Exploration of bacterial communities for low-density polyethylene (LDPE) degradation in the mangrove area of Pamekasan, East Java, Indonesia
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Abstract. Achnasya JF, Pangastuti A, Sari SLA. 2026. Exploration of bacterial communities for low-density polyethylene (LDPE) degradation in the mangrove area of Pamekasan, East Java, Indonesia. Biodiversitas 27 (3): d270325. https://doi.org/10.13057/biodiv/d270325. Low-density polyethylene (LDPE) is one of the most widely used synthetic plastics and a major contributor to persistent pollution in coastal ecosystems, including mangrove environments. Mangroves act as natural sinks for plastic debris, yet the diversity and functional potential of plastisphere-associated bacteria in these systems remain insufficiently understood. This study investigated bacterial community dynamics during LDPE-driven enrichment and identified indigenous LDPE-degrading bacteria from mangrove sediments in Pamekasan, East Java, Indonesia. Sediment samples from three mangrove sites were subjected to three sequential enrichment cultures using carbon-free marine medium with LDPE beads as the sole carbon source. Microbial community shifts were analyzed through metagenomic sequencing, while LDPE degradation capacity was evaluated using gravimetric weight loss, FTIR spectroscopy, and SEM-EDX analyses. Enrichment resulted in pronounced restructuring of bacterial communities, characterized by reduced richness but increased functional specialization across culture stages. Dominant taxa included Qipengyuania, Flavobacterium, Acinetobacter, Pseudoxanthomonas, and Pseudomonas, with a stable core of ASVs persisting throughout enrichment. From the tertiary culture, three culturable isolates demonstrated LDPE-degrading potential: Microbacterium aurantiacum K2, Microbacterium sp. K3, and Bacillus sp. K5. Among these, Bacillus sp. K5 exhibited the highest degradation efficiency, achieving 21.35% LDPE weight loss, followed by Microbacterium sp. K3 (20.27%) and M. aurantiacum K2 (17.10%). FTIR and SEM analyses confirmed oxidative surface modification and structural damage of LDPE films. These findings demonstrate that mangrove plastisphere communities harbor specialized bacteria capable of initiating LDPE degradation and highlight the ecological role of enrichment-driven microbial selection. The study provides a foundation for developing nature-based and environmentally compatible strategies for mitigating plastic pollution in coastal ecosystems.
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References
Adamcova D, Radziemska M, Zloch J, Dvorackova H, Elbl J, Kynicky J, Brtnicky M, Vaverkova MD. 2018. SEM analysis and degradation behavior of conventional and bio-based plastics during composting. Acta Universitatis Agriculturae et Silviculturae Mendelianae Brunensis 66 (2): 349-356. https://doi.org/10.11118/actaun201866020349.
Agostini L, Moreira JCF, Bendia AG, Kmit MCP, Waters LG, Santana MFM, Sumida PYG, Turra A, Pellizari VH. 2021. Deep-sea plastisphere: Long-term colonization by plastic-associated bacterial and archaeal communities in the Southwest Atlantic Ocean. Sci Total Environ 793: 148335. https://doi.org/10.1101/2021.01.26.428295.
Alamer NJ, Aldayel MF, Khalifa A. 2023. Isolation and characterization of Brucella spp., low-density polyethylene (LDPE) plastic degrading bacteria in Al-Ahsa region, Saudi Arabia. Appl Sci 13 (7): 4629. https://doi.org/10.3390/app13074629.
Barwant MM, Ali UM, Tolani TR. 2026. Microplastic pollution in aquatic environments: A systematic review of bacterial degradation efficacy, mechanisms, and future pathways. Front Earth Sci 14: 1752600. https://doi.org/10.3389/feart.2026.1752600.
Blair RM, Waldron S, Phoenix VR, Gauchotte-Lindsay C. 2019. Microscopy and elemental analysis characterisation of microplastics in sediment of a freshwater urban river in Scotland, UK. Environ Sci Pollut Res 26: 12491-12504. https://doi.org/10.1007/s11356-019-04678-1.
Bocci V, Galafassi S, Levantesi C, Crognale S, Amalfitano S, Congestri R, Matturo B, Rossetti S, Pippo FD. 2024. Freshwater plastisphere: A review on biodiversity, risks, and biodegradation potential with implications for the aquatic ecosystem health. Aquat Microbiol 15: 1395401. https://doi.org/10.3389/fmicb.2024.1395401.
Cordova MR, Ulumuddin YI, Lubis AA, Kaisupy MT, Wibowo SPA, Subandi R, Yogaswara D, Purbonegoro T, Renyaan J, Nurdiansah D, Sugiharto U, Shintianata D, Meiliastri SS, Andini FP, Suratno, Ilman M, Anggoro AW, Basir, Cragg SM. 2023. Microplastics leaving a trace in mangrove sediments ever since they were first manufactured: A study from Indonesia mangroves. Mar Pollut Bull 195: 115517. https://doi.org/10.1016/j.marpolbul.2023.115517.
Dang H, Ewald JM, Mattes TE. 2023. Genome-resolved metagenomics and metatranscriptomics reveal insights into the ecology and metabolism of anaerobic microbial communities in PCB-contaminated sediments. Bioremediat Biotechnol 57 (43): 16386-16398. https://doi.org/10.1021/acs.est.3c05439
Danso D, Chow J, Streit WR. 2019. Plastics: Environmental and biotechnological perspectives on microbial degradation. Appl Environ Microbiol 81 (19): e01095-19. https://doi.org/10.1128/AEM.01095-19.
Deakin K, Porter A, Baquero AO, Lewis C.2025. Plastic pollution in mangrove ecosystems: A global meta-analysis. Mar Pollut Bull 218: 1-14. https://doi.org/10.1016/j.marpolbul.2025.118165.
Dhali SL, Parida D, Kumar B, Bala K. 2024. Recent trends in microbial and enzymatic plastic degradation: A solution for plastic pollution predicaments. Biotechnol Sustain Mater 1 (11): 1-23. https://doi.org/10.1186/s44316-024-00011-0.
Geyer R, Jambeck JR, Law KL. 2017. Production, use, and fate of all plastics ever made. Sci Adv 3 (7): e1700782. https://doi.org/10.1126/sciadv.1700782.
Ghatge S, Yang Y, Ahn JH, Hur H. 2020. Biodegradation of polyethylene: A brief review. Appl Biol Chem 63: 27. https://doi.org/10.1186/s13765-020-00511-3.
Goraj W, Pytlak A, Grzadziel J, Galazka A, Stepniewska Z, Szafranek-Nakonieczna A. 2023. Dynamics of methane-consuming biomes from Wieliczka Formation: Environmental and enrichment studies. Biology 12 (11): 1420. https://doi.org/10.3390/biology12111420.
Hardoim CCP, Cardinale M, Cúcio ACB, Esteves AIS, Berg G, Xavier JR, Cox CJ, Costa R. 2014. Effects of sample handling and cultivation bias on the specificity of bacterial communities in keratose marine sponges. Front Microbiol 5: 611. https://doi.org/10.3389/fmicb.2014.00611.
Harshvardhan K, Jha B. 2013. Biodegradation of low-density polyethylene by marine bacteria from pelagic waters, Arabian Sea, India. Mar Pollut Bull 77: 100-106. https://doi.org/10.1016/j.marpolbul.2013.10.025.
Isha, Ali S, Chang YC. 2024. Biodegradation of polyethylene using Bacillus tropicus isolated from sewage wastewater treatment plant. Processes 12 (11): 2516. https://doi.org/10.3390/pr12112516.
Kato S, Goya E, Tanaka M, Kitagawa W, Kikuchi Y, Asano K, Kamagata Y. 2016. Enrichment and isolation of Flavobacterium strains with tolerance to high concentrations of cesium ion. Sci Rep 6: 20041. https://doi.org/10.1038/srep20041.
Kimber RL, Elizondo G, Jedyka K, Boothman C, Cai R, Bagshaw H, Haigh SJ, Coker VS, Lloyd JR. 2023. Copper bioreduction and nanoparticle synthesis by an enrichment culture from a former copper mine. Environ Microbiol 25 (12): 3139-3150. https://doi.org/10.1111/1462-2920.16488.
Kotova IB, Taktarova YV, Tsavkelova EA, Egorova MA, Bubnov IA, Malakhova DV, Shirinkina LI, Sokolova TG, Bonch-Osmolovskaya EA. 2021. Microbial degradation of plastics and approaches to make it more efficient. Microbiology 90: 671-701. https://doi.org/10.1134/S0026261721060084.
Jiao S, Chen W, Wang E, Wang J, Liu Z, Li Y, Wei G. 2016. Microbial succession in response to pollutants in batch-enrichment culture. Sci Rep 6: 21791. https://doi.org/10.1038/srep21791.
Lehr K, Oosterlinck B, Then CK, Gemmell MR, Gedgaudas R, Bornschein J, Kupcinskas J, Smet A, Hold G, Link A, ENIGMA: European Network for the Investigation of Gastrointestinal Mucosal Alterations. 2025. Comparison of different microbiome analysis pipelines to validate their reproducibility of gastric mucosal microbiome composition. mSystems 10 (2): e0135824. https://doi.org/10.1128/msystems.01358-24.
Li Z, Wei R, Gao M, Ren Y, Yu B, Nie K, Xu H, Liu L. 2020. Biodegradation of low-density polyethylene by Microbulbifer hydrolyticus IRE-31. J Environ Manag 263: 110345. https://doi.org/10.1016/j.jenvman.2020.110345.
Ligo A, Juliandi MD, Agustien A, Djamaan A. 2020. Isolation and characterization of polyethylene-degrading marine bacteria. J Pharm Biol Sci 15 (6): 22-25. https://doi.org/10.9790/3008-1506032225.
Madhuri RJ, Saraswathi M, Gowthami K, Bhargavi M, Divya Y, Deepika V. 2019. Recent approaches in the production of novel enzymes from environmental samples by enrichment culture and metagenomic approach. Recent Dev Appl Microbiol Biochem 19: 251-262. https://doi.org/10.1016/B978-0-12-816328-3.00019-2.
Mishra S, Dash D, Das AP. 2023. Aquatic microbial diversity on plastisphere: Colonization and potential role in microplastic biodegradation. Geomicrobiol J 41 (4): 312-323. https://doi.org/10.1080/01490451.2023.2242724.
Mohanan N, Montazer Z, Sharma PK, Levin DB. 2020. Microbial and enzymatic degradation of synthetic plastics. Front Microbiol 11: 580709. https://doi.org/10.3389/fmicb.2020.580709.
Moharir RV, Kumar S. 2019. Challenges associated with plastic waste disposal and allied microbial routes for its effective degradation: A comprehensive review. J Clean Prod 208: 65-76. https://doi.org/10.1016/j.jclepro.2018.10.059.
Montazer Z, Habibi Najafi MB, Levin DB. 2020. Challenges with verifying microbial degradation of polyethylene. Polymers 12: 123. https://doi.org/10.3390/polym12010123.
Muangchinda C, Pinyakong O. 2024. Enrichment of LDPE-degrading bacterial consortia: Community succession and enhanced degradation efficiency through various pretreatment methods. Sci Rep 14: 28795. https://doi.org/10.1038/s41598-024-80306-4.
Muthukumar N, Mohanan S, Maruthamuthu S, Subramanian P, Palaniswamy N, Raghavan M. 2003. Role of Brucella sp. and Gallionella sp. in oil degradation and corrosion. Electrochem Commun 5 (5): 421-425. https://doi.org/10.1016/S1388-2481(03)00093-6.
Ojha N, Pradhan N, Singh S, Barla A, Shrivastava A, Bose S, Rai V. 2017. Evaluation of HDPE and LDPE degradation by fungus, Bacillus and Stenotrophomonas species. Environ Dev Sustain 19 (4): 1151-1167. https://doi.org/10.1007/s10668-016-9843-4.
Parida D, Katare K, Ganguly A, Chakraborty D, Konar O, Noguiera R, Bala K. 2024. Molecular docking and metagenomics assisted mitigation of microplastic pollution. Chemosphere 351: 141271. https://doi.org/10.1016/j.chemosphere.2024.141271.
Pawano O, Jenpuntarat N, Streit WR, Pérez-García P, Pongtharangkul T, Phinyocheep P, Thayanukul P, Euanorasetr J, Intra B. 2024. Exploring untapped bacterial communities and potential polypropylene-degrading enzymes from mangrove sediment through metagenomics analysis. Front Microbiol 15: 1347119. https://doi.org/10.3389/fmicb.2024.1347119.
Perdigão R, Alexandrino DA, Carvalho MF, Magalhães C, Almeida CM, Mucha AP. 2026. Genome mining and screening for plastic-degrading potential in marine bacteria. Appl Microbiol Biotechnol 110: 87. https://doi.org/10.1007/s00253-026-13767-4.
Pinto Y, Bhatt AS. 2024. Sequencing-based analysis of microbiomes. Nat Rev Genet 25: 829-845. https://doi.org/10.1038/s41576-024-00746-6.
Restrepo-Flórez JM, Bassi A, Thompson MR. 2014. Microbial degradation and deterioration of polyethylene - A review. Intl Biodeterior Biodegrad 88: 83-90. https://doi.org/10.1016/j.ibiod.2013.12.014.
Rodriguez-Pazmiño AS, Carvajal E, Paredes-Núñez D, Echeverría J, Calderon J, Orlando SA, Parra Vera H, Garcia-Bereguiain MA. 2025. Comparative evaluation of MALDI-ToF mass spectrometry and Sanger sequencing of the 16S, hsp65, and rpoB genes for non-tuberculous mycobacteria species identification. Front Cell Infect Microbiol 15: 1612459. https://doi.org/10.3389/fcimb.2025.1612459.
Rong Z, Ding ZH, Wu YH, Xu XW. 2024. Degradation of low-density polyethylene by the bacterium Rhodococcus sp. C-2 isolated from seawater. Sci Total Environ 907: 167993. https://doi.org/10.1016/j.scitotenv.2023.167993.
Salinas J, Carpena V, Martínez-Gallardo MR, Segado M, Estrella-González MJ, Toribio AJ, Jurado MM, López-González JA, Suárez-Estrella F, López MJ. 2023. Development of plastic-degrading microbial consortia by induced selection in microcosms. Front Microbiol 14: 1143769. https://doi.org/10.3389/fmicb.2023.11sevi43769.
Sharma S, Mathur N, Singh A, Agarwal M. 2022. Biodegradation of low-and high-density polyethylene films by Microbacterium barkeri SH20. Curr World Environ 17 (1): 245-254. https://doi.org/10.12944/CWE.17.1.22.
Sheng Y, Ye X, Zhou Y, Li R. 2021. Microplastics (MPs) act as sources and vector of pollutants‐impact hazards and preventive measures. Bull Environ Contam Toxicol 107 (4): 722-729. https://doi.org/10.1007/s00128-021-03226-3.
Singh J, Shah A, Parmar H, Duttaroy B. 2025. Bacteriological profile and antibiotic susceptibility patterns in lower respiratory tract infection at a tertiary care teaching hospital. GAIMS J Med Sci 5 (1): 167-174. https://doi.org/10.5281/zenodo.14788464.
Skariyachan S, Taskeen N, Kishore AP, Krishna BV, Naidu G. 2021. Novel consortia of Enterobacter and Pseudomonas formulated from cow dung exhibited enhanced biodegradation of polyethylene and polypropylene. J Environ Manag 284: 112030. https://doi.org/10.1016/j.jenvman.2021.112030.
Silva AL, Prata JC, Duarte AC, Soares AM, Barceló D, Rocha-Santos T. 2021. Microplastics in landfill leachates: The need for reconnaissance studies and remediation technologies. Case Stud Chem Environ Eng 3: 100072. https://doi.org/10.1016/j.cscee.2020.100072.
Smith SD. 2012. Marine debris: A proximate threat to marine sustainability in Bootless Bay, Papua New Guinea. Mar Pollut Bull 64 (9): 1880-1883. https://doi.org/10.1016/j.marpolbul.2012.06.013.
Tao X, Ouyang H, Zhou A, Wang D, Matlock H, Morgan JS, Ren AT, Mu D, Pan C, Zhu X, Han A, Zhou J. 2023. Polyethylene degradation by a Rhodococcus strain isolated from naturally weathered plastic waste enrichment. Environ Sci Technol 57 (37): 13901-13911. https://doi.org/10.1021/acs.est.3c03778.
Tirkey A, Upadhyay LSB. 2025. Introducing the LDPE degrading microbes of sedimentary systems: From dumpsite to laboratory. Environ Sci Adv 4: 952-963. https://doi.org/10.1039/D5VA00058.
UNEP. 2021. From pollution to solution: A global assessment of marine litter and plastic pollution reveals the impact of marine litter and plastic pollution in the environment and their effects on the health of ecosystems, wildlife and humans. UNEP, Nairobi. https://www.unep.org/ interactives/beat-plastic-pollution/?gad_source=1&gclid=Cj0KCQiAs aS7BhDPARIsAAX5cSDp006VFGXGyTfihzyGjgxiHpjXTBkfkgYZHGINl4l7eizlUFl01ScaAmvSEALw_wcB. [24 December 2024]
Wang J, Zhao X, Wu A, Tang Z, Niu L, Wu F, Wang F, Zhao T, Fu Z. 2021. Aggregation and stability of sulfate-modified polystyrene nanoplastics in synthetic and natural waters. Environ Pollut 268: 114240. https://doi.org/10.1016/j.envpol.2020.114240.
Wang M, Noor S, Huan R, Liu C, Li JY, Shi Q, Zhang YJ, Wu C, He H. 2020. Comparison of the diversity of cultured and total bacterial communities in marine sediment using culture-dependent and sequencing methods. PeerJ 8: e10060. https://doi.org/10.7717/peerj.10060.
Waqas M, Haris M, Asim N, Islam HU, Abdullah A, Khan A, Khattak H, Waqas M, Ali S. 2021. Biodegradable potential of Bacillus amyloliquefaciens and Bacillus safensis using low density polyethylene thermoplastic (LDPE) substrate. Eur J Environ Public Health 5 (2): em0069. https://doi.org/10.21601/ejeph/9370.
Waymire E, Samake JN, Gunarathna I, Carter TE. 2024. A decade of invasive Anopheles stephensi sequence-based identification: Toward a global standard. Trends Parasitol 4 (6): 477-486. https://doi.org/10.1016/j.pt.2024.04.012.
Wicaksono JA, Purwadaria T, Yulandi A, Tan WA. 2022. Bacterial dynamics during the burial of starch-based bioplastic and oxo-low-density-polyethylene in compost soil. BMC Microbiol 22: 309. https://doi.org/10.1186/s12866-022-02729-1.
Williams AT, Rangel-Buitrago N. 2022. The past, present, and future of plastic pollution. Mar Pollut Bull 176: 113429. https://doi.org/10.1016/j.marpolbul.2022.113429.
Wright RJ, Bosch R, Langille MGI, Gibson MI, Christie-Oleza JA. 2021. A multi-OMIC characterisation of biodegradation and microbial community succession within the PET plastisphere. Microbiome 9: 141. https://doi.org/10.1186/s40168-021-01054-5.
Zeenat, Elahi A, Bukhari DA, Shamim S, Rehman A. 2021. Plastics degradation by microbes: A sustainable approach. J King Saud Univ Sci 33 (6): 101538. https://doi.org/10.1016/j.jksus.2021.101538.
Zettler ER, Mincer TJ, Amaral-Zettler LA. 2013. Life in the “plastisphere”: Microbial communities on plastic marine debris. Environ Sci Technol 47 (13): 7137-7146. https://doi.org/10.1021/es401288x.
Zhai X, Zhang XH, Yu M. 2023. Microbial colonization and degradation of marine microplastics in the plastisphere: A review. Front Microbiol 14: 1127308. https://doi.org/10.3389/fmicb.2023.1127308.
Zhang T, Li X, Rao X, Peng Y, Zhao C, Xu Y, Li J, Wei J. 2024. Biodegradation of polystyrene and polyethylene by Microbacterium esteraromaticum SW3 isolated from soil. Ecotoxicol Environ Saf 274: 1-9. https://doi.org/10.1016/j.ecoenv.2024.116207.