genomic datasets. prereq: 3003 or 4041 or instr consent
PLPA 8888 - Thesis Credit: Doctoral
Credits: 1.0 -24.0 [max 100.0]
Grading Basis: No Grade
Typically offered: Every Fall, Spring & Summer
(No description) prereq: Max 18 cr per semester or summer; 24 cr required
PLPA 8104 - Plant Virology
Credits: 2.0 [max 2.0]
Grading Basis: A-F only
Typically offered: Every Spring
Characteristics, biology, epidemiology, and control of plant diseases caused by viruses. prereq: 5480
PLPA 8105 - Plant Bacteriology
Credits: 3.0 [max 3.0]
Typically offered: Every Spring
Bacteria interact with plants in various ways depending upon environmental conditions, nutrient status, and host plant genotypes. The outcome of these interactions can result in the plant associated bacteria being pathogens, or mutualists. In the Plant Bacteriology course, we will examine several bacterial diseases in-depth to understand the disease cycles, epidemiology, mechanisms of pathogenesis, beneficial microbes, and means of disease control. The laboratory section will focus on techniques used to identify bacteria, for inoculating plants, isolating bacteria from plant material, and methods to understand the plant-bacterial interactions. The first hour of most class sessions will consist primarily of lectures by the instructor followed by group discussion of assigned readings. Laboratory sessions will occur for 90 minutes and are designed to illustrate concepts presented during the lecture/discussion sessions. prereq: 5480
PLPA 5444 - Ecology, Epidemiology, and Evolutionary Biology of Plant-Microbe Interactions
Credits: 3.0 [max 3.0]
Grading Basis: A-F or Aud
Typically offered: Every Fall
Concepts and recent research in the ecology, epidemiology, and evolutionary/coevolutionary biology of plant-microbe interactions spanning the range from parasitic to mutualistic in agricultural and natural habitats. prereq: Intro plant pathology or advanced biology coursework recommended
PLPA 5301 - Large Scale Omic Data in Plant Biology
Credits: 3.0 [max 3.0]
Typically offered: Every Fall
Introduction to large scale data in plant biology. Emphasizes model plants and important agricultural crops focusing on new approaches and technologies in the field. Fundamentals, acquisition, and analysis of high-throughput DNA and RNA sequencing, high-throughput plant phenotyping, functional and comparative genomics, epigenomics, proteomics, metabolomics, and microbiomics. prereq: Intro course in genetics or instr consent
PLPA 5300 - Current Topics in Molecular Plant Pathology
Credits: 1.0 [max 2.0]
Grading Basis: S-N only
Typically offered: Every Spring
Current Topics in Molecular Plant Pathology is a highly interactive class in which students read, discuss, and critique pivotal publications in the field of molecular plant pathology. Specific topics will change from year to year, but will generally include subjects such as plant-microbe communication, diversity and evolution of plant-microbe associations, genomic analysis of pathogens (symbionts) and plant host responses, and mechanisms of pathogenicity. prereq: Introductory courses in plant pathology or microbiology; genetics; molecular biology or genomics; or consent of instructor
PLPA 8104 - Plant Virology
Credits: 2.0 [max 2.0]
Grading Basis: A-F only
Typically offered: Every Spring
Characteristics, biology, epidemiology, and control of plant diseases caused by viruses. prereq: 5480
PLPA 8105 - Plant Bacteriology
Credits: 3.0 [max 3.0]
Typically offered: Every Spring
Bacteria interact with plants in various ways depending upon environmental conditions, nutrient status, and host plant genotypes. The outcome of these interactions can result in the plant associated bacteria being pathogens, or mutualists. In the Plant Bacteriology course, we will examine several bacterial diseases in-depth to understand the disease cycles, epidemiology, mechanisms of pathogenesis, beneficial microbes, and means of disease control. The laboratory section will focus on techniques used to identify bacteria, for inoculating plants, isolating bacteria from plant material, and methods to understand the plant-bacterial interactions. The first hour of most class sessions will consist primarily of lectures by the instructor followed by group discussion of assigned readings. Laboratory sessions will occur for 90 minutes and are designed to illustrate concepts presented during the lecture/discussion sessions. prereq: 5480