Department of Crop Sciences
Patrick Tranel
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Patrick Tranel

Professor
320 E R Madigan Laboratory
1201 W. Gregory Dr.
Urbana, IL 61801
(217) 333-1531

Research Statement

A common theme among most of the research projects in my laboratory is variability within weed species. Another uniting feature of my research projects is that nearly all utilize molecular techniques.

Many species owe their success as weeds to their underlying genetic diversity and, consequently, to their ability to adapt to a variety of cropping practices. Probably the best example of weed adaptation to a particular cropping practice is the evolution of herbicide resistance. For this reason, several past and current projects in my lab focus on this topic. Resistances that we have investigated include to triazines, ALS inhibitors, PPO inhibitors, HPPD inhibitors, and glyphosate. My lab also has participated in the development of genomic resources for weed species. Currently we are using these resources to better understanding nontarget-site mechanisms of herbicide resistance.

Not only are we interested in the mechanisms and genetics of resistance, but we are also interested in the basic underlying evolutionary processes. Current projects include determining the fitness costs of herbicide-resistance traits, and the mutation rate at which new herbicide-resistance traits arise.

Weeds provide an excellent opportunity to study fascinating examples of evolution at work. However, going beyond academic curiosity, a better understanding of the mechanisms, genetics, and evolution of herbicide resistance will inform strategies to best mitigate its occurrence and thereby contribute towards sustainable weed management systems.

A common theme among most of the research projects in my laboratory is variability within weed species. Another uniting feature of my research projects is that nearly all utilize molecular techniques.

Many species owe their success as weeds to their underlying genetic diversity and, consequently, to their ability to adapt to a variety of cropping practices. Probably the best example of weed adaptation to a particular cropping practice is the evolution of herbicide resistance. For this reason, several past and current projects in my lab focus on this topic. Resistances that we have investigated include to triazines, ALS inhibitors, PPO inhibitors, HPPD inhibitors, and glyphosate. My lab also has participated in the development of genomic resources for weed species. Currently we are using these resources to better understanding nontarget-site mechanisms of herbicide resistance.

Not only are we interested in the mechanisms and genetics of resistance, but we are also interested in the basic underlying evolutionary processes. Current projects include determining the fitness costs of herbicide-resistance traits, and the mutation rate at which new herbicide-resistance traits arise.

Weeds provide an excellent opportunity to study fascinating examples of evolution at work. However, going beyond academic curiosity, a better understanding of the mechanisms, genetics, and evolution of herbicide resistance will inform strategies to best mitigate its occurrence and thereby contribute towards sustainable weed management systems.

Courses

CPSC 226 - Introduction to Weed Science
CPSC 428 - Weed Science Practicum

Journal Articles

Research papers
Chatham, L. A., K. W. Bradley, G. R. Kruger, J. R. Martin, M.D.K. Owen, D. E. Peterson, J. Mithila, and P. J. Tranel. 2015. A multi-state study of the association between glyphosate resistance and EPSPS gene amplification in waterhemp (Amaranthus tuberculatus). Weed Sci. 63:569-577.
Guo, J., C. W. Riggins, N. E. Hausman, A. G. Hager, D. E. Riechers, A. S. Davis, and P. J. Tranel. 2015. Non-target-site resistance to ALS inhibitors in waterhemp (Amaranthus tuberculatus). Weed Sci. 63:399–407.
Wuerffel, R. J., J. M. Young, P. J. Tranel, and B. G. Young. 2015. Soil-residual PPO-inhibiting herbicides influence the frequency of associated resistance in Amaranthus tuberculatus. Weed Sci. 63:529–538.
Chatham, L. A., C. Wu, C. W. Riggins, A. G. Hager, B. G. Young, G. K. Roskamp, and P. J. Tranel. 2015. EPSPS gene amplification is present in the majority of glyphosate-resistant Illinois waterhemp (Amaranthus tuberculatus) populations. Weed Technol. 29:48-55.
Schultz, J. L., L. A. Chatham, C. W. Riggins, P. J. Tranel, and K. W. Bradley. 2015. Distribution of herbicide resistances and molecular mechanisms conferring resistance in Missouri waterhemp (Amaranthus rudis) populations. Weed Sci. 63:336-345.
Tatum-Parker, T., F. Trucco, P. A.[sic] Tranel, and A. L. Rayburn. 2015. Micropollen formation in F1 hybrids and backcrosses of waterhemp (Amaranthus tuberculatus) x smooth pigweed (A. hybridus) as a quick method for determination of interspecific hybridization events. J. Agric. Sci. 7:1-7.
Yang, S., G. Hao, F. E. Dayan, P. J. Tranel, and G. Yang. 2013. Insight into the structural requirements of protoporphyrinogen oxidase inhibitors: molecular docking and CoMFA of diphenyl ether, isoxazole phenyl, and pyrazole phenyl ether. Chinese J. Chem. 31:1153-1158.
Brenner, D. M., W. G. Johnson, C. L. Sprague, P. J. Tranel, and B. G. Young. 2013. Crop-weed hybrids are more frequent for the grain amaranth ‘Plainsman’ than for ‘D136-1’. Genet. Resour. Crop. Evol. 60:2201-2205.
Hausman, N. E., P. J. Tranel, D. E. Riechers, D. J. Maxwell, L. C. Gonzini, and A. G. Hager. 2013. Responses of an HPPD inhibitor-resistant waterhemp (Amaranthus tuberculatus) population to soil-residual herbicides. Weed Technol. 27:704-711.
Ma, R., S. S. Kaundun, P. J. Tranel, C. W. Riggins, D. L. McGinness, A. G. Hager, T. R. Hawkes, E. McIndoe, and D. E. Riechers. 2013. Distinct detoxification mechanisms confer resistance to mesotrione and atrazine in a population of waterhemp (Amaranthus tuberculatus). Plant Physiol. 163:363-377.
Gaines, T. A., A. A. Wright, W. T. Molin, L. Lorentz, C. W. Riggins, P. J. Tranel, R. Beffa, P. Westra, and S. B. Powles. 2013. Identification of genetic elements associated with EPSPS gene amplification. PLoS ONE 8(6): e65819. doi:10.1371/journal.pone.0065819.
Bell, M. S., A. G. Hager, and P. J. Tranel. 2013. Multiple resistance to herbicides from four site-of-action groups in waterhemp (Amaranthus tuberculatus). Weed Sci. 61:460-468.
Panozzo, S., L. Scarabel, P. J. Tranel, and M. Sattin. 2013. Target-site resistance to ALS inhibitors in the polyploid species Echinochloa crus-galli. Pestic. Biochem. Physiol. 105:93-101.
Liu, J., A. S. Davis, and P. J. Tranel. 2012. Pollen biology and dispersal dynamics in waterhemp (Amaranthus tuberculatus). Weed Sci. 60:416-422.
Rousonelos, S. L. R. M. Lee, M. S. Moreira, M. J. VanGessel, and P. J. Tranel. 2012. Characterization of a common ragweed (Ambrosia artemisiifolia) population resistant to ALS- and PPO-inhibiting herbicides. Weed Sci. 60:335-344.
Bernards, M. L., R. J. Crespo, G. R. Kruger, R. Gaussoin, and P. J. Tranel. 2012. A waterhemp (Amaranthus tuberculatus) population resistant to 2,4-D. Weed Sci. 60:379-384.
Riggins, C. W., and P. J. Tranel. 2012. Will the Amaranthus tuberculatus resistance mechanism to PPO-inhibiting herbicides evolve in other Amaranthus species? Int. J. Agron. Vol. 2012, doi:10.1155/2012/305764.
Zheng, D., G. R. Kruger, S. Singh, V. M. Davis, P. J. Tranel, S. C. Weller, and W. G. Johnson. 2011. Cross-resistance of horseweed (Conyza canadensis) populations with three different ALS mutations.Pest Manag. Sci. 67:1486-1492.
Hausman, N. E., S. Singh, P. J. Tranel, D. E. Riechers, S. S. Kaundun, N. D. Polge, D. A. Thomas, and A. G. Hager. 2011. Resistance to HPPD-inhibiting herbicides in a population of waterhemp (Amaranthus tuberculatus) from Illinois, United States. Pest Manag. Sci. 67:258-261.
Thinglum, K. A., C. W. Riggins, A. S. Davis, K. W. Bradley, K. Al-Khatib, and P. J. Tranel. 2011. Wide distribution of the waterhemp (Amaranthus tuberculatus) deltaG210 PPX2 mutation, which confers resistance to PPO-inhibiting herbicides. Weed Sci. 59:22-27.
Riggins, C. W., Y. Peng, C. N. Stewart Jr., and P. J. Tranel. 2010. Characterization of de novo transcriptome for waterhemp (Amaranthus tuberculatus) using GS-FLX 454 pyrosequencing and its application for studies of herbicide target-site genes. Pest Manag. Sci. 66:1042-1052. [Also see associated Commentary (66:1041)].
Peng, Y., L. G. Abercrombie, J. S. Yuan, C. W. Riggins, R. D. Sammons, P. J. Tranel, and C. N. Stewart Jr. 2010. Characterization of the horseweed (Conyza canadensis) transcriptome using GS-FLX 454 pyrosequencing and its application for expression analysis of non-target herbicide resistance genes. Pest Manag. Sci. 66:1053-1062. [Also see associated Commentary (66:1041)].
Dayan, F. E., P. R. Daga, S. O. Duke, R. M. Lee, P. J. Tranel, and R. J. Doerksen. 2010. Biochemical and structural consequences of a glycine deletion in the alpha-8 helix of protoporphyrinogen oxidase. Biochim. Biophys. Acta 1804:1548-1556.
Bell, M. S. and P. J. Tranel. 2010. Time requirements from pollination to seed maturity in waterhemp (Amaranthus tuberculatus). Weed Sci. 58:167-173.
Gaines, T. A., W. Zhang, D. Wang, B. Bukun, S. T. Chisholm, D. L. Shaner, S. J. Nissen, W. L. Patzoldt, P. J. Tranel, A. S. Culpepper, T. L. Grey, T. M. Webster, W. K. Vencill, R. D. Sammons, J. Jiang, C. Preston, J. E. Leach, and P. Westra. 2010. Gene amplification confers glyphosate resistance in Amaranthus palmeri. Proc. Natl. Acad. Sci. USA. 107:1029-1034. [Also see associated Commentary (107:955-956)].
Davis, V. M., G. R. Kruger, S. G. Hallett, P. J. Tranel, and W. G. Johnson. 2010. Heritability of glyphosate resistance in Indiana horseweed (Conyza canadensis) populations. Weed Sci. 58:30-38.
Trucco, F., T. Tatum, A. L. Rayburn, and P. J. Tranel. 2009. Out of the swamp: Unidirectional hybridization with weedy species may explain the prevalence of Amaranthus tuberculatus as a weed. New Phytol. 184:819-827.
Lee, R. M., J. Thimmapuram, K. A. Thinglum, G. Gong, A. G. Hernandez, C. L. Wright, R. W. Kim, M. A. Mikel, and P. J. Tranel. 2009. Sampling the waterhemp (Amaranthus tuberculatus) genome using pyrosequencing technology. Weed Sci. 57: 463-469.
Zhu, J., W. L. Patzoldt, O. Radwan, P. J. Tranel, and S. J. Clough. 2009. Effects of photosystem-II-interfering herbicides atrazine and bentazon on the soybean transcriptome. Plant Gen. 2:191-205.
Zhu, J., W. L. Patzoldt, R. T. Shealy, L. O. Vodkin, S. J. Clough, and P. J. Tranel. 2008. Transcriptome response to glyphosate in sensitive and resistant soybean. J. Agric. Food Chem. 56:6355-6363.
Lee, R. M., A. G. Hager, and P. J. Tranel. 2008. Prevalence of a novel resistance mechanism to PPO-inhibiting herbicides in waterhemp (Amaranthus tuberculatus). Weed Sci. 56:371-375.
Hugie, J. A., G. A. Bollero, P. J. Tranel, and D. E. Riechers. 2008. Defining the rate requirements for synergism between mesotrione and atrazine in redroot pigweed (Amaranthus retroflexus). Weed Sci. 56:265-270.
Brotherton, J. E., M. R. Jeschke, P. J. Tranel, and J. M. Widholm. 2007. Identification of Arabidopsis thaliana variants with differential glyphosate responses. J. Plant Physiol. 164:1337-1345.
Volenberg, D. S., W. L. Patzoldt, A. G. Hager, and P. J. Tranel. 2007. Responses of contemporary and historical waterhemp (Amaranthus tuberculatus) accessions to glyphosate. Weed Sci. 55:327-333.
Volenberg, D. S., P. J. Tranel, J. F. Holt, F. W. Simmons, S. C. Weller, A. Sharkhuu, and D. E. Riechers. 2007. Assessment of two biotypes of Solanum ptycanthum that differ in resistance levels to imazamox. Weed Res. 47:353-363.
Patzoldt, W. L. and P. J. Tranel. 2007. Multiple ALS mutations confer herbicide resistance in waterhemp (Amaranthus tuberculatus). Weed Sci. 55:421-428.
Trucco, F., D. Zheng, A. J. Woodyard, J. R. Walter, T. C. Tatum, A. L. Rayburn, and P. J. Tranel. 2007. Non-hybrid progeny from crosses of dioecious amaranths: implications for gene flow research. Weed Sci. 55:119-122.
Patzoldt, W. L., A. G. Hager, J. S. McCormick, and P. J. Tranel. 2006. A codon deletion confers resistance to herbicides inhibiting protoporphyrinogen oxidase. Proc. Natl. Acad. Sci. USA. 103:12329-12334. [Also see associated In This Issue (103:1211-12212) and Commentary (103:12215-122160].
Trucco, F., T. Tatum, K. R. Robertson, A. L. Rayburn, and P. J. Tranel. 2006. Characterization of waterhemp (Amaranthus tuberculatus) x smooth pigweed (A. hybridus) F1 hybrids. Weed Technol. 20:14-22.
Trucco, F., A. G. Hager, and P. J. Tranel. 2006. Acetolactate synthase mutation conferring imidazolinone-specific herbicide resistance in Amaranthus hybridus. J. Plant Physiol. 163:475-479.
Tatum, T. C., R. Skirvin, P. J. Tranel, M. Norton, and A. L. Rayburn. 2005. In vitro procedure for obtaining mitotic chromosomes from weedy Amaranthus species. In Vitro Cell. Dev.-Pl. 41:844-847.
Rayburn, A. L., R. McCloskey, T. C. Tatum, M. R. Jeschke, and P. J. Tranel. 2005. Genome size analysis of weedy Amaranthus species. Crop Sci. 45:2557-2562.
Trucco, F., T. Tatum, A. L. Rayburn, and P. J. Tranel. 2005. Fertility, segregation at a herbicide-resistance locus, and genome structure in BC1 hybrids from two important weedy Amaranthus species. Mol. Ecol. 14:2717-2728.
Zheng, D., W. L. Patzoldt, and P. J. Tranel. 2005. Association of the W574L ALS substitution with resistance to cloransulam and imazamox in common ragweed (Ambrosia artemisiifolia). Weed Sci. 53:424-430.
Wassom, J. J. and P. J. Tranel. 2005. Amplified fragment length polymorphism-based genetic relationships among weedy Amaranthus species. J. Heredity. 96:410-416.
Trucco, F., M. R. Jeschke, A. L. Rayburn, and P. J. Tranel. 2005. Promiscuity in weedy amaranths: high frequency of female tall waterhemp (Amaranthus tuberculatus) x smooth pigweed (A. hybridus) hybridization under field conditions. Weed Sci. 53:46-54.
Patzoldt, W. L., P. J. Tranel, and A. G. Hager. 2005. A waterhemp (Amaranthus tuberculatus) biotype with multiple resistance across three herbicide sites of action. Weed Sci. 53:30-36.
Trucco, F., M. R. Jeschke, A. L. Rayburn, and P. J. Tranel. 2005. Amaranthus hybridus can be pollinated frequently by A. tuberculatus under field conditions. Heredity 94:64-70.
Maertens, K. D., C. L. Sprague, P. J. Tranel, and R. A. Hines. 2004. Amaranthus hybridus populations resistant to triazine and acetolactate synthase-inhibiting herbicides. Weed Res. 44:21-26.
Tranel, P. J., W. Jiang, W. L. Patzoldt, and T. R. Wright. 2004. Intraspecific variability of the acetolactate synthase gene. Weed Sci. 52:236-241.
Patzoldt, W. L., B. S. Dixon, and P. J. Tranel. 2003. Triazine resistance in Amaranthus tuberculatus (Moq) Sauer that is not site-of-action mediated. Pest Manag. Sci. 59:1134-1142.
Wassom, J. J., A. W. Knepp, P. J. Tranel, and L. M. Wax. 2003. Variability in photosynthetic rates and accumulated biomass among greenhouse-grown common cocklebur (Xanthium strumarium) accessions. Weed Technol. 17:84-88.
Ainsworth, E. A., P. J. Tranel, B. G. Drake, and S. P. Long. 2003. The clonal structure of Quercus geminata revealed by conserved microsatellite loci. Mol. Ecol. 12:527-532.
Tranel, P. J., M. R. Jeschke, J. J. Wassom, D. J. Maxwell, and L. M. Wax. 2003. Variation in soybean (Glycine max (L.) Merr.) interference among common cocklebur (Xanthium strumarium L.) accessions. Crop Prot. 22:375-380.
Jeschke, M. R., P. J. Tranel, and A. L. Rayburn. 2003. DNA content analysis of smooth pigweed (Amaranthus hybridus) and tall waterhemp (A. tuberculatus): implications for hybrid detection. Weed Sci. 51:1-3.
Patzoldt, W. L., P. J. Tranel, and A. G. Hager. 2002. Variable herbicide responses among Illinois waterhemp (Amaranthus rudis and A. tuberculatus) populations. Crop Prot. 21:707-712.
Patzoldt, W. L. and P. J. Tranel. 2002. Molecular analysis of cloransulam resistance in a population of giant ragweed. Weed Sci. 50:299-305.
Tranel, P. J., J. J. Wassom, M. R. Jeschke, and A. L. Rayburn. 2002. Transmission of herbicide resistance from a monoecious to a dioecious weedy Amaranthus species. Theor. Appl. Genet. 105:674-679.
Wassom, J. J., P. J. Tranel, and L. M. Wax. 2002. Variation among U.S. accessions of common cocklebur (Xanthium strumarium). Weed Technol. 16:171-179.
Patzoldt, W. L., P. J. Tranel, A. L. Alexander, and P. R. Schmitzer. 2001. A common ragweed population resistant to cloransulam-methyl. Weed Sci. 49:485-490.
Tranel, P. J. and J. J. Wassom. 2001. Genetic relationships of common cocklebur accessions from the United States. Weed Sci. 49:318-325.
Foes, M. J., L. Liu, G. Vigue, E. W. Stoller, L. M. Wax, and P. J. Tranel. 1999. A kochia (Kochia scoparia) biotype resistant to triazine and ALS-inhibiting herbicides. Weed Sci. 47:20-27.
Foes, M. J., L. Liu, P. J. Tranel, L. M. Wax, and E. W. Stoller. 1998. A biotype of common waterhemp (Amaranthus rudis) resistant to triazine and ALS herbicides. Weed Sci. 46:514-520.
Tranel, P. J. and K. Keegstra. 1996. A novel, bipartite transit peptide targets OEP75 to the outer membrane of the chloroplastic envelope. Plant Cell 8:2093-2104.
Tranel, P. J., J. Froehlich, A. Goyal, and K. Keegstra. 1995. A component of the chloroplastic protein import apparatus is targeted to the outer envelope membrane via a novel pathway. EMBO J. 14:2436-2446.
Tranel, P. J., D. R. Gealy, and G. P. Irzyk. 1993. Physiological responses of downy brome (Bromus tectorum) roots to Pseudomonas fluorescens strain D7 phytotoxin. Weed Sci. 41:483-489.
Tranel, P. J., D. R. Gealy, and A. C. Kennedy. 1993. Inhibition of downy brome (Bromus tectorum) root growth by a phytotoxin from Pseudomonas fluorescens strain D7. Weed Technol. 7:134-139.
Tranel, P. J. and J. Dekker. 1992. Inheritance of clomazone tolerance in maize seedlings. Maydica 37:137-142.
Review articles
Délye, C., A. Duhoux, F. Pernin, C. W. Riggins, and P. J. Tranel. 2015. Molecular mechanisms of herbicide resistance. Weed Sci. Special Issue:91-115.
Dayan, F. E., D. K. Owens, P. J. Tranel, C. Preston, and S. O. Duke. 2014. Evolution of resistance to phytoene desaturase and protoporphyrinogen oxidase inhibitors – state of knowledge. Pest Manag. Sci. 70:1358-1366.
Busi, R., M. M. Vila-Aiub, H. J. Beckie, T. A. Gaines, D. E. Goggin, S. S. Kaundun, M. Lacoste, P. Neve, S. J. Nissen, J. K. Norsworthy, M. Renton, D. L. Shaner, P. J. Tranel, T. Wright, Q. Yu, and S. B. Powles. 2013. Herbicide-resistant weeds: from research and knowledge to future needs. Evol. Appl. 6:1218-1221.
Burgos, N. R., P. J. Tranel, J. C. Streibig, V. M. Davis, D. Shaner, J. K. Norsworthy, and C. Ritz. 2013. Review: Confirmation of resistance to herbicides and evaluation of resistance levels. Weed Sci. 61:4-20.
Tranel, P. J., C. W. Riggins, M. S. Bell, and A. G. Hager. 2011. Herbicide resistances in Amaranthus tuberculatus: a call for new options. J. Agric. Food Chem. 59:5808-5812.
Stewart, C. N., Jr., P. J. Tranel, D. P. Horvath, J. V. Anderson, L. H. Rieseberg, J. H. Westwood, C. A. Mallory-Smith, M. L. Zapiola, and K. M. Dlugosch. 2009. Evolution of weediness and invasiveness: charting the course for weed genomics. Weed Sci. 57:451-462.
Tranel, P. J. and D. P. Horvath. 2009. Molecular biology and genomics: new tools for weed science. Bioscience 59:207-215.
Lee, R. M. and P. J. Tranel. 2008. Utilization of DNA microarrays in weed science research. Weed Sci. 56:283-289.
Yuan, J. S., P. J. Tranel, and C. N. Stewart Jr. 2007. Non-target-site herbicide resistance: a family business. Trends Plant Sci. 12:6-13.
Tranel, P. J. and T. R. Wright. 2002. Resistance of weeds to ALS-inhibiting herbicides: What have we learned? Weed Sci. 50:700-712.

Contributed Chapters

Trucco, F. and P. J. Tranel. 2011. Amaranthus. Pp 11-21 in C. Kole (ed.) Wild Crop Relatives: Genomic and Breeding Resources: Vegetables. Springer, New York.
Stewart, C. N., Jr., Y. Peng, L. G. Abercrombie, M. D. Halfhill, M. R. Rao, P. Ranjan,  J Hu, R. D. Sammons, G. R. Heck, P. J. Tranel, and J. S. Yuan. 2010. Genomics of glyphosate resistance. Pp 149-164 in V. Nandula (ed.) Glyphosate Resistance in Weeds. Blackwell Publishing, Ames.
Tranel, P. J. and F. Trucco. 2009. 21st-century weed science: A call for Amaranthus genomics. Pp 53-81 in C. N. Stewart Jr. (ed.) Weedy and Invasive Plant Genomics. Blackwell Publishing, Ames.
Hu, J., P. J. Tranel, C. N. Stewart Jr., and J. S. Yuan. 2009. Molecular and genomic mechanisms of non-target-site herbicide resistance. Pp 149-161 in C. N. Stewart Jr. (ed.) Weedy and Invasive Plant Genomics. Blackwell Publishing, Ames.
Tranel, P. J. and F. Trucco. 2004. Molecular biology applied to weed science. Pages 745-747 In R. M. Goodman (ed.) Encyclopedia of Plant and Crop Science. Dekker, New York.
Tranel, P. J. 2002.Weeds and weed control strategies, Chapter 17. Pp. 446-471 in M.J. Chrispeels and D. E. Sadava (eds.) Plants, Genes, and Crop Biotechnology, 2nd Edition. Jones and Bartlett Publishers, Boston.