Biological potency of actinomycetes extracts from rhizosphere soil of Dacrycarpus imbricatus from Toba Samosir, North Sumatra

Praptiwi Ahmad Fathoni Ade Lia Putri Dewi Wulansari Andria Agusta   

Open Access   

Published:  Jan 10, 2023

DOI: 10.7324/JAPS.2023.106853

Plants, including Dacrycarpus imbricatus, have important ecological functions as a carbon source, support the soil microbial community, improve soil nutrients, and conserve water. Moreover, actinomycetes in rhizospheric soil have a high potential in producing bioactive compounds, including anti-bacterial and antioxidant compounds. This study investigated 11 actinomycetes extracts for their anti-bacterial activity against Escherichia coli and Staphylococcus aureus and antioxidant activity as the 2,2-diphenyl-1-picrylhydrazyl (DPPH-free radical scavenging. Actinomycetes strains were isolated from the rhizosphere soil of D. imbricatus. Anti-bacterial and DPPH scavenging activities were carried out by thin-layer chromatography-bioautography. Besides, the microdilution method was performed to determine IC50 and minimum inhibitory concentration values. Potential strains were identified based on molecular identification and tested for their anti-bacterial activity against Mycobacterium smegmatis. Results revealed that the highest anti-bacterial activity exhibited by two actinomycetes extracts, Streptomyces avermitilis A18TE-8 and Micromonospora terminaliae A18TE1-1, had moderate-strong anti-bacterial activity against S. aureus (8 and 128 μg/ml, respectively) and the percentage of growth inhibition against M. smegmatis was moderate (80% and 60%, respectively). Two extracts of actinomycetes M. terminaliae A18TE1-1 and Streptomyces nigrescens A18TE1-9 had a moderate antioxidant activity with IC50 values 122.96 and 98.79 μg/ml, respectively (or AAI values 0.25 and 0.31, respectively). Therefore, actinomycetes extracts from D. imbricatus rhizosphere soil could be anti-bacterial sources, especially against S. aureus and M. smegmatis, rather than antioxidant sources.

Keyword:     Actinomycetes anti-bacterial DPPH scavenging activity Dacrycarpus imbricatus phylogenetic analysis


Praptiwi P, Fathoni A, Putri AL, Wulansari D, Agusta A. Biological potency of actinomycetes extracts from rhizosphere soil of Dacrycarpus imbricatus from Toba Samosir, North Sumatra. J Appl Pharm Sci, 2023.

Copyright: © The Author(s). This is an open-access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Abu F, Taib CNM, Moklas MAM, Akhir SM. Antioxidant properties of crude extract, partition extract, and fermented medium of Dendrobium sabin flower. Evid Based Complement Altern Med, 2017; 2017(2907219):1-9.

AlNeyadi SS, Amer N, Thomas TG, Ajeil RA, Breitener P, Munawar N. Synthesis, characterization, and antioxidant activity of some 2-methoxyphenols derivatives. Heterocycl Comm, 2020; 26(1):112-22.

Aslam B, Wang W, Arshad MI, Khurshid M, Muzammil S, Rasool MH, Nisar MA, Alvi RF, Aslam MA, Qamar MU, Salamat M, Baloch Z. Antibiotic resistance: a rundown of a global crisis. Infect Drug Resist, 2018; 11:1645.

Baltz RH. Antimicrobials from actinomycetes: back to the future. Actinomycetes are the source of most clinically relevant antibiotics in use today and may continue to be so. Microbe, 2007; 2(3):125-31.

Chandra S, Prithvi PPR, Srija K, Jauhari S, Grover A. Antimicrobial resistance: call for rational antibiotics practice in India. J Fam Med Prim Care, 2020; 9(5):2192-9.

Cretu GC, Morlock GE. Analysis of anthocyanins in powdered berry extracts by planar chromatography linked with bioassay and mass spectrometry. Food Chem, 2014; 146:104-12.

Devi SC, Kumari A, Jain N, Jemimah NS, Mohanasrinivasan V. Screening of actinomycetes isolated from soil samples for anti-bacterial and antioxidant activity. Int J Pharm Pharm Sci, 2013; 5(4):483-9.

Dholakiya RN, Kumar R, Mishra A, Mody KH, Jha B. Anti-bacterial and antioxidant activities of novel Actinobacteria strain isolated from Gulf of Khambhat, Gujarat. Front Microbiol, 2017; 8:2420.

Fathoni A, Hudiyono S, Cahyana AH, Nurkanto A, Agusta A. (+)-epoxydone: a major secondary metabolite as antibacterial agent from Phomopsis sp. TcBt1Bo-6 isolated from stem of Brotowali plant (Tinospora crispa). Rasayan J Chem, 2022; 15(4):2210-7.

Famuyide IM, Aro AO, Fasina FO. Anti-bacterial and antibiofilm activity of acetone leaf extracts of nine under-investigated south African Eugenia and Syzygium (Myrtaceae) species and their selectivity indices. BMC Complement Altern Med, 2019; 19:141.

Franco-Correa M, Quintana A, Duque C, Suarez C, Rodríguez MX, Barea JM. Evaluation of actinomycete strains for key traits related with plant growth promotion and mycorrhiza helping activities. Appl Soil Ecol, 2010; 45(3):209-17.

Guchu BM, Machocho AK, Mwihia SK, Ngugi P. In vitro antioxidant activities of methanolic extracts of Caesalpinia volkensii Harms., Vernonia lasiopus O. Hoffm., and Acacia hockii De Wild. Evid Based Complement Altern Med, 2020; 2020(3586268):1-10.

Hau DV, Nguyen TT, Nguyen THA, Quan TD, Thien DD, Nhung LTH, Tinh BX, Nguyen LT, Loc TV, Sung TV, Thuy TT. Terpenoids from Dacrycarpus imbricatus. Vietnam J Chem, 2017; 55(6):734-7.

Hayakawa M, Nonomura H. A new method for the intensive isolation of actinomycetes from soil. Actinomycetologica, 1989; 3(2):95-104.

Hazarika SN, Thakur D. Chapter 21-Actinobacteria. In: Amaresan N, Kumar MS, Annapurna K, Kumar K, Sankaranarayanan A (Eds.). Beneficial microbes in agro-ecology, Academic Press, London, UK, pp 443-76, 2020.

Henneron L, Kardol P, Wardle DA, Cros C, Fontaine S. Rhizosphere control of soil nitrogen cycling: a key component of plant economic strategies. New Phytol, 2020; 228:1269-82.

Hifnawy MS, Fouda MM, Sayed AM, Mohammed R, Hassan HM, AbouZid SF, Rate ME, Keller A, Adamek M, Ziemert N, Abdelmohsen UR. The genus Micromonospora as a model microorganism for bioactive natural product discovery. RSC Adv, 2020; 10:20939-59.

Hoffman PS. Anti-bacterial discovery: 21st century challenges. Antibiotics, 2020; 9(5):213.

Jakubiec-Krzesniak K, Rajnisz-Mateusiak A, Guspiel A, Ziemska J, Solecka J. Secondary metabolites of actinomycetes and their antibacterial, antifungal and antiviral properties. Pol J Microbiol, 2018; 67(3):259-72.

Janardhan A, Kumar AP, Buddola VB, Saigopal DVR, Narashima G. Production of bioactive compounds by actinomycetes and their antioxidant properties. Biotechnol Res Int, 2014; 2014:217030.

Kitani S, Miyamoto KT, Takamatsu S, Herawati E, Iguchi H, Nishitomi K, Uchida M, Nagamitsu T, Omura S, Ikeda H, Nihira T. Avenolide, a Streptomyces hormone controlling antibiotic production in Streptomyces avermitilis. Proc Natl Acad Sci USA, 2011; 108(39):16410-5.

Lacombe-Harvey ME, Brzezinski R, Beaulieu C. Chitinolytic functions in actinobacteria: ecology, enzymes, and evolution. Appl Microbiol Biotechnol, 2018; 102:7219-30.

Luzhetskyy A, Pelzer S, Bechthold A. The future of natural products as a source of new antibiotic. Curr Opin Investig Drugs, 2007; 8(8):608-13.

Malisorn K, Embaen S, Sribun A, Saeng-in P, Phongsopitanun W, Tanasupawat S. Identification and antimicrobial activities of Streptomyces, Micromonospora, and Kitasatospora strains from rhizosphere soils. J Appl Pharm Sci, 2020: 10(2):123-8.

McNear Jr DH. The rhizosphere-roots, soil and everything in between. Nat Sci Educ, 2013; 4(3):1.

Nurul MAA, Shafik H, Maria AP, Maria GG. Solvent effect on antioxidant activity and total phenolic content of Betula alba and Convolvulus arvens. Int J Biotechnol Bioeng, 2013; 7(5):351-6.

Pattusamy N, Changa M. Antioxidant activity of 3-arylidene- 4-piperidones in the 1,1-diphenyl-2-picrylhydrazyl scavenging assay. J Taibah Univ Sci, 2017; 11:40-5.

Praptiwi P, Raunsai M, Wulansari D, Fathoni A, Agusta, A. Anti-bacterial and antioxidant activities of endophytic fungi extracts of medicinal plants from Central Sulawesi. J App Pharm Sci, 2018; 8(8):69-74.

Praptiwi P, Fathoni A, Putri AL, Wulansari D, Agusta A. Assessment of actinomycetes isolated from soils on Simeuleu Island as antibacterial and antioxidant, AIP Conf Proc, 2019; 2120:080011.

Putri AL, Sumerta IN. Selective isolation of Dactylosporangium and Micromonaspora from the soil of karst cave of Simuelue Island and their anti-bacterial potency. Ber Bio, 2020; 19(3A):257-68.

Quian JH, Doran JW, Walters DT. Maize plant contributions to root zone available carbon and microbial transformation of nitrogen. Soil Biol Biochem, 1997; 29:1451-62.

Rahadiantoro A, Hakim L, Aruningtyas EL. Genetic variation of Dacrycarpus imbricatus in Bromo Tengger Semeru National Park (BTS-NP), East Java. J Trop Life Sci, 2013; 3(2):127-31.

Shaku M, Ealand C, Matlhabe O, Lala R, Kana BD. Chapter Two-Peptidoglycan biosynthesis and remodeling revisited. In: Gadd GM, Sariaslani S (Eds.). Advances in applied microbiology, Academic Press, London, UK, vol. 112, pp 67-103, 2020.

Scherer R, Godoy HT. Antioxidant activity index (AAI) by the 2,2-diphenyl-1-picrylhydrazyl method. Food Chem, 2009; 112(3):654-8.

Sharma P, Thakur D. Antimicrobial biosynthetic potential and diversity of culturable soil actinobacteria from forest ecosystems of Northeast India. Sci Rep, 2020; 10:4104.

Siddharth S, Vittal RR, Wink J, Steinert M. Diversity and bioactive potential of actinobacteria from unexplored regions of Western Ghats, India. Microorganisms, 2020; 8(2):225.

Takahashi Y, Nakashima T. Actinomycetes, an inexhaustible source of naturally occurring antibiotics. Antibiotics, 2018; 7(3):74.

Tan LTH, Chan KG, Khan TM, Bukhari SI, Saokaew S, Duangjai A, Pusparajah P, Lee LH, Goh BH. Streptomyces sp. MUM212 as a source of antioxidants with radical scavenging and metal chelating properties. Front Pharmacol, 2017; 8:276.

Thuy TT, Tam NT, Anh NTH, Hau DV, Phong DT, Thang LQ, Adorisio S, Sung TV, Delfino DV. 20-Hydroxyecdysone from Dacrycarpus imbricatus bark inhibits the proliferation of acute myeloid leukemia cells. Asian Pac J Trop Med, 2017; 10(2):157-9.

Trotter AJ, Aydin A, Strinden MJ, O'Grady J. Recent and emerging technologies for the rapid diagnosis of infection and antimicrobial resistance. Curr Opin Microbiol, 2019; 51:39-45. mib.2019.03.001

Vaara M. Agents that increase the permeability of the outer membrane. Microbial Rev, 1992; 56(30):395-411.

Vergalli J, Bodrenko IV, Masi M, Lucile M, Acosta-Gutiérrez S, Naismith JH, Davin-Regli A, Ceccarelli M, van den Berg B, Winterhalter M, Pagès JM. Porins and small-molecule translocation across the outer membrane of Gram-negative bacteria. Nat Rev Microbiol, 2020; 18:164-76.

Villegas-Mendoza J, Cajal-Medrano R, Maske H. The chemical transformation of the cellular toxin INT (2-(4-iodophenyl)-3- (4-nitrophenyl)-5-(phenyl) tetrazolium chloride) as an indicator of prior respiratory activity in aquatic bacteria. Int J Mol Sci, 2019; 20(3):782.

Yoon SH, Ha SM, Kwon S, Lim J, Kim Y, Seo H, Chun J. Introducing EzBioCloud: a taxonomically united database of 16S rRNA and whole genome assemblies. Int J Syst Evol Microbiol, 2017; 67:1613-7.

Zang Y, Cheng Z, Wu T. TLC Bioautography on screening of bioactive natural products: an update review. Curr Anal Chem, 2020; 16(5):545-56.

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