10.57647/ijrowa.2025.16872

Digestate in paddy soil – methane emission and carbon sequestration

  1. Faculty of Applied Ecology, Agricultural Sciences and Biotechnology, University of Inland Norway
  2. Division of Environment and Natural Resources, Norwegian Institute of Bioeconomy Research, Norway
  3. Division of Forest and Forest Resources, Norwegian Institute of Bioeconomy Research, Norway
Digestate in paddy soil – methane emission and carbon sequestration

Received: 2024-05-03

Revised: 2024-10-29

Accepted: 2025-04-20

Published in Issue 2025-05-30

How to Cite

Foereid, B., Dietrich, M., Fongen, M., & Paruch, L. (2025). Digestate in paddy soil – methane emission and carbon sequestration. International Journal of Recycling of Organic Waste in Agriculture. https://doi.org/10.57647/ijrowa.2025.16872

PDF views: 66

Abstract

Purpose: Soils are the largest store of carbon in the biosphere, but soils can also act as the key sources of greenhouse gases. Rice cultivation in paddy soil is anoxic, thus creating an optimal condition for methane production. Digestate, a potential biofertilizer, contains a microbial consortium adapted for methane production because it comes from biogas production where methane production is optimised. In this study, we explored digestate as fertiliser in paddy soil, focussing on the effects of carbon sequestration and methane emission.

Method: A number of digestates and digestate products were incubated in the soils, both waterlogged and at field capacity. The effects of thermal treatment of the digestates were assessed to understand if the microbial community applied with the digestate played a role.

Results: Carbon dioxide emission was 53% higher in the soil with a history of mineral fertiliser application, than in the soil with digestate application history under waterlogging, at field capacity it was 13% smaller. Methane emissions came later when the digestate was heat-treated, indicating that the microbial community in the digestate could change the timing of emissions, but not the amount. Otherwise, some digestates increased methane emissions, whilst others had little effect. The supply of available carbon appeared to be an important factor to explain differences.

Conclusion: Digestate can increase carbon sequestration in paddy soil, although the interaction between waterlogging and soil history is not fully understood. The microbial community applied with the digestate can make methane emission start earlier, but it does not increase total emission.

Research Highlights

  • The microbial community applied with the digestate accelerated methane formation.
  • CO2 emission was higher under waterlogging than at field capacity in soil with low organic content.
  • Waterlogging decreased methane emission in unamended soil.
  • Only digestate where some methane potential was left induced high methane emission.
  • Methanogens and methanotrophs abundances dynamics partly explain emission patterns.

Keywords

  • Rice paddy soil,
  • Digestate,
  • Methane,
  • Carbon sequestration,
  • Microbial dynamics

References

  1. Al Seadi T, Lukehurst C (2012) Quality management of digestate from biogas plant used as fertilizer. IEA Bioenergy.
  2. Angelidaki I, Ellegaard L, Ahring BK (2003) Applications of the anaerobic digestion process, in biomethanation ii In: Ahring BK (ed) Springer, Berlin/Heidelberg, New York, 2003, pp 1–33. https://link.springer.com/chapter/10.1007/3-540-45838-7_1
  3. Batjes NH (1996) Total carbon and nitrogen in the soils of the world. Europ J Soil Sci 47:151-163. https://doi.org/10.1111/j.1365-2389.1996.tb01386.x
  4. Bin Rahman ANMR, Zhang J (2023) Trends in rice research: 2030 and beyond. Food Energy Secure 12:e390. https://doi.org/10.1002/fes3.390
  5. Bodelier PLE, Roslev P, Henckel T, Frenzel P (2000) Stimulation by ammonium-based fertilizers of methane oxidation in soil around rice roots. Nature 403:421-424. https://doi.org/10.1038/35000193
  6. Bodelier PLE, Laanbroek HJ (2004) Nitrogen as a regulatory factor of methane oxidation in soils and sediments. FEMS Microbiol Ecol 47:265-277. https://doi.org/10.1016/S0168-6496(03)00304-0
  7. Buan NR (2018) Methanogens: pushing the boundaries of biology. Emerg Top Life Sci 2:629–646. https://doi.org/10.1042/ETLS20180031
  8. Chen Y, Guo W, Ngo HH, Wei W, Ding A, Ni B, Hoang NB, Zhang H (2024) Ways to mitigate greenhouse gas production from rice paddies. J Environ Manag 368:122139. https://doi.org/10.1016/j.fcr.2024.109571
  9. Costello AM, Lidstrom ME (1999) Molecular characterization of functional and phylogenetic genes from natural populations of methanotrophs in lake sediments. Appl Environ Microbiol 65:5066-5074. https://doi.org/10.1128/AEM.65.11.5066-5074.1999
  10. Das SR, Nayak BK, Dey S, Sarkar S, Chatterjee D, Saha S, Sarkar D, Pradhan A, Saha S, Nayak AK (2023) Potential soil organic carbon sequestration vis‑a‑vis methane emission in lowland rice agroecosystem. Environ Monit Assess. 195:1099. https://doi.org/10.1007/s10661-023-11673-0
  11. Dietrich M, Fongen M, Foereid B (2020) Greenhouse gas emissions from digestate in soil. Int J Recycl Org Waste Agric 9:1-19. https://doi.org/ 10.30486/IJROWA.2020.1885341.1005
  12. Dietrich M, Fongen M, Foereid B (2021) Anaerobic digestion affecting nitrous oxide and methane emissions from the composting process. Bioresour Technol Rep 15:100752. https://doi.org/10.1016/j.biteb.2021.100752
  13. Drosg B, Fuchs W, Al Saedi T, Madsen M, Linke B (2015) Nutrient recovery by biogas digestate processing. IEA Bioenergy
  14. FAO (2023) Methane emissions in livestock and rice systems – Sources, quantification, mitigation and metrics. Rome.
  15. Ferronato C, Marinari S, Francioso O, Bello D, Trasar-Cepeda C, Antisari LV (2019) Effect of waterlogging on soil biochemical properties and organic matter quality in different salt marsh systems. Geoderma 338:302-312. https://doi.org/10.1016/j.geoderma.2018.12.019
  16. Foereid B, Szocs J, Patinvoh RJ, Horváth IS (2021) Effect of anaerobic digestion of manure before application to soil – benefits for nitrogen utilisation? Int J Recycl Org Waste Agric 10:89-99. https://doi.org/10.30486/IJROWA.2020.1897538.1055
  17. Frenzel P, Bosse U, Janssen PH (1999) Rice roots and methanogenesis in a paddy soil: Ferric iron as an alternative electron acceptor in rooted soil. Soil Biol Bochem 31:421-430. https://doi.org/10.1016/S0038-0717(98)00144-8
  18. Frick H, Efosa N, Oberson A, Krause H-M, Nägele H-J, Frossard E, Bünemann EK (2023) Nitrogen dynamics after slurry application as affected by anaerobic digestion, biochar and a nitrification inhibitor. Soil Use Manage 40:e12953. https://doi.org/10.1111/sum.12953
  19. Gupta K, Kumar R, Baruah KK, Hazarika S, Karmakar S, Bordoloi N (2021) Greenhouse gas emission from rice fields: a review from Indian context. Environ Sci Pollut Res 28:30551–30572. https://doi.org/10.1007/s11356-021-13935-1
  20. Hafner SD, Pacholski A, Bittman S, Burchill W, Bussink W, Chantigny M, Sommer SG (2018) The ALFAM2 database on ammonia emission from field-applied manure: description and illustrative analysis. Agric for Meteorol 258:66–79. https://doi.org/10.1016/j.agrformet.2017.11.027
  21. Hales BA, Edwards C, Ritchie DA, Hall G, Pickup RW, Saunders JR (1996) Isolation and identification of methanogen-specific DNA from blanket bog peat by PCR amplification and sequence analysis. Appl Environ Microbiol 62:668-675. https://doi.org/10.1128/aem.62.2.668-675.1996
  22. Holmes AJ, Roslev P, McDonald IR, Iversen N, Henriksen K, Murrell JC (1999) Characterization of methanotrophic bacterial populations in soils showing atmospheric methane uptake. Appl Environ Microbiol 65:3312-3318. https://doi.org/10.1128/AEM.65.8.3312-3318.1999
  23. Haque MM, Biswas JC, Maniruzzaman M, Hossain MB, Islam MR (2021) Water management and soil amendment for reducing emission factor and global warming potential but improving rice yield. Pad Water Environ 19:515-527. https://doi.org/10.1007/s10333-021-00851-w
  24. Hu J, Wu H, Sun Z, Peng Q, Zhao J, Hu R (2020) Ferrous iron addition decreases methane emissions induced by rice straw in flooded paddy soils. ACS Earth Space Chem 4:843-853. https://doi.org/10.1021/acsearthspacechem.0c00024
  25. Jain N, Pathak H, Mitra S, Bhatia A (2004) Emission of methane from rice fields – A review. J Sci Indust Res. 63:101-115.
  26. Jiménez-Ballesta R, San José FJ, Mongil-Manso J, Escudero-Campos L, Álvarez-Castellanos MP (2025) Properties of waterlogged soils developed on arkose and aeolian sands in an agro-silvopastoral system. Europ J Soil Sci 1: e70055. https://doi.org/10.1111/ejss.70055
  27. Jobbágy EG, Jackson RB (2000) The vertical distribution of soil organic carbon and its relation to climate and vegetation. Ecol Appl 10:423-436. https://doi.org/10.2307/2641104
  28. Keiluweit M, Wanzek T, Kleber M, Nico P, Fendorf S (2017) Anaerobic microsites have an unaccounted role in soil carbon stabilization. Nat Commun 8:1771. https://doi.org/10.1038/s41467-017-01406-6
  29. Kim SY, Gutierrez J, Kim PJ (2016) Unexpected stimulation of CH4 emissions under continuous no-tillage system in mono-rice paddy soils during cultivation. Geoderma 267:34-40. https://doi.org/10.1016/j.geoderma.2015.12.021
  30. Knief C (2019) Diversity of methane cycling microorganisms in soils and their relation to oxygen. Curr Iss Molecule Biol 33:23–56. https://doi.org/10.21775/cimb.033.023
  31. Lemes LM, Nyord T, Feilberg A, Hafner SD, Pedersen J (2023) Effect of anaerobic digestion on odor and ammonia emission from land-applied cattle manure. J Environ Manage 338:117815. https://doi.org/10.1016/j.jenvman.2023.117815
  32. Liu Y, Jia B, Zhang Y, Cui H, Li XG (2023a) The effect of waterlogging on soil organic carbon decomposition is dependent on its biochemistry. J Soil Sci Plant Nutr 23:4609–4619. https://doi.org/10.1007/s42729-023-01377-2
  33. Liu X, Shi Z, Bai H, Zhang J, Sun D, Chen Y (2023b) Soil carbon sequestration in paddy field and its simultaneous mineralization to supply available nutrients for the crops are affected by no-tillage with straw management: A meta-analysis. Appl Soil Ecol 188:104850. https://doi.org/10.1016/j.apsoil.2023.104850
  34. Mitra S, Wassmann R, Vlek PLG (2005) An appraisal of global wetland area and its organic carbon stock. Curr Sci 88:25-35. https://doi.org/000226364700011
  35. Muthayya S, Sugimoto JD, Montgomery S, Maberly GF (2014) An overview of global rice production, supply, trade, and consumption. Ann NY Acad Sci 1324:7–14. https://doi.org/10.1111/nyas.12540
  36. Nunoura T, Oida H, Miyazaki J, Miyashita A, Imachi H, Takai K (2008) Quantification of mcrA by fluorescent PCR in methanogenic and methanotrophic microbial communities. FEMS Microbiol Ecol 64:240-7. https://doi.org/10.1111/j.1574-6941.2008.00451.x
  37. Odlare M, Pell M, Arthurson JV, Abubaker J, Nehrenheim E (2014) Combined mineral N and organic waste fertilization-effects on crop growth and soil properties. J Agric Sci 152:134–145. https://doi.org/10.1017/S0021859612001050
  38. Oertel C, Matschullat J, Zurba K, Zimmermann F, Erasmi S (2016) Greenhouse gas emissions from soils—A review. Geochem 76:327-352. https://doi.org/10.1016/j.chemer.2016.04.002
  39. Pampolino MF, Laureles EV, Gines HC, Buresh RJ (2008) Soil carbon and nitrogen changes in long-term continuous lowland rice cropping. Soil Sci Soc Am J 72:798–807. https://doi.org/10.2136/sssaj2006.0334
  40. Pedizzi C, Regueiro L, Rodriguez-Verde I, Lema JM, Carballa M (2016) Effect of oxygen on the microbial activities of thermophilic anaerobic biomass. Bioresour Technol 211:765–768. https://doi.org/10.1016/j.biortech.2016.03.085
  41. Podmirseg SM, Waldhuber S, Knapp BA, Insam H, Goberna M (2019) Robustness of the autochthonous microbial soil community after amendment of cattle manure or its digestate. Biol Fertil Soils 55:565–576. https://doi.org/10.1007/s00374-019-01371-w
  42. Rath AK, Ramakrishnan B, Sethunathan N (2002) Effect of application of ammonium thiosulphate on production and emission of methane in a tropical rice soil. Agric Ecosyst Environ 90:319-325. https://doi.org/10.1016/S0167-8809(02)00031-2
  43. Sigurdarson JJ, Svane S, Karring H (2018) The molecular processes of urea hydrolysis in relation to ammonia emissions from agriculture. Rev Environ Sci Biotechnol 17:241–258. https://doi.org/10.1007/s11157-018-9466-1
  44. Smith KA, Ball T, Conen F, Dobbie KE, Massheder J, Rey A (2018) Exchange of greenhouse gases between soil and atmosphere: interactions of soil physical factors and biological processes. Europ J Soil Sci 69:10-20. https://doi.org/10.1111/ejss.12539
  45. Sogn TA, Dragicevic I, Linjordet R, Krogstad T, Eijsink VGH, Eich-Greatorex S (2018) Recycling of biogas digestates in plant production: NPK fertilizer value and risk of leaching. Int J Recycl Org Waste Agric 7:49–58. https://doi.org/10.1007/s40093-017-0188-0
  46. Vu QD, de Neergaard A, Tran ATD, Hoang QQ, Ly P, Tran TM, Jensen LS (2015) Manure, biogas digestate and crop residue management affects methane gas emissions from rice paddy fields on Vietnamese smallholder livestock farms. Nutr Cycl Agroecosyst 103:329–346. https://doi.org/10.1007/s10705-015-9746-x
  47. Wang X, Azarbad H, Leclerc L, Dozois J, Mukula E, Yergeau É (2022) A drying-rewetting cycle imposes more important shifts on soil microbial communities than does reduced precipitation. mSystems 7:e00247-22. https://doi.org/10.1128/msystems.00247-22
  48. Wassmann R, Neue HU, Ladha JK, Aulakh MS (2004) Mitigating greenhouse gas emissions from rice-wheat cropping systems in Asia. Environ Develop Sustain 6:65–90. https://doi.org/10.1023/B:ENVI.0000003630.54494.a7
  49. Wei L, Razavi BS, Wang W, Zhu Z, Liu S, Wu J, Kuzyakov Y, Ge T (2019) Labile carbon matters more than temperature for enzyme activity in paddy soil. Soil Biol Biochem 135:134-143. https://doi.org/10.1016/j.soilbio.2019.04.016
  50. Win AT, Toyota K, Win KT, Motobayashi T, Ookawa T, Hirasawa T, Chen D, Lu J (2014) Effect of biogas slurry application on CH4 and N2O emissions, Cu and Zn uptakes by whole crop rice in a paddy field in Japan. Soil Sci Plant Nutr 60:411–422. https://doi.org/0.1080/00380768.2014.899886
  51. Yagi K, Sriphirom P, Cha-un N, Fusuwankaya K, Chidthaisong A, Damen B, Towprayoon S (2019) Potential and promisingness of technical options for mitigating greenhouse gas emissions from rice cultivation in Southeast Asian countries. Soil Sci Plant Nutr 66:37–49. https://doi.org/10.1080/00380768.2019.1683890
  52. Yu H, Zhang X, Meng X, Luo D, Liu X, Zhang G, Zhu C, Li Y, Yu Y, Yao H (2023) Methanogenic and methanotrophic communities determine lower CH4 fluxes in a subtropical paddy field under long-term elevated CO2. Sci Tot Environ 904:166904. https://doi.org/10.1016/j.scitotenv.2023.166904
  53. Zhang Z, Macedo I, Linquist BA, Sander BO, Pittelkow CM (2024) Opportunities for mitigating net system greenhouse gas emissions in Southeast Asian rice production: A systematic review. Agric Ecosyst Environ 361:108812. https://doi.org/10.1016/j.agee.2023.108812
  54. Zhu K, Zhou T, Li Z, Zhang W, Wang Z, Gu J, Yang J (2024) Controlled irrigation can mitigate the greenhouse effects of rice paddy fields with long-term straw return and stimulate microbial necromass carbon accumulation. Field Crop Res 317:109571. https://doi.org/10.1016/j.fcr.2024.109571