Peroxidase-producing Actinobacteria from Algerian Environments and Insights from the Genome Sequence of Peroxidase-producing Streptomyces Sp. S19

Overview

Journal Int Microbiol

Publisher Springer Nature

Specialty Microbiology

Date 2022 Jan 21

PMID 35059906

Authors

Rima Maibeche

Nawel Boucherba

Kamel Bendjeddou

Alaric Prins

Cilia Bouiche

Samir Hamma

Mohammed Benhoula

Zahra Azzouz

Azzeddine Bettache

Said Benallaoua

Marilize Le Roes-Hill

Affiliations

Soon will be listed here.

Abstract

Unique environments often serve as a source of novel microorganisms with novel chemistries. In this study, telluric samples collected from different regions of Algeria were processed for the isolation of novel peroxidase-producing actinobacterial strains. An agar-based screening identified 45 isolates with the ability to produce peroxidase. The 16S rRNA gene sequencing showed that most of the strains belong to the genus Streptomyces. Optimization of cultivation conditions was performed for the top five peroxidase-producing strains. Apart from strain 36 (optimal growth temperature of 30 °C) and strain 45 (optimal medium pH of 6.0), the strains exhibited optimal peroxidase production when cultivated for 5 days at 37 °C and in a medium at pH 7.0. Extracellular peroxidase production was induced by ferulic acid in three of the five strains, while the presence of canola lignocellulosic waste (CLW) induced peroxidase production in all strains. Strain 19 (S19) was selected for further optimization and the extracellular peroxidase purified using acid and acetone precipitation, followed by size exclusion chromatography. The purified fraction showed a single band on the polyacrylamide gel with an estimated molecular weight of 21.45 kDa. Genome analysis confirmed the assignment of S19 to the genus Streptomyces, the presence of genes encoding for peroxidases, and the presence of genes encoding for carbohydrate-active enzymes. The presence of biosynthetic gene clusters potentially encoding for biosurfactants further highlighted the great biotechnological potential of the strain.

References

Altschul S, Gish W, Miller W, Myers E, Lipman D . Basic local alignment search tool. J Mol Biol. 1990; 215(3):403-10. DOI: 10.1016/S0022-2836(05)80360-2. View

Andlar M, Rezic T, Mardetko N, Kracher D, Ludwig R, Santek B . Lignocellulose degradation: An overview of fungi and fungal enzymes involved in lignocellulose degradation. Eng Life Sci. 2020; 18(11):768-778. PMC: 6999254. DOI: 10.1002/elsc.201800039. View

Angehrn P, Buchmann S, Funk C, Goetschi E, Gmuender H, Hebeisen P . New antibacterial agents derived from the DNA gyrase inhibitor cyclothialidine. J Med Chem. 2004; 47(6):1487-513. DOI: 10.1021/jm0310232. View

Aziz R, Bartels D, Best A, DeJongh M, Disz T, Edwards R . The RAST Server: rapid annotations using subsystems technology. BMC Genomics. 2008; 9:75. PMC: 2265698. DOI: 10.1186/1471-2164-9-75. View

Bankevich A, Nurk S, Antipov D, Gurevich A, Dvorkin M, Kulikov A . SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol. 2012; 19(5):455-77. PMC: 3342519. DOI: 10.1089/cmb.2012.0021. View

Benimeli C, Amoroso M, Chaile A, Castro G . Isolation of four aquatic streptomycetes strains capable of growth on organochlorine pesticides. Bioresour Technol. 2003; 89(2):133-8. DOI: 10.1016/s0960-8524(03)00061-0. View

Blin K, Shaw S, Steinke K, Villebro R, Ziemert N, Lee S . antiSMASH 5.0: updates to the secondary metabolite genome mining pipeline. Nucleic Acids Res. 2019; 47(W1):W81-W87. PMC: 6602434. DOI: 10.1093/nar/gkz310. View

Bouacem K, Rekik H, Jaouadi N, Zenati B, Kourdali S, El Hattab M . Purification and characterization of two novel peroxidases from the dye-decolorizing fungus Bjerkandera adusta strain CX-9. Int J Biol Macromol. 2017; 106:636-646. DOI: 10.1016/j.ijbiomac.2017.08.061. View

Bradford M . A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem. 1976; 72:248-54. DOI: 10.1016/0003-2697(76)90527-3. View

10.

Cook A, Meyers P . Rapid identification of filamentous actinomycetes to the genus level using genus-specific 16S rRNA gene restriction fragment patterns. Int J Syst Evol Microbiol. 2003; 53(Pt 6):1907-15. DOI: 10.1099/ijs.0.02680-0. View

11.

EL-NAKEEB M, LECHEVALIER H . Selective isolation of aerobic Actinomycetes. Appl Microbiol. 1963; 11:75-7. PMC: 1057945. DOI: 10.1128/am.11.2.75-77.1963. View

12.

Falade A, Mabinya L, Okoh A, Nwodo U . Agrowastes utilization by Raoultella ornithinolytica for optimal extracellular peroxidase activity. Biotechnol Appl Biochem. 2018; 66(1):60-67. DOI: 10.1002/bab.1696. View

13.

Fiedler H, Bruntner C, Bull A, Ward A, Goodfellow M, Potterat O . Marine actinomycetes as a source of novel secondary metabolites. Antonie Van Leeuwenhoek. 2005; 87(1):37-42. DOI: 10.1007/s10482-004-6538-8. View

14.

Fodil D, Jaouadi B, Badis A, Nadia Z, Ferradji F, Bejar S . A thermostable humic acid peroxidase from Streptomyces sp. strain AH4: purification and biochemical characterization. Bioresour Technol. 2012; 111:383-90. DOI: 10.1016/j.biortech.2012.01.153. View

15.

Foyle T, Jennings L, Mulcahy P . Compositional analysis of lignocellulosic materials: evaluation of methods used for sugar analysis of waste paper and straw. Bioresour Technol. 2006; 98(16):3026-36. DOI: 10.1016/j.biortech.2006.10.013. View

16.

Daraei Garmakhany A, Kashaninejad M, Aalami M, Maghsoudlou Y, Khomieri M, Tabil L . Enhanced biomass delignification and enzymatic saccharification of canola straw by steam-explosion pretreatment. J Sci Food Agric. 2013; 94(8):1607-13. DOI: 10.1002/jsfa.6466. View

17.

Helle S, Duff S, Cooper D . Effect of surfactants on cellulose hydrolysis. Biotechnol Bioeng. 1993; 42(5):611-7. DOI: 10.1002/bit.260420509. View

18.

Hiner A, Hernandez-Ruiz J, Rodriguez-Lopez J, Garcia-Canovas F, Brisset N, Smith A . Reactions of the class II peroxidases, lignin peroxidase and Arthromyces ramosus peroxidase, with hydrogen peroxide. Catalase-like activity, compound III formation, and enzyme inactivation. J Biol Chem. 2002; 277(30):26879-85. DOI: 10.1074/jbc.M200002200. View

19.

Jensen P, Gontang E, Mafnas C, Mincer T, Fenical W . Culturable marine actinomycete diversity from tropical Pacific Ocean sediments. Environ Microbiol. 2005; 7(7):1039-48. DOI: 10.1111/j.1462-2920.2005.00785.x. View

20.

Lawniczak L, Marecik R, Chrzanowski L . Contributions of biosurfactants to natural or induced bioremediation. Appl Microbiol Biotechnol. 2013; 97(6):2327-39. PMC: 3585901. DOI: 10.1007/s00253-013-4740-1. View