Introduction
Herbicide resistance is the inherited ability of weed biotypes to survive and reproduce following herbicide treatment that is normally lethal to the wild type. Resistance is an outcome of the adaptive evolution of weed populations to the intense selection pressure exerted by herbicide applications (Jasieniuk et al. Reference Jasieniuk, Brûlé-Babel and Morrison1996; Powles and Yu Reference Powles and Yu2010). Two types of mechanisms are involved in herbicide resistance: target-site resistance (TSR) and non–target site resistance (NTSR) (Délye Reference Délye2013; Powles and Yu Reference Powles and Yu2010; Yuan et al. Reference Yuan, Tranel and Stewart2007). TSR is caused by structural alterations or increased activity of the herbicide target protein, while NTSR involves all the other mechanisms of resistance (Délye Reference Délye2013). NTSR can be attributed to reduced herbicide uptake or translocation or enhanced metabolism of the herbicide (Délye et al. Reference Délye, Duhoux, Pernin, Riggins and Tranel2015; Yu and Powles Reference Yu and Powles2014). The herbicide resistance observed in weeds can be caused by the expression of one or a combination of the abovementioned mechanisms.
A great concern nowadays is the increasing number of weed populations/individuals that are resistant to herbicides with multiple mechanisms of action (MOAs). The underlying mechanisms of resistance to herbicides with multiple MOAs are classified into (1) accumulations of distinct resistance mechanisms, that is, multiple resistance; and (2) a single mechanism, that is, cross-resistance (Hall et al. Reference Hall, Holtum, Powles, Powles and Holtum1994). Multiple-resistance cases are often caused by the sequential acquisition of altered herbicide target sites, which are often reflected by the alternative herbicide applications to the populations that had acquired resistance to particular herbicides. The typical examples are accumulations of TSR mechanisms, namely, TSR-based multiple resistance, as reported in diverse weed species worldwide, e.g., acetolactate synthase (ALS) and acetyl-CoA carboxylase (ACCase) substitutions in Japanese foxtail (Alopecurus japonicus Steud.) (Feng et al. Reference Feng, Gao, Zhang, Dong and Li2016) and barnyardgrass [Echinochloa crus-galli (L.) P. Beauv.] (Fang et al. Reference Fang, Liu, Zhang, Li and Dong2019, Reference Fang, He, Liu, Li and Dong2020), and an ALS substitution and a protoporphyrinogen oxidase deletion in waterhemp [Amaranthus tuberculatus (Moq.) Sauer] (Shergill et al. Reference Shergill, Bish, Jugulam and Bradley2018). On the other hand, cross-resistance to multiple herbicide MOAs can only be expressed via an NTSR mechanism, namely, NTSR-based cross-resistance. This often refers to enhanced herbicide metabolism based on the observations that weeds, especially in Poaceae with metabolism-based resistance to one herbicide, often extend the resistance to several chemically dissimilar herbicides with diverse MOAs, though the underlying mechanisms mostly remain unknown (Yu and Powles Reference Yu and Powles2014). Phenotypically, it is difficult to characterize whether cross-resistance is conferred by a single metabolic mechanism or whether other multiple distinct metabolic mechanisms are present (Gaines et al. Reference Gaines, Duke, Morran, Rigon, Tranel, Küpper and Dayan2020); thus molecular and genetic studies are necessary to identify the underlying resistance mechanisms.
The mystery of extending resistance even to herbicides that are not used in the field is one of the major issues to be solved in herbicide-resistance research. Recent molecular works on the noxious weeds late watergrass [Echinochloa phyllopogon (Stapf) Koso-Pol.] and rigid ryegrass (Lolium rigidum Gaudin) with resistance to five or more MOAs disclosed that grass weeds carry enzymes that metabolize a large number of herbicides, whose activation can result in the evolution of metabolism-based cross-resistance (Dimaano et al. Reference Dimaano, Yamaguchi, Fukunishi, Tominaga and Iwakami2020; Han et al. Reference Han, Yu, Beffa, Gonzalez, Maiwald, Wang and Powles2021). However, it is still not well understood whether resistance to multiple MOAs via enhanced metabolism is solely endowed by a single NTSR mechanism (cross-resistance) or multiple NTSR mechanisms (multiple resistance). A proper understanding of the extended range of resistance conferred by a single mechanism will provide insight into the limits of cross-resistance, a fundamental for the control of resistant weeds.
In the late 1990s, a resistant (R) population of E. phyllopogon (syn.: Echinochloa oryzicola Vasing.) to multiple herbicides was reported in Sacramento Valley, CA (Fischer et al. Reference Fischer, Ateh, Bayer and Hill2000). Echinochloa phyllopogon is a predominantly self-pollinated allotetraploid (2n = 4x = 36) grass under the Panicoideae subfamily (Yamasue Reference Yamasue2001). If not controlled, this noxious weed can cause approximately 50% yield reduction, as observed in California water-seeded rice (Oryza sativa L.)-cropping systems (Hill et al. Reference Hill, Le Strange, Bayer and Williams1985). Reports of resistance in the R line encompass inhibitors of ALS, ACCase, 1-deoxy-d-xylulose 5-phosphate synthase (DXPS), very-long-chain fatty-acid elongase (VLCFAE), and 4-hydroxyphenylpyruvate dioxygenase, and synthetic auxin herbicides (Dimaano et al. Reference Dimaano, Yamaguchi, Fukunishi, Tominaga and Iwakami2020; Fischer et al. Reference Fischer, Ateh, Bayer and Hill2000; Iwakami et al. Reference Iwakami, Endo, Saika, Okuno, Nakamura, Yokoyama, Watanabe, Toki, Uchino and Inamura2014, Reference Iwakami, Kamidate, Yamaguchi, Ishizaka, Endo Masaki, Nagai, Sunohara, Toki, Uchino, Tominaga and Matsumoto2019; Osuna et al. Reference Osuna, Vidotto, Fischer, Bayer, De Prado and Ferrero2002; Ruiz-Santaella et al. Reference Ruiz-Santaella, De Prado, Wagner, Fischer and Gerhards2006; Yasuor et al. Reference Yasuor, Osuna, Ortiz, Saldain, Eckert and Fischer2009, Reference Yasuor, Zou, Tolstikov, Tjeerdema and Fischer2010, Reference Yasuor, Milan, Eckert and Fischer2012). The genetic segregation pattern and molecular mechanism of resistance in R E. phyllopogon to ALS inhibitors (bensulfuron-methyl and penoxsulam), ACCase inhibitors (diclofop-methyl, tralkoxydim, and pinoxaden), and a DXPS inhibitor (clomazone) were previously elucidated (Guo et al. Reference Guo, Iwakami, Yamaguchi, Uchino, Sunohara and Matsumoto2019; Iwakami et al. Reference Iwakami, Endo, Saika, Okuno, Nakamura, Yokoyama, Watanabe, Toki, Uchino and Inamura2014, Reference Iwakami, Kamidate, Yamaguchi, Ishizaka, Endo Masaki, Nagai, Sunohara, Toki, Uchino, Tominaga and Matsumoto2019). Segregation analysis in the F2 progenies from a cross between R and sensitive (S) lines showed that the resistances to these herbicides are under the control of a single locus. In the F6 progenies, the segregation patterns of resistance are perfectly associated in all these herbicides. Moreover, it was revealed that the resistance to these herbicides is due to a single NTSR cross-resistance mechanism, specifically enhanced herbicide metabolism by two cytochrome P450s, CYP81A12 and CYP81A21 (Guo et al. Reference Guo, Iwakami, Yamaguchi, Uchino, Sunohara and Matsumoto2019; Iwakami et al. Reference Iwakami, Endo, Saika, Okuno, Nakamura, Yokoyama, Watanabe, Toki, Uchino and Inamura2014, Reference Iwakami, Kamidate, Yamaguchi, Ishizaka, Endo Masaki, Nagai, Sunohara, Toki, Uchino, Tominaga and Matsumoto2019).
The mechanism(s) of resistance in the R line to other herbicides, among which is the VLCFAE inhibitor thiobencarb (TB), remain unknown. TB is a thiocarbamate herbicide that potently inhibits shoot elongation of germinated seeds due to the inhibition of VLCFAEs (Roberts et al. Reference Roberts, Hutson, Lee, Nicholls, Plimmer, Roberts and Croucher1998; Tanetani et al. Reference Tanetani, Kaku, Ikeda and Shimizu2013). It was first introduced to control Echinochloa spp. in the rice fields in California in the late 1980s (Hill et al. Reference Hill, Le Strange, Bayer and Williams1985). Roughly 10 yr after its introduction, resistance to TB as well as a few other herbicides was reported, confirming complaints by farmers that the herbicides were no longer effective (Fischer et al. Reference Fischer, Ateh, Bayer and Hill2000).
Previous evaluation on transformed Arabidopsis thaliana L. Heynh hinted that CYP81A12 and CYP81A21 are not involved in TB resistance (Dimaano et al. Reference Dimaano, Yamaguchi, Fukunishi, Tominaga and Iwakami2020). This study was conducted to confirm whether CYP81A12 and CYP81A21, which confer the concomitant NTSR-based cross-resistance to at least four MOAs, could also explain the resistance to TB. By performing trait segregation and transgenic plant sensitivity analysis, we hypothesized that if TB resistance is endowed by CYP81A12 and CYP81A21, then the resistance to multiple MOAs in R E. phyllopogon is solely explained by a single NTSR mechanism. Otherwise, another unknown mechanism is endowing multiple resistance in R E. phyllopogon. Results of this study will help resolve whether the resistance evolution in E. phyllopogon to diverse herbicide MOAs is instigated by a single NTSR mechanism (cross-resistance) or multiple NTSR mechanisms (multiple resistance).
Materials and Methods
Origin of Plant Materials and Preparation
The resistant (R) line, 511 and susceptible (S) line, 401 of E. phyllopogon were originally collected from the rice fields of Sacramento Valley, California in 1997 and were crossed by Tsuji et al. (Reference Tsuji, Fischer, Yoshino, Roel, Hill and Yamasue2003) to produce the F1 population, then self-pollinated for five successive generations to produce F6 seeds by single seed descent method (Iwakami et al. Reference Iwakami, Endo, Saika, Okuno, Nakamura, Yokoyama, Watanabe, Toki, Uchino and Inamura2014; Tsuji et al. Reference Tsuji, Fischer, Yoshino, Roel, Hill and Yamasue2003). Sterilization was done by washing the seeds with 70% (v/v) ethanol for 60 s; then with 2.5% (active chlorine) sodium hypochlorite solution containing 0.1% (v/v) Tween 20 (Wako, Osaka, Japan) for 15 min. Seeds were further sterilized for 30 min with 0.25% (active chlorine) sodium hypochlorite solution; then washed three times with sterile water.
Dose–Response Assays of Parental Lines
Dose–response assays of the parental S and R lines of E. phyllopogon were performed in the greenhouse and laboratory facilities of Kyoto University, Japan, during the summer (July to September) of 2019. Each experiment was conducted twice, and each herbicide treatment was replicated three times.
For the greenhouse experiments, sterilized seeds of S and R lines were pre-germinated for 3 d in an incubator set at constant 30 C and constant light (approximately 40 µmol m−2 s−1), then 10 pre-germinated seeds were sown at a depth of 1 cm into each plastic pot (0.01 m2) containing 0.8 kg of autoclaved (120 C for 20 min) sandy loam soil with 8-8-8 fertilizer added (after soil was autoclaved). Two days after sowing, TB (Saturn Emulsion, Kumiai Chemical Industry, Tokyo, Japan) was applied to each pot using a hand sprayer at the rates of 0, 0.09, 0.28, 0.83, 2.5, 7.5, 22.5, and 67.5 kg ai ha−1. After 10 d, the responses of S and R lines were visually assessed, and the aboveground biomass was harvested. Fresh weights were measured and expressed as a percentage of the mean of untreated plants. The dose by which growth is reduced by 50% (GR50) was estimated by log-logistic regression with the drc package (Ritz et al. Reference Ritz, Baty, Streibig and Gerhard2015) in R v. 3.4.4 (R Core Team 2018). The resistance index (RI) was computed as GR50 of the R line over GR50 of the S line.
For the laboratory experiments, three sterilized seeds each of the parental S and R lines were grown in glass tubes (130 mm by 40 mm) containing 30 ml Murashige and Skoog (MS) solid media mixed with different concentrations (0, 0.1, 1, 10, 30, and 100 μM) of TB (Fujifilm Wako Chemicals, Miyazaki, Japan). The seedlings were grown at 28 ± 5 C, 15-h photoperiod, and approximately 70 µmol m−2 s−1 light intensity. After 10 d, the sensitivities of S and R lines were visually assessed. Using ImageJ software (Rasband Reference Rasband1997), the height of each seedling was measured from the basal part of the seedling up to the tip of the shoot and expressed in centimeters. All data were expressed as a percentage of the mean of untreated plants. The GR50 dose was determined as described earlier, and the RI for each herbicide was computed as GR50 of the R line over GR50 of the S line.
Inheritance of Thiobencarb Resistance in F6 Progenies
Laboratory experiments were performed to determine the cosegregation of TB resistance with bensulfuron-methyl (BSM) resistance in the F6 progenies from crosses between S and R E. phyllopogon. The F6 lines used in the experiments were the lines whose sensitivities to BSM and penoxsulam, ACCase inhibitors (diclofop-methyl, tralkoxydim, and pinoxaden), and DXPS inhibitor (clomazone) were perfectly cosegregated and whose gene expressions of CYP81A12 and CYP81A21 were previously assessed (Guo et al. Reference Guo, Iwakami, Yamaguchi, Uchino, Sunohara and Matsumoto2019; Iwakami et al. Reference Iwakami, Endo, Saika, Okuno, Nakamura, Yokoyama, Watanabe, Toki, Uchino and Inamura2014, Reference Iwakami, Kamidate, Yamaguchi, Ishizaka, Endo Masaki, Nagai, Sunohara, Toki, Uchino, Tominaga and Matsumoto2019).
Sensitivity tests were performed as described earlier. Four sterilized seeds of each parental and F6 line were grown on MS solid media mixed with 1 μM TB or 10 μM BSM, the optimized concentrations that can suppress the growth of the parental S line. The experiments were replicated and conducted only twice due to the limited number of available seeds per each F6 line. The seedlings were then grown following the same procedures described earlier. After 10 d, the responses of each line to TB and BSM were visually assessed and compared. The height of each seedling was measured from the basal part of the seedling up to the tip of the shoot using ImageJ. The F6 progenies were classified phenotypically as (1) resistant, when the seedlings were healthy and had tolerance similar to the parental R line; (2) intermediate, when the seedlings had the average growth and sensitivity of the parental S and R lines; (3) segregating, when some seedlings showed tolerance similar to the parental R line, susceptibility similar to the parental S line, and intermediate response; and (4) susceptible, when the seedlings had susceptibility similar to the parental S line.
Herbicide Sensitivity of Transgenic Arabidopsis thaliana Expressing CYP81A12/21 Genes
Homozygous T4 transgenic lines of A. thaliana plants, with a single-copy gene and highest expression of CYP81A12 and CYP81A21 under the Cauliflower mosaic virus 35S promoter generated in our previous study (Iwakami et al. Reference Iwakami, Endo, Saika, Okuno, Nakamura, Yokoyama, Watanabe, Toki, Uchino and Inamura2014), were used in this experiment. Herbicide sensitivities of the wild-type (WT; Colombia-0) and transgenic A. thaliana plants were assessed by growth on petri plates (90 mm by 20 mm) containing MS solid media (30 ml) mixed with the varying concentrations of TB (0, 3, 10, 30, and 100 µM) or BSM (0, 1, 10, 100, and 1000 nM). Each experiment was conducted twice in three replications. Each MS medium was divided into three equal portions for the two transgenic A. thaliana lines and the WT. Nine seeds of each line were placed in each portion. The MS media were placed in a 4 C refrigerator for 3 d, then transferred to an incubator set at 22 C and 70 µE m−2 s−1 light intensity. At 12 d after treatment, the growth and sensitivity of transgenic A. thaliana plants in all concentrations of TB and BSM were assessed and compared with the WT. The maximum distance (mm) between two points on the A. thaliana rosette boundary, referred to hereafter as “rosette diameter,” was measured using ImageJ. Tukey’s honest significant difference tests (5% significance level) were performed to analyze variances among the mean rosette diameter of WT and transgenic lines per each herbicide concentration using Statistical Tool for Agricultural Research v. 2.0.1 (International Rice Research Institute, Los Baños, Philippines).
Results and Discussion
Thiobencarb Resistance in Parental Lines
In this study, TB resistance was confirmed in the R line of E. phyllopogon collected from California. Results of the greenhouse experiment using the commercial formulation of TB showed a noticeable difference in TB sensitivity between the R and S lines (Figure 1A and B). Ten days after herbicide application, the S line exhibited severe symptoms, such as stunting of growth and leaf chlorosis, even at 2.5 kg ai ha−1 TB application rate, while the R line increased in height and produced healthy leaves (Figure 1A). Dose–response curve analysis showed that with the use of the commercial product of TB, the R line (GR50 = 5.12 kg ai ha−1) was 6.1-fold more resistant to TB compared with the S line (GR50 = 0.84 kg ai ha−1) (Figure 1B). These results were similar to those of a previous study (Fischer et al. Reference Fischer, Ateh, Bayer and Hill2000), wherein the computed RI of the R line in comparison to the S line was 7.8 to >13.3-fold.
Sensitivity of the parental sensitive (S) line and resistant (R) lines of Echinochloa phyllopogon at 10 d after treatment of thiobencarb (TB). (A) Sensitivity of parental S and R lines to the commercial formulation of TB (2.5 kg ai ha−1). (B) Dose–response curve of parental S and R lines to 0, 0.09, 0.28, 0.83, 2.5, 7.5, 22.5, and 67.5 kg ai ha−1 application rates of TB commercial formulation. (C) Sensitivity of parental S and R lines to 1 µM pure active ingredient of TB. (D) Dose–response curve of parental S and R lines to 0, 0.1, 1, 10, 30, and 100 μM of TB pure active ingredient. Bars, SE (n = 3).
Results of the laboratory experiment showed that TB had a marked effect on the growth of the S line even at low doses, while the same doses had a negligible effect on the R line (Figure 1C and D). The S line showed stunting and cessation of growth at as low as 1 μM TB concentration, while the R line remained healthy and green at the same herbicide concentration (Figure 1C). Dose–response curve analysis in MS media revealed that the R line (GR50 = 7.73 μM) was 14.6-fold more resistant to TB compared with the S line (GR50 = 0.53 μM) (Figure 1D). The result was within close range of the computed RI in the previous study (Fischer et al. Reference Fischer, Ateh, Bayer and Hill2000) mentioned, thus showing that sensitivity assay in a more controlled setup such as MS media can be applicable for an accurate evaluation of resistance in E. phyllopogon toward TB.
Inheritance of Thiobencarb Resistance in F6 Progenies
Previous reports showed that the resistances in the F6 progenies perfectly cosegregated across multiple herbicides: ALS inhibitors (BSM and penoxsulam), ACCase inhibitors (diclofop-methyl, tralkoxydim, and pinoxaden), and DXPS inhibitor (clomazone) (Guo et al. Reference Guo, Iwakami, Yamaguchi, Uchino, Sunohara and Matsumoto2019; Iwakami et al. Reference Iwakami, Endo, Saika, Okuno, Nakamura, Yokoyama, Watanabe, Toki, Uchino and Inamura2014, Reference Iwakami, Kamidate, Yamaguchi, Ishizaka, Endo Masaki, Nagai, Sunohara, Toki, Uchino, Tominaga and Matsumoto2019). The cosegregation of resistances among these herbicides is due to a concomitant NTSR mechanism, specifically, a metabolism-based cross-resistance conferred by two cytochrome P450 genes, CYP81A12 and CYP81A21, whose overexpression also cosegregated with the resistances in the F6 progenies (Guo et al. Reference Guo, Iwakami, Yamaguchi, Uchino, Sunohara and Matsumoto2019; Iwakami et al. Reference Iwakami, Endo, Saika, Okuno, Nakamura, Yokoyama, Watanabe, Toki, Uchino and Inamura2014, Reference Iwakami, Kamidate, Yamaguchi, Ishizaka, Endo Masaki, Nagai, Sunohara, Toki, Uchino, Tominaga and Matsumoto2019). To elucidate whether the same NTSR mechanism confers the resistance to TB, the TB resistance segregation in the F6 progenies was determined and tested to see if it cosegregated with the resistance to ALS inhibitor, BSM.
In the cosegregation analysis, we assessed the TB sensitivity of the F6 lines whose sensitivity to BSM and penoxsulam, ACCase inhibitors (diclofop-methyl, tralkoxydim, and pinoxaden), and DXPS inhibitor (clomazone) was previously reported: one resistant line (no. 35), one segregating line (no. 34), and five sensitive lines (nos. 6, 11, 38, 54, and 55) (Guo et al. Reference Guo, Iwakami, Yamaguchi, Uchino, Sunohara and Matsumoto2019; Iwakami et al. Reference Iwakami, Endo, Saika, Okuno, Nakamura, Yokoyama, Watanabe, Toki, Uchino and Inamura2014, Reference Iwakami, Kamidate, Yamaguchi, Ishizaka, Endo Masaki, Nagai, Sunohara, Toki, Uchino, Tominaga and Matsumoto2019). As depicted in Figure 2A, the parental R line survived and grew healthy at 10 μM BSM and 1 μM TB, while the parental S line almost completely stopped growing and turned brown at 10 μM BSM and had suppressed growth at 1 μM TB. As for the sensitivity of the F6 progenies, the results clearly showed different resistance trait segregation between BSM and TB (Figure 2B). For instance, F6 line 34 showed segregating response to BSM but exhibited a fixed sensitive phenotype toward TB (Figure 3B). Moreover, F6 line 35 was resistant to BSM but sensitive to TB, while F6 lines 54 and 55 exhibited an opposite trend (Figure 2B). Meanwhile, F6 lines 6 and 11 were both sensitive to BSM but exhibited intermediate responses to TB, whereas F6 line 38 was sensitive to BSM but showed a segregating phenotype to TB (Figure 2B). The resistances to BSM and TB segregated independently in the F6 progenies, which provides strong evidence that the mechanism involved in TB resistance in R E. phyllopogon is distinct from that of resistance to ALS, ACCase, and DXPS inhibitors. The occurrence of F6 lines with intermediate response to TB may suggest that TB resistance is under the control of multiple loci, although the limited number of subjected seeds per line cannot exclude the possibility that we misannotated the resistant phenotype as intermediate or segregating due to variation of seedling growth rate. Further investigation will be required to clarify this notion.
Sensitivity of the parental lines and F6 progenies of Echinochloa phyllopogon to bensulfuron-methyl (BSM) and thiobencarb (TB). (A) Sensitivity of parental sensitive (S) and resistant (R) lines to 10 μM BSM and 1 μM TB. (B) F6 progenies from crosses between S and R lines showing distinct sensitivities to 10 μM BSM and 1 μM TB. The values on each figure are the mean shoot length and SE of the seedlings of each F6 line (n = 8). #6, F6 line 6; #11, F6 line 11; #34, F6 line 34; #35, F6 line 35; #38, F6 line 38; #54, F6 line 54; and #55, F6 line 55.
Sensitivity of wild-type (WT) and transgenic Arabidopsis thaliana expressing CYP81A12 and CYP81A21 cytochrome P450 genes to thiobencarb and bensulfuron-methyl. (A) Sensitivity to thiobencarb. (B) Sensitivity to bensulfuron-methyl. (C) Mean rosette diameter of WT and transgenic A. thaliana at various concentrations of thiobencarb and bensulfuron-methyl. Rosette diameter was measured as the maximum distance between two points on the A. thaliana rosette boundary and expressed in millimeters. Means with the same letter are not significantly different (Tukey’s honest significant difference test, P < 0.05). Bars, SEM (n = 3). 12, CYP81A12; and 21, CYP81A21.
Sensitivity of Arabidopsis thaliana Expressing CYP81A12/21 to Thiobencarb and Bensulfuron-Methyl
In this study, the non-involvement of CYP81A12 and CYP81A21, the constitutively highly expressed P450s in the R line, in TB resistance was assessed by sensitivity testing of transgenic A. thaliana expressing the genes. BSM sensitivity of the transgenic lines was also tested as a positive control. Based on the results, the sensitivities of CYP81A12- and CYP81A21-expressing lines as compared with WT were not significantly different toward TB (Figure 3A and C), but the transgenic lines showed a very high level of tolerance toward BSM (Figure 3B and C). Leaf curling and chlorosis were evident in both WT and transgenic lines at as low as 10 μM of TB, and complete cessation of growth was observed at 30 μM and 100 μM concentrations (Figure 3A and C). On the other hand, the transgenic lines were tolerant to even 1,000-fold higher concentration of BSM, while the WT showed significant reduction in rosette diameter at as low as 1 nM concentration and completely stopped growing at 10, 100, and 1,000 nM concentrations (Figure 3B and C). These results confirm that CYP81A12 and CYP81A21, which confer resistance to BSM and other herbicides (Guo et al. Reference Guo, Iwakami, Yamaguchi, Uchino, Sunohara and Matsumoto2019; Iwakami et al. Reference Iwakami, Endo, Saika, Okuno, Nakamura, Yokoyama, Watanabe, Toki, Uchino and Inamura2014, Reference Iwakami, Kamidate, Yamaguchi, Ishizaka, Endo Masaki, Nagai, Sunohara, Toki, Uchino, Tominaga and Matsumoto2019), are not the genes conferring TB resistance in R E. phyllopogon. This is consistent with our recent findings that none among the nine putative functional CYP81As of E. phyllopogon conferred the high level of TB tolerance (RI of ≥ 3.0) when the genes were ectopically expressed in A. thaliana (Dimaano et al. Reference Dimaano, Yamaguchi, Fukunishi, Tominaga and Iwakami2020). These results suggest that aside from the CYP81As that were found to be involved in metabolism-based cross-resistance in E. phyllopogon, there might be other resistance-conferring genes that may have been selected for by the many years of TB application in California rice fields.
Probable Mechanism(s) of Thiobencarb Resistance in Echinochloa phyllopogon
The repeated use of few available grass herbicides (thiobencarb, molinate, fenoxaprop-P-ethyl, etc.) in predominantly monoculture rice fields in California has resulted in the selection for genes conferring resistance to multiple MOAs in E. phyllopogon (Fischer et al. Reference Fischer, Ateh, Bayer and Hill2000). Resistance to multiple herbicides including TB was also reported in other related species such as E. crus-galli (Heap Reference Heap1997) and early watergrass [Echinochloa oryzoides (Ard.) Fritsch] (Fischer et al. Reference Fischer, Ateh, Bayer and Hill2000). Similar to E. phyllopogon, it has not been determined whether the mechanism of resistance to multiple herbicides in E. crus-galli and E. oryzoides is caused by a single NTSR mechanism (cross-resistance) or by multiple NTSR mechanisms (multiple resistance). Although a TSR-based multiple resistance was recently reported for several ACCase inhibitors in E. crus-galli (Fang et al. Reference Fang, He, Liu, Li and Dong2020), TSR-based TB resistance in these R Echinochloa spp. populations is less likely to occur. This is because VLCFAEs inhibited by TB are composed of a multienzyme complex, which would require highly improbable concomitant mutations in several different targets before the resistance could occur (Busi Reference Busi2014; Tanetani et al. Reference Tanetani, Kaku, Ikeda and Shimizu2013; Trenkamp et al. Reference Trenkamp, Martin and Tietjen2004). Thus, the TB resistance observed in R populations of E. phyllopogon, E. oryzoides, and E. crus-galli is highly likely to be due to an NTSR-based mechanism. The inheritance study and transgenic plant assay we performed strongly hinted the coexistence of another mechanism involved in TB resistance in R E. phyllopogon. The next important step for this research is to identify the key gene(s) endowing TB resistance in the R line.
TB metabolism in Echinochloa spp. is similar to that of rice, but the detoxification activity in rice is higher (Usui Reference Usui2001). Accordingly, TB is metabolically detoxified via monooxygenation/hydroxylation reactions, for example, de-ethylation and hydroxylation of a phenyl ring at the 2-position (Usui Reference Usui2001). As these are typical reactions mediated by plant P450s (Dimaano and Iwakami Reference Dimaano and Iwakami2021), it would be probable that an enhanced activity of P450(s) underlies TB resistance in R E. phyllopogon. Induced TB-metabolizing microsomal activity in the R line (Yun et al. Reference Yun, Yogo, Miura, Yamasue and Fischer2005) also supports this notion. Meanwhile, the study does not exclude the possible involvement of other mechanisms, such as detoxification by other endogenous enzymes, reduced uptake and translocation, or protection against oxidative damages, among others. All possible NSTR-based mechanisms conferring TB resistance merit careful investigation.
Taking advantage of the molecular identification of the responsible genes and the development of crossed progenies, we demonstrated that the “single mechanism” extending resistance to a wide range of herbicides fails to endow resistance to TB. Our findings that not all resistance conforms to a single mechanism will aid in the understanding of resistance evolution to multiple MOAs in E. phyllopogon and, consequently, in designing better management strategies to control the R population.
Backed up by trait segregation and transgenic plant analysis data, this study revealed that another unknown NTSR mechanism endowing TB resistance is present in R E. phyllopogon. Understanding the segregation of TB resistance in R E. phyllopogon provides clues that the evolution of resistance to multiple MOAs in this grassy weed is caused by a single metabolism-based cross-resistance mechanism plus plausible accumulations of other gene(s) involved in NTSR-based mechanisms. It is of great importance to identify the key players involved in TB resistance to fully elucidate the mechanism(s) of resistance to multiple MOAs in E. phyllopogon. Inevitably, identifying the responsible gene(s) for TB resistance will be the future direction of this research. A quantitative trait locus mapping method may be performed in the future to reveal the specific loci controlling TB resistance, which will then be a rich source of information for gene identification and gene functional characterization.
Acknowledgments
This research was partly supported by Japan Society for the Promotion of Science (JSPS) Grants-in-Aid for Scientific Research (KAKENHI) grant numbers 17KI5234 and 19H02955 to SI and by the Program for the Development of Next-Generation Leading Scientists with Global Insight (L-INSIGHT), sponsored by the Ministry of Education, Culture, Sports, Science and Technology (MEXT), Japan. No conflicts of interest have been declared.
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