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. 2019 Jul 30;9:11033. doi: 10.1038/s41598-019-47380-5

The N-fixing legume Periandra mediterranea constrains the invasion of an exotic grass (Melinis minutiflora P. Beauv) by altering soil N cycling

Carina B Nogueira 1, Esther Menéndez 2,5, Martha Helena Ramírez-Bahena 3, Encarna Velázquez 2,4, Álvaro Peix 3,4, Pedro F Mateos 2,4, Maria Rita Scotti 1,✉
PMCID: PMC6667476  PMID: 31363104

Abstract

Melinis minutiflora is an invasive species that threatens the biodiversity of the endemic vegetation of the campo rupestre biome in Brazil, displacing the native vegetation and favouring fire spread. As M. minutiflora invasion has been associated with a high nitrogen (N) demand, we assessed changes in N cycle under four treatments: two treatments with contrasting invasion levels (above and below 50%) and two un-invaded control treatments with native vegetation, in the presence or absence of the leguminous species Periandra mediterranea. This latter species was considered to be the main N source in this site due to its ability to fix N2 in association with Bradyrhizobia species. Soil proteolytic activity was high in treatments with P. mediterranea and in those severely invaded, but not in the first steps of invasion. While ammonium was the N-chemical species dominant in plots with native species, including P.mediterranea, soil nitrate prevailed only in fully invaded plots due to the stimulation of the nitrifying bacterial (AOB) and archaeal (AOA) populations carrying the amoA gene. However, in the presence of P. mediterranea, either in the beginning of the invasion or in uninvaded plots, we observed an inhibition of the nitrifying microbial populations and nitrate formation, suggesting that this is a biotic resistance strategy elicited by P. mediterranea to compete with M. minutiflora. Therefore, the inhibition of proteolytic activity and the nitrification process were the strategies elicited by P.mediterranea to constrain M.munitiflora invasion.

Subject terms: Biogeochemistry, Microbiology, Environmental sciences, Plant sciences

Introduction

The Serra do Rola Moça State Park (PESRM), located in the state Minas Gerais (Brazil), covers an area of 3,924 ha and hosts one of the most important preserved areas of the campo rupestre biome. This site is formed by ironstone outcrops (canga), with shallow soils resulting from rock dissolution via weathering and/or lichenic acid production1. These ironstone outcrops support a notable vegetation at elevations above 1,000 m, with a predominance of grassy, herbaceous and shrub species with a high degree of endemism2 (Fig. 1A)

Figure 1.

Figure 1

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(A) Campo Rupestre vegetation; (B) (T1) native vegetation without Periandra mediterranea; (C) P. mediterranea; (D) (T2) native vegetation with: P. mediterranea (P); (E,F) (T3) beginning of Melinis minutiflora (M) invasion; barrier or halo formed by P. mediterranea (P); (G) Melinis minutiflora (M), >50% of invasion; (H) Melinis minutiflora spots in the field circumscribed by native vegetation. All the photographs were taken by M.R.Scotti.

However, this campo rupestre vegetation has been massively (60%) invaded by the exotic grass Melinis minutiflora, severely impacting the biodiversity and survival of this biome3. In addition, the M. minutiflora invasion has favoured the occurrence of periodic fires in the park3, creating a positive feedback for plant invasion4 and leading to land degradation. Such fires have favoured the recycling of soil nitrogen which became available via burned ash4 thereby further stimulating the invader expansion. Due to its potential for fire spread5 the presence of M. minutiflora has became a threat and concern to local populations that live around the park.

It is well known that plant roots establish a molecular communication with neighboring plants and soil microorganisms via root exudation of a wide range of organic compounds, which mediate root-root and root-microbial communication6, known as rhizospheric effect7. This metabolomic plataform production is plant-specific8,9 and mediates the molecular dialogue among co-existing plants by stimulating or inhibiting (allelopathic pathways) the neighboring biological activity10. Invasive species can disrupt local feedback mechanisms established in the climax soil system11, altering litter decomposition patterns10,11 and rhizosphreric microbiome structure and activity10. In consequence occurs alterations in nutrient cycling and availability, especially nitrogen12. Feedback between plant invasion and nitrogen cycling is often mediated by an increase in N release from the litter13 and alterations in specific soil microbial communities involved in N cycling3,14–17. Inorganic N forms, such as ammonium (NH4+) and nitrate (NO3−), become available to plants after the mineralization of organic compounds containing N, especially those from leguminous plants, through the action of microbial extracellular enzymes. The first step of this process involves the conversion of organic protein N to amino-acids by the action of soil proteases18.which is followed by the reduction of amino-acids to NH4+ by extracellular enzymes. The oxidation of NH4+ to nitrite (NO2−) and nitrate (NO3−) is carried out by aerobic chemo-lithotrophic microorganisms as ammonia-oxidising bacteria (AOB) and ammonia-oxidising archaea (AOA), which possess ammonia monooxygenase genes19. According to Leininger et al.20, the AOA population is the most abundant ammonia-oxidising group in soil ecosystems, and this oxidative pathway is performed in different soil types21. Besides, nitrification has been positively correlated with AOA abundance22 that also has been associated with plant invasion17. One of the most reported strategies elicited by invasive species is the increase in soil nitrate, which has been related with a positive feedback not only for the AOA17, but also the AOB nitrifying community3,15,16 and or by a negative feedback via the inhibition of the denitrifying microbial community14. Melinis minutiflora displayed a positive feedback with the nitrogen cycle by increasing nitrate and the AOB-nitrifying community in an invaded campo rupestre site3. These authors found that the main nitrogen source for the site was represented by biological nitrogen fixation performed by the prevalent leguminous species Mimosa pogocephala, which was associated with Burkholderia nodosa, assuring soil N fertility.

Therefore, we hypotized that (1): the N-fixing leguminous species are the main N source in the campo rupestre, making the ammonium-N, the predominant chemical species available to other plants, and that (2) M.minutiflora disrupts the soil N cycling by increasing soil nitrate via a positive feedback over nitrifying microorganisms as a general mechanism of invasion. Thus, our objective was to assess the alterations in the nitrogen cycle promoted by M. minutiflora over an iron-rich rocky outcrop (campo rupestre) under contrasting invasion degree and in the presence/absence of the e native leguminous species Periandra mediterranea. The overall aim of this study was to understand the general mechanism of M. minutiflora invasion in order to develop adequate management strategies for the control of this species in the campo rupestre.

Results

Plant occupation

Figure 2 shows the plant occupation index in plots or treatments. The plots occupied by native species (T1, Fig. 1B) were mainly composed of plants of the Poaceae family (65%), (Fig. 2). In the presence of native species plus the leguminous species P. mediterranea (T2, Fig. 1C,D), the proportion of native species remained more or less constant (Fig. 2). At the beginning of the M.minutiflora invasion (T3 Fig. 1E,F), all native species were weakly reduced, independent of the plant family (Fig. 2). In T3 plots, we observed a space adjacent to P. mediterranea, which keeps this species distant from the invader. We termed this space “barrier” or “halo” (Fig. 1E,F and H), and it disappeared in T4, when the invasion exceeded 50% (Fig. 1G). In T4 (Fig. 2), we observed a decline of native species, especially those from the Poaceae family.

Figure 2.

Figure 2

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Occupation index of the vegetation in plots as follows: (T1) native species without Periandra mediterranea and no invasion; (T2) native species plus P. mediterranea and no invasion; (T3) native species plus P. mediterranea and ≤50% invasion; (T4) native species plus P. mediterranea and >50% invasion. Means with different letters are significantly different according to Kruskal-Wallis and Nemenyi tests at 5% confidence level (p ≤ 0.05).

Leaf C and N concentrations

The leaf C and N concentrations (Table 1) of P. mediterranea (T2) were significantly higher than those of the other native (T1) and invasive (T3 and T4) species. Consequently, the C:N ratio in P. mediterranea leaves (T2) was the lowest, followed by that of the native species in T1, contrasting with the highest values found in M. minutiflora leaves (T3 and T4). The leaf natural 15N abundance (‰) of P. mediterranea showed a greater isotopic depletion than that of leaves of native and invasive species, suggesting a different nitrogen source among plants (Fig. 3).

Table 1.

Comparative analysis among all variables (leaf carbon, leaf nitrogen and C:N ratio) and multiple comparisons (pairwise comparisons) ofthe following treatments: (T1) leaves of native species from plots without Periandra mediterranea and no invasion; (T2) leaves of P. mediterranea in plots with native species and no invasion; (T3) leaves of Melinis minutiflora in plots with ≤50% invasion, native species and P. mediterranea; (T4) leaves of Melinis minutiflora in plots with >50% invasion,native species and P. mediterranea. Means in bold are significantly different according to the Kruskal-Wallis test at 5% confidence level (p ≤ 0.05) and multiple comparisons by the Nemenyi test.

Treatments Mean P-value P- value -Multiple comparisons
Leaf carbon (%) T1 46.68 0.007 T1 T2 T3
T2 48.11 T2 0.535 — —
T3 45.02 T3 0.359 0.015 —
T4 44.84 T4 0.411 0.020 0.999
Leaf nitrogen (%) T1 1.37 0.000 T1 T2 T3
T2 1.97 T2 0.138 — —
T3 0.89 T3 0.070 0.000 —
T4 0.96 T4 0.335 0.000 0.872
Leaf C: N T1 36.06 0.000 T1 T2 T3
T2 24.71 T2 0.159 — —
T3 51.68 T3 0.052 0.000 —
T4 47.35 T4 0.359 0.001 0.795
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Figure 3.

Figure 3

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Natural abundance of δ15N in leaves of plant species in the treatments as follows: (T1) native species without Periandra mediterranea and no invasion with Melinis minutiflora; (T2) native species plus P. mediterranea and no invasion; (T3) native species plus P. mediterranea and ≤50% invasion; (T4) native species plus P. mediterranea and >50% invasion.

Identification of rhizobial endosymbionts of P. mediterranea

The slow-growing isolated strains from P. mediterranea nodules formed mucoid colonies typical of rhizobia. The 16S rRNA gene sequences of the isolated strains were compared with those kept in EzBiocloud, a database containing the sequences of the 16S rRNA genes of the type strains of all bacterial species, and the results showed that they belonged to the genus Bradyrhizobium. Phylogenetic analysis of their 16S rRNA gene sequences showed that they clustered into three different phylogenetic groups within this genus, which also contained other species isolated in Brazil (Fig. 4). This is therefore the first report of the identity and diversity of Bradyrhizobium strains inhabiting nodules of P. mediterranea.

Figure 4.

Figure 4

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Neighbour-joining phylogenetic tree based on 16S rRNAgene sequences showing the position of the strains isolated from P. mediterranea within genus Bradyrhizobium. Bootstrap values calculated for 1,000 replications are indicated. Bar, 1 nt substitution per 100 nt.

Soil N chemical species

Although the total C and N contents did not differ among treatments (Table 2), the soil C:N ratio was significantly lower in T2 plots, where P. mediterranea was the dominant plant species. Soil NH4+did not differ between the treatment with native plants (T1) and T2 (p = 0.13); T3 (p = 1,0) and T4 (p = 1.0). However, the NH4+ content was reduced in T3 in relation to T2 (p = 0.01) at the beginning of the invasion (Fig. 5A), but there was no difference between T2 and T4 at advanced invasion (p = 0.9). Indeed, at a higher invasion degree (T4), the NH4+ content was restored to similar levels as those found before the invasion (T1 and T2). In contrast, soil NO3− was significantly increased in T4 (Fig. 5B) when invasion by M. minutiflora was highest (Fig. 1G), differing from T1 (p < 0.001), T2 (p = 0.02) and T3 (p < 0.001) (Fig. 5B). Nevertheless, such increase in nitrate did not occur at the initial invasion process (T3), and nitrate levels were similar to both T1 (p = 1.0) and T 2 (p = 1.0). Similarly, the presence of P. mediterranea in T2 did not facilitate nitrate formation when compared to the plots only containing other native species (T1) (p = 0.54).

Table 2.

Comparative analysisof all variables (soil carbon, nitrogen and C:N ratio) among treatments and their multiple comparisons (pairwise comparisons). (T1) native species without Periandra mediterranea and no invasion; (T2) native species plus P. mediterranea and no invasion; (T3) native species plus P. mediterranea and ≤50% invasion; (T4) native species plus P. mediterranea and >50% invasion. Means in bold are significantly different according to the Kruskal-Wallis test at 5% confidence level (p ≤ 0.05) and multiple comparisons by the Nemenyi test.

Treatments Mean P- value P-value Multiple comparisons
Soil carbon (%) T1 2.43 0.636 T1 T2 T3
T2 2.54 T2 0.621 — —
T3 2.85 T3 0.997 0.745 —
T4 3.33 T4 0.930 0.930 0.977
Soil nitrogen (%) T1 0.14 0.337 T1 T2 T3
T2 0.18 T2 0.311 — —
T3 0.17 T3 0.979 0.542 —
T4 0.20 T4 0.789 0.857 0.950
Soil C:N T1 16.64 0.001 T1 T2 T3
T2 15.22 T2 0.001 — —
T3 16.52 T3 0.899 0.019 —
T4 16.34 T4 0.903 0.019 0.999
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Figure 5.

Figure 5

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Soil contents of ammonium (A) and nitrate (B) under different treatments: (T1) native species without Periandra mediterranea and no invasion; (T2) native species plus P. mediterranea and no invasion; (T3) native species plus P. mediterranea and ≤50% invasion by Melinis minutiflora; (T4) native species plus P. mediterranea and >50% invasion. Means values ± SE (standard error) with different letters are significantly different according to Kruskal-Wallis and Nemenyi tests at 5% confidence level (p ≤ 0.05). NS: No significant differences.

Soil enzyme activity and microbial nitrifying communities

Soil enzyme activity related to N metabolism (Fig. 6) showed that protease activity was higher in the presence of the legume P. mediterranea (T2) than in the plots without this species T1 (p < 0.001), but was inhibited in the beginning of the invasion process (T3), which differed from T2 (p = 0.012). In the first stage of the invasion (T3), enzyme activity became similar to that in T1 (p = 0.1) plots without P. mediterranea. However, in fully invaded plots (T4), we observed a significant increase of soil protease activity in relation to T1 (p < 0.001), but not in relation to T2 (p = 1.0) and T3 (p = 0.19).

Figure 6.

Figure 6

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Soil protease activity; for the following treatments: (T1) native species without Periandra mediterranea and no invasion; (T2) native species plus P. mediterranea and no invasion; (T3) native species plus P. mediterranea and ≤50% invasion by Melinis minutiflora; (T4) native species plus P. mediterranea and >50% invasion. Means values ± SE (standard error) with different letters are significantly different according to Kruskal-Wallis and Nemenyi tests at 5% confidence level (p ≤ 0.05).

The abundance of functional genes of microbial communities that mediate the first step of the nitrification process, oxidation of NH4+ to NH2OH, which is subsequently oxidized to nitrite and nitrate, was estimated by quantifying the amoA gene carried by bacteria (AOB) and archaea (AOA) communities (Fig. 7A,B). In soils containing native plants (T1), we detected a low abundance of bacterial (AOB) amoA gene communities (Fig. 7A), which was increased in the presence of P. mediterranea, either in T2 (p = 0.0018) or T3 (p < 0.001). In contrast, in the initial stages of the invasion process (T3), the AOB communities were not modified by M. minutiflora in comparison to T2 (p = 0.14), but they were significantly stimulated with the dominance of the invasive plant in T4 in relation to T1 (p < 0.001), T2 (p < 0.001) and T3 (p = 0.002) (Fig. 7A). Regarding the AOA nitrifying communities (Fig. 7B), there was an inhibition of these microbial communities in the treatment with P. mediterranea (T2) in comparison to the native species (T1) (p = 0.001), but they were progressively stimulated by the invasive species (T3), with a significant difference to T2 (p = 0.001), but not to T1 (p = 1.0). The highest abundance of AOA was registered in T4 as compared toT1 (p < 0.001), T2 (p < 0.001) and T3 (p < 0.001).

Figure 7.

Figure 7

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(A) ammonia-monooxygenase abundance of AOB and (B) ammonia-monooxygenase abundance of AOA, estimated by qPCR for the following treatments: (T1) native species without Periandra mediterranea and no invasion; (T2) native species plus P. mediterranea and no invasion; (T3) native species plus P. mediterranea and ≤50% invasion by Melinis minutiflora; (T4) native species plus P. mediterranea and >50% invasion. Means values ± SE (standard error) with different letters are significantly different according to Kruskal-Wallis and Nemenyi tests at 5% confidence level (p ≤ 0.05).

Discussion

The occupation data show a displacement of native species, particularly those belonging to the Poaceae family, which were replaced by M. minutiflora, also a Poaceae species. Such replacement of native plants by the invader might be due to competition for nutrients such as nitrate, as revealed by our results and confirmed by the literature, which demonstrates that M. minutiflora displays a high demand for nitrogen3,4.5. In contrast, P. mediterranea suffered a less significant displacement than the other plants in T3, possibly due to its independence for soil nitrogen uptake associated with its nitrogen fixing ability.

Our results demonstrate that the main N source in the studied site is represented by biological nitrogen fixation via P. mediterranea, which showed the highest total leaf N concentration, the lowest leaf C:N ratio and, most importantly, a depletion in leaf isotopic 15N relative to other reference species. Such depletion is attributed to the isotopic atmospheric discrimination promoted by N-fixing bacteria associated with leguminous plants23. In this study, P. mediterranea was found nodulated by three species of the symbiotic nitrogen-fixing genus Bradyrhizobium, some of them clustering with species isolated from nodules of other Brazilian legumes, such as Bradyrhizobium ingae (Inga laurina), Bradyrhizobium tropiciagri (Neonotonia wightii), Bradyrhizobium macuxiense (Centrolobium paraense) and Bradyrhizobium brasilense (Vigna unguiculata). Besides, a novel bacterial species was found inhabiting the nodules of P. mediterranea and belonging to the genus Paenibacillus (P. periandrae)24. This bacterial species might also play a role on nitrogen fixation, since the genus Paenibacillus contains several nitrogen-fixing species25.

The N fixation occurring in P.mediterranea nodules explains the elevated N content (2.0 g/kg) in plots with this species, which is similar to the values (2.0 g/Kg) found in tropical soils in Brazil, such as in the Atlantic26 and the Amazon27. The C:N ratio is an important tool to assess soil fertility in both agricultural and natural ecosystems28. Although total soil N and C did not differ among treatments, the C:N ratio was lowest in T2. Therefore, the presence of P. mediterranea seems to ensure N soil fertility in study area, which may be considered the main N source. Since soil N becomes available via mineralisation, we infer that not only native species use it, but that it can be opportunistically shared with invasive species, supporting the “Fluctuating Resource Hypothesis” for plant invasion29. Although total soil N was not altered by plant invasion, P. mediterranea stimulated the proteolytic activity in the soil, especially in T2 (P.mediterranea + native species) in relation to T1 (native species). Similar to T1, the proteolytic activity in T3 (P. mediterranea + native species + invasion < 50%) was limited in relation to T2, suggesting the establishment of a competitive relationship between the leguminous and the invasive species to resist the invasion.

Although the molecular dialogue among co-existing plants involving root-root interactions is not fully understood, root exudates may affect all the components of the rhizobiome8,9, allowing the defense of native species by establishing a competition against invaders11. Thus, we may infer that the competition established by P.mediterranea with the invader may likely be processed by root-root interactions via molecular signalling, able to detect the presence of the invader and illicit a defense response.

However, such competition seems to has been overcome by the invasive species by restoring proteolytic activity when it reached the maximum invasion in T4, possibly also via root exudation, stimulating the proteolitic activity. Since soil protease may be derived either from microbial or plant exudation30, the increase in this enzyme in both P. mediterranea and in fully invaded M. minutiflora plots (T2 and T4) may also be explained by the capacity of these species to act directly via protease exudation or indirectly through the stimulation of decomposing microbial populations, thereby increasing N release13. In previous studies, soil protease activity was increased under both leguminous species31 and invasive grass species32. Similar to our results, these latter authors found a significant increase in protease activity in the rhizosphere of the invasive grass Pennisetum setaceum in relation to native species. On the other hand, despite the presence of leguminous species, soil protease was inhibited in T3, which can be explained by the root exudation of protease inhibitors such as flavonoids, plant hormones and siderophores by P. mediterreanea or microorganisms30, constituting a possible allelopathic defence mechanism at the beginning of invasion.

Proteolysis is a slow and limiting process of the N cycling and represents the natural supply of soil low-molecular-weight monomers (e.g., amino-acids), facilitating mineralisation33 and making the inorganic N forms (NH4+and NO3−) available to plants. Such availability depends on abiotic factors such as soil pH and on biotic factors such as plant species traits. Ammonium is the dominant soil inorganic N species in most mature undisturbed forests and acidic soils34–36, while nitrate is more available in agricultural soils with higher pH levels34,35. As under most native vegetation, the dominant chemical N form is NH4+, it is likely to be the target of competition between plants and microorganisms36. Furthermore, plant uptake of inorganic N also depends on the expression of different protein transporters, which are modulated by the soil ammonium/nitrate ratios34 determining the N chemical preference by plants in their native habitats35.

Considering that the campo rupestre biome is a preserved site with acidic soils and elevated NH4+ content in relation to NO3−, as found in plots with native species (T1, T2 and T3), the former appears to be the preferred N chemical species naturally used by this vegetation, as also observed by Ribeiro et al.3. Similar to the protease activity, NH4+ formation was inhibited in plots weakly invaded by M. minutiflora (T3), reinforcing the idea of a competitive interaction between native and invasive species for nutritional resources. Such reduction occurred even in the presence of the N-fixing species P. mediterranea. High NH4+ levels were also found in massively invaded plots (T4), suggesting that both M. minutiflora and native species may use NH4+ as N source. Indeed, Incerti et al.13 observed a greater N release from litter of invasive species as compared to natives, confirming the high dependence of invasive species on N. Thus, the competitive equilibrium for NH4+ observed in T3 was disrupted when the invader stimulated the oxidation of NH4+ to NO3−(T4), which was found elevated only in the fully invaded plots, suggesting that it was the main N form used by the invasive plants; this has also been observed by Ribeiro et al.3. However, in the presence of the native leguminous species M. pogocephala3, nitrification was stimulated in the first stage of the invasion process. In contrast, in the present study, we found low levels of NO3 at the beginning of the invasion of P. mediterranea plots (T3), confirming the competitive state for N established between native and invasive plants. Such constraint in soil N metabolism elicited by P. mediterranea in T3 suggests a possible mechanism of biotic resistance to control exotic species invasiveness, as shown in Fig. 1E,F.

Nitrate formation in the soil is mediated by aerobic ammonia-oxidising bacteria (AOB)37 or by ammonia-oxidising archaea (AOA) carrying amoA genes38. In the campo rupestre, an increase in both bacterial and archaeal populations (AOB and AOA) was found, as expressed by the amoA gene abundance in T4, contrasting with lower levels in plots with native species (T1, T2 and T3). These results showed a high reproducibility in relation to those obtained by Ribeiro et al.3, who, using the same experimental design in a site separated from the present study site, both spatially (almost 1 Km) and temporally (2 years), also demonstrated that the increase in soil nitrification is the main competitive strategy of M. minutiflora to invade the campo rupestre biome. Literature findings also confirm a positive feedback between different invasive plants and NO3− availability, mediated by both AOA and AOB nitrifying microbial populations3,15–17. In addition, Rodríguez-Caballero et al.32 demonstrated that the nitrifier genus Ohtaekwangia was also stimulated in the rhizosphere of the invasive species Pennisetum setaceum and Bardon et al.39 reported a significant increase of nitrate and nitrification enzyme activity in a site invaded by Pteridium aquilinum.

However, at the initial steps of invasion (T3), the AOB population was not stimulated and remained similar to that of non-invaded plots (T2), suggesting again a competition between P. mediterranea and the invading species involved in the control of the AOB population. This idea is reinforced by the results found by Ribeiro et al.3 who reported that M. minutifora also strongly stimulated the AOB population, although this occurred at the very beginning of the invasion, when the dominant leguminous species was Mimosa pogocephala.

In contrast to the AOB population, the AOA population was smaller in the P. mediterranea plots (T2) in comparison to those plots without this species (T1) as well as at the beginning of the invasion (T3). Such a high AOA abundance in T1, T3 and T4 in relation to T2 may be attributed to the effect of grassy species, since AOA is particularly favoured in grasslands40. Therefore, the increase in AOA abundance at the first steps of this grass invasion process seems to be a key factor favouring M. minutiflora to overcome the competition against P. mediterranea and successfully invade the site. The inhibition of AOA population in presence of leguminous species has been also reported by Paungfoo-Lonhienne et al.41 who found that AOA population was suppressed by legumes in a sugarcane cropping soil.

At the beginning of the invasion of campo rupestre by M. minutiflora, when this plant still co-existed with P. mediterranea (T3), soil nitrogen metabolism was limited, as observed for proteolytic activity, ammonium, and nitrate production as well as nitrifying AOB, but not in terms of AOA populations. Such inhibition in N metabolism was observed in the presence of P. mediterranea, but not when M. pogocephala was the dominant species3, suggesting that the former species elicited such an “N metabolic silence” as a strategy to constrain the expansion of the invader. Such strategy may be related to the independence of P. mediterranea in relation to soil nitrogen due to its N-fixing ability as well as the control effect over the AOB population and the inhibition of soil protease activity. However, this strategy seems to have been weakened by the stimulation of the AOA community by the grassy invasive plant, enabling it to oxidise ammonium to nitrate, which is the N species found only beneath M. minutiflora. Such a positive feedback between invader and soil nitrate allowed this species to successfully invade the campo rupestre, as observed in T4.

Therefore, the inhibition of some steps of the N cycle, elicited by P. mediterranea, seems to be a strategy of biotic resistance. Traditionally, biotic resistance is considered as the ability of resident species to constrain the invasive success of exotic species42 through different mechanisms such as an increase in competition, predation, disease and parasites as well as a decrease in nutrient availability43, including N44. Considering that the competition for nutritional resources is a major invasive strategy used by exotic species, as proposed by the “Fluctuating Resource Hypothesis”29, the unavailability of some soil N chemical species as nitrate, elicited by native plants, might be one of the strategies to retard the invasion, as shown in our study. Thus, at the beginning of the invasion process, P. mediterranea limited the availability of all soil N species, but particularly constrained nitrate formation, which possibly constitutes one of the engines of the biotic resistance against M. minutiflora invasion in the campo rupestre biome. The mechanism driving the biotic resistance has been attributed to the production of plant secondary metabolites as methyl 3-(4 hydrophenyl) propionato or cyclic diterpene able to inhibit specific nitrifies groups45 by declining the abundance of both AOA and AOB46. Such decrease in ammonia oxidizers population promoted by plants is a conservative strategy to preserve the NH4+47 a phenomenon so-called as biological nitrification inhibition (BNI) as suggested by Subbarao et al.46.

In conclusion, this study highlighted the ability of M. minutiflora to displace the native species in the campo rupestre, particularly those from the Poaceae family, while the leguminous P. mediterranea showed some resistance. P. mediterranea resistance was attributed not only to its N-soil independence due to biological nitrogen fixation in association with Bradyrhizobium species, but also to its ability to compete with M. minutiflora at the beginning of the invasion specially via biological nitrification inhibition (BNI). At this stage, there was a constraint of proteolytic activity, ammonium and nitrate formation as well as AOB abundance. However, the invasive species was able to overcome the competition against the native species by stimulating the AOA nitrifying population. Therefore, selection of species that display biotic resistance via nitrification inhibition (BNI) might be a useful strategy to restore M. minutiflora invaded lands. Regarding specifically the invaded campo rupestre sites by M.minutiflora, we highly recommend planting P.mediterranea in future rehabilitation efforts.

Methods

Study area

The study was developed at the PESRM (3924 ha), which is located in the central-southern region of the state Minas Gerais, Brazil (20°3′20″S,44°1′11″W). The park is inserted in the Espinhaço mountain region, which has a giant hematite-rich iron deposit, largely exploited by iron ore mining companies. The dominant campo rupestre vegetation is composed of grassy, herbaceous and shrub species of the families the Poaceae, Asteraceae, Fabaceae, Myrtaceae, Melastomataceae and Orchidaceae2. Leguminous species occur frequently, particularly of the genera Periandra, Chamaecrista, and Mimosa2. This vegetation grows on shallow soils formed on ironstone outcrops (canga) originated from rock dissolutions, which are also rich in soil organic matter and nitrogen3.

Experimental design

The experimental site was established in an area of 600 m2 or 0.06 ha of a grassy field (20°03′22″S,44°01′09″W). The experimental design consisted of three blocks with four treatments (plots), with three replicates/treatment/block (3 × 4 × 3 = 36), resulting in a total of 36 plots of 4 m² each. Each studied plot (4 m2) was circumscribed by a 1-m strip with the same treatment, defining a large plot (3 × 3 m) to control the edge effects. Each plot (4 m2) represented one treatment. Three soil sub-samples/ treatment/ block were collected, resulting in a total of nine samples/treatment.

In the study site (Fig. 1), four treatments were established: T1- Native vegetation without the legume species (P. mediterranea) (Fig. 1B) and no invasion; T2 - Native vegetation plus P. mediterranea and no invasion. (Fig. 1C,D); T3 - Native vegetation plus P. mediterranea and invasion by M. minutiflora ≤50% (Fig. 1E,F); T4 - Native vegetation plus P. mediterranea and invasion by M. minutiflora >50% (Fig. 1G,H). After the demarcation of the plots, species occupation and occurrence were measured using the method proposed by Toledo and Schultze-Kraft48. This method uses a quadrant of 1 m², composed of 100 squares of 0.01 m² each. The quadrant was placed inside the plots and all plant species inside each square were identified.

Soil chemical analysis and soil protease activity

Each soil sample consisted of three mixed subsamples per treatment/block or nine mixed samples per treatment. Total inorganic nitrogen was determined via semi-micro-Kjeldahl digestion49, and N ammonia and nitrate contents were determined50. Soil protease activity was determined by the method described by Alef and Nannipieri51 and expressed as mg tyrosine g−1 h−1.

Plant leaf analysis

Leaf samples were taken in the field, using three replicates from three individuals of each family or species (Poaceae families; native species belonging to Malpiguiaceae, Asteraceae, Melastomataceae, Euphorbiaceae and Cactaceae families; P. mediterranea and M. minutiflora) per treatment/block and dried at 70 °C for at least 48 h. After reaching constant weight, the samples were ground to a fine powder in a ball mill (Glen Creston Ltd.) and subsequently analysed for total carbon, nitrogen, and δ15N, using an isotope ratio mass spectrometer (Finnigan MAT Delta E, Thermo Electron, Bremen, Germany) coupled to an EA 1110 elemental analyser (Thermo Electron, Milan, Italy). The abundance of 15N was expressed in “delta” notation (δ), which is the deviation per thousand (‰) of 15N abundance of the sample in relation to the international standard (i.e. atmospheric N2, which has an atom% of 15N = 0.366352:

δ15N(‰)=(sampleatom%15N–0.36630.366)×1000

Identification of rhizobial endosymbionts of P. mediterranea

The isolation of rhizobia was carried out using P. mediterranea effective nodules (internal pink colour) on YMA medium according to Vincent53. Identification was performed through the analysis of the 16S rRNA genes, which were amplified54. Nearly complete sequences (more than 1,400 bp) were obtained by the Macrogen Corporation (Amsterdam, The Netherlands). The sequences obtained were compared to those stored in the EzBiocloud server55. For the phylogenetic analysis, the sequences were aligned by using the Clustal W software. Distances were calculated according to Kimura’s two-parameter model56 and used to infer phylogenetic trees with the neighbour-joining method and the MEGA5 software57. Confidence values for nodes in the trees were generated by bootstrap analysis using 1,000 permutations of the data sets.

AOA and AOB abundances (qPCR)

The abundances of AOB and AOA communities were determined using real-time PCR (qPCR) to estimate the soil bacteria expressing the ammonia monooxygenase gene (amoA). The DNA was extracted from three mixed soil samples/treatment (0.5 g), using the MoBio Power Soil extraction kit (Carlsbad, CA) and following the recommended protocol. The DNA concentration and purity measurements were performed using a Nanodrop spectrophotometer (Nano Drop Technologies, Wilmington, DE, USA), and the PCR reactions were carried out in an Applied Biosystems Quant Studio Real-Time PCR system (Applied Biosystems, Foster City, CA) with iQSYBR-Green Supermix from Bio-Rad (Hercules, CA). Bacterial amoA gene quantification was performed using the primers amoA-1F (5′-GGGGTTTCTACTGGTGGT-3′) and amoA-2R (5′-CCTCGGGAAAGCCTTCTTC-3′) primers58. The thermocycling conditions were as follows: 30 s at 95 °C, followed by 40 cycles of 30 s at 95 °C and 34 s at 60 °C, 60 s at72 °C and Crenarchaeal amoA CrenamoA23fd: (5′-ATGGTCTGGCTWAGACG-3′) and CrenamoA616rd: (5′-GCCATC CATCTGTATGTCCA-3′)59 using 95 °C for 5 min; followed by 10 cycles of 94 °C for 30 s, 55 °C for 30 s, 72 °C for 1 min; followed by 25 cycles of 92 °C for 30 s, 55 °C for 30 s, 72 °C or 1 min; followed by 72 °C at 10 min. The calibration curve was obtained by using a 10-fold serial dilution of a known concentration of positive control DNA (ranging from 102 to 108). The CT values obtained from each sample were then compared with the standard curve to determine the original sample DNA concentration.

Data analysis

All data were submitted to analysis of variance (ANOVA) for normally distributed variables and Kruskal-Wallis test for non-normally distributed variables (at the 5% probability level). Multiple comparisons among treatments of normally distributed variables were performed using the Tukey test, while for not normally distributed variables, we used the Nemenyi test. All analyses were conducted using the statistics software “R” (v.3.2.2).

Acknowledgements

This research was supported by the Coordenação de Aperfeiçoamento de Pessoal Docente (CAPES). The authors are grateful to CAPES, Conselho Nacional de Pesquisa (CNPq) and Pro-reitoria de Extensão (PROEX)/UFMG for scholarships, to the Instituto Estadual de Forestas (IEF) for logistic support, especially to Marcus Vinícius Freitas, Director of Parque Estadual da Serra do Rola Moça (PESRM). We thank the Scientific Reports reviewers for the suggestions and contributions. Conflicts of interest: none.

Author Contributions

M.R.S., E.V. and P.M. conceived the study, designed the work and performed the data analysis C.B.N., M.R.S. and P.M. collected the field samples. C.B.N., E.M., M.R.B. and A.P. carried out the microbial analyses C.B.N. and M.R.S. carried out the soil and plant analyses M.R.S., E.V., P.M. and E.M. wrote the manuscript

Competing Interests

The authors declare no competing interests.

Footnotes

Publisher’s note: Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

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