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Impacts of Combined Exposure to Glyphosate and Diquat on Microbial Community Structure and Diversity in a Lateritic Paddy Soil

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Abstract
As two commonly-used non-selective herbicides, glyphosate (GP) and diquat (DQ) are easily co-resided in lateritic paddy soil due to the rich iron/aluminum oxides, nevertheless there is limited information on their co-impact on microbial diversity and community structure in this type soil. In this study, the short-term effects of combined GP and DQ on soil microbial diversity and community structure shifts were investigated in lateritic paddy soil from a tropical agricultural region (Hainan, China) based on 16S rRNA and ITS high-throughput sequencing technology. The results showed that mixed herbicides promoted the abundance of Streptomyces in bacteria (0.45-1.84%) and Curvularia in fungi (0.01-5.85%), while GP and DQ had inhibitory effects on the abundance of Streptomyces (0.13-2.21%) and Curvularia (0.03-1.13%), which were significantly different with their single exposure (p < 0.05); the combined application of the two herbicides aggravate the adverse effect on the diversity of soil fungal community (p < 0.05), although their mixture did not have a greater impact on the soil bacteria abundance/diversity and fungi abundance (p > 0.05). Results suggested that the combined application of GP and DQ affected the fungal diversity although they did not cause other significant negative effects on soil microorganisms, hinting that more attention should be paid to the mixed effect caused by GP and DQ on specific fungal populations in lateritic paddy soil.
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Subject: Environmental and Earth Sciences  -   Environmental Science

1. Introduction

Herbicides are the most widely used class of pesticides in global agriculture [1], with up to 1 million tons in 2016 [2]. Among herbicides, glyphosate (GP) and diquat (DQ), as two non-selective herbicides, both rank in the top five highest use wide in global market, especially GP owing highest use in the global market with 0.86 million tons in 2016 [3]. At present, GP was recorded with heavy pollution in different environmental media [4,5,6], e.g., water (21.2-32.5 μg/L) [7,8,9], soil (1200-1502 μg/kg) [10,11,12] and sediment (1149 μg/kg) [13], especially in tropical soil (690-40000 μg/kg) [12,14,15,16,17]. Meanwhile, lateritic paddy soil is rich in iron and aluminum, due to its strong binding with clay particles and organic matter, DQ is easily retained in the lateritic paddy soil [18]. In practice, two or more mixed herbicides (e.g., GP and DQ) are often applied in varied agricultural scenarios, especially in the tropics [6,16,19]. Undoubtedly, the GP and DQ will inevitably co-occur in lateritic paddy soil. However, there is limited information on the co-occurrence of GP and DQ on microbial diversity and community structure shifts in lateritic paddy soil.
Microbial communities in the soil environment play an important role in the Biogeochemistry cycle of many important soil elements [20,21]. It was found that herbicides residues changed the soil microflora and had a potentially long-term effect on the function of agricultural soils [22,23,24,25]. Most studies have shown that GP has no or transient stress effect on soil microbial community [26,27,28,29,30,31], but some studies have shown significant adverse effects [32,33,34]. For instance, GP can lead to a decrease in the abundance of Pseudomonas fluorescens, Mn-transforming bacteria, and indoleacetic acid-producing bacteria in soybean rhizosphere soil [35]. The abundance of certain Bacteroidetes, Chloroflexi, Cyanobacteria, Planctomycetes, and alpha-Proteobacteria members are highly negatively correlated with GP concentrations [36]. And the decrease in richness and diversity in the presence of a high concentration of GP was only observed for eukaryotic communities [37]. There is also some other literature on the structure of specific microbial communities in different GP exposure cycles, including the effects of GP on Acidobacteria, Ammonia-oxidizing bacteria, Mycorrhiza, etc [38,39,40]. Due to the strong binding property of DQ with clay particles, it is reasonable that higher levels of DQ occurred in lateritic paddy soil, which might bring more pressure on the structure and function of the microbe. Nevertheless, there are few studies on the effects of combined exposure of GP with other herbicides on microbial populations [41], where the combined toxicology of GP with other chemicals on microorganisms mainly focuses on it with heavy metals or polyethylene microplastics [42,43,44,45,46,47]. GP contains coordination groups such as carboxyl, amino, and phosphate groups, and has a strong complexing ability to heavy metal cations and organic cations [44]. Similar to the charge characteristics of metal ions, DQ has the ability to strongly adsorb on the surface with negative charges and also the presence of a strong oxidation-reduction cycling ability that can be reduced to generate free radicals [18]. These similar characteristics coupled with the observed difference (i.e., strong oxidation-reduction cycling ability) might partly contribute to the combined toxic effects of GP and DQ differing from that of GP and heavy metal.
In the context, the short-term exposure (28 days) test was conducted, wherein the effects of single GP, DQ, and their mixture on the diversity and community structure of soil bacteria and fungi were investigated in lateritic paddy soil from a tropical agricultural region (Hainan, China) based on 16S rRNA and Internal Transcribed Spacer (ITS) high-throughput sequencing technology. We hope the results of the study will provide a scientific basis for the rational composite application of herbicides in lateritic paddy soil in agricultural areas.

2. Materials and Methods

2.1. Experiment Design and Sample Collection

Lateritic paddy soils (0-15 cm) were collected from a village (19°55’N, 110°25’E) in the tropical agricultural region of the Nandu River Basin in Hainan Province, China. The residues of GP and DQ were not founded in the soils (the limits of detection were < 0.03 mg kg−1) based on the analytical methods by Delhomme et al. [48] and Pizzutti et al. [49]. The texture of the soil is a typical sandy loam identified by a method from USDA [50]. In order to recover soil microorganisms, the soil samples were sieved through a 10 mesh sieve (2 mm). Then, the deionized water was added to keep the soil at 50% of the maximum water holding capacity, lasting 2 weeks for pre-incubation. Analytical grade DQ and GP (active ingredient > 98.5%) were purchased from Beijing Tanmo Quality Inspection Technology Co., Ltd. (Beijing, China). The recommended field dose of GP was 0.6 mg kg−1, and meanwhile the recommended dosage of DQ in the field was 0.4 mg kg−1 [51]. In the experiment, 10 treatments were set up based on the recommended field dose, containing a blank only with deionized water and the 9 different experimental treatments of GP, DQ, and GP+DQ at different concentrations (Table 1). During the experiment, deionized water was added regularly during the incubation process to compensate for evaporated water. Samples were collected on days 1, 7, 14 and 28 after application, and then were stored at -80 °C for further analysis. All experiments were conducted in triplicates.

2.2. DNA Extraction and Database Construction

Microbial DNA was extracted using the HiPure Soil DNA Kits (or HiPure Stool DNA Kits) (Magen, Guangzhou, China) according to the manufacturer’s protocols. The 16S rDNA target region of the ribosomal RNA gene was amplified by PCR (95 °C for 5 min, followed by 30 cycles at 95 °C for 1 min, 60 °C for 1 min, and 72 °C for 1 min and a final extension at 72 °C for 7 min) using primers listed in the Table S1. PCR reactions were performed in triplicate 50 μL mixture containing 10 μL of 5 × Q5@ Reaction Buffer, 10 μL of 5 × Q5@ High GC Enhancer, 1.5 μL of 2.5 mM dNTPs, 1.5 μL of each primer (10 μM), 0.2 μL of Q5@ High-Fidelity DNA Polymerase, and 50 ng of template DNA. Related PCR reagents were from New England Biolabs, USA.
For bacteria, after genomic DNA was extracted from the soil samples, the 16S rDNA V3 + V4 region was amplified with barcode-specific primers. The primer sequence was: 341F: CCTACGGGNGGCWGCAG; 806R: GGACTACHVGGGTATCTAAT.
For fungi, the amplified region is ITS2 region of ITS. The primer sequences were as follows: ITS3: GATGAAGAACGYAGYRAA; ITS4: TCCTCCGCTTATTGATATGC. The purified amplified products were connected to sequencing linkers to construct sequencing libraries and sequenced by Illumina.

2.3. Bioinformatic Analysis of Microbial 16S rRNA and ITS

After the raw data named “Reads” were obtained by sequencing, the low-quality data in Reads were filtered first, then the two-terminal Reads were spliced into Tag, and the Tag was filtered again. The data obtained was called Clean Tag. Next, based on Clean Tag, Usearch software was used to cluster, remove the chimeric Tag detected during the clustering process, and obtain the representative sequences and abundance of OTU. Based on the sequence and abundance data of OTU, species annotation, species composition analysis, indicator species analysis, α diversity analysis and β diversity analysis were carried out. If there was effective grouping, the differences between groups were compared and tested statistically.

2.5. Data Analysis and Statistical Analysis

Gene abundance data were analyzed using One-way Analysis of Variance (ANOVA) by using the SPSS Statistical Package (version 19.0, IBM, Armonk, New York, USA). Duncan's multi-range test and Spearman's rank statistical analysis were used to calculate the correlation between samples, bacteria and fungi and BDGs/PDGs. All data are mean ± standard error (SE) of three replicates. The data was considered to be significant when p < 0.05.

3. Results

3.1. Effects of Combined Pollution of GP and DQ on Composition and Diversity of Soil Bacterial Community

3.1.1. Bacterial Community Composition

In general, it was observed that GP decreased the relative abundance of Actinobacteria, nevertheless DQ had no significant effect on Actinobacteria. Particularly, combined pollution of GP and DQ increased the relative abundance of Actinobacteria Figure 1a. Specifically, low concentration of mixed herbicides caused the relative abundance of Actinobacteria to increase by 4.91%, 6.78% and 4.25% on the 7th, 14th and 28th day respectively; medium concentration of mixed herbicides caused the relative abundance of Actinobacteria to increase by 3.98% and 5.21% on the 14th and 28th day respectively; high concentration of mixed herbicides caused the relative abundance of Actinobacteria to increase by 4.38% and 2.37% on the 7th and 14th day, respectively. Notably, the mixed herbicides enhanced the inhibitory effect of DQ on Proteobacteria although the promotion of the abundance of Proteobacteria by the GP and the adverse effect on the abundance of Proteobacteria by the DQ was observed Figure 1b. Specifically, low concentration of mixed herbicides caused the relative abundance of Proteobacteria to decreased by 3.58% and 5.70% on the 7th and 14th day respectively; medium concentration of mixed herbicides caused the relative abundance of Proteobacteria to decreased by 4.93% and 2.76% at the 14th and 28th day respectively; high concentration of mixed herbicides caused the relative abundance of Proteobacteria to decreased by 4.97%, 2.49% and 0.92% on the 7th, 14th and 28th day, respectively. Taken together, the results indicated that combined pollution of GP and DQ could increase the relative abundance of Actinobacteria and decrease the relative abundance of Proteobacteria compared with a single herbicide.
The stacking chart of the distribution of bacterial community composition at the genus level was shown in Figure 2a–d. Overall, it could be observed that GP increased the relative abundance of Sphingomonas while DQ decreased the abundance of Sphingomonas, whereas the inhibition of mixed herbicides on Sphingomonas was stronger than that of DQ, but the inhibitory effect weakened over time. Specifically, low concentration of mixed herbicides caused the relative abundance of Sphingomonas to decrease by 4.36%, 3.39% and 1.40% on the 7th, 14th and 28th day respectively; medium concentration of mixed herbicides caused the relative abundance of Sphingomonas to decrease by 5.13%, 3.11% and 1.92% on the 7th, 14th and 28th day respectively; while the high concentration of mixed herbicides caused the relative abundance of Sphingomonas to decreased by 4.30%, 1.41% and 0.64% on the 7th, 14th and 28th day, respectively. Remarkably, the mixed herbicides increased the relative abundance of Streptomyces although the inhibiting effect on the Streptomyces by GP and DQ was observed. Specifically, low concentration of mixed herbicides caused the relative abundance of Streptomyces to increase by 0.69%, 0.86% and 0.81% on the 7th, 14th and 28th day respectively; while the medium concentration of mixed herbicides caused the relative abundance of Streptomyces to increase by 0.85%, 0.69% and 1.29% on the 7th, 14th and 28th day, respectively. In addition, it was observed that GP increased the relative abundance of Phenylobacterium, nevertheless, DQ had little effect on Phenylobacterium. Particularly, the mixed herbicides decreased the relative abundance of Phenylobacterium to some extent. On the 7th day, a low concentration of mixed herbicides caused the abundance of Phenylobacterium to decrease by 0.59%. However, the medium concentration of mixed herbicide reduced the Phenylobacterium abundance by 0.74% on day 7. The results showed that the mixed herbicides inhibited the growth of Sphingomonas and Phenylobacterium, and promoted the growth of Streptomyces at low and high concentrations as compared with a single herbicide.

3.1.2. Alpha Diversity of Bacterial Community

The results of bacterial richness and diversity analysis were shown in Table 2. Generally, the Chao1 index was used to evaluate microbial richness, while the Shannon index was used to evaluate microbial diversity. The larger Chao1 indices is, the higher the microbial richness will be. And the larger the Shannon index is, the higher the microbial diversity will be. On day 1 and day 28, it was observed that the medium concentration of GP increased bacterial richness (risen by 413.413/146.912) while the same concentration of DQ inhibited bacterial richness (reduced by 195.023/48.648). Particularly, the medium concentration of mixed herbicides promoted bacterial richness (risen by 300.247/63.717). It is worth noting that medium concentrations of GP and DQ promoted bacterial diversity on days 7 and 14, but by day 28, the impact of single and mixed herbicides on soil bacterial diversity was not significantly different. In general, the effects of mixed herbicides on soil bacterial richness and diversity were not significantly different from those of a single herbicide.

3.1.3. Beta Diversity of Bacterial Community

The principal coordinate analysis based on the Bray-curtis distance for the bacterial communities at the phylum level and genus level was shown in Figure 3a,b and Figure S1. The results showed that the difference in community structure between the control and the composite herbicide was less than that between the control and the single herbicide (Figure S1). In addition, on day 1 (Figure 3a) and day 14 (Figure 3b), the difference in community structure between the mixed herbicide treatment and the control treatment was less than that between the the single herbicide treatment and the control treatment (R2=0.723, p=0.001; R2=0.405, p=0.044). From the above analysis, it can be concluded that the effect of mixed herbicides on soil bacterial community structure was less than that of single herbicides at low concentrations, although there was no significant difference in the effects between mixed herbicides and single herbicides on soil bacterial community structure at medium or high concentrations.

3.1.4. LEfse Analysis of Bacterial Community

Linear discriminant analysis (LDA ≥ 2) of bacterial community was shown in Figure 4a, Figure S2a–h. It can be observed that at the phylum level, Cyanobacteria were the significantly different biomarker taxa between GP treatment and other herbicide treatments on day 1 (p ≤ 0.038). On the 14th day, the significantly different biomarker taxa between GP treatment and other herbicide treatments became Bacteroides (p ≤ 0.040) instead of Cyanobacteria. It is worth noting that Chloroflex is sensitive to various herbicides treatments on day 14. Meanwhile, at the genus level, Streptomyces showed a significant difference between mixed herbicide treatments and other herbicides treatments on day 14 (p ≤ 0.034). However, on day 28, the significantly different biomarker taxa between GP treatment and other herbicide treatments became Rickettsia (p ≤ 0.013) rather than Streptomyces. In particular, Streptomyces was sensitive to mixed herbicide responses on day 14, while Rickettsia was sensitive to GP responses on days 14 and 28. From the above analysis, it can be concluded that the relative abundance of Cyanobacteria, Bacteroides, and Rickettsia is suppressed after adding DQ to the GP. It is worth noting that compared to the single herbicide, mixed herbicides significantly increased the abundance of Streptomyces (p < 0.05).

3.2. Effects of Combined Pollution of GP and DQ on Composition and Diversity of Soil Fungal Community

3.2.1. Fungal Community Composition

The stacking chart of the species distribution of fungi at the phylum level is shown in Figure 5. Notably, at the phylum level, the low concentration of mixed herbicides inhibited the abundances of Basidomycota but promoted the abundances of Ascomycota at the 7th and 28th day compared with single herbicide. Specifically, on day 7, low concentration mixed herbicide reduced the abundance of Basidomycota by 3.3%, while increased Ascomycota abundance by 4.86%; in addition, the abundances of Basidomycota decreased by 3.21% and Ascomycota increased by 2.33% at day 14. Taken together, the results showed that Basidomycota and Ascomycota were sensitive to exposure to mixed herbicides at certain exposure times, especially on days 7 and 14.
Figure 2e–h shows a stacked distribution of fungi at the genus level. In general, it was observed that GP inhibited the abundance of Talaromyces at low and middle concentrations on the 7th and 28th day, nevertheless the same concentrations of DQ promoted the abundance of Talaromyces at the same time. Notably, the addition of GP enhanced the effect of DQ on the abundance of Talaromyces. Specifically, low concentration mixed herbicides increased the abundance of Talaromyces by 1.16% and 1.43% respectively on the 7th and 28th day; while the medium concentration of mixed herbicides increased the abundance of Talaromyces by 4.91% and 2.95% respectively on the 7th and 28th day. However, on the 7th and 14th day, the mixed herbicides promoted the abundance of Curvularia although the single herbicide inhibited the abundance of Curvularia. Specifically, the low concentration of mixed herbicides increased the abundance of Curvularia by 2.60% on the 7th and 14th day; the medium concentration of mixed herbicides increased the abundance of Curvularia by 5.85% and 0.86% on the 7th and 14th day, respectively; while the medium concentration of mixed herbicides increased the abundance of Curvularia by 0.30% and 0.97% on the 7th and 14th day, respectively. Particularly, on the 7th, 14th and 28th days, the mixed herbicides inhibited the abundance of Conlarium significantly compared with single herbicides at low and medium concentrations, and the inhibitory effect became more significant over time. Specifically, the low concentration mixed herbicides respectively reduced the abundance of Conlarium by 0.42%, 1.32% and 5.01% on the 7th, 14th and 28th day, while the medium concentration of mixed herbicides reduced the abundance of Conlarium by 1.26%, 1.60% and 2.97% at the 7th, 14th and 28th day, respectively. The results showed that, compared with single herbicides, the mixed herbicides promoted the abundance of Talaromyces and Curvularia at low and medium concentrations, but inhibited the abundance of Conlarium.

3.2.2. Alpha Diversity of Fungal Community

The fungal richness and diversity data were presented in Table 3. It is observed that the diversity of fungal communities increased with time, but the richness decreased over time. On the first day, the fungal diversity of low and medium concentration GP treatments was significantly higher than that of mixed herbicide treatments at the same concentration (p < 0.05). Particularly, on the 14th day, low concentrations of single herbicides had little impact on fungal diversity, while low concentrations of mixed herbicides significantly inhibited fungal diversity (p < 0.05). It could be found that the high concentration of mixed herbicides has little impact on fungal diversity, nervertheless at the same concentration the fungal diversity of GP treatment is significantly lower than that of the control treatment (p < 0.05), while the fungal diversity of DQ treatment is significantly higher than that of control treatment (p < 0.05). It is worth noting that on day 28, high concentrations of mixed herbicides significantly inhibited fungal diversity (p < 0.05), while single herbicides at the same concentration had no significant impact on fungal diversity. It can be observed that compared to the single herbicides, mixed herbicides inhibit the diversity of fungal communities in soil, but have no significant impacts on the richness of fungal.

3.2.3. Beta Diversity of Fungal Community

The principal coordinate analysis based on the Bray-curtis distance for the fungal communities at the genus level was shown in Figure 6a–d. It can be observed that the differences in fungal community structure among different treatments increase over time (R2 ≥ 0.847, p=0.001). It is worth noting that under low and high concentrations, the difference in community structure between the control treatment and the mixed herbicide treatment is smaller than the difference between the single herbicide treatment and the control (R2 ≥ 0.534, p=0.001). From the above analysis, it can be concluded that the impact of mixed herbicides on the structure of soil fungal communities is less than that of single herbicides.

3.2.4. LEfSe Analysis of Fungal Community

Linear discriminant analysis (LDA ≥ 2) of fungi was shown in Figure 4b, Figure S3. In particular, at the phylum level, Ascomycota was extremely sensitive to the response of each herbicide treatment at day 28. It is worth noting that at the genus level, Thielavia had a sensitive response to GP on day 28, for Thielavia was a significantly different species between GP treatment and other herbicides treatments. It can be concluded that GP significantly promoted the abundance of Thielavia, while there was no definite significant difference in species from mixed herbicide treatments when compared with the single herbicide treatments.

4. Discussion

Pesticide use has harmful impact on soil biological activity, such as microbial abundance, diversity, and activities, all of which influence nutrient transformation and therefore, health and quality of soil [52]. This study found that the effect of combined pollution of GP and DQ on bacterial community structure at low concentrations was less than that of single herbicides. However, that was no difference at medium and high concentration between mixed herbicide and single herbicides. In addition, the effect of mixed herbicide on fungal community structure was less than that of single herbicide treatment. Most reports showed that herbicides have little or no short-term effect on microbial community structure [29,30,31], Previous studies have revealed that the microbial communities were negatively affected by GP [53] and the activity of total microbial community was also affected by GP [54]. In contrast, the ester-linked fatty acid methyl ester extraction (EL-FAME) analysis of agricultural soil exposed to repetitive application of GP displayed no significant changes in structure of the soil microbial community [55]. In this study, the short-term effect of combined pollution of GP and DQ on microbial community structure was less than single herbicide. Further researches will be needed on the long-term effects of combined pollution of GP and DQ on soil microbial community structure.
The present study found that, compared with a single herbicide, the combined pollution of GP and DQ has a certain promoting effect on Actinobacteria and a certain inhibiting effect on Proteobacteria at phylum level. It is well known that Actinobacteria and Proteobacteria are common bacteria taxa in soil [56], which may be sensitive to herbicide contamination, these taxa can have a variety of effects on soil and vegetation health, including beneficial and pathogenic effects [57,58]. At the genus level, the single herbicide decreased the relative abundance of Streptomyces. However, the combined pollution of GP and DQ has a certain promoting effect on Streptomyces. It was found that the combination of GP and Cu could reduce the toxicity of heavy metals to photoluminescent bacteria [44], it may be that DQ and Cu Combine with GP in a similar way to reduce the stress of some bacteria. Although GP promoted the abundance of Sphingomonas, however, the addition of GP enhanced the inhibitory effect of DQ on the abundance of Sphingomonas. In addition, single herbicides promoted or had no effect on the abundance of Phenylobacterium, while mixed herbicides had an inhibitory effect on the abundance of Phenylobacterium. Some researchers have suggested that the combined use of GP and Cd may aggravate the effects on E. coli [42], perhaps Phenylobacterium is as sensitive as E. coli to the stress of GP combined contamination. For fungi, although GP inhibited the abundance of Talaromyces at low and medium concentrations, the addition of GP enhanced the promotion of DQ on the abundance of Talaromyces. The single herbicide inhibited the abundance of Curvularia, while the mixed herbicides promoted the abundance of Curvularia. In addition, the abundance of Conlarium was significantly inhibited by mixed herbicides compared with single herbicides. Some studies have shown that fungal diversity and abundance respond strongly to high concentrations of GP, and herbicide combined pollution may make the stress response of different fungi more obvious.
The effects of combined pollution of GP and DQ on bacterial community richness and diversity were not significantly different from those of single herbicides. It was found that a single herbicide had a transient promoting or inhibiting effect on bacterial population abundance and community diversity in soil. Previous studies had also found that GP has an adverse effect on the interactions of manganese redox bacteria, Pseudomonas fluorescens, acetogenic rhizosphere bacteria and Fusarium in the rhizosphere soil of soybean, resulting in an increase in the number of Fusarium species, the abundances of Pseudomonas fluorescens, manganese redox bacteria and acetogenic rhizosphere bacteria decreased [35]. However, the combined application of the two herbicides did not affect the richness and diversity of soil bacteria. This may be because some bacteria produce free radical scavenging molecules when they coexist with GP, and eliminate the Free Radical produced by DQ, which makes the stress response of bacteria to GP and DQ reduced or unchanged [59]. Compared with single herbicide, mixed herbicide had no significant effect on the richness of soil fungal community, but could inhibit the diversity of the fungal community. Some scholars had shown that GP can stimulate soil fungal biomass in the early and short-term, and it has an adverse effect on both fungal community diversity and species richness after long-term application of GP [60]. Thus, mixed herbicides aggravated the adverse effects on soil fungal community diversity, but the cause of the short period of this study, the effects of various herbicides on fungal population abundance were not significant.
Along with the persistence, concentration, toxicity, and bioavail-ability of the sprayed pesticide, variety of environmental factors influence the toxic impact of pesticides on microbial diversity [61,62]. Here, we focused on the relative abundances and diversity of soil microbial community diversity only at the concentration of herbicides. Future work should focus on the effects of combined pollution of GP and DQ in different soil environmental on microbial community composition and diversity

5. Conclusions

This study examined the effects of combined pollution of GP and DQ on composition and diversity of microbial community in lateritic paddy soil at the relative field application doses. Compared with single herbicide, the mixed herbicide (GP+DQ) had no significant impact on the richness of bacteria and fungal communities, but inhibited the diversity of fungal communities in the soil. Actinobacteria and Proteobacteria were the most sensitive microbial phylum to application of mixed herbicide. Which could increase the abundance of Actinobacteria but significanltly inhibit the abundance of Proteobacteria at phylum level, especially at low and high concentrations; and the mixed herbicide could enhanced the abundance of Streptomyces while decrease the abundance of Sphingomonas and Phenylobacterium at genus level. In general, the combination of GP and DQ had no more adverse effect on soil microorganisms, therefore, the two herbicides can be reasonably applied in the actual field work.

Supplementary Materials

The following supporting information can be downloaded at the website of this paper posted on Preprints.org. Figure S1: Principal coordinate analysis for the bacterial communities at the phylum level; Figure S2: Cladograms of line discriminant analysis effect size (LEfSe) analyses of bacteria; Figure S3: Cladograms of line discriminant analysis effect size (LEfSe) analyses of fungus; Table S1: Primer information.

Author Contributions

Conceptualization, methodology, writing—original draft preparation, X.Y.H.; investigation, funding acquisition, C.Y.W.; writing—review and editing, funding acquisition, H.D.T.; writing—review and editing, funding acquisition, X.D.; resources, Y.L. All authors have read and agreed to the published version of the manuscript.

Funding

This research were funded by the National Natural Science Foundation of China, grant number “42177402”, the Natural Science Foundation of Hainan Province, grant number “420QN316”and the Hainan Province Science and Technology Special Fund of China “ZDYF2021XDNY137”.

Data Availability Statement

Not applicable.

Conflicts of Interest

The authors declare no conflict of interest.

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Figure 1. The abundance distribution of Actinobacteria (a) and Proteobacteria (b). CK, Gl, Gm, Gh, Dl, Dm, Dh, GDl, GDm, GDh: control, low concentration glyphosate, medium concentration glyphosate, high concentration glyphosate, low concentration diquat, medium concentration diquat, high concentration diquat, low concentration mixed herbicides, medium concentration mixed herbicides, and high concentration mixed herbicides. Similarly hereinafter.
Figure 1. The abundance distribution of Actinobacteria (a) and Proteobacteria (b). CK, Gl, Gm, Gh, Dl, Dm, Dh, GDl, GDm, GDh: control, low concentration glyphosate, medium concentration glyphosate, high concentration glyphosate, low concentration diquat, medium concentration diquat, high concentration diquat, low concentration mixed herbicides, medium concentration mixed herbicides, and high concentration mixed herbicides. Similarly hereinafter.
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Figure 2. Community composition of bacteria (a–d) and fungi (e–h) at genus level from different exposure time (1, 7, 14 and 28 d).
Figure 2. Community composition of bacteria (a–d) and fungi (e–h) at genus level from different exposure time (1, 7, 14 and 28 d).
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Figure 3. Principal coordinate analysis for the bacterial communities at the phylum level at 1 day (a) and 14 day (b) exposure.
Figure 3. Principal coordinate analysis for the bacterial communities at the phylum level at 1 day (a) and 14 day (b) exposure.
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Figure 4. Cladograms of line discriminant analysis effect size (LEfSe) analyses based on microbial community composition in different treats (The line discriminant analysis (LDA) scores above the preset value of 2.0 were considered to be significant. From the center outward, the circles represent the different taxonomic levels of the bacteria and fungi from the phylum to genus level. The yellow circles denote the taxa without significant differences among the different soil layers.) (a) bacteria, (b) fungi.
Figure 4. Cladograms of line discriminant analysis effect size (LEfSe) analyses based on microbial community composition in different treats (The line discriminant analysis (LDA) scores above the preset value of 2.0 were considered to be significant. From the center outward, the circles represent the different taxonomic levels of the bacteria and fungi from the phylum to genus level. The yellow circles denote the taxa without significant differences among the different soil layers.) (a) bacteria, (b) fungi.
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Figure 5. Community composition of fungi at phylum level from different exposure time (1, 7, 14 and 28 d).
Figure 5. Community composition of fungi at phylum level from different exposure time (1, 7, 14 and 28 d).
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Figure 6. Principal coordinate analysis (a–d) for fungus communities at the genus level at 1, 7, 14 and 28 day exposure.
Figure 6. Principal coordinate analysis (a–d) for fungus communities at the genus level at 1, 7, 14 and 28 day exposure.
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Table 1. Trial treatment setting. The low concentration (L) was 1 times the recommended dosage, the medium concentration (M) was 10 times the recommended dosage, and the high concentration (H) was 100 times the recommended dosage. The recommended dosage were set 0.6 and 0.4 mg kg−1 for glyphosate (GP) and diquat (DQ).
Table 1. Trial treatment setting. The low concentration (L) was 1 times the recommended dosage, the medium concentration (M) was 10 times the recommended dosage, and the high concentration (H) was 100 times the recommended dosage. The recommended dosage were set 0.6 and 0.4 mg kg−1 for glyphosate (GP) and diquat (DQ).
Treatment Concentration (mg kg−1)
Low (l) Middle (m) High (h)
Blank (CK) 0
Glyphosate (G) 0.6 (Gl) 6 (Gm) 60 (Gh)
Diquat (D) 0.4 (Dl) 4 (Dm) 40 (Dh)
Glyphosate+diquat (GD) 0.6+0.4 (GDl) 6+4 (GDm) 60+40 (GDh)
Table 2. Alpha diversity of bacterial communities under different treatments. Different letters indicate significant differences at the p <0.05 level between different treatments at the same time. Mean values (n = 3)±S.E.
Table 2. Alpha diversity of bacterial communities under different treatments. Different letters indicate significant differences at the p <0.05 level between different treatments at the same time. Mean values (n = 3)±S.E.
Index Treatment Days after application
1 7 14 28
Shannon CK 5.918±0.311ab 7.264±0.027bc 7.556±0.023cd 7.315±0.093abc
Gl 6.390±0.071a 7.458±0.009a 7.650±0.017abc 7.254±0.320bc
Gm 6.249±0.063a 7.405±0.032ab 7.736±0.022a 7.497±0.090ab
Gh 6.266±0.161a 7.145±0.051c 7.671±0.018ab 7.453±0.067abc
Dl 6.131±0.140a 7.407±0.033ab 7.583±0.015bcd 7.416±0.027abc
Dm 5.382±0.379b 7.485±0.044a 7.669±0.030ab 7.629±0.006a
Dh 5.770±0.256ab 7.416±0.038ab 7.404±0.011e 7.152±0.014bc
GDl 6.298±0.046a 7.381±0.029ab 7.284±0.078f 7.100±0.034c
GDm 6.409±0.001a 7.414±0.090ab 7.505±0.015d 7.090±0.023c
GDh 6.092±0.104a 7.370±0.106ab 7.499±0.038de 7.238±0.039bc
Chao1 CK 2188.649±150.191bcd 2263.584±36.558ab 2369.947±39.031a 2303.254±45.996ab
Gl 2536.324±75.475ab 2377.208±3.108a 2352.648±36.608a 2219.027±135.281b
Gm 2602.062±60.436a 2338.966±56.674a 2386.601±49.563a 2450.166±44.036aA
Gh 2508.073±91.128abc 2184.617±30.267b 2417.438±28.661a 2285.848±30.396ab
Dl 2229.911±153.341bcd 2406.547±28.774a 2334.005±44.040a 2352.122±40.203ab
Dm 1993.626±203.891d 2417.230±8.741a 2351.966±34.642a 2254.606±47.180b
Dh 2154.460±98.706cd 2329.326±48.987ab 2249.354±70.180a 2297.709±26.360ab
GDl 2372.901±44.448abc 2332.078±103.682ab 2305.535±69.564a 2309.014±8.035ab
GDm 2488.896±9.119abc 2363.224±52.350a 2358.002±63.922a 2366.971±23.944ab
GDh 2250.869±64.077abcd 2380.824±14.352a 2332.714±39.074a 2250.471±9.346b
Table 3. Alpha diversity of fungal communities under different treatments. Different letters indicate significant differences at the p < 0.05 level between different treatments at the same time. Mean values (n = 3)±S.E.
Table 3. Alpha diversity of fungal communities under different treatments. Different letters indicate significant differences at the p < 0.05 level between different treatments at the same time. Mean values (n = 3)±S.E.
Index Treatment Days after Application
1 7 14 28
Shannon CK 4.780±0.083abc 4.368±0.046cd 4.614±0.015a 4.727±0.044abc
Gl 4.882±0.054a 4.634±0.023ab 4.363±0.029ab 4.783±0.039ab
Gm 4.765±0.011ab 4.635±0.086bc 4.259±0.135ab 4.980±0.057a
Gh 4.544±0.129d 4.231±0.043d 4.388±0.121ab 4.684±0.023cd
Dl 4.686±0.072bcd 4.371±0.020cd 4.259±0.076ab 4.708±0.007bcd
Dm 4.683±0.018abc 4.652±0.044ab 4.516±0.052ab 4.661±0.028bcd
Dh 4.509±0.014cd 4.800±0.053a 4.488±0.043ab 4.598±0.053cd
GDl 4.688±0.033abc 4.405±0.049cd 4.128±0.111b 4.867±0.076bcd
GDm 4.452±0.014d 4.325±0.028cd 4.376±0.097ab 4.821±0.134abcd
GDh 4.763±0.060abc 4.490±0.069cd 4.369±0.010ab 4.547±0.053d
Chao1 CK 673.214±21.296ab 543.470±18.721bc 462.809±3.810b 455.377±60.937a
Gl 773.434±39.275ab 579.153±19.726abc 464.205±2.574b 479.181±56.792a
Gm 772.912±28.255a 626.580±29.634a 465.700±4.486b 469.934±53.990a
Gh 717.335±44.500ab 510.983±12.810c 452.857±1.069b 438.914±55.892a
Dl 733.530±38.877ab 546.209±15.359bc 461.212±6.469b 438.962±53.068a
Dm 706.838±26.245ab 595.042±19.484ab 477.764±9.637b 425.494±44.871a
Dh 641.645±17.447b 578.217±19.415ab 468.624±8.868b 437.094±48.999a
GDl 697.382±28.165ab 540.641±15.796bc 452.803±0.858b 455.715±39.099a
GDm 666.482±30.530b 500.521±2.086bc 496.728±3.212a 491.149±35.763a
GDh 679.040±27.961ab 541.952±8.107abc 499.915±16.673b 426.687±6.304a
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