Abstract
Aims
The application of cover crop residue is an important means in managing paddy soil. This study was to investigate the influences of minerals on the mineralization of organic matter and the community and necromass of microbes in paddy soils amended with cover crop residue.
Methods
13C-labelled cover crop residue (Astragalus sinicus L.) was prepared using a pulse labeling method. The mineralization of cover crop residue and native soil organic matter and the community and necromass of microbes in two flooded paddy soils amended with or without illite, goethite and ferrihydrite was investigated by incubation experiments. The released CO2/CH4 was analyzed by gas chromatography. Amino sugar was used as the biomarker of microbial residue carbon. Soil microbial communities were analyzed by high-throughput sequencing and quantitative polymerase chain reaction.
Results
Illite, goethite and ferrihydrite significantly decreased the amounts of both CO2 and CH4 emissions from native soil organic carbon in both paddy soils. Moreover, the inhibition efficiency followed the same sequence of ferrihydrite > goethite > illite for both CO2 and CH4 emissions. However, ferrihydrite significantly stimulated the mineralization of cover crop residue in both paddy soils. The examined minerals, especially ferrihydrite, also tended to decrease bacterial and fungal abundance and diversity in both paddy soils. Moreover, the contents of both bacterial and fungal residue carbon were significantly decreased by the examined minerals in alkaline paddy soil.
Conclusion
Examined minerals tended to decrease total mineralization of cover crop residue and native organic matter, the microbial abundance, diversity, and necromass in flooded paddy soils.
Similar content being viewed by others
Data availability
Data are available from the corresponding author on reasonable request.
References
Abbas F, Hammad HM, Ishaq W, Farooque AA, Bakhat HF, Zia Z, Fahad S, Farhad W, Cerdà A (2020) A review of soil carbon dynamics resulting from agricultural practices. J Environ Manage 268
Adhikari D, Dunham-Cheatham SM, Wordofa DN, Verburg P, Poulson SR, Yang Y (2019) Aerobic respiration of mineral-bound organic carbon in a soil. Sci Total Environ 651:1253–1260
Auffan M, Achouak W, Rose J, Roncato MA, Chaneac C, Waite DT, Masion A, Woicik JC, Wiesner MR, Bottero JY (2008) Relation between the redox state of iron-based nanoparticles and their cytotoxicity toward Escherichia coli Environ Sci Technol 42:6730–6735
Bahram M, Bro R, Stedmon C, Afkhami A (2006) Handling of Rayleigh and Raman scatter for PARAFAC modeling of fluorescence data using interpolation. J Chemom 20:99–105
Bai X, Yang X, Zhang S (2021) Newly assimilated carbon allocation in grassland communities under different grazing enclosure times. Biol Fertil Soils 57:563–574
Bourne DG, McDonald IR, Murrell JC (2001) Comparison of pmoA PCR primer sets as tools for investigating methanotroph diversity in three Danish soils. Appl Environ Microbiol 67:3802–3809
Boye K, Noël V, Tfaily MM, Bone SE, Williams KH, Bargar JR, Fendorf S (2017) Thermodynamically controlled preservation of organic carbon in floodplains. Nat Geosci 10:415–419
Button ES, Chadwick DR, Jones DL (2022) Addition of iron to agricultural topsoil and subsoil is not an effective C sequestration strategy. Geoderma 409
Chen C, Hall SJ, Coward E, Thompson A (2020) Iron-mediated organic matter decomposition in humid soils can counteract protection. Nat Commun 11:2255
Chen M, Zhang S, Liu L, Liu J, Ding X (2022) Organic fertilization increased soil organic carbon stability and sequestration by improving aggregate stability and iron oxide transformation in saline–alkaline soil. Plant Soil 474:233–249
Cornell RM, Schwertmann U (2003) The iron oxides: structure, properties, reactions, occurrences and uses. Weinheim
Duan X, Li Z, Li Y, Yuan H, Gao W, Chen X, Ge T, Wu J, Zhu Z (2023) Iron-organic carbon associations stimulate carbon accumulation in paddy soils by decreasing soil organic carbon priming. Soil Biol Biochem 179
Fang Y, Singh BP, Collins D, Li B, Zhu J, Tavakkoli E (2018a) Nutrient supply enhanced wheat residue-carbon mineralization, microbial growth, and microbial carbon-use efficiency when residues were supplied at high rate in contrasting soils. Soil Biol Biochem 126:168–178
Fang Y, Singh BP, Luo Y, Boersma M, Van Zwieten L (2018b) Biochar carbon dynamics in physically separated fractions and microbial use efficiency in contrasting soils under temperate pastures. Soil Biol Biochem 116:399–409
Finley BK, Mau RL, Hayer M, Stone BW, Morrissey EM, Koch BJ, Rasmussen C, Dijkstra P, Schwartz E, Hungate BA (2022) Soil minerals affect taxon-specific bacterial growth. ISME J 16:1318–1326
Franks M, Duncan E, King K, Vazquez-Ortega A (2021) Role of Fe- and Mn-(oxy)hydroxides on carbon and nutrient dynamics in agricultural soils: a chemical sequential extraction approach. Chem Geol 561
Garcia-Pausas J, Paterson E (2011) Microbial community abundance and structure are determinants of soil organic matter mineralisation in the presence of labile carbon. Soil Biol Biochem 43:1705–1713
Gardes M, Bruns TD (1993) ITS primers with enhanced specificity for basidiomycetes-application to the identification of mycorrhizae and rusts. Mol Ecol 2:113–118
Hall S, Silver W (2013) Iron oxidation stimulates organic matter decomposition in humid tropical forest soils. Glob Change Biol 19:2804–2813
Han Y, Qu C, Hu X, Wang P, Wan D, Cai P, Rong X, Chen W, Huang Q (2022) Warming and humidification mediated changes of DOM composition in an Alfisol. Sci Total Environ 805
He S, Feng Y, Ren H, Zhang Y, Gu N, Lin X (2011) The impact of iron oxide magnetic nanoparticles on the soil bacterial community. J Soils Sediments 11:1408–1417
He Z, Zhu Y, Feng J, Ji Q, Chen X, Pan X (2021) Long-term effects of four environment-related iron minerals on microbial anaerobic oxidation of methane in paddy soil: a previously overlooked role of widespread goethite. Soil Biol Biochem 161
Huang Y, Huang L, Nie J, Geng M, Lu Y, Liao Y, Xue B (2022) Efects of substitution of chemical fertilizer by Chinese milk vetch on distribution and composition of aggregates–associated organic carbon fractions in paddy soils. Plant Soil 481:641–659
Jeewani PH, Che L, Zwieten LV, Shen C, Guggenberger G, Luo Y, Xu J (2020) Shifts in the bacterial community along with root-associated compartments of maize as affected by goethite. Biol Fertil Soils 56:1201–1210
Jeewani PH, Luo Y, Yu G, Fu Y, He X, Zwieten LV, Liang C, Kumar A, He Y, Kuzyakov Y, Qin H, Guggenberger G, Xu J (2021a) Arbuscular mycorrhizal fungi and goethite promote carbon sequestration via hyphal-aggregate mineral interactions. Soil Biol Biochem 162
Jeewani PH, Zwieten LV, Zhu Z, Ge T, Guggenberger G, Luo Y, Xu J (2021b) Abiotic and biotic regulation on carbon mineralization and stabilization in paddy soils along iron oxide gradients. Soil Biol Biochem 160:108312
Kane ES, Veverica TJ, Tfaily MM, Lilleskov EA, Meingast KM, Kolka RK, Daniels AL, Chimner RA (2019) Reduction-oxidation potential and dissolved organic matter composition in northern peat soil: interactive controls of water table position and plant functional groups. J Geophys Res: Biogeosci 124:3600–3617
Keiluweit M, Wanzek T, Kleber M, Nico P, Fendorf S (2018) Anaerobic microsites have unaccounted role in soil carbon stabilization. Nat Commun 8:1171
Lavie S, Stotzky G (1986) Adhesion of the clay minerals montmorillonite, kaolinite, and attapulgite reduces respiration of Histoplasma Capsulatum Appl Environ Microbiol 51:65–73
Lee HS, Hur J, Lee MH, Brogi SR, Kim TW, Shin HS (2019) Photochemical release of dissolved organic matter from particulate organic matter: spectroscopic characteristics and disinfection by–product formation potential. Chemosphere 235:586–595
Li Y, Shahbaz M, Zhu Z, Chen A, Nannipieri P, Li B, Deng Y, Wu J, Ge T (2021a) Contrasting response of organic carbon mineralisation to iron oxide addition under conditions of low and high microbial biomass in anoxic paddy soil. Biol Fertil Soils 57:117–129
Li Y, Shahbaz M, Zhu Z, Deng Y, Tong Y, Chen L, Wu J, Ge T (2021b) Oxygen availability determines key regulators in soil organic carbon mineralisation in paddy soils. Soil Biol Biochem 153:108106
Liang C, Schimel JP, Jastrow JD (2017) The importance of anabolism in microbial control over soil carbon storage. Nat Microbiol 2:1–6
Liang C, Amelung W, Lehmann J, Kastner M (2019) Quantitative assessment of microbial necromass contribution to soil organic matter. Glob Change Biol 25:3578–3590
Liu YR, Delgado-Baquerizo M, Wang JT, Hu HW, Yang Z, He JZ (2018) New insights into the role of microbial community composition in driving soil respiration rates. Soil Biol Biochem 118:35–41
Liu X, Wu Y, Sun R, Hu S, Qiao Z, Wang S, Mi X (2020) NH4+-N/NO3–-N ratio controlling nitrogen transformation accompanied with NO2–-N accumulation in the oxic-anoxic transition zone. Environ Res 189
Liu M, Zhu J, Yang X, Fu Q, Hu H, Huang Q (2022) Mineralization of organic matter during the immobilization of heavy metals in polluted soil treated with minerals. Chemosphere 301
Lu R (1999) Method of soil agro-chemical analysis (in Chinese). China Agricultural Science and Technology, Beijing
Luton PE, Wayne JM, Sharp RJ, Riley PW (2002) The mcrA gene as an alternative to 16S rRNA in the phylogenetic analysis of methanogen populations in landfill. Microbiology 148:3521–3530
Ma T, Zhu S, Wang Z, Chen D, Dai G, Feng B, Su X, Hu H, Li K, Han W, Liang C, Bai Y, Feng X (2018) Divergent accumulation of microbial necromass and plant lignin components in grassland soils. Nat Commun 9:1–9
Mccormick ML, Adriaens P (2004) Carbon tetrachloride transformation on the surface of nanoscale biogenic magnetite particles. Environ Sci Technol 38:1045–1053
Mikutta R, Mikutta C, Kalbitz K, Scheel T, Kaiser K, Jahn R (2007) Biodegradation of forest floor organic matter bound to minerals via different binding mechanisms. Geochim Cosmochim Acta 71:2569–2590
Minamikawa K, Sakai N (2006) The practical use of water management based on soil redox potential for decreasing methane emission from a paddy field in Japan. Agric Ecosyst Environ 116:181–188
Mo F, Zhang YY, Liu Y, Liao YC (2021) Microbial carbon-use efficiency and straw-induced priming effect within soil aggregates are regulated by tillage history and balanced nutrient supply. Biol Fertil Soils 57:409–420
Murphy KR, Stedmon CA, Graeber D, Bro R (2013) Fluorescence spectroscopy and multi-way techniques. PARAFAC. Anal Methods 5:6557–6566
Nilsson RH, Larsson KH, Taylor AFS, Bengtsson-Palme J, Jeppesen TS, Schigel D, Kennedy P, Picard K, Glockner FO, Tedersoo L, Saar I, Koljalg U, Abarenkov K (2019) The UNITE database for molecular identification of fungi: handling dark taxa and parallel taxonomic classifications. Nucleic Acids Res 47:D259–D264
Pronk GJ, Heister K, Vogel C, Babin D, Bachmann J, Ding GD, Ditterich F (2017) Interaction of minerals, organic matter, and microorganisms during biogeochemical interface formation as shown by a series of artificial soil experiments. Biol Fertil Soils 53:9–22
Qi L, Ma Z, Chang SX, Zhou P, Huang R, Wang Y, Wang Z, Gao M (2021) Biochar decreases methanogenic archaea abundance and methane emissions in a flooded paddy soil. Sci Total Environ 752
Qiu C, Feng Y, Wu M, Zhang J, Chen X, Li Z (2019) NanoFe3O4 accelerates methanogenic straw degradation in paddy soil enrichments. Appl Soil Ecol 144:155–164
Qu C, Qian S, Chen L, Guan Y, Zheng L, Liu S, Chen W, Cai P, Huang Q (2019) Size-dependent bacterial toxicity of hematite particles. Environ Sci Technol 53:8147–8156
Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P, Peplies J, Glöckner FO (2013) The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res 41:D590–D596
Rakhsh F, Golchin A, Agha ABA, Nelson PN (2020) Mineralization of organic carbon and formation of microbial biomass in soil: effects of clay content and composition and the mechanisms involved. Soil Biol Biochem 151
Saidy A, Smernik R, Baldock J, Kaiser K, Sanderman J, Macdonald L (2012) Effects of clay mineralogy and hydrous iron oxides on labile organic carbon stabilisation. Geoderma 173–174:104–110
Saidy AR, Smernik RJ, Baldock JA, Kaiser K, Sanderman J (2015) Microbial degradation of organic carbon sorbed to phyllosilicate clays with and without hydrous iron oxide coating. Eur J Soil Sci 66:83–94
Singh S, Inamdar S, Scott D (2013) Comparison of two PARAFAC models of dissolved organic matter fluorescence for a mid-atlantic forested watershed in the USA. J Ecosyst 2013:1–16
Sokol NW, Slessarev E, Marschmann GL, Nicolas A, Blazewicz SJ, Brodie EL, Firestone MK, Foley MM, Hestrin R, Hungate BA, Koch BJ, Stone BW, Sullivan MB, Zablocki O, Pett-Ridge J (2022) Life and death in the soil microbiome: how ecological processes influence biogeochemistry. Nat Rev Microbiol 20:415–430
Stedmon CA, Bro R (2008) Characterizing dissolved organic matter fluorescence with parallel factor analysis: a tutorial. Limnol Oceanogr Methods 6:572–579
Troyer ID, Amery F, Moorleghem CV, Smolders E, Merckx R (2011) Tracing the source and fate of dissolved organic matter in soil after incorporation of a 13C labelled residue: a batch incubation study. Soil Biol Biochem 43:513–519
Vance ED, Brookes PC, Jenkinson DS (1987) An extraction method for measuring soil microbial biomass C. Soil Biol Biochem 19:703–707
Vieira S, Sikorski J, Gebala A, Boeddinghaus RS, Marhan S, Rennert T, Kandeler E, Overmann J (2020) Bacterial colonization of minerals in grassland soils is selective and highly dynamic. Environ Microbiol 22:917–933
Wang M, Hu R, Zhao J, Kuzyakov Y, Liu S (2016) Iron oxidation affects nitrous oxide emissions via donating electrons to denitrification in paddy soils. Geoderma 271:173–180
Wang B, Huang Y, Li N, Yao H, Yang E, Soromotin AV, Kuzyakov Y, Cheptsov V, Yang Y, An S (2022) Initial soil formation by biocrusts: nitrogen demand and clay protection control microbial necromass accrual and recycling. Soil Biol Biochem 167
Weishaar JL, Aiken GR, Bergamaschi BA, Fram MS, Fujii R, Mopper K (2003) Evaluation of specific ultraviolet absorbance as an indicator of the chemical composition and reactivity of dissolved organic carbon. Environ Sci Technol 37:4702–4708
Whitman T, Neurath R, Perera A, Chu-Jacoby I, Ning D, Zhou J, Nico P, Pett-Ridge J, Firestone M (2018) Microbial community assembly differs across minerals in a rhizosphere microcosm. Environ Microbiol 20:4444–4460
Woo SH, Enders A, Lehmann J (2016) Microbial mineralization of pyrogenic organic matter in different mineral systems. Org Geochem 98:18–26
Xu JX, Li XM, Sun GX, Cui L, Ding LJ, He C, Li LG, Shi Q, Smets BF, Zhu YG (2019) Fate of labile organic carbon in paddy soil is regulated by microbial ferric iron reduction. Environ Sci Technol 53:8533–8542
Xu P, Liu Y, Zhu J, Shi L, Fu Q, Chen J, Hu H, Huang Q (2020) Influence mechanisms of long-term fertilizations on the mineralization of organic matter in ultisol. Soil Tillage Res 201:1–8
Xu P, Wu J, Wang H, Han S, Zhu J, Fu Q, Geng M, Hu H, Huang Q (2021) Long–term partial substitution of chemical fertilizer with green manure regulated organic matter mineralization in paddy soil dominantly by modulating organic carbon quality. Plant Soil 468:459–473
Yao J, Qin S, Liu T, Clough TJ, Monnig NW, Luo J, Hu C, Ge T, Zhou S (2022) Rice root Fe plaque enhances oxidation of microbially available organic carbon via Fe(III) reduction-coupled microbial respiration. Soil Biol Biochem 167
Yuan C, Na S, Li F, Hu H (2021) Impact of sulfate and iron oxide on bacterial community dynamics in paddy soil under alternate watering conditions. J Hazard Mater 408
Zhang X, Amelung W (1996) Gas chromatographic determination of muramic acid, glucosamine, mannosamine, and galactosamine in soils. Soil Biol Biochem 28:1201–1206
Zhu Z, Fang Y, Liang Y, Li Y, Liu S, Li Y, Li B, Gao W, Yuan H, Kuzyakov Y, Wu J (2022) Stoichiometric regulation of priming effects and soil carbon balance by microbial life strategies. Soil Biol Biochem 169
Zhuang Y, Zhu J, Shi L, Fu Q, Hu H, Huang Q (2022) Influence mechanisms of iron, aluminum and manganese oxides on the mineralization of organic matter in paddy soil. J Environ Manage 301
Funding
The research was supported by Natural Science Foundation of China (Grant number: 41877031).
Author information
Authors and Affiliations
Contributions
Lei Shi: Methodology, Investigation, Data curation, Formal analysis, Writing-Original draft preparation, Jun Zhu: Conceptualization, Supervision, Funding acquisition, Writing-Review and Editing, Qingling Fu: Methodology, Resources, Hongqing Hu: Resources, Qiaoyun Huang: Resources.
Corresponding author
Ethics declarations
Conflict of interest
The authors declare no competing interests.
Additional information
Responsible Editor: Al Imran Malik.
Publisher’s Note
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Supplementary information
Below is the link to the electronic supplementary material.
ESM 1
(DOC 1.26 MB)
Rights and permissions
Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.
About this article
Cite this article
Shi, L., Zhu, J., Fu, Q. et al. Role of minerals in regulating the mineralization of cover crop residue and native organic matter and the community and necromass of microbes in flooded paddy soils. Plant Soil (2024). https://doi.org/10.1007/s11104-024-06593-y
Received:
Accepted:
Published:
DOI: https://doi.org/10.1007/s11104-024-06593-y