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The potential future roles of natural compounds and microbial bioherbicides in weed management in crops

Abstract

There is a popular demand for more natural means of pest management, including weed management, as well as a demand by farmers for herbicides with new chemistries and/or new modes of action to which current weed resistances do not apply. Natural compounds offer a source compounds that can either meet these needs in their natural state or as templates for herbicides with better physicochemical properties for field use. In some cases, simply identifying a good herbicide target site with a natural phytotoxin can be valuable, even though that compound is not used as a template for new herbicides. Compared to insecticides and fungicides, natural compounds have been under-utilized for herbicides. Despite their need, living, microbial biocontrol agents have had little impact on weed management in crops, despite decades of research to discover and develop such products. Management of insect and plant pathogens with microbial biopesticides has been much more successful. The reasons for this and possible solutions are discussed. Killed microbial preparations containing potent phytotoxins avoid some of the issues with live microbes, and such products are under development. This type of product can also offer more than one new mode of action in a single preparation. Precision and smart spray systems can improve the economics of both natural product-based herbicides and microbial bioherbicides.

Herbicide; microbial bioherbicide; mode of action; mycoherbicide; natural phytotoxin

1.Introduction

Agriculture in developed countries has primarily relied on synthetic herbicides for weed management for more than 70 years. This technology is showing its age with the ever growing evolution of resistance to available commercial herbicides and even resistance by non-target site mechanisms of resistance to herbicides yet to be introduced (Gaines et al., 2020Gaines TA, Duke SO, Morran S, Rigon C, Tranel PJ, Küpper A et al. Mechanisms of evolved herbicide resistance. J Biol Chem. 2020;295(30):10307-30. Available from: https://doi.org/10.1074/jbc.REV120.013572
https://doi.org/10.1074/jbc.REV120.01357...
). The number of herbicides being introduced with new molecular targets and/or new chemical classes for which no resistance exists is few (Qu et al., 2021Qu RY, He B, Yang JF, Lin HY, Yang WC, Wu QY et al. Where are the new herbicides? Pest Manag Sci. 2021;77(6):2620-5. Available from: https://doi.org/10.1002/ps.6285
https://doi.org/10.1002/ps.6285...
). Natural products have been the inspiration for insecticides and fungicides with new molecular targets, but to a much lesser extent with herbicides (Lorsbach et al., 2019Lorsbach BA, Sparks TA, Cicchillo RM, Garizi NV, Hahn DR, Meyer KG. Natural products: as strategic lead generation approach in crop protection discovery. Pest Manag Sci. 2019;75(9):2301-9. Available from: https://doi.org/10.1002/ps.5350
https://doi.org/10.1002/ps.5350...
; Sparks, Duke, 2021). This may be partially due to the relatively reduced effort of herbicide discovery after glyphosate dominated the herbicide market, reducing the overall value of that market significantly (Duke, 2012Duke SO. Why have no new herbicide modes of action appeared in recent years? Pest Manag Sci. 2012;68(4):505-12. Available from: https://doi.org/10.1002/ps.2333
https://doi.org/10.1002/ps.2333...
). The fungicide and insecticide markets have not experienced a similar phenomenon. Nevertheless, information on the molecular targets of many natural phytotoxins indicates that natural products could be the basis for new herbicides to help cope with the growing herbicide resistance problem (Dayan, Duke, 2014).

Microbial bioherbicides, as defined by the United States Environmental Protection Agency, are preparations of killed or live microbes to kill weeds. Their utilization carries different problems and risks than those of chemical herbicides. Although there have been significant improvements in the adoption of microbial biofungicides and bioinsecticides in the past 50 years (Marrone, 2019Marrone PG. Pesticidal natural products: status and future potential. Pest Manag Sci. 2019;75(9):2325-40. Available from: https://doi.org/10.1002/ps.5433
https://doi.org/10.1002/ps.5433...
), there have been relatively few advancements in this area with microbial bioherbicides. We briefly discuss these problems and how they might be overcome.

The growing popularity of and political pressure for organic agriculture and food grown without synthetic pesticides is also providing an impetus to discover and develop weed management technologies that can meet these criteria. The demands for such products are not necessarily based on unequivocal information that such organic or more natural farming is more environmentally or toxicologically safe than conventional farming. For example, some studies have shown organic grains to have more mycotoxins than those from conventional farms (e.g., Kuzdraliński et al., 2013Kuzdraliński A, Solarska W, Mazukiewicz J. Mycotoxin content of organic and conventional oats from southeastern Poland. Food Control. 2013;33(1):68-72. Available from: https://doi.org/10.1016/j.foodcont.2013.02.014
https://doi.org/10.1016/j.foodcont.2013....
). Some mycotoxins (e.g., fumonisins) produced by microbial pathogens that infect crops are orders of magnitude more toxic to humans than most pesticide residues. Nevertheless, there is good reason for intensifying research to provide safe weed management technologies to meet the demands of farmers, consumers, and regulatory bodies though the use of natural phytotoxins and microbial bioherbicides.

The natural phytotoxin parts of this review have been covered in part by recent papers (e.g., Dayan, Duke, 2014; Lorsbach et al., 2019Lorsbach BA, Sparks TA, Cicchillo RM, Garizi NV, Hahn DR, Meyer KG. Natural products: as strategic lead generation approach in crop protection discovery. Pest Manag Sci. 2019;75(9):2301-9. Available from: https://doi.org/10.1002/ps.5350
https://doi.org/10.1002/ps.5350...
; Marrone, 2019Marrone PG. Pesticidal natural products: status and future potential. Pest Manag Sci. 2019;75(9):2325-40. Available from: https://doi.org/10.1002/ps.5433
https://doi.org/10.1002/ps.5433...
; Westwood et al., 2018Westwood JH, Charudattan R, Duke SO, Fennimore SA, Marrone P, Slaughter DC et al. Weed control in 2050: perspectives on the future of weed science. Weed Sci. 2018;66(3):275-85. Available from: https://doi.org/10.1017/wsc.2017.78
https://doi.org/10.1017/wsc.2017.78...
), as have the microbial bioherbicides parts (Cordeau et al., 2016Cordeau S, Triolet M, Wayman S, Steinberg C, Guillemin JP. Bioherbicides: dead in the water? A review of existing products for integrated weed management. Crop Prot. 2016;87:44-9. Available from: https://doi.org/10.1016/j.cropro.2016.04.016
https://doi.org/10.1016/j.cropro.2016.04...
; Harding, Raizada, 2015; Morin, 2020Morin L. Progress in biological control of weeds with plant pathogens. Annu Rev Phytopath. 2020;58:201-23. Available from: https://doi.org/10.1146/annurev-phyto-010820-012823
https://doi.org/10.1146/annurev-phyto-01...
; Watson, 2018Watson AK. Microbial herbicides. In:Korres NE, Burgos NR, Duke SO, ditors. Weed control: sustainability, hazards and risks in cropping systems worldwide. Boca Raton: CRC; 2018. p. 133-52.; Hasan et al., 2021Hasan M, Ahmad-Hamadani MS, Rosli AM, Hamdan H. Bioherbicides: an eco-friendly tool for sustainable weed management. Plants. 2021;10(6):1-21. Available from: https://doi.org/10.3390/plants10061212
https://doi.org/10.3390/plants10061212...
; Berestetskiy, 2021Berestetskiy A. Development of mycoherbicides. In: Zaragoza O, Casadevall A, ditors. Encyclopedia of Mycology. Vol. 2. Amsterdam: Elsevier; 2021. p. 629-40.). This review is meant to discuss the literature on these two topics together, showing how they are related.

2.Natural Compounds

2.1 Used as a herbicide without modification

Unlike for insecticides and fungicides, few natural compounds are used as found in nature for pest management (Gerwick, Sparks, 2014). Pelargonic acid, a simple fatty acid, has a limited market as a contact herbicide. Its effects are mainly through disruption of the plasma membrane (Dayan, Watson, 2011). It is a contact herbicide used at high application rates. Simple organic acids such as acetic acid are also sold for the organic weed control market (Dayan, Duke, 2010; Duke et al., 2019a). Various plant essential oils such as lemon grass, clove, cinnamon, citrus, and pine oil are sold for weed management (Dayan, Duke, 2010; Duke et al., 2019a). Some of the constituents of these oils are interesting because of their unique modes of action. For example, citral, a monoterpene aldehyde that is a mixture of two isomers and a component of Citrus aurantiifolia oil used for organic weed management (Fagodia et al., 2017Fagodia SK, Singh HP, Batish DR, Kohli RK. Phytotoxicity and cytotoxicity of Citrus aruantiifolia essential oil and its major constituents: limonene and citral. Indust Crops Prod. 2017;108:708-15. Available from: https://doi.org/10.1016/j.indcrop.2017.07.005
https://doi.org/10.1016/j.indcrop.2017.0...
) apparently acts by inhibition of single strand DNA-binding proteins (Graña, 2020), a novel mode of action.

However, these products are not as efficacious as commercial, synthetic herbicides, requiring much more of the product for poorer weed management at a much higher cost. For example, Young (2004)Young SL. Natural product herbicides for control of annual vegetation along roadsides. Weed Technol. 2004:18(3):580-7. Available from: https://doi.org/10.1614/WT-03-094R3
https://doi.org/10.1614/WT-03-094R3...
found glyphosate to give much better weed control than acetic acid or pine oil sold for weed management and to cost 50- to 80-fold less than these products. Few studies such as this have been done, but commercial farmers, even organic commercial farmers, use very little of these products because of cost and lack of adequate efficacy. For organic farmers, the cost of non-chemical means of weed management (e.g., hoeing) is less than for most of these products. For example, Boyd et al. (2006)Boyd NS, Brennan EB, Fennimore SA. Stale seedbed techniques for organic vegetable production. Weed Technol. 2006;20:1052-7. Available from: https://doi.org/10.1614/WT-05-109.1
https://doi.org/10.1614/WT-05-109.1...
found the combined cost of an array of stale seedbed treatments, including labor, for weed management ($USD 269/ha) to be much less than weed management with a clove oil product ($USD 388/ha). Similarly, Shrestha et al. (2012)Shrestha A, Moretti M, Mourad N. Evaluation of thermal implements and organic herbicide for weed control in a nonbearing almond (Prunus dulcis) orchard. Weed Technol. 2012;26(1):110-6. Available from: https://doi.org/10.1614/WT-D-11-00083.1
https://doi.org/10.1614/WT-D-11-00083.1...
found a D-limonene-based herbicide to provide poor weed management and to cost five- to ten-fold more than the use of steam or flame treatments for weed management. Papers abound on the use of exotic essential oils as herbicides (e.g., Hazrati et al., 2017Hazrati H, Saharkhiz MJ, Niakousari M, Moein M. Natural herbicide activity of Satureja hortensis L. essential oil nanoemulsion on the seed germination and morphophysiological features of two important weed species. Ecotoxicol Environ Saf. 2017;142:423-30. Available from: https://doi.org/10.1016/j.ecoenv.2017.04.041
https://doi.org/10.1016/j.ecoenv.2017.04...
), however, the cost of these essential oils is likely to be even greater than those already on the market as herbicides. Another example is manuka oil, a product of Leptospermnum scoparium, a shrub found in New Zealand. It is active as a herbicide (Dayan et al., 2011Dayan FE, Howell J, Marais JP, Ferreira D, Koivunen M. Manuka oil, a natural herbicide with preemergence activity. Weed Sci. 2011;59(4):464-9. Available from: https://doi.org/10.1614/WS-D-11-00043.1
https://doi.org/10.1614/WS-D-11-00043.1...
) due to the natural hydroxyphenylpyruvate dioxygenase-inhibiting triketones found therein (Dayan et al., 2007Dayan FE, Duke SO, Sauldubois A, Singh N, McCurdy C, Cantrell CL. p-Hydroxyphenylpyruvate dioxygenase is a target site for β-triketones from Leptospermum scoparium. Phytochemistry. 2007;68(14):2004-14. Available from: https://doi.org/10.1016/j.phytochem.2007.01.026
https://doi.org/10.1016/j.phytochem.2007...
) (see section 2.2), but it is very expensive, even for use in aromatherapy (e.g., $USD 46.59 for 10 ml for one product on the web in June, 2021). The cost of the weed management with these products would be more than the value of the crop.

The crude botanical product, maize gluten, is sold as a fertilizer, but has weed-controlling properties (Bingamen, Christians, 1995), possibly due to phytotoxic dipeptides (Liu, Christians, 1994). The application rate for weed management is huge (ca. 810 kg/ha).

There are many studies published on formulation methods to improve the efficacy of such products (e.g., Taban et al., 2021Taban A, Saharkhiz MJ, Kavoosi G. Development of pre-emergence herbicide based on Arabic gum-gelatin, apple pectin and savory essential oil nano-particles: a potential green alternative to metribuzin. Int J Biol Macromol. 2021;167:756-65. Available from: https://doi.org/10.1016/j.ijbiomac.2020.12.007
https://doi.org/10.1016/j.ijbiomac.2020....
), however, there are still no such completely natural commercial products that are competitive with synthetic herbicides. These natural, commercial products are used primarily by home gardeners who want greener pest management with no residual effects and are not concerned by cost.

The plant natural amide compound sarmentine (Figure 1) has been patented and was/is being developed as a herbicide for organic weed management. It is 10 to 30 times more herbicidal than pelargonic acid on grass and dicot weeds (Dayan et al., 2015Dayan FE, Owens DK, Watson SB, Asolkar RN, Boddy LG. Sarmentine, a natural hebicide from Piper speies with multiple herbicide modes of action. Front Plant Sci. 2015;6:1-11. Available from: https://doi.org/10.3389/fpls.2015.00222.
https://doi.org/10.3389/fpls.2015.00222...
). These authors found that it has several modes of action, including disruption of the plasma membrane, perhaps by inhibition of enoyl-ACP reductase, and inhibition of photosystem II (PSII) of photosynthesis. Having at least two targets makes the evolution of target site resistance more improbable, a trait that no commercial herbicides have (Gressel, 2020Gressel J. Perpsective: present pesticide discovery paradigms promote the evolution of resistance: learn from nature and prioritize multi-target site inhibitor design. Pest Manag Sci. 2020;76(2):421-5. Available from: https://doi.org/10.1002/ps.5649
https://doi.org/10.1002/ps.5649...
).

Figure 1
Structures of some of the natural phytotoxins mentioned in the text.

The tripeptide bialaphos from Streptomyces hygroscopus has been sold in Japan as a fermentation-produced herbicide (Tachibanca, 2003Tachibanca K. [Bialaphos, a natural herbicide]. Meiji Seika Kenkyu Nenpo. 2003;42:44-57. Japanese.). It must be converted to phosphinothricin in plants to attack its molecular target as a herbicide, glutamine synthetase (GS) (Wild, Ziegler, 1988). The synthesized version of phosphinothricin, glufosinate, is a major herbicide with a growing market, due to the increased utility of glufosinate-resistant crops because of increased in glyphosate-resistant weeds (Duke, 2019a). The commercial product is a racemic mixture of the active, pure L-glufosinate which is identical to phosphinothricin and the inactive D-glufosinate (Copping, Duke, 2007). Efforts are being made to economically produce the L-enantiomer, the use of which would be advantageous to reduce crop injury and for potential toxicological reasons (Takano, Dayan, 2020; Yue et al., 2020Yue S, Kong Y, Shen Q, Cui Q, Chen Y., Zhao M. Assessing the efficacy-risk of the widely used chiral glufosinate: switch from the racemate to the single enantiomer? Environ Sci Technol Lett. 2020;7(3):143-8. Available from: https://doi.org/10.1021/acs.estlett.9b00789
https://doi.org/10.1021/acs.estlett.9b00...
). There are numerous other natural GS inhibitors that are not commercialized as herbicides (Lydon, Duke, 1999), perhaps because of high cost and/or inadequate physicochemical properties.

There are many papers on the phytotoxicity of natural compounds that suggest that they have potential as herbicides (e.g., Dayan and Duke, 2014Dayan FE, Duke SO. Natural compounds as next generation herbicides. Plant Physiol. 2014;166(3):1090-105. Available from: https://doi.org/10.1104/pp.114.239061
https://doi.org/10.1104/pp.114.239061...
), but, as discussed above, few are likely to ever be used directly as herbicides. The reasons for this are combinations of high costs, poor efficacy, unsuitable physicochemical properties, and/or unacceptable mammalian toxicity. Weed management is the biggest pest problem of many organic farmers, so an effective, economical, and safe natural product herbicide is in great demand, presenting a strong incentive to discover such a natural product that could be used directly as a commercial herbicide.

2.2 Used as templates for better herbicides

Simplification of natural compound structure to reduce cost and/or alteration of the structure to improve activity or physicochemical properties (Sparks, Duke, 2021) has been very successful in both commercial pesticide and pharmaceutical development. Compared to insecticides and fungicides, there are relatively few commercial herbicides that can trace their origins back to a natural product (Gerwick, Sparks, 2014; Sparks et al., 2017Sparks TC, Hahn DR, Garizi NV. Natural products, their derivatives, mimics and synthetic equivalents: role in agrochemical discovery. Pest Manag Sci. 2017;73(4):700-15. Available from: https://doi.org/10.1002/ps.4458
https://doi.org/10.1002/ps.4458...
; Lorsbach et al., 2019Lorsbach BA, Sparks TA, Cicchillo RM, Garizi NV, Hahn DR, Meyer KG. Natural products: as strategic lead generation approach in crop protection discovery. Pest Manag Sci. 2019;75(9):2301-9. Available from: https://doi.org/10.1002/ps.5350
https://doi.org/10.1002/ps.5350...
; Sparks, Duke, 2021). The clearest case of important herbicides being derived from a natural compound is the triketone HPPD inhibitor herbicides that were derived from the natural triketone allelochemical leptospermone (Lee et al., 1997Lee DL, Prisbylla MP, Cromartie TH, Dagarin DP, Howard SW, Provan WM et al. The discovery and structural requirements of inhibitors of p-hydroxyphenylpyruvate dioxygenase. Weed Sci. 1997;45(5):601-9. Available from: https://doi.org/10.1017/S0043174500093218
https://doi.org/10.1017/S004317450009321...
). This was a new herbicide mode of action when the triketone herbicides were introduced. Other resemblances of commercial herbicides to natural compounds may be by chance, as there is no public documentation of their derivatization from a natural molecule. Two examples of this are the strong resemblances of the herbicide endothall to the natural compound cantharidin from insects, which is also very phytotoxic (Bajsa et al., 2012Bajsa J, Pan Z, Dayan FE, Owens DK, Duke SO. Validation of serine/threonine protein phosphatase as the herbicide target site of endothall. Pestic Biochem Physiol. 2012;102(1):38-44. Available from: https://doi.org/10.1016/j.pestbp.2011.10.007
https://doi.org/10.1016/j.pestbp.2011.10...
), and of the herbicide cinmethylin to the monoterpene 1,4-cineole (May et al., 1985May JW, Goss JR, Moncorge JM, Murphy MW. SD 95481 a versatile new herbicide with wide spectrum crop use. In: Proceeding of British Crop Protection Conference; Brighton, England. Alton: British Crop Protection Council; 1985. p. 265-70.; Vaughn, Spencer, 1993). Both of these have modes of action that are unique among herbicides. Cinmethylin inhibits acyl-ACP thioesterase (Campe et al., 2018Campe R, Hollenbach E, Kämmerer L, Hendriks J, Höffken HW, Kraus H et al. A new herbicidal site of action: cinnmethylin binds to acyl-ACP thioesterase and inhibits plant fatty acid biosynthesis. Pestic Biochem Physiol. 2018;148:116-25. Available from: https://doi.org/10.1016/j.pestbp.2018.04.006
https://doi.org/10.1016/j.pestbp.2018.04...
) and endothall inhibits serine/threonine protein phosphatase (Bajsa et al., 2012Bajsa J, Pan Z, Dayan FE, Owens DK, Duke SO. Validation of serine/threonine protein phosphatase as the herbicide target site of endothall. Pestic Biochem Physiol. 2012;102(1):38-44. Available from: https://doi.org/10.1016/j.pestbp.2011.10.007
https://doi.org/10.1016/j.pestbp.2011.10...
). These modes of action were not clearly determined and recognized by the Herbicide Resistance Action Committee (2021)Herbicide Resistance Action Committee – Hrac. Protecting crop yields and quality worldwide. 2021[access Jun 15, 2021]. Available from: http://hracglobal.com
http://hracglobal.com...
until decades after they were first commercialized, so at the farm level, these are not really new modes of action.

There are cases of potent natural phytotoxins with new molecular target proteins that might be modified to improve their physicochemical properties and/or to reduce the cost of production of the compound. For example, the microbial tetrapeptide tentoxin inhibits CF1 ATPase of the chloroplast and is active on key weed species at low concentrations and is harmless to maize and soybean (Duke, 1986Duke SO. Microbial phytotoxins as herbicides: a perspective. In: Putnam AR, Tang CS, ditors. The science of allelopathy. London: Wiley; 1986. p. 287-304.; Lax et al., 1988Lax AR, Shepherd HS, Edwards JV. Tentoxin, a chlorosis-inducing toxin from Alternaria as a potential herbicides. Weed Technol. 1988;2(4):540-4. Available from: https://doi.org/10.1017/S0890037X00032413
https://doi.org/10.1017/S0890037X0003241...
); however, it is extremely expensive. Efforts have been made to make analogs to reduce the cost and improve the herbicidal activity of this molecule (e.g., Edwards et al., 1987Edwards JV, Lax AR, Lillehoj EB, Boudreaux GJ. Structure-activity relationships of cyclic and acyclic analogues of the phytotoxic peptide tentoxin. J Agric Food Chem. 1987;35(4):451-6.). Similarly, the potent microbial phytotoxin hydantocidin that kills plants by inhibition of adenylosuccinate synthetase (Cseke et al., 1996Cseke C, Gerwick BC, Crouse GD, Murdoch MG, Green SB, Heim DR. 2α-phosphohydantocidin: the in vivo adenylosuccinate synthetase inhibitor responsible for hydantocidin phytotoxicity. Pestic Biochem Physiol. 1996;55(3):210-17. Available from: https://doi.org/10.1006/pest.1996.0050
https://doi.org/10.1006/pest.1996.0050...
; Heim et al., 1995Heim DR, Cseke C, Gerwick BC, Murdoch MG, Green SB. Hydantocidin: a possible proherbicide inhibiting purine biosynthesis at the site of adenylosuccinate synthetase. Pestic Biochem Physiol. 1995;53(2):138-45. Available from: https://doi.org/10.1006/pest. 1995.1061
https://doi.org/10.1006/pest. 1995.1061...
; Siehl et al., 1996Siehl DL, Subramanian MV, Walters EW, Lee S-F, Anderson RJ, Toschi AG. Adenylosuccinate synthetase: site of action of hydantocydin, a microbial phytotoxin. Plant Physiol. 1996;110(3):753-8. Available from: https://doi.org/10.1104/pp.110.3.753
https://doi.org/10.1104/pp.110.3.753...
) was the focus of numerous attempts to create more effective herbicides (e.g., Harrington, Jung, 1994). Hydantocidin is a proherbicide that must be phosphorylated to inhibit its target enzyme (Fonné-Pfister et al., 1996Fonné-Pfister R, Chemla P, Ward E, Giradet M, Kreuz KE, Honzatko RB et al. The mode of action and the structure of a herbicide in complex with its target: binding of activated hydantocidin to the feedback regulation site of adenylosuccinate synthetase. Proc Natl Acad Sci USA. 1996;93(18):9431-46. Available from: https://doi.org/10.1073/pnas.93.18.9431
https://doi.org/10.1073/pnas.93.18.9431...
; Heim et al., 1995Heim DR, Cseke C, Gerwick BC, Murdoch MG, Green SB. Hydantocidin: a possible proherbicide inhibiting purine biosynthesis at the site of adenylosuccinate synthetase. Pestic Biochem Physiol. 1995;53(2):138-45. Available from: https://doi.org/10.1006/pest. 1995.1061
https://doi.org/10.1006/pest. 1995.1061...
; Siehl et al., 1996Siehl DL, Subramanian MV, Walters EW, Lee S-F, Anderson RJ, Toschi AG. Adenylosuccinate synthetase: site of action of hydantocydin, a microbial phytotoxin. Plant Physiol. 1996;110(3):753-8. Available from: https://doi.org/10.1104/pp.110.3.753
https://doi.org/10.1104/pp.110.3.753...
). This enzyme target is not used by any commercial herbicide. These are examples of potential herbicides with new modes of action that would be very useful in managing evolution of herbicide resistance, even though new modes of action alone are not a panacea for this problem (Gaines et al., 2021Gaines TA, Busi R, Kuepper A. Can new herbicide discovery allow weed management to outpace resistance evolution? Pest Manag Sci. 2021;77(7):3036-41. Available from: https://doi.org/ 10.1002/ps.6457
https://doi.org/ 10.1002/ps.6457...
).

There are also examples of natural phytotoxins that have modes of action of commercial herbicides, but bind the molecular target differently than commercial herbicides, making target site-resistant weeds susceptible to them. For example, the fungal metabolite tenuazonic acid is a PSII inhibitor that binds the D1 differently than triazine herbicides (Chen, Quiang, 2017, Chen et al., 2007Chen S, Xu X, Dai X, Yang C, Qiang S. Identification of tenuazonic acid as a novel type of natural photosystem II inhibitor binding QB-site of Clamydomonas reinhardtii. Biochim Biophys Acta. 2007;1767(4):306-18. Available from: https://doi.org/10.1016/j.bbabio.2007.02.007
https://doi.org/10.1016/j.bbabio.2007.02...
). Derivatives of this compound have been patented as herbicides (Chen, Quiang, 2017). Tenuazonic acid itself is a good herbicide in cotton which is naturally tolerant to it (Zhou et al., 2019Zhou B, Wang H, Meng B, Wei R, Wang L, An C et al. An evaluation of tenuazonic acid, a potential biobased herbicide in cotton. Pest Manag Sci. 2019;75(9):2482-9. Available from: https://doi.org/10.1002/ps.5402
https://doi.org/10.1002/ps.5402...
).

2.3 Used to identify new herbicide targets

Herbicides with new herbicide modes of action are in great demand because of the evolution of weed resistance to herbicides from almost all mode of action classes (Heap, Duke, 2018; Gaines et al., 2020Gaines TA, Duke SO, Morran S, Rigon C, Tranel PJ, Küpper A et al. Mechanisms of evolved herbicide resistance. J Biol Chem. 2020;295(30):10307-30. Available from: https://doi.org/10.1074/jbc.REV120.013572
https://doi.org/10.1074/jbc.REV120.01357...
) and the lack of commercial herbicides with new modes of action over the last 30 years (Duke, 2012Duke SO. Why have no new herbicide modes of action appeared in recent years? Pest Manag Sci. 2012;68(4):505-12. Available from: https://doi.org/10.1002/ps.2333
https://doi.org/10.1002/ps.2333...
; Qu et al., 2021Qu RY, He B, Yang JF, Lin HY, Yang WC, Wu QY et al. Where are the new herbicides? Pest Manag Sci. 2021;77(6):2620-5. Available from: https://doi.org/10.1002/ps.6285
https://doi.org/10.1002/ps.6285...
). Therefore, herbicides with new molecular targets are needed for herbicide resistance management strategies. One approach to achieve this goal is to establish that inhibition of a new molecular target will kill plants. For several possible reasons, not all potential molecular targets are amenable as a herbicide target (Dayan, Duke, 2020). There are, however, many natural compounds that kill plants through inhibition of enzymes of molecular targets that are not one of those of commercial herbicides, indicating that these are potentially good targets for focusing herbicide discovery. Dayan and Duke (2014)Dayan FE, Duke SO. Natural compounds as next generation herbicides. Plant Physiol. 2014;166(3):1090-105. Available from: https://doi.org/10.1104/pp.114.239061
https://doi.org/10.1104/pp.114.239061...
reviewed the molecular targets of natural herbicidal compounds known at that time, describing many that have potential for the development of new herbicides. We will not repeat this extensive review, but since this review was published, several new molecular targets of microbial metabolite phytotoxins have been published that we cover below. We also discuss some older compounds not covered in previous reviews.

Compounds that have not received significant recognition in previous reviews are the phytotoxic naphthopyranone derivative compounds from the coprophilous fungus Guanomyces polythrix (Macías et al., 2001Macías M, Ulloa M, Gamboa A, Toscano RA, Mata R. Phytotoxic naphthopyranone derivatives from the croprophilous fungus Guanomyces polythrix. Phytochemistry. 2001;58(5):751-8. Available from: https://doi.org/10.1016/s0031-9422(01)00278-3
https://doi.org/10.1016/s0031-9422(01)00...
). These compounds appear to act primarily through interference with calmodulin (Mata et al., 2003Mata R, Gamboa A, Macias M, Santillan S, Ulloa M, González C. Effect of selected phytotoxins from Guanomyces polythrix on the calmodulin-dependent activity of the enzymes cAMP phophodiestrase and NAD-kinase. J Agric Food Chem. 2003;51(6):4559-62. Available from: https://doi.org/10.1021/jf030115x
https://doi.org/10.1021/jf030115x...
), a novel target for a herbicide. Martínez-Luis et al. (2007)Martínez-Luis S, Pérez-Vásquez, Mata R. Natural products with calmodulin inhibitor properties. Phytochemistry. 2007;68(14):1882-903. Available from: https://doi.org/10.1016/j.phytochem.2007.02.025
https://doi.org/10.1016/j.phytochem.2007...
discuss several natural compounds that may act as phytotoxins by interfering with calmodulin function.

Aspterric acid (Figure 1), a phytotoxic, sesquiterpene metabolite of several fungi, was found to be a potent inhibitor of the last enzyme of the branched chain amino acid pathway, dihydroxy acid dehydratase (DAD) (Yan et al., 2018Yan Y, Liu Q, Zang X, Yuan S, Bat-Erdene U, Nguyen C et al. Resistance-gene-directed discovery of a natura-product herbicide with a new mode of action. Nature. 2018;559:415-8. Available from: https://doi.org/10.1038/s41586-018-0319-4
https://doi.org/10.1038/s41586-018-0319-...
). As pointed out by Duke et al. (2019b), this compound is herbicidally weak compared to commercial herbicides, although DAD is potentially a good, new target that has been the focus of past company herbicide discovery efforts.

The cyanobacterial non-primary metabolite sugar, 7-deoxy-sedoheptulose (Figure 1), was found to be phytotoxic by inhibition of 3-dehydroquinate synthase, the second enzyme of the shikimate pathway (Brislisauer et al., 2019Brislisauer K, Rapp J, Rath P, Schöllhorn A, Bleul L, Weiß E et al. Cyanobacterial antimetabolite 7-deoxy-sedoheptulose blocks the shikimate pathway to inhibit the growth of prototrophic organisms. Nat Comm. 2019;10:1-11. Available from: https://doi.org/10.1038/s41467-019-08476-8
https://doi.org/10.1038/s41467-019-08476...
). Its activity on Arabidopsis thaliana seedling growth was similar to, if not greater than, that of glyphosate, another inhibitor of an enzyme (5-enolpyruvylshikimate-3-phosphate synthase) of the shikimate pathway that is the most successful herbicide in the world (Duke, Powles, 2008).

Romidepsin (Figure 1), one of two phytotoxic natural compounds from a biopesticide based on the soil microbe Burkholderia rinojensis (see Section 3), inhibits plant histone deacetylases (HDAs) (Owens et al., 2020Owens DK, Bajsa-Hirschel J, Duke SO, Carbonari CA, Gomes GLGC, Asolkar R et al. The contribution of romidepsin to the herbicidal activity of Burkholderia rinojensis bioherbicide. J Nat Prod. 2020;83(4):843-51. Available from: https://doi.org/10.1021/acs.jnatprod.9b00405
https://doi.org/10.1021/acs.jnatprod.9b0...
). It is highly active on A. thaliana (IC50 = 0.19 µM) and is seven-fold more active on HDAs in the reduced than the oxidized form. The aminophenoxazinone compound 2-amino-3H-phenoxazin-3-one (APO), which is produced by soil microbes through metabolism of the plant-produced benzoxazinoid allelochemical 4-dihydroxy2H-1,4-benzoxazin-3(4H)-one (DIBOA) (Macías et al., 2005b), is also a HDA inhibitor (Venturelli et al., 2015Venturelli S, Belz RG, Kämper A, Berger A, von Horn K, Wegner A et al. Plants release precursors of histone deacetylase inhibitors to suppress growth of competitors. Plant Cell. 2015;27(11):3175-89. Available from: https://doi.org/10.1105/tpc.15.00585
https://doi.org/10.1105/tpc.15.00585...
), although it is weaker than romidepsin as both a phytotoxin and a HAD inhibitor. However, APO is a stronger phytotoxin than DIBOA (Macías et al., 2005a).

A complication in determining the mode of action of some natural compounds as herbicides is that they may have more than one molecular target. For example, the relatively potent allelochemical sorgoleone inhibits PSII, mitochondrial electron transport, HPPD, and root H+-ATPase activity (Dayan et al., 2010Dayan FE, Rimando AM, Pan Z, Baerson SR, Gimsing AL, Duke SO. Sorgoleone. Phytochemistry. 2010;71(10):1032-9. Available from: https://doi.org/10.1016/j.phytochem.2010.03.011
https://doi.org/10.1016/j.phytochem.2010...
). However, there are no papers that demonstrate multiple modes of action at a single concentration under realistic field conditions. In the case of sorgoleone, PSII appears the be the dominant mode of action in seedlings, with additional modes of action being involved in older plants (Dayan et al., 2009Dayan FE, Howell J, Weidenhamer JD. Dynamic root exudation of sorgoleone and its in planta mechanism of action. J Exp Bot. 2009;60(7):2107-17. Available from: https://doi.org/10.1093/jxb/erp082
https://doi.org/10.1093/jxb/erp082...
). Similarly, the natural phytotoxins linarin (Figure 1), a flavone phytochemical, (Rios et al., 2018Rios MY, Córdova-Albores LC, Ramirez-Cisneros MA, King-Díaz B, Lotina-Hennsen B, Rivera IL et al. Phytotoxic potenetial of Zanthoxylum affine and its major compound linarin as a possible natural herbicide. ACS Omega. 2018;3(11):11779-87. Available from: https://doi.org/10.1021/acsomega.8b02020
https://doi.org/10.1021/acsomega.8b02020...
) and 3-acetyl-5-isopropyltetramic acid (Chen et al., 2011Chen SG, Zhou FY, Yin CY, Strasser RJ, Yang CL, Qiang S. Application of fast chlorophyll a fluorescence kinetics to probe action target of 3-acetyl-5-isopropyltetramic acid. Environ Exp Bot. 2011;71:269-79. Available from: https://doi.org/10.1016/j.envexpbot.2011.08.005
https://doi.org/10.1016/j.envexpbot.2011...
), both PSII inhibitors, also appear to have other modes of action. The multiple modes of action of sarmentine (Dayan et al., 2015Dayan FE, Owens DK, Watson SB, Asolkar RN, Boddy LG. Sarmentine, a natural hebicide from Piper speies with multiple herbicide modes of action. Front Plant Sci. 2015;6:1-11. Available from: https://doi.org/10.3389/fpls.2015.00222.
https://doi.org/10.3389/fpls.2015.00222...
) are discussed above. For natural products that are the result of their evolution to be phytotoxic, the evolutionary process occurred over a much longer period than that of the use of synthetic herbicides, so avoidance of evolved target site resistance to them would favor compounds with multiple modes of action. As mentioned earlier, no synthetic herbicides have multiple modes of action at recommended application rates, but, considering the current herbicide resistance problems, a compound with multiple modes of action would be highly desirable (Gressel, 2020Gressel J. Perpsective: present pesticide discovery paradigms promote the evolution of resistance: learn from nature and prioritize multi-target site inhibitor design. Pest Manag Sci. 2020;76(2):421-5. Available from: https://doi.org/10.1002/ps.5649
https://doi.org/10.1002/ps.5649...
).

Clearly, a synthetic compound that effectively inhibits the targets of natural phytotoxins that kill plants at low concentrations could be a desirable commercial herbicide with a new mode of action if its cost is not prohibitive and its toxicological profiles (human and environmental) are benign. Natural products provide better clues to targets for herbicides than other strategies such as knocking out genes for potential targets. The limitations of the gene knockout approach are detailed by Duke et al. (2009)Duke SO, Baerson SR, Gressel J. Genomics and weeds: a synthesis. In: Stewart CN, editor. Weedy and invasive plant genomics. Singapore: Blackwell; 2009. p. 221-47..

3.Microbial Bioherbicides

Microbial bioherbicides, as defined by the United States Environmental Protection Agency, are live or killed microbes that are applied to kill or manage weeds. To our knowledge, regulatory agencies in other parts of the world do not consider killed microbe preparations to be microbial bioherbicides. Most of the effort with such products has been with live microbes, using either an inoculative or inundative approach. The inoculative approach is to introduce a microbe to an area infested by the target weed(s) and let it spread. This approach has been used primarily for management of invasive weeds in non-crops settings (Morin, 2020Morin L. Progress in biological control of weeds with plant pathogens. Annu Rev Phytopath. 2020;58:201-23. Available from: https://doi.org/10.1146/annurev-phyto-010820-012823
https://doi.org/10.1146/annurev-phyto-01...
). This type of classical biocontrol is not suitable for most crops, especially annual crops, as the spread and action of the microbe are usually too slow to sufficiently protect a crop during a production season. Also, if successful, the microbe can become native to the treated area, so that more of the bioherbicide is not needed – a disincentive for commercialization. The microbe of choice for the inoculative approach is usually one from the center of origin of the invasive weed. There are ecological risks to introduction of a microbe into a habitat in which it has never existed. Also, the Nagoya Protocol has complicated use of microbes from the country or countries of origin in countries where the microbe is not found (Copping, 2015Copping LG. Biopesticides: new solutions for old problems. Outlooks Pest Manag. 2015;25(6):281-6. Available from: https://doi.org/10.1564/v26_dec_13
https://doi.org/10.1564/v26_dec_13...
).

The inundative approach has been to treat an agricultural field with a formulation of an indigenous plant pathogen that is harmless to the crop and to nearby non-weed plant populations. The application is much like that of a chemical herbicide, not spreading significantly to plants that are not sprayed. In most cases, the pathogen has been a fungus, formulated as a mycelial, conidia, or spore preparation. One viral (Tobacco mild green mosaic virus) and three bacterial microbial (Xanthomonas campestris pv. poae, Pseudomonas fluorescens and Streptomyces scabies) bioherbicides have been developed (Table 1). Most of these products that were available are no longer sold. Several living microbial bioherbicides have been approved for commercial use and marketed, but their use has been very limited for several reasons. Examples of most of these are in Table 1.

Table 1
Examples of microbial bioherbicides for use in agriculture that have been commercialized at one time or gotten to the trade name stage. Some of the products were reintroduced with new trade names

At the time of the review of Morin (2020)Morin L. Progress in biological control of weeds with plant pathogens. Annu Rev Phytopath. 2020;58:201-23. Available from: https://doi.org/10.1146/annurev-phyto-010820-012823
https://doi.org/10.1146/annurev-phyto-01...
, only three of the products were commercially available. Many other microbes have been suggested as potential microbial bioherbicides. For example, Dalinova et al. (2020)Dalinova AA, Salinova DR, Berestetskiy AO. Fungi of the genera Alternaria as produccers of biologically active compounds and mycoherbicides. Appl Biochem Microbiol. 2020;56:256-72. Available from: https://doi.org/10.1134/S0003683820030023
https://doi.org/10.1134/S000368382003002...
provide a list of Alternaria species with potential as mycoherbicides. Unfortunately, considerable effort and money has been spent on some of those listed (e.g., A. cassia, and A. destruens) without a viable commercial product being produced. With the increasing cascade of evolved resistance to synthetic herbicides (Heap, Duke, 2018), some of these might be reexamined, especially those that target weeds species that have become major problems across wide areas because of evolved herbicide resistance. The A. alternata pathovars that infect Amaranthus retroflexus (Lawrie et al., 2000Lawrie J, Down VM, Greaves MP. Factors influencing the efficacy of the potential microbial herbicide Alternaria alternata (Fr.) Keissler on Amaranthus retroflexus (L.). Biocontrol Sci Technol. 2000;10(1):81-7. Available from: https://doi.org/10.1080/09583150029413
https://doi.org/10.1080/09583150029413...
) and Echinocloa spp. (Motlagh, 2012Motlagh MRS. Evaluation of Alternaria alternata causing leaf spot of barnyardgrass grown in rice fields. Afr J Microbiol Res. 2012;6(21):4481-8. Available from: https://doi.org/10.5897/AJMR11.717
https://doi.org/10.5897/AJMR11.717...
) are examples of these. Many other genera of fungi have been researched for use as mycoherbicides without a commercial success. Examples of these are Stagonospora cirsii for Cirsium arvense control (Sokornova, Berestetskiy, 2018) and Colletotrichum truncatum for control of Bidens (Vieira et al., 2018Vieira BS, Dias LVSA, Langoni VD, Lopes EA. Liquid fermentation of Colletotrichum truncatum UFU 280, a potential mycoherbicide for beggartick. Aust Plant Pathol. 2018;47:277-83. Available from: https://doi.org/10.1007/s13313-018-0555-y
https://doi.org/10.1007/s13313-018-0555-...
) and Sesbania species (Weaver et al., 2007Weaver MA, Lyn ME, Boyette CD, Hoagland RE. Bioherbicides for weed control In: Upadhyaya MK, Blackshaw RE, ditors. Non-chemical weed management. Wallingford: CAB International; 2007. p. 93-110.). Several of these studied, but not commercialized species before 2015 are listed by Harding and Raizada (2015)Harding DP, Raizada MN. Controlling weeds with fungi, bacteria and viruses: a review. Front Plant Sci. 2015;6:1-14. Available from: https://doi.org/10.3389/fpls.2015.00659
https://doi.org/10.3389/fpls.2015.00659...
.

A living microbial bioherbicide is attractive in the USA for three major reasons (Table 2). First, the cost of development and regulatory approval is significantly less (usually a few million $USD) than that of chemical herbicides for which this cost is hundreds of millions of $USD (Marrone, 2019Marrone PG. Pesticidal natural products: status and future potential. Pest Manag Sci. 2019;75(9):2325-40. Available from: https://doi.org/10.1002/ps.5433
https://doi.org/10.1002/ps.5433...
). Second, if the product is not genetically engineered or formulated with synthetic chemicals, it can be accepted by organic farmers. Third, it should leave no chemical residues in the crop. There exists a huge market potential for an economical and efficacious microbial bioherbicide. Additionally, there is still no evolved resistance to such products. Most of the companies involved in discovery and development of these products are in North America, in large part because the regulatory climate for their approval is more favorable than in other parts of the world, such as the European Union (Balog et al., 2017Balog A, Hartel T, Loxdale HD, Wilson K. Difference in the progress of the biopesticide revolution between the EU and other major crop-growing regions. Pest Manag Sci. 2017;73(11):2203-8. Available from: https://doi.org/10.1002/ps.4596
https://doi.org/10.1002/ps.4596...
, Damalas, Koutroubas, 2017).

Table 2
– Advantages and disadvantages of living microbial bioherbicides

However, there are many limitations of microbial bioherbicides (Table 2), and, because of these, there are few successful products of this type. For unclear reasons, there has been much more success with microbial biopesticides that target insect and plant pathogen pests (Marrone, 2019Marrone PG. Pesticidal natural products: status and future potential. Pest Manag Sci. 2019;75(9):2325-40. Available from: https://doi.org/10.1002/ps.5433
https://doi.org/10.1002/ps.5433...
), and, thus, reviews of microbial biopesticides rarely, if at all, mention microbial bioherbicides (e.g., Ruiu, 2018Ruiu L. Microbial biopesticides in agroecosystems. Agronomy. 2018;8(110):1-12. Available from: https://doi.org/10.3390/agronomy8110235
https://doi.org/10.3390/agronomy8110235...
; Thakur et al., 2020Thakur N, Kaur S, Tomar P, Thakur S, Yadav AN. Microbial biopesticides: current status and advancement for sustainable agricultural and environment. In: Rastegari AA, Yadav AN, Yadav N, editors. New and future developments in microbial biotechnology and bioengineering. Amsterdam: Elsevier; 2020. p. 243-82.). The limitations were reviewed over 25 years ago by Auld and Morin (1995)Auld BA, Morin L. Constraints in the development of bioherbicides. Weed Technol. 1995;9(3):638-52. Available from: https://doi.org/10.1017/S0890037X00023964
https://doi.org/10.1017/S0890037X0002396...
. Many of these limitations were further discussed by Boyetchko and Peng (2003)Boyetchko SM, Peng G. Challenges and strategies for development of mycoherbicides. In: Arora DK, editor. Fungal biotechnology in agricultural, food, and environmental applications. Vol 2. New York: Marcel Dekker; 2003. p. 111-21. and Hallett (2005)Hallett SG. Where are the bioherbicides? Weed Sci. 2005;53(3):404-15. Available from: https://doi.org/10.1614/WS-04-157R2
https://doi.org/10.1614/WS-04-157R2...
a decade later and more recently by Harding and Raizada (2015)Harding DP, Raizada MN. Controlling weeds with fungi, bacteria and viruses: a review. Front Plant Sci. 2015;6:1-14. Available from: https://doi.org/10.3389/fpls.2015.00659
https://doi.org/10.3389/fpls.2015.00659...
, Cordeau et al. (2016)Cordeau S, Triolet M, Wayman S, Steinberg C, Guillemin JP. Bioherbicides: dead in the water? A review of existing products for integrated weed management. Crop Prot. 2016;87:44-9. Available from: https://doi.org/10.1016/j.cropro.2016.04.016
https://doi.org/10.1016/j.cropro.2016.04...
, Watson (2018)Watson AK. Microbial herbicides. In:Korres NE, Burgos NR, Duke SO, ditors. Weed control: sustainability, hazards and risks in cropping systems worldwide. Boca Raton: CRC; 2018. p. 133-52., Morin (2020)Morin L. Progress in biological control of weeds with plant pathogens. Annu Rev Phytopath. 2020;58:201-23. Available from: https://doi.org/10.1146/annurev-phyto-010820-012823
https://doi.org/10.1146/annurev-phyto-01...
, Berestetskiy (2021)Berestetskiy A. Development of mycoherbicides. In: Zaragoza O, Casadevall A, ditors. Encyclopedia of Mycology. Vol. 2. Amsterdam: Elsevier; 2021. p. 629-40. and Hasan et al. (2021)Hasan M, Ahmad-Hamadani MS, Rosli AM, Hamdan H. Bioherbicides: an eco-friendly tool for sustainable weed management. Plants. 2021;10(6):1-21. Available from: https://doi.org/10.3390/plants10061212
https://doi.org/10.3390/plants10061212...
. These limitations still exist, but recently developed technologies might help to overcome them.

First, the plant pathogens used most always have a very limited host range. This provides some assurance that it will not spread to non-weed plants, but if only one or two weed species are targeted, rather than many weeds species, the cost of the bioherbicide and applying it may not justify its use. An exception to this problem is Phoma macrostoma (Table 1) which is effective on at least 38 dicot weed species (Bailey et al., 2011Bailey KL, Pitt WM, Falk S, Derby J. The effects of Phoma macrotoma on nontarget plant and target weed species. Biol Control. 2011;58(3):379-86. Available from: https://doi.org/10.1016/j.biocontrol.2011.06.001
https://doi.org/10.1016/j.biocontrol.201...
). Research has been conducted to increase host range and virulence by genetic modification of the microbe (e.g., Greaves et al., 1989Greaves MP, Bailey JA, Hargreaves JA. Mycoherbicides: opportunities for genetic manipulation. Pestic Sci. 1989;26(1):93-101. Available from: https://doi.org/10.1002/ps.2780260109
https://doi.org/10.1002/ps.2780260109...
; Sands, Miller, 1993; Amsellem et al., 2002Amsellem Z, Cohen BA, Gressel J. Engineering hypervirulence in a mycoherbicidal fungus for efficient weed control. Nat Biotechnol. 2002;20(10):1035-9. Available from: https://doi.org/10.1038/nbt743
https://doi.org/10.1038/nbt743...
). However, the potential for environmental mishap with this approach is much higher than that of genetically engineered crops. Improved formulations can extend the host range and/or increase the virulence of mycoherbicides on normally non-target weed species (e.g., Boyette, Abbas, 1994; Boyette et al., 1996Boyette CD, Quimby PC, Caesar AJ, Birdsall JL, Connick WJ, Daigle DJ et al. Adjuvants, formulations, and spraying systems for improvement of mycoherbicides. Weed Technol. 1996;10(3):637-44. Available from: https://doi.org/10.1017/S0890037X00040562
https://doi.org/10.1017/S0890037X0004056...
; 2019). This approach is less risky, but more limited in what can be accomplished.

There are significant problems with living products. These include a limited shelf life and more limited storage conditions, lack of compatibility with other pesticides, and the need for a specific, well-defined microenvironment for the microbe to infect the target weed. Shelf life and storage conditions can be improved by formulation (Amsellem et al., 1999Amsellem Z, Zidack NK, Quimby P, Gressel J. Long-term dry preservation of viable mycelia of two mycoherbicide organisms. Crop Protect. 1999;18(10):643-9. Available from: https://doi.org/10.1016/S0261-2194(99)00070-8
https://doi.org/10.1016/S0261-2194(99)00...
; Zidack, Quimby, 2002), freeze drying (Hoagland et al., 2017Hoagland RE, Boyette CD, Stetina KC. Extending the shelf-life of Myrotheticum verrucaria, a bioherbicide. Amer J Plant Sci. 2017;8:3272-84.), and by low temperatures and a modified atmosphere in the packaging (Teshler et al., 2007Teshler MP, Ash GJ, Zolotarov Y, Watson AK. Increased shelf life of a bioherbicide through combining modified atmosphere packaging and low temperatures. Biocon Sci Technol. 2007;17(4):387-400. Available from: https://doi.org/10.1080/09583150701213695
https://doi.org/10.1080/0958315070121369...
). These problems are less with viral, microbial bioherbicides such as Tobacco mild green mosaic virus for control of tropical soda apple (Solanum viarum) (Charudattan, 2007).

To effectively infect the target weed, the microbe propagule must have a proper microenvironment for a sufficient period of time to germinate and/or grow and infect that weed. Those involved in development of plant growth- and health-promoting microbes for crops have had to deal with similar problems, although these microbes infect the root, where maintaining a proper microenvironment is not as difficult as for foliar-applied microbes (Zvinavashe et al., 2021Zvinavashe T, Mardad I, Mhada M, Kouisni L, Marelli B. Engineering the plant microenvironment to facilitate plant-growth-promoting microbe association. J Agric Food Chem. 2021. Available from: https://doi.org/10.1021/acs.jafc.1c0013
https://doi.org/10.1021/acs.jafc.1c0013...
). The microenvironment problem can be partially overcome by a formulation that provides the proper microclimate when applied. For example, a gel that does not dry out quickly, providing enough moisture and nutrients for the microbe to grow and infect the weed can be used. Another example is an invert emulsion formulation that can retard evaporation, allowing the fungal propagule more time to germinate and/or grow and infect the host weed (Daigle et al., 1989Daigle DJ, Connick WJ, Quimby PC, Evans JP, Trask-Merrell B, Fulgham FE. Invert emulsions: delivery system and water source for the mycoherbicide, Alternaria cassia. Weed Technol. 1989;3(2):442-4. Available from: https://doi.org/10.1017/S0890037X00025483
https://doi.org/10.1017/S0890037X0002548...
). Unfortunately, such formulations with high viscosity usually require air-assist spray systems that are more expensive and complicated than standard spray systems. This specialized application technology contributes to the reluctance to use a bioherbicide that kills only one or a very few weed species.

Certain co-formulated chemicals can improve the efficacy of live microbial bioherbicides. For example, the use of a low dose of glyphosate with a mycoherbicide was almost commercialized (Christy et al., 1993Christy AL, Herbst KA, Koska SJ, Mullen JP, Carlson PS. Synergizing weed biocontrol control agents with chemical herbicides. Am Chem Soc Symp Ser. 1993;(524):87-100.). In some cases, a low glyphosate dose synergizes mycoherbicides by reducing the production of weed phytoalexins and other defensive compounds (e.g., lignin) derived from the shikimate pathway (Gressel, 2010Gressel J. Herbicides as synergists for mycoherbicides, and vice versa. Weed Sci. 2010;58(3):324-8. Available from: https://doi.org/10.1614/WS-09-071.1
https://doi.org/10.1614/WS-09-071.1...
, Duke, 2018b). Such a product would not have been used by organic farmers, but would be suitable for farmers wishing to reduce herbicide residues in marketed crops, the major market for bioherbicides (Marrone, 2019Marrone PG. Pesticidal natural products: status and future potential. Pest Manag Sci. 2019;75(9):2325-40. Available from: https://doi.org/10.1002/ps.5433
https://doi.org/10.1002/ps.5433...
). Glyphosate and a mycelial preparation of Myrothecium verrucaria synergistically managed the hard-to-kill perennial weeds redvine (Brunnichia ovata), kudzu (Pueraria lobata), and trumpet creeper (Campsis radicans) (Boyette et al., 2006Boyette CD, Reddy KN, Hoagland RE. Glyphosate and bioherbicide interaction for controlling kudzu (Pueraria lobata), redvine (Brunnichia ovata), and trumpetcreeper (Campsis radicans). Biocont Sci Technol. 2006;16(10):1067-77. Available from: https://doi.org/10.1080/09583150600828742
https://doi.org/10.1080/0958315060082874...
; 2020). Others (Mitchell et al., 2008Mitchell JK, Yerkes CN, Racine SR, Lewis EH. The interaction of two potential fungal bioherbicides and a sub-lethal rate of glyphosate for the control of shattercane. Biol Cont. 2008;46(3):391-9. Available from: https://doi.org/10.1016/j.biocontrol.2008.02.009
https://doi.org/10.1016/j.biocontrol.200...
) found application of subtoxic glyphosate doses to shattercane (Sorghum bicolor (L.) Moench.) before application of the two proposed mycoherbicides Colletotrichum graminicola and Gloeocercospora sorghi enhanced their efficacy, but there was antagonism if the order of application was reversed. Similarly, Boyette et al. (2008)Boyette CD, Hoagland RE, Weaver MA. Interaction of a bioherbicide and glyphosate for controlling hemp sesbania in glyphosate-resistant soybean. Weed Biol Manag. 2008;8(1):18-24. Available from: https://doi.org/10.1111/j.1445-6664.2007.00269.x
https://doi.org/10.1111/j.1445-6664.2007...
found application of low doses of glyphosate (150 g ha-1) applied before low doses (1.25 x 106 spores mL-1) of the mycoherbicide Colletotrichum truncatum to hemp sesbania (Sesbania herbacea) provided a greater herbicidal effect than the added effect of the two treatments alone. No more than an additive effect occurs when glyphosate and the microbe were applied together or when the microbe was applied before glyphosate. Commercial “inert” formulation ingredients of glyphosate can be incompatible with mycoherbiides. For example, Hoagland et al. (2018a) found technical grade glyphosate to synergize the efficacy of M. verrucaria on palmer amaranth (Amaranthus palmeri) when formulated together, but some commercial formulations of glyphosate inhibit the fungus. Peng and Wolf (2011)Peng G, Wolf TM. Herbicide-microbial synergy for improved weed control. Pest Technol. 2011;5(spe 1):18-27. give examples additive or synergistic interactions of Pyricularia setariae and sethyoxydim on green foxtail (Setaria veridis) and other weed species, as well as positive interactions of Colletotrichum truncatum and metribuzin, 2,4-D, clopyralid, and MCPA on scentless chamomile (Matricaria perforata).

Even though a herbicide or other chemical may synergize the efficacy of a microbial bioherbicide by effects on the target weed, it might also antagonize some plant pathogens by direct effects on the microbe (Duke, 2018b). For example, Hoagland et al. (2018b) found glufosinate did not synergize the mycoherbicide C. truncatum when glufosinate was applied in combination with sub-lethal spore concentrations of the bioherbicidal fungus in experiments with hemp sesbania. However, glufosinate incorporated in a growth agar medium at 0.25 mM to 2.0 mM, caused a 10% - 45% reduction of C. truncatum colony radial growth, compared to fungal growth on agar without glufosinate, and the herbicide also inhibited sporulation of this fungus. This agrees with other findings, in which glufosinate inhibited or suppressed fungal growth and disease severity of several different plant pathogens such as Pythium ultimum (Liu et al., 1997Liu DLY, Punja ZK, Rahe JE. Altered root exudation and suppression of induced lignification as mechanisms of predisposition by glyphosate of bean roots (Phaseolus vulgaris L.) to colonization by Pythium spp. Physiol Mol Plant Pathol. 1997;51(2):111-27. Available from: https://doi.org/10.1006/pmpp.1997.0113
https://doi.org/10.1006/pmpp.1997.0113...
), Magnaporthe grisea (Tada et al., 1996Tada T, Kanzaki H, Norita E, Uchiyama H, Nakamura I. Decreased symptoms of rice blast disease on leaves of bar-expressing transgenic rice plants following treatment with bialaphos. Mol Plant Microbe Interact. 1996;9(8):762-4.), Cochliobolus miyabeanus (Ahn, 2008Ahn IP. Glufosinate ammonium-induced pathogen inhibition and defense responses culminate in disease protection in bar-transgenic rice. Plant Physiol. 2008;146(1):313-27. Available from: https://doi.org/10.1104/pp.107.105890
https://doi.org/10.1104/pp.107.105890...
), and Rhizoctonia solani (Wang et al., 2003Wang Y, Browning M, Ruemmele BA, Chandlee JM, Kausch AP Jackson N. Glufosinate reduces fungal diseases in transgenic glufosinate-resistant bentgrasses (Agrostis spp.). Weed Sci. 2003; 51(1):130-7. Available from: https://doi.org/10.1614/0043-1745(2003)051[0130:GRFDIT]2.0.CO;2
https://doi.org/10.1614/0043-1745(2003)0...
).

Fungicidal effects or some herbicides are not surprising, as fungi have some of the same enzymes targeted by herbicides in plants. A solution to this type of antagonism could be to genetically engineer the microbe to be resistant to the herbicide or chemical. For example, Brooker et al. (1996)Brooker NL, Mischke CF, Patterson CD, Mischke S, Bruckart WL, Lydon J. Pathogenicity of bar-transformed Colletotrichum gloeosporioidses f. sp. aeschynomone. Biol Con. 1996;7:159-66. inserted the bar gene for bialaphos/glufosinate resistance into the mycoherbicide Colletotrichum gloeosporioides f. sp. aeschynomene (Table 1) to make it compatible with bialaphos. They found that the transformant and bialaphos were synergistic, allowing reduced application rates of both the mycoherbicide and the natural product herbicide.

Another problem is the quality control of fermentation products. There can be problems with producing sufficient mycelia, spores, or conidia, loss of virulence over time, and poor viability of mycelia, spores or conidia. If the presence of phytotoxins is required for the activity of the product, whether dead or alive, fermentation conditions can greatly alter their presence and quantity (e.g., Portela et al., 2020Portela VO, Moro A, Santana NA, Baldoni DB, Castro IA, Antoniolli AI et al. First report on the production of phytotoxic metabolites by Mycoleptodiscus indicus under optimized conditions of submerged fermentation. Environ Technol. 2020:1-13. Available from: https://doi.org/10.1080/09593330.2020.1836030
https://doi.org/10.1080/09593330.2020.18...
).

Despite all these problems, several living microbial bioherbicides have been commercialized or almost commercialized, although almost all of those previously brought to market are no longer available (Table 1). This is primarily because of a combination of relatively high cost for relatively limited or poor performance. Considering their highest pest management costs are for control of weeds, many organic farmers would pay a premium for an efficacious product that kills a major problem weed.

In the USA, microbial bioherbicides can be composed of killed microbes. In such cases, the killed microbial formulation must contain a microbially-produced phytotoxin or phytotoxins. This type of product has several clear advantages over a living microbe. Such a product could be handled and applied in much the same way as a conventional herbicide, and there would be no risk of disease spread to non-target plants. Storage conditions, shelf-life, formulation, compatibility with agrochemicals, and infectivity are not problems or are lesser problems. Furthermore, the phytotoxins produced by microbes are often effective on a much wider range of weed species than the living plant pathogen.

A killed potato scab bacterium (Streptomyces acidiscabies) preparation containing the strong phytotoxin thaxtomin has been developed (Opportune™). Thaxtomin A is a potent cellulose synthesis inhibitor, that apparently binds a different binding site than the commercial synthetic cellulose synthetase inhibitor isoxaben (Scheible et al., 2003Scheible WR, Fry B, Kochevenko A, Schindelasch D, Zimmerli L, Sommerville S et al. An Arabidopsis mutant resistant to thaxtomin A, a cellulose synthesis inhibitor from Streptomyces species. Plant Cell. 2003;15(8):1781-94. Available from: https://doi.org/10.1105/tpc.013342
https://doi.org/10.1105/tpc.013342...
; Tegg et al., 2013Tegg RS, Shabala SN, Cuin TA, Davies NW, Wilson CR. Enhanced resistance to the cellulose biosynthetic inhibitors thaxtomin A and isoxaben in Arabidopsis thaliana mutants, also provides specific co-resistance to the auxin transport inhibitor, 1-NPA. BMC Plant Biol. 2013;13:1-10. Available from: https://doi.org/10.1186/1471-2229-13-76
https://doi.org/10.1186/1471-2229-13-76...
). Thaxtomin A provides effective, selective broadleaf weed control in turfgrass (Wolfe et al., 2016a), with some control of smooth crabgrass (Digitaria ischaemum) in some turfgrasses (Wolfe et al., 2016b). The killed S. acidiscabies product is being developed for use in rice and other cereals.

An example of such a potential product is a preparation of the soil microbe Burkholderia rinojensis (Marrone, 2019Marrone PG. Pesticidal natural products: status and future potential. Pest Manag Sci. 2019;75(9):2325-40. Available from: https://doi.org/10.1002/ps.5433
https://doi.org/10.1002/ps.5433...
). It contains both the phytotoxins romidepsin and spliceostatin C. These compounds are quite potent on Amaranthus species. They have entirely new modes of action, with romidepsin inhibiting histone demethylase (Owens et al., 2020Owens DK, Bajsa-Hirschel J, Duke SO, Carbonari CA, Gomes GLGC, Asolkar R et al. The contribution of romidepsin to the herbicidal activity of Burkholderia rinojensis bioherbicide. J Nat Prod. 2020;83(4):843-51. Available from: https://doi.org/10.1021/acs.jnatprod.9b00405
https://doi.org/10.1021/acs.jnatprod.9b0...
) and spliceostatin C inhibiting the function of the spliceosome (Bajsa-Hirschel et al., 2019Bajsa-Hirschel J, Boddy L, Sabat M, Pan Z, Stephen SO. Splicing inhibition is responsible for spliceostatin C phytotoxicity. In: Abstract of American Chemical Society Meeting; San Diego, United States of America. New York: American Chemical Society; 2019.).

As discussed in section 2.2, many microbes produce potent phytotoxins, so if cultured under conditions favorable for production of high levels of the phytotoxins, these microbes may have use in killed microbe preparations of a microbial bioherbicide. Such products could be mixed to expand the range of weed species that could be managed. Some previously commercialized microbial bioherbicides might be more viable products if they were grown to maximize phytotoxin production and applied as a killed microbe formulation, thus eliminating issues associated with a live organism. For example, Phoma macrostoma produces highly phytotoxic macrocidins that have been studied as the basis for standalone chemical herbicides (Graupner et al., 2006Graupner PR, Gerwick BC, Siddall TL, Carr AW, Clancy E, Gilbert JR et al. Chorosis inducing phytotoxic metabolites: new herbicides from Phoma macrostoma. Amer Chem Soc Sym Ser. 2006;927:37-47. Available from: https://doi.org/10.1021/bk-2006-0927.ch003
https://doi.org/10.1021/bk-2006-0927.ch0...
).

4.Conclusions

There is a great need for new weed management options in crops that can be provided by both natural phytotoxins and microbial bioherbicides. Compared to products for insect and crop pathogen management, these tools have been underutilized for weed management. Natural phytotoxins can be used directly as herbicides, but this approach has not been as successful as using them as templates for synthetic herbicides. They can also be used for discovery of new modes of action and molecular targets for future herbicides. Development and regulatory approval of microbial bioherbicides for inundative use in crops is relatively inexpensive. Additionally, they have low environmental impact and good public acceptance. Despite these advantages, their success has been limited by narrow host specificity, quality control, short shelf life, microenvironment requirements, and variable efficacy. New technologies can overcome these problems. In the U.S.A., microbial bioherbicides can be preparations of killed microbes containing phytotoxins produced before the microbes are killed. This approach eliminates some of the disadvantages of applying live organisms. Natural product and microbe-based or -inspired weed management should play a larger future role.

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Edited by

Approved by:
Editor in Chief: Carlos Eduardo Schaedler
Associate Editor: Per Kudsk

Publication Dates

  • Publication in this collection
    12 Jan 2022
  • Date of issue
    2022

History

  • Received
    24 June 2021
  • Accepted
    8 Oct 2021
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