Soil microbial functionality in response to dairy sewage sludge and mineral fertilisers application under winter rape

Abstract

Microbial activity and the diversity of their catabolic potential would be stratified according to soil profile as a result of differing content of soil organic C and they would be altered by applying dairy sewage sludge (DSS) to the surface and subsequently ploughing. We applied 26 Mg ha−1 of DSS and the same nutrient dose of mineral fertilisers as an NPK reference to the soil before sowing winter rape (Brassica napus) in the field experiment. We evaluated the impact of the fertilisers on microbial activity, measured with dehydrogenase and respiratory activity, and diversity of the microbes’ catabolic potential from non-rhizosphere and rhizosphere soil at selected depths. In the surface rhizosphere soil, there were significant increases in microbial catabolic potential (>25 %) and respiratory activity (>20 %) due to DSS application. All of the microbial parameter values in non-rhizosphere soil were higher at 0–20 than at 25–30 cm. These results are important for improving the management approach of diary sewage sludge application to agricultural soils in the context of increasing microbial activity in the soil profile and reducing mineral fertiliser use.

Introduction

In the specific case of dairy sewage sludge (DSS) use in agriculture, the positions adopted by farmers organisations have been quite different from one country to another in the recent years. However, their motivations and constraints are in many cases similar. For farmers, the main motivations regarding sludge use in agriculture are the supply of organic fertiliser at low cost. It is therefore possible to say that the farming community’s attitude towards sludge recycling through land spreading has recently been strongly influenced by the following factors: the attitude of food industries, food retailers and other customers, the political context and the uncertainty concerning risk. Nevertheless, competition with mineral fertilisers is also a significant factor in countries where agriculture is intensive, as it requires the use of effective fertilisers, since there are growing well-known threat regarding the environmental consequences of using mineral fertilisers in crop production. The problem of inorganic fertilisers application is quite complex, since interrelaces such negative processes as soil degradation, desertification, erosion, and accelerated greenhouse effects and climate change (Diacono and Montemurro 2010). These concerns are likely to be increased in the near future along with the cost of fertilisers.

According to Khaliq et al. (2006), the field application of organic amendments can result in the same crop production with less, or even without, fossil-fuel-based inorganic fertilisers. Therefore, they are increasingly considered as a suitable alternative for mineral one. Organic amendments can serve as carbon additives (Gomez et al. 2004), simultaneously providing nutrient supplements that are easily changed and cycled by microbiota (Schutter and Dick 2001). Therefore, organic amendments are believed to improve soil structure and thus constitute an integral tool for sustainable agriculture (Lal 2009; Bieganowski et al. 2012) which favours microbial biodiversity and activity (Gomez et al. 2006; Mikosz 2014) and promotes long-term fertility and productivity.

Field application of DSS, among other organic amendments, can serve for improving and subsequently maintaining soil properties on proper level. It occurs with addition of exogenous organic matter into the soil, containing an opulence of microbial diversity which is able to positively change the soil fertility and thus plant production (Zhu et al. 2014). On the other hand, DSS does not pose a threat to crops because of its low content of heavy metals (Frąc et al. 2012), pathogenic bacteria, viruses, parasites and also toxic organic compounds (Antonijevic and Maric 2008; Pascual et al. 2008; Singh and Agrawal 2008; Jezierska-Tys and Frąc 2009). Thus, application of DSS into the field is regarded as proper disposal alternatives (Wang et al. 2008; Frąc and Jezierska-Tys 2011, Gryta et al. 2014), especially in view of the size and growth of the dairy industry and the associated production of large quantities of sewage sludge. Addition of exogenous organic matter to the cropland can lead to an improvement in soil biological functions, depending on the quantity and quality of materials applied. In fact, many effects, e.g. release of nutrients, carbon sequestration, evolve slowly; however, as revised by Diacono and Montemurro (2010), dairy sewage compost soil additives are more probable to maintain N supply to the plants through continuous mineralisation, comparing to the other organic fertilisers. Moreover, the authors stayed that the dairy-waste compost increased organic carbon content, as compared with other organic treatments, applied at the same available N level.

However, the main economic driver has led to increase awareness of the importance sludge quality control and of improving land spreading processes, by monitoring the soil properties. Even though there are many related reports recently on sewage sludge application into the soil which take into account soil quality, there are no studies based on a concept of the degree of stratification of soil organic C and N pools and indirectly microbial functional diversity with soil depth, expressed as a ratio. This approach could indicate soil quality or soil ecosystem functioning even better, because surface organic matter is essential to erosion control, water infiltration and conservation of nutrients. Stratification ratios allow a wide diversity of soils to be compared on the same assessment scale because of an internal normalisation procedure that accounts for inherent soil differences (Franzluebbers 2002).

Microbial communities can exert marked effects on the soil environment and have therefore been promoted as an appropriate tool for understanding ecological management dependency (Ascher et al. 2009). Soil microorganisms respond rapidly to changing conditions by altering their metabolic growth, which allows the comprehensive study of community interactions (Chaparro et al. 2012). Thus, it is important to monitor the changes in microbial diversity, which is very sensitive indicator of soil quality and health (Chen et al. 2012). In addition, soil enzymes are closely related to changes in microbial abundance (Ascher et al. 2009). Therefore, community-level physiological profiling (CLPP), which was later developed for environmental applications (EcoPlates®), is considered as a type of “enzyme assay” (Qin et al. 2014). This approach has been demonstrated to be a highly sensitive indicator of common environmental and anthropogenic soil modifications (Murugan et al. 2014). CLPP is regarded as a sensor of the biological status of a particular site, because it is based on a metabolic trait. The CLPP approach provides an exciting opportunity to elucidate the functionality of microbes in certain environments, especially to estimate the effects of modern waste management on biological parameters of the soil (Frąc 2012; Williams et al. 2014). Microecology can offer insights into soil depth by revealing factors that maintain and regulate soil functionality and uncovering how the distribution of soil microorganisms influences plant growth (Ettema and Wardle 2002). At smaller scales, the stratified pattern of the microbial decomposers in the soil matrix can influence soil fertility and thus the growth of individual plants. According to Franzluebbers (2002), for a given attribute of the soil ecosystem (soil organic matter, for instance), the stratification indices allow a wide diversity of soils to be compared on the same assessment scales.

Organic matter is physically protected in soil, and quantities of easily decomposable compounds can therefore be found in the vicinity of starving microbial populations that are unable to access them (Schimel and Schaeffer 2012). Substrates, even at distances of micrometres or less, can be unavailable to microorganisms. Organic materials might not be attainable for decomposition due to adsorption on clay minerals and other surfaces or because they are trapped in pores or aggregates (Raynaud and Nunan 2014). In this study, we investigated whether the organic matter, which was incorporated into the soil through DSS addition, is an easily accessible substrate which increases microbial fertility and how DSS fulfils the principles of sustainable development. Soil organic matter plays an important role in long-term soil conservation and restoration by sustaining its fertility, and hence in sustainable agricultural production, due to the improvement of physical, chemical and biological/microbiological properties of soils. To depict the changes in depth-related microbial functional heterogeneity, induced by sludge and mineral fertilizers, the proposed treatments were subjected to carbon source profiling.

Our previous studies showed that DSS could stimulate microbial activity under winter wheat at 0–20 cm. In this study, the impact of such waste on soil microbial activity and functional diversity is evaluated via investigating the deeper soil layer (25–30 cm) and rhizosphere soil under winter rape. The purpose of this study is to provide useful information for understanding the changes in microbial functional diversity in rhizosphere and non-rhizosphere soil under winter rape. The objective of this study was to assess how microbial activity and the diversity in catabolic potential of surface rhizosphere soil and surface and subsurface non-rhizosphere soils responded to the application of DSS and mineral fertilisers in the context of rape cultivation. We hypothesised that microbial activity and the diversity in catabolic potential would be stratified in the soil profile as a result of soil organic C content and that they may be controlled by the surface application of DSS and subsequent ploughing.

Study area

The field experiment was set up in 2010 on an Eutric Cambisol developed from loess. The experimental plots were located near a dairy sewage treatment plant in Krasnystaw, south-east Poland (50°59′4″N, 23°8′5″E). The experiment was established in an agricultural field that had been under cultivation for at least the past 50 years, with a crop rotation including selected cereals, root crops and papilionaceous crops. The provided treatments were as follows: DSS—sludge (26 Mg ha−1) with addition of K (110 kg ha−1) to introduce the same amount of K as in mineral fertilisation treatment; mineral fertilisation (MF)—N (170 kg ha−1); P (100 kg ha−1); K (160 kg ha−1); and control (C)—no amendments. The research area has rather uniform soils with respect to genesis and textural composition (clay, silt, sand—450, 470 and 80 g kg−1, respectively).

Materials and methods

The chemical characteristics of the soil were as follows: pH 6.40, C/N—8.30, Ctot—13.28 g kg−1 DW, Ntot—1.60 g kg−1 DW, Ptot—18.30 g kg−1 DW, Ktot—36.80 g kg−1 DW. Content of heavy metals (Pb, Cu, Cr) was below EU toxicity thresholds.

The main characteristics of the DSS were as follows: pH 7.23, Ctot—868.00 g kg−1 DW, Ntot—54.40 g kg−1 dwt, Ptot—33.00 g kg−1 DW, Ktot—15.60 g kg−1 DW, dry matter content—121.30 g kg−1. The heavy metal contents were less than the EU values for harmful effects. The DSS and mineral fertilisation (MF) were applied on the soil surface and then ploughed to a depth of 30 cm before the sowing of winter rape (on 21 August 2010). The planting density of winter rape was 2.8 kg ha−1. Winter wheat was planted before winter rape at field study. The experiment was set up using a completely randomised block method (RCBD) with three replications. The plot size was 16 m2 (4 m × 4 m). Each plot was separated from the others by a corridor with 1 m width. Additionally, soil samples were collected at the distance of 50 cm from each edge of the plots in order to eliminate the edge effect. Soil samples were collected after two-season planting of winter rape. Soil sampling after the rape harvest was performed as follows:

  • 0–20 cm—surface non-rhizosphere soil (SNRH),

  • 0–20 cm—surface rhizosphere soil (SRH),

  • 25–30 cm—subsurface non-rhizosphere soil (SBNRH).

Rhizosphere soil was regarded in this study as the soil zone in which the environment for microbial activity is influenced by any root growing in it directly (1–5 mm from the external root surface). Non-rhizosphere soil, in turn regards bulk zone, which is normally influenced by growing roots (Oszust et al. 2014).

The soil samples were sieved with a 2-mm mesh and then used for Biolog® microtiter EcoPlates (Hayward, USA) and other analyses. Before sieving, all debris and plant remains were removed to avoid their influence on the measured parameters. For each sampling period, eight subsamples per plot were randomly collected from two soil layers, 0–20 cm and 25–30 cm, with hand-driven probes (10 cm diameter) and then mixed into a single sample per plot. Before microbial analyses, soil samples were stored at 4 °C.

Chemical analysis

The methods below were used for both soil and DSS samples. pH was measured by the electrometric method from a soil extract in KCl (10 g of soil in 25 ml of KCl). Total N was measured by the Kjeldahl method, the total organic carbon (Corg) was determined using the Tiurin method, total phosphorus by the flow spectrophotometric method (SKALAR San System) and total potassium by the flame emission spectrometry method (AAS-3 Carl Zeiss Jena) after wet sulphuric acid digestion of samples. Heavy metals were extracted with aqua regia and measured with atomic absorption spectroscopy (AAS). For N, C and P determination, we used dried soil (105 °C).

Microbial activity

Dehydrogenase activity was measured in a Tris–HCl buffer (pH 7.4) with triphenyl tetrazolium chloride (TTC) as a substrate following Thalmann (1968). Enzymatic activity was determined with a spectrophotometer at 485 nm, with methanol as a reference. The respiratory activity was determined by substrate-induced method in accordance with Rühling and Tyler (1973) in 20 g of soil sample with addition of 10 mg glucose g−1 dry soil. CO2 released from soil was used to calculate respiratory activity.

Community-level physiological profiling (CLPP) analysis

The Biolog EcoPlate contains 31 different carbon sources and a control well with water, each in triplicate. Tetrazolium violet redox dye was used for each well as a colour indicator to evaluate whether microorganisms used the substrates (Insam and Goberna 2004). One gram of fresh soil was shaken in 99 ml of distilled sterile water for 20 min at 20 °C and then incubated at 4 °C for 30 min (Pohland and Owen 2009). Next, 120 μl of each sample was inoculated into each well of Biolog EcoPlates and incubated at 25 °C for 5 days. The utilisation rate was evaluated on reduction of the redox indicator dye (tetrazolium), which changes from colourless to purple (Islam et al. 2011). Microplate station was used to read the absorbance values at 590 nm every 24 h through 5 days. Plate readings at 48 h of incubation were used to calculate AWCD, R and H because it was the shortest incubation time of incubation that allowed good resolution among the treatments. Microbial response in each microplate expressed as average well colour development (AWCD) was determined according to Gomez et al. (2006): AWCD = ΣODi/3, where ODi is the optical density value from each well, corrected by subtracting the blank well values from each plate well (Weber et al. 2007). Richness (R) values were calculated as the number of oxidised C substrates, and the Shannon–Weaver index values (H) (i.e. the richness and evenness of response) were calculated using an OD of 0.25 as the threshold for a positive response. The Shannon–Weaver index was calculated as follows: H = −Σpi (lnpi), where pi is the ratio of the activity on each substrate (ODi) to the sum of activities on all substrates ΣODi. To evaluate results, we used the five carbon substrate guilds: (1) carbohydrates, (2) carboxylic and acetic acids, (3) amino acids, (4) polymers and (5) amines and amides according to Weber and Legge (2009).

Stratification and rhizosphere ratios

Stratification ratios were calculated by dividing the soil microbe properties at 0–20 cm by those at 25–30 cm. Rhizosphere ratios were calculated by dividing microbial properties in the rhizosphere by those in adjacent (non-rhizosphere) at 0–20 cm.

Statistical analysis

All statistical analyses were performed using Statistica 9.0 software (2010). AWCD, R and Shannon–Weaver indices, dehydrogenase and respiratory activity were investigated by analysis of variance (two-way ANOVA) following the data set test on normal distribution. Layer and fertiliser treatment were used as independent factors for ANOVA. Comparisons between treatments were performed using Tukey’s post hoc honestly significant differences (HSD) at P < 0.05, 0.01 or 0.001. A principal component analysis (PCA) was performed and Pearson’s correlation coefficient (R) measured for normalised and transformed absorbance data for each well according to Weber et al. (2007). The transformed data were used for PCA because the two fundamental assumptions of the PCA, normality and homoscedasticity, were not met. The normality of the data was evaluated though formal statistical Shapiro–Wilk tests. Homoscedasticity, which is homogeneity of variance, was evaluated with a Hartley test.

Results and discussion

Live plants and crop residues are the major source of carbon for soil microbiota. As shown in our study, the microbial activity as determined by both enzyme activity and indices of the diversity in catabolic potential can be stimulated by carbon input using DSS. As seen from Figs. 1 and 2, dehydrogenase (ADh) and respiratory (RESP) activities reached the maximum in the DSS treatment and the minimum in the control group. Significant differences (P < 0.05) for dehydrogenase activity occurred between DSS and the control in the surface non-rhizosphere soil (>120 %). Respiratory activity behaved the same way with respect to the DSS treatment and the control in surface rhizosphere soil and subsurface non-rhizosphere soil. However, there were no significant differences in either microbial activity parameter between DSS and MF. For all comparable treatments (C, DSS and MF), dehydrogenase activity and respiratory activity decreased in the following order: surface rhizosphere soil, surface non-rhizosphere soil and subsurface non-rhizosphere soil. The most pronounced decline occurred in the dehydrogenase activity of the subsurface non-rhizosphere soil (~80 %). This effect was caused because of the additional carbon supply originating from root exudates. It is worth noting that in our experiment, organic amendment served as an easily accessible soil carbon source for microorganisms, even a year after its application.

Fig. 1
figure1

Mean values of dehydrogenase activity as influenced by amendment treatments and soil layer. Different letters within the same variable (layer) indicate significant differences between the treatments. (P < 0.05); standard error bars with n = 3. C control soil, MF mineral fertilised soil, DSS dairy sewage sludge-amended soil, SNRH surface non-rhizosphere soil layer (0–20 cm), SRH surface rhizosphere soil layer (0–20 cm), SBNRH subsurface non-rhizosphere soil layer (25–30 cm)

Fig. 2
figure2

Mean values of respiratory activity as influenced by amendment treatments and soil layer. Different letters within the same variable (layer) indicate significant differences between the treatments. (P < 0.05); standard error bars with n = 3. C control soil, MF mineral fertilised soil, DSS dairy sewage sludge-amended soil, SNRH surface non-rhizosphere soil layer (0–20 cm), SRH surface rhizosphere soil layer (0–20 cm), SBNRH subsurface non-rhizosphere soil layer (25–30 cm)

The diversity in catabolic potential as expressed by CLPP indices showed that the introduction of DSS and MF into soil increased the AWCD and R in surface rhizosphere (Fig. 3a) and surface non-rhizosphere soil (Fig. 3b). These differences were most evident in surface rhizosphere soil. AWCD and R values were the most pronounced under the DSS (P < 0.05) treatment. This agrees with the substantially greater soil organic carbon content in the DSS treatment (Table 1). These results are consistent with those of Gomez et al. (2006), who noticed significant increases in AWCD, R and H several months after sludge application. However, in surface non-rhizosphere soil, the maximum values of both microbial indices were greater in the MF treatment (P < 0.05) than in control soil, as measured by AWCD and R. In subsurface non-rhizosphere soil, these indices were not different (P < 0.05) among the treatments. There were no differences among treatments or sampling areas according to the Shannon–Weaver index (P < 0.05).

Fig. 3
figure3

Mean values of microbial functionality (AWCD average well colour development, R richness, H Shannon–Weaver index) as influenced by amendment treatments and soil layer. Different letters within the same variable indicate significant differences (P < 0.05); n = 3. C control soil, MF mineral fertilised soil, DSS dairy sewage sludge-amended soil, SNRH surface non-rhizosphere soil layer (0–20 cm), SRH surface rhizosphere soil layer (0–20 cm), SBNRH subsurface non-rhizosphere soil layer (25–30 cm)

Table 1 Soil Corg and Ntot content under particular amendment in soil layers

Nearly all of the subject parameters were significantly positively correlated with each other (Table 2). It is worth noting that AWCD, ADh and RESP were significantly (α = 0.001) correlated with Corg (Table 2). The rhizosphere ratios and stratification ratios were significantly influenced by DSS and mineral fertilisers (MF) only with respect to ADh (Table 3). The rhizosphere ratio was reduced by DSS and MF versus the control, and the stratification ratio was lowest with DSS. Ratios for the remaining microbial parameters did not differ significantly among the treatments.

Table 2 Pearson correlation coefficients (r) for microbial properties, Corg and Ntot content in soil treated with mineral fertilisers and dairy sewage sludge
Table 3 Microbial activity and catabolic potential expressed as rhizosphere and stratification ratios

To determine the differences in carbon source catabolism among treatments, a PCA was performed. The first and second principal component (PC1 and PC2) in surface rhizosphere soil explained 27.91 and 19.59 % of the data variance, respectively (Table 4). The two carbon sources with the highest positive loadings in PC1 and PC2 under SRH were D-xylose (0.93) and α-cyclodextrin (0.82). In the non-rhizosphere soil, PC1 and PC2 explained 31.30 and 21.06 % of the variability in the data. The corresponding values in subsurface non-rhizosphere soil were 35.42 and 21.79 %. In surface non-rhizosphere soil, the highest positive loading for PC1 was from N-acetyl-d-glucosamine (0.86) and for PC2 it was negative erythritol (−0.96). In the subsurface non-rhizosphere soil, the highest loading in PC1 was from putrescine (0.90) and from l-serine (−0.89) in PC2.

Table 4 Most discriminant carbon substrates as determined by principal component analysis on the data of community-level carbon source utilisation using Biolog EcoPlates in soil treated with dairy sewage sludge (R > 0.7) showing the factor loadings for the CLPP data

As it can be seen from Fig. 4, the proportions of carbon source utilisation differ within treatments and sampling areas. Microbial utilisation of carbohydrates and polymers was greater under DSS and MF in surface (more by 11 and 10 % for carbohydrates, respectively, and more by 2 and 3 % for polymers, respectively) and subsurface non-rhizosphere soils and under DSS in surface rhizosphere, compared to the control (2 and 3 %, respectively, for carbohydrates and polymers). This increase was primarily at the expense of amines and amides under DSS and of amino acids under MF. Irrespective of treatment and sampling area, the utilisation of carboxylic and acetic acid was similar.

Fig. 4
figure4

Proportion of total carbon source utilisation response tracked due to treatment type, for the different guilds. C control soil, MF mineral fertilised soil, DSS dairy sewage sludge-amended soil, SNRH surface non-rhizosphere soil layer (0–20 cm), SRH surface rhizosphere soil layer (0–20 cm), SBNRH subsurface non-rhizosphere soil layer (25–30 cm)

A relatively long-lasting positive effect of DSS on microbial activity can be associated with the mixing of the organic fraction and fine mineral soil particles and also with the formation of organic-matter-rich aggregates that can physically protect organic matter (OM) from decomposition (Six et al. 2002; Król et al. 2013). Among the mechanisms proposed to explain the phenomena of this physical protection of OM in soil are the adsorption of organic molecules onto inorganic clay surfaces and the entrapment of organic material in soil microaggregates and their biochemical stabilisation through the formation of recalcitrant OM compounds (McCarthy et al. 2008; Wiesmeier et al. 2012). At the same time, preservation of biological carbon and nitrogen from DSS leads to the formation of binding agents that cement soil particles and thereby increase soil aggregation stability (De Moraes and Lal 2009; Wiesmeier et al. 2012).

Typically, the occurrence of microorganisms depends on the presence of organic carbon and decreases with depth in the soil profile. However, we observed that the organic carbon content in the subsurface layer of soil that was amended with the DSS was equal to the content of the surface layer (Table 1). Organic carbon might have been enhanced by inverting and mixing the soil by ploughing shortly after the surface DSS application.

These findings indicate that tillage can incorporate DSS organic amendments that were applied to the surface into the deeper soil layers and thus expand the depth of microbial activity, as indicated by enhanced respiratory activity. These results partially support the hypothesis of this study. Our results are consistent with findings of Treonis et al. (2010) and Gajda and Przewłoka (2012), showing that organic amendment can stimulate biological activity when soil is inverted by ploughing. Although organic waste such as DSS is a valuable source of organic carbon for microorganisms and nitrogen for plants, it may also increase the potential of nutrient leaching to deeper soil layers. However, the turnover of bound nitrogen by decomposers can be of fundamental importance for increasing the fertilisation effect and decreasing N leaching (Lipiec et al. 2011). The upswing of microbial activity in surface and subsurface soil with added DSS may have had a positive impact on rape seed yield, which was approximately 30 % higher compared to plants grown in the control plots. Continuing our experiment may elucidate the effects of DSS on crop yield.

In this study, we explored whether the microbial diversity in catabolic potential and soil dehydrogenase and respiratory activity were sensitive enough to assess which fertiliser substantially improved the soil status. This study is part of an effort to better understand how DSS affects the vertical distribution and organisation of soil microbes in particular depths of the terrestrial soil profile.

Conclusion

Regarding all the positions and motivations of the DSS agricultural use as the most advantageous route, comparing to mineral fertilising (MF), we highlighted the need to improve soil management practices and to focus deeper on considering the fact that soil have to be monitored properly to show any effect occurring after DSS application. The stratification indices were therefore proposed for a soil differently fertilised to be compared on the same assessment scales decently. Results showed that the soil microbial functionality under winter rape was the highest under DSS application and the lowest under control. For all treatments, the dehydrogenases and respiratory activities decreased from the surface rhizosphere to surface non-rhizosphere to subsurface non-rhizosphere soils. Our results proved that microbial activity and the diversity in catabolic potential were stratified in the soil profile as a result of soil organic C content which was controlled by the DSS application in combination with ploughing. This response indicated improvement of organic matter balance in soil, what is in repercussion essential in soil quality evaluation after organic amendments application.

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Acknowledgments

The research was partially funded by funds from the Ministry of Science and Higher Education in Poland in the years 2010–2013 as a research project (N N310 307439). The analyses were performed using equipment bought with European Union funds under the Eastern Poland Development Programme Regional Laboratory of Renewable Energy.

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Correspondence to M. Frąc.

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Oszust, K., Frąc, M. & Lipiec, J. Soil microbial functionality in response to dairy sewage sludge and mineral fertilisers application under winter rape. Int. J. Environ. Sci. Technol. 12, 3675–3684 (2015). https://doi.org/10.1007/s13762-015-0807-0

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Keywords

  • Catabolic potential
  • Community-level physiological profiles (CLPPs)
  • Organic waste
  • Microbial diversity