Production and partial characterization of a crude cold-active cellulase (CMCase) from Bacillus mycoides AR20-61 isolated from an Alpine forest site

Abstract

Purpose

To evaluate the production of a cold-active CMCase (endoglucanase) by Bacillus mycoides AR20-61 isolated from Alpine forest soil and to characterize the crude enzyme.

Methods

After studying the effect of cultivation parameters (medium composition, temperature, NaCl concentration, pH) on bacterial growth and enzyme production, the crude enzyme was characterized with regard to the effect of pH, temperature, and inhibitors on enzyme activity and stability.

Result

Optimum growth and enzyme production occurred at 20–25 °C, pH 7, and 1–1.5% (w/v) CMC. Despite high biomass production over the whole growth temperature range (10–35 °C), enzyme production was low at 10 and 35 °C. CMC concentration had a minor effect on growth, independent of the growth temperature, but a significant effect on CMCase production at temperatures ≥ 20 °C. The crude enzyme was active over a broad temperature range (0–60 °C); the apparent optimum temperature for activity was at 40–50 °C. The cultivation temperature influenced the effect of temperature on enzyme activity and stability. A significantly higher thermosensitivity of the enzyme produced at a cultivation temperature of 10 °C compared to that produced at 25 °C was noted at 50 and 65 °C. The enzyme was highly active over a pH range of 4–6 and showed optimum activity at pH 5. No activity was lost after 60 min of incubation at 30 °C and pH 4–9. The CMCase was resistant against a number of monovalent and divalent metal ions, metal-chelating agents, and phenol.

Conclusion

The CMCase produced by the studied strain is characterized by high activities in the low temperature range (down to 0 °C) and acidic pH range, high stability over a broad pH range, and high resistance against a number of effectors. Our results also demonstrate the different, independent roles of temperature in bacterial growth, enzyme production, nutrient requirements during enzyme production, and enzyme characteristics regarding thermosensitivity, which has not yet been described for cellulases.

Introduction

Cellulose is the most abundant renewable biopolymer and one of the most important carbon sources on Earth. It is the major structural component of the cell-wall of terrestrial plants and marine algae and is also produced by some bacteria and terrestrial animals (Teeri 1997). The degradation of cellulose and hemicelluloses represents a key step in terrestrial carbon cycling (López-Mondéjar et al. 2016). Beside this crucial ecological role, cellulose transformation is also of great importance in biotechnology. Enzymatic depolymerization is environmentally friendly. Cellulases cleave the β-1,4-glycosidic bonds in the cellulose chain. They are widely used in the pulp, textile, food, and feed industries and are involved in the production of value-added products, such as bioethanol, and sustainable energy from biomass (Juturu and Wu 2014; Menendez et al. 2015; de Cassia Pereira et al. 2017).

Cellulolytic enzymes are produced by a number of microorganisms (Islam and Roy 2019). Although it is typically assumed that fungi are the major decomposers of complex plant biopolymers (Boer et al. 2005), numerous bacteria have been described in recent years as efficient cellulose degraders (de Cassia Pereira et al. 2017; Banerjee et al. 2020), often more effective than fungi (Ariffin et al. 2006). Bacteria have a number of advantages compared to fungi: higher growth rates allow for the higher recombinant production of enzymes, they express multienzyme complexes with increased function and synergy, and they inhabit a wide variety of environments and are often resistant to extreme conditions (Sadhu and Maiti 2013; Li et al. 2016).

Most studies on cellulolytic bacteria have been focused on mesophilic or thermophilic representatives. The number of studies on cellulose degraders in cold environments is low (Li et al. 2016; Lin et al. 2019; Sun et al. 2020). It has been recognized that cold-active enzymes provide a wide biotechnological potential. They are characterized by high catalytic efficiency at low and moderate temperatures and are thermolabile, which is often desirable in industrial processes (Juturu and Wu 2014; Collins and Margesin 2019).

In an earlier study (Berger et al. 2020), we demonstrated the ability of a high number of bacterial strains isolated from soil from an Alpine coniferous forest site to produce CMCase. Among the 68 tested strains, Bacillus mycoides AR20-61 was the best enzyme producer and was therefore selected for further studies on CMCase production and enzyme characterization. It was the aim of this study to evaluate the production of a cold-active CMCase (endoglucanase) by Bacillus mycoides AR20-61 and to characterize the crude enzyme. We studied the effect of temperature on growth, enzyme production, and enzyme characteristics.

Materials and methods

Strain

The bacterial strain used in this study was isolated from soil from an Alpine coniferous forest site (46° 35′ 16.2″ N, 11° 26′ 4.9″ E) located 7 km north of Bozen/Bolzano, Italy, below the Rittner Horn at an altitude of 1724–1737 m above sea level (França et al. 2016) and identified as member of the species Bacillus mycoides (GenBank accession no. ACU01000002; Berger et al. 2020). The strain was stored at − 80 °C using ROTI©Store cryovials.

Effect of cultivation parameters on growth and CMCase production

Growth (OD600) and CMCase activity in the cell-free supernatant obtained by centrifugation were monitored at regular intervals until the stationary phase was reached. Experiments were carried out in triplicate.

To determine the effect of the medium composition on growth and enzyme production, the strain was cultured at 25 °C and 150 rpm in the following four pH-neutral liquid media supplemented with carboxymethyl cellulose (CMC; Fluka 21900; 0.5% w/v) (compositions indicated per liter): (i) mineral salts medium (Na₂HPO₄·2H₂O 3.5 g, KH₂PO₄ 2.0 g, (NH₄)₂SO₄ 1.0 g, MgSO₄·7H₂O 0.2 g, Ca(NO₃)₂·4H₂O 0.05 g, yeast extract 0.05 g), (ii) R2A (yeast extract 5.0 g, Bacto Tryptone 0.5 g, K₂HPO₄ 0.3 g, MgSO₄·7H₂O 0.05 g), (iii) NB (Nutrient broth; Merck 05443; 8.0 g), and (iv) Standard I (peptone from casein 7.8 g, peptone from meat 7.8 g, yeast extract 3.0 g, NaCl 6.0 g).

The effects of various parameters on growth and enzyme production were determined in medium iii (Standard I) at 150 rpm. The effect of temperature was determined at temperatures ranging from 0 to 40 °C (5 °C intervals). To determine the effect of NaCl, the medium was supplemented with 0%, 0.5%, 1%, 1.5%, 2%, 3%, 5%, 7.5%, and 10% (w/v) NaCl. The effect of pH was evaluated in medium with the pH adjusted to values ranging from pH 5 to 9 using 67 mM citrate buffer (pH 5–6) or Tris buffer (pH 7–9) at 25 °C. To determine the effect of CMC concentration and temperature, the strain was cultured in its growth temperature range (10–35 °C; 5 °C intervals) in medium supplemented with 0.5, 1.0, and 1.5% (w/v) CMC.

Enzyme assays

Enzyme assays were performed in triplicate in bacterial culture supernatants obtained after centrifugation for 5 min at 12,000×g.

CMCase (endoglucanase) activity was determined by the 3,5-dinitrosalicyclic acid (DNS) colorimetric method as described by Ariffin et al. (2006) and Li et al. (2016). The crude enzyme (0.5 ml) was mixed with 2 ml of substrate solution (1% w/v CMC dissolved in 50 mM sodium citrate buffer (pH 4.8)) and incubated for 30 min at 30 °C in a water bath. The reaction was stopped by adding 3 ml DNS reagent (Li et al. 2016), followed by heating for 5 min in a boiling water bath. After 10 min of cooling, the absorbance at 540 nm was determined in a spectrophotometer. The concentration of released glucose was determined from a glucose calibration curve prepared in culture medium. Enzyme blanks, reagent blanks, and glucose standard solutions were treated in exactly the same way like samples. CMCase activity was expressed as the amount of glucose equivalents (GLCeq; micrograms glucose) released per milliliter of crude enzyme solution and incubation time.

Filterpaperase (FP; exoglucanase) activity was determined by using the method described by Wood and Bhat (1988) and Ariffin et al. (2006). The crude enzyme (0.5 ml) was mixed with 2 ml of substrate (Whatman no. 1 filter paper strips; 1 × 3 cm and 1 × 6 cm) suspended in 50 mM sodium citrate buffer (pH 4.8) and incubated for 30 min at 30 °C in a water bath. Afterwards, the same procedure as described for CMCase activity was applied.

Cellobiase (β-glucosidase) activity was determined according to Wood and Bhat (1988) and Ariffin et al. (2006). To detect cell-free or cell-associated activity, cell-free culture supernatant and cell-containing medium (0.5 ml) was mixed with 2 ml of substrate (0.15% w/v pNPG (p-nitrophenyl-β-D-glucopyranoside)) dissolved in 50 mM sodium citrate buffer (pH 4.8) and incubated for 30 min at 30 °C in a water bath. The reaction was stopped by adding 2 ml of 1 M Na₂CO₃. The absorbance at 400 nm was determined in a spectrophotometer. The concentration of released pNP (p-nitrophenol) was determined from a pNP calibration curve. Enzyme blanks, reagent blanks, and pNP standard solutions were treated in exactly the same way like samples. Cellobiase activity was expressed as the amount of micrograms pNP released per milliliter of crude enzyme solution and incubation time.

CMCase characterization

Enzyme characterization was performed in triplicate in cell-free supernatants of cultures grown in Standard I medium (pH 7) containing 1% (w/v) CMC at 25 °C. The effect of pH on enzyme activity was tested by using substrate solutions prepared in 50 mM citrate buffer (pH 3–6) or Tris buffer (pH 7–9). To test the effect of pH on enzyme stability, enzyme solutions were incubated with citrate buffer (pH 3–6) or Tris buffer (pH 7–9) for 60 min at 30 °C; afterwards, the residual activity was determined. The effect of potential inhibitors and inductors (metals, chelating agents, detergents, phenolic compounds) on enzyme activity was tested by determining the residual activity after incubating the enzymes with each of the tested agents for 60 min at 30 °C (Table 1).

Table 1 Effect of mono- and divalent metal ions, metal-chelating agents, surfactants, and phenolic compounds on CMCase activity (mean values of three replicates)

To determine whether the cultivation temperature has an influence on the effect of temperature on activity and stability of the enzyme, the strain was cultured at 10 and 25 °C. For the evaluation of the optimum temperature for enzyme activity, the reaction was carried out at various temperatures (0–70 °C) using the CMCase standard assay. For the determination of the effect of temperature on enzyme stability, the crude enzymes were incubated for 10, 30, and 60 min at 20, 35, 50, and 65 °C. After cooling on ice, the residual activity was measured.

Results

Growth and CMCase production

The medium composition had a significant effect on growth and CMCase production of the strain investigated in this study. Best growth was obtained in Standard I medium (OD600 14.1), the nutrient-richest among the tested media; about half of this biomass was detected in NB medium (OD600 7.5). Low growth was observed in R2A medium (OD600 1.2) and no growth occurred in the mineral salts medium. The same trend was visible for CMCase production, which was negligible in R2A medium and about twice as high in Standard I medium compared to NB. CMCase production was highest in the early stationary growth phase. NaCl had almost no growth-inhibiting effect in the range of 0–3% (w/v). NaCl contents of 5% (w/v) and higher inhibited growth completely (data not shown).

Temperature influenced growth and CMCase production significantly (Fig. 1). The strain showed best growth at 20–25 °C. Ninety percent and 71%, respectively, of the maximum biomass were found at 30 and 10 °C. No growth occurred at 0–5 °C and at 40 °C. Despite high biomass production at temperatures of 10–35 °C, enzyme production had a narrow temperature optimum of 20–25 °C, coinciding with the optimum temperature for growth, was low at 10 and 35 °C (21% and 35% of the maximum production, respectively) and reduced by 43% at 30 °C. At 15 °C, 75% of the enzyme production occurring at 20–25% were measured.

Fig. 1

Effect of temperature (upper panel) and pH (lower panel) on growth (black circles indicate continuous line) and CMCase production (white circle indicates dashed line) by Bacillus mycoides AR20-61 (mean values ± SD of three replicates)

The optimum pH for growth and CMCase production (Fig. 1) was pH 7. More than 90% of the maximum growth and enzyme production were found at pH 6.5; good growth and enzyme production were detected at pH 6 and pH 8. A pH of 9 resulted in about half of the maximum values. No growth occurred at pH 5.

CMC concentration (5–15 g/l) had a minor effect on growth, independent of the growth temperature, but a significant effect on CMCase production at temperatures of 20 °C and above (Fig. 2). The maximum CMCase production was obtained at cultivation temperatures of 20–25 °C and a CMC concentration of 1–1.5% (w/v); lower amounts of CMC resulted in significantly lower enzyme production.

Fig. 2

Effect of CMC concentration and temperature on growth (upper panel) and CMCase production (lower panel) by Bacillus mycoides AR20-61 (mean values ± SD of three replicates)

FPase and cellobiase production

Filter paper consists of crystalline cellulose and is thus suitable to test exoglucanase activity; 50 mg filter paper can release maximally 2 mg of glucose (Wood and Bhat 1988). In our study, this activity was below the detection limit.

Cellobiases (β-glucosidases) complete the hydrolysis of cellobiose, released by endo- and exoglucanases, to glucose. Microbial extracellular cellulases can be cell-free or cell-associated (Sadu and Maiti 2013). In our study, cellobiase activity was neither detectable in the cell-free culture supernatant nor in the cell-containing medium.

CMCase characterization

The crude enzyme was active over a broad temperature range, and remarkably high activities were detectable in the low temperature range (Fig. 3). The apparent optimum temperature for CMCase activity was at 40–50 °C, independently of the cultivation temperature (10 °C and 25 °C). CMCase produced at 10 °C was more temperature sensitive at temperatures below the optimum temperature for activity than CMCase produced at 25 °C.

Fig. 3

Effect of temperature on activity (upper panel) and stability (lower panel; black circles indicate 50 °C; black squares indicate 65 °C) of the CMCase produced by Bacillus mycoides AR20-61 at cultivation temperatures of 10 °C (dashed line) and 25 °C (continuous line) (mean values ± SD of three replicates)

Thermostability decreased with increasing temperature. CMCase activity was fully retained after an incubation time up to 60 min at 20 and 35 °C, independently of the cultivation temperature. However, a higher thermosensitivity of the enzyme produced at 10 °C compared to that produced at 25 °C was noted at 50 and 65 °C (Fig. 3). After 60 min at 50 °C, the enzyme produced at 25 °C was not affected, while the enzyme produced at 10 °C lost 38% of its activity. An incubation temperature of 65 °C resulted after 10 min in a loss of 46% (cultivation at 10 °C) or 34% (cultivation at 25 °C).

The enzyme showed optimum activity at pH 5, 89% and 74% of this activity were retained at pH 4 and pH 6, respectively. Almost comparable activities were detected at pH 3 and pH 7 (27–30%), while at least 80% of the optimum activity were lost at pH 8–9 and at pH 3 (Fig. 4). The enzyme lost no activity after 60 min of incubation at 30 °C and pH 4–9, while about one third of the activity (32%) was lost at pH 3.

Fig. 4

Effect of pH on activity of the CMCase produced by Bacillus mycoides AR20-61 (mean values ± SD of three replicates)

Table 1 shows the effect of various agents on CMCase activity. Several metal ions had an inhibiting effect: Fe²⁺ (11% residual activity) > Mn²⁺ > Pb²⁺ > Fe³⁺. The monovalent ion K⁺ was without any effect, and Na⁺ enhanced activity slightly. Metal chelators had no inhibiting effect, EDTA was slightly stimulating. Detergents had either an inhibitory (Tween 20) or a considerably stimulating (Triton X-100) effect. The CMCase was also resistant against phenol

Discussion

The majority of the organic matter in forest soils originates from plants. Enzyme activities are thus required for the efficient litter decomposition and nutrient turnover in forest soils. The strain investigated in this study, Bacillus mycoides AR20-61, was isolated from a coniferous Alpine forest site. The presence of cellulose degraders at this site has been earlier observed (Margesin et al. 2016; Siles and Margesin 2017). Representatives of the genus Bacillus have been often described as cellulase producers (Shaikh et al. 2013; Behera et al. 2014; Patagundi et al. 2014; Rasul et al. 2015).

The complete microbial hydrolysis of cellulose is obtained by the synergistic process of three major groups of cellulases: endo-1,4-β-glucanases (CMCase), exo-1,4-β-glucanases (FPase, cellobiohydrolases), and cellobiases (β-glucosidases) (Sadhu and Maiti 2013; Juturu and Wu 2014; Yang et al. 2019). Only few bacteria synthesize the complete enzyme system. Bacteria that produce only part of the complete system are called “pseudocellulolytic” and may have obtained the genes encoding these enzymes by horizontal transfer from true cellulolytic bacteria (Sadhu and Maiti 2013). The strain investigated in our study belonged to this group and produced only an endoglucanase (CMCase) and was unable to utilize filter paper (crystalline cellulose; this study) and microcrystalline cellulose (data not shown). The same property has been often described for members of the genus Bacillus (Robson and Chambliss 1984; Yan et al. 2011). However, exoglucanase activity (Acharya and Chaudhari 2012; Kim et al. 2012; Ladeira et al. 2015) and membrane-bound cellobiase activity (Kim et al. 2012) also have been detected in Bacillus strains. Most bacteria described as “cellulolytic” in the literature produce only extracellular endoglucanases which cleave the β-1,4-glycosidic bond only in soluble, artificial derivatives of cellulose, such as CMC, and are thus not able to utilize crystalline cellulose; their cellulases are functional for other purposes such as infection of plant cells (Medie et al. 2012; Koeck et al. 2014). A possible explanation for the occurrence of bacteria that produce only endo- or exoglucanase could be that they use the products resulting from endo- or exocellulolytic activity in their metabolism, instead of using the simple sugars that would result from complete cellulose degradation (Soares et al. 2012).

CMCase activity of Bacillus mycoides AR20-61 was favored in nutrient rich media containing high amounts of CMC, as observed in other studies with bacilli (Karim et al. 2015; Rasul et al. 2015). Interestingly, in our study, the interaction between growth temperature and CMC concentration had a minor effect on growth, but a significant effect on CMCase production. Such a temperature effect has, to the best of our knowledge, not yet been described for cellulases. However, it has been reported for extracellular proteases produced by cold-adapted bacteria (Margesin and Schinner 1992) and indicates a substantial difference in cell organization and metabolism at each temperature.

Despite the site-specific cold climate conditions (a mean annual air temperature of 4.0 °C, a mean annual soil temperature of 4.3 °C, a minimum annual soil temperature of 1.9 °C, and a maximum annual soil temperature of 6.1 °C; França et al. 2016), the strain had a growth temperature range of 10–35 °C and was unable to grow at 0–5 °C and 40 °C. Thus, it could neither be classified as a psychrophile (due to its inability to grow at 0 °C) nor as a mesophile (due to its inability to grow at 40 °C). In our study, CMCase activity was even more temperature sensitive than growth. The optimum temperatures for growth and enzyme production were identical (20–25 °C); however, enzyme production at 10 °C was considerably reduced, in contrast to growth. Nonetheless, the produced enzyme maintained a high level of activity at temperatures down to 0 °C. Remarkably, the cultivation temperature had a significant influence on the sensitivity of the produced enzyme towards temperature. At a cultivation temperature of 10 °C, the enzyme showed a lower relative activity in the temperature range 0–20 °C compared to the enzyme produced at 25 °C, and a lower thermal stability at 50 °C.

For endoglucanases from bacilli, a broad range of optimum temperatures for activity, ranging from 40 to 70 °C, has been reported (Ariffin et al. 2006; Lin et al. 2012; Sadhu and Maiti 2013; Seo et al. 2013). The optimum temperature for activity of the strain described in our study was at 40–50 °C. Lower optimum temperatures for activity have not been reported for bacilli, but for Actinobacteria (35 °C; Lin et al. 2019) and Gram-negative bacteria (25–35 °C; Sadhu and Maiti 2013; Li et al. 2016).

The isolation source (forest soil) of the strain investigated in this study had a pH of 3.4 (França et al. 2016). The enzyme described in our study showed optimal activity in the acidic pH range (4–5) and good stability over a broad pH range (4–9). High stability over a wide pH range (Yan et al. 2011; Gaur and Tiwari 2015) and an acidic pH optimum for activity has been described for a number of endoglucanases from bacilli (Robson and Chambliss 1984; Lin et al. 2012; Lisdyanti et al. 2012; Lin et al. 2019).

Surprisingly, the CMCase described in this study was resistant against 10 mM phenol. Phenol and phenolic compounds are known to inhibit microbial cellulases (Ximenes et al. 2010; González-Bautista et al. 2017). The CMCase was also resistant against a number of monovalent and divalent metal ions (Mg²⁺, Zn²⁺, Cu²⁺, K⁺, Na⁺) and metal-chelating agents. A strong inhibitory effect of Fe²⁺ on bacterial endoglucanases, such as observed in our study, has been reported (Yin et al. 2010). The effect of divalent ions is not well elucidated and seems to be variable among enzymes produced by various microorganisms. Redox effects on amino acids may decrease or increase enzyme activities (de Cassia Pereira et al. 2017). No general inhibitory or stimulating agents for endoglucanases from bacilli can be recognized from literature (Yin et al. 2010; Yan et al. 2011; Seo et al. 2013; Gaur and Tiwari 2015), which can be attributed to varying concentrations and incubation conditions, beside enzyme-specific characteristics.

In conclusion, the results obtained in this study clearly demonstrate the different, independent roles of temperature in growth, enzyme production, nutrient requirements during enzyme production, and enzyme characteristics regarding thermosensitivity. This may be attributed to separate strategies at the cellular level. The temperature range for growth and enzyme production gives no indication about the effect of temperature on activity and stability of the enzyme. Moreover, the latter can be significantly affected by the cultivation temperature, which is of relevance for the selective production of enzymes with desired properties. The CMCase produced by Bacillus mycoides AR20-61 is characterized by a number of interesting properties, such as high activities in the low temperature range (down to 0 °C) and acidic pH range, high stability over a broad pH range and high resistance against a number of effectors (including metal ions and phenol). Such enzymes are of interest for industrial applications (Seo et al. 2013; Juturu and Wu 2014; Menendez et al. 2015).