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Response of organic carbon fractions and microbial community composition of soil aggregates to long-term fertilizations in an intensive greenhouse system

  • Soils, Sec 1 • Soil Organic Matter Dynamics and Nutrient Cycling • Research Article
  • Published:
Journal of Soils and Sediments Aims and scope Submit manuscript

Abstract

Purpose

Soil organic carbon (SOC) content and stability, which are regulated by microbial communities, vary depending on aggregate size. The objectives of this study were to investigate the distribution of the SOC fraction and microbial community composition within soil aggregates when subjected to different fertilization treatments.

Materials and methods

This study used high-throughput sequencing technology to analyze the soil microbial community distribution in different-sized aggregate fractions [> 2 mm (large macro-aggregates), 2–0.25 mm (small macro-aggregates), and < 0.25 mm (microaggregates)] when they were subjected to different fertilization treatments in a 16-year greenhouse experiment. The three treatments were chemical fertilizer (CF), 50% organic fertilizer + 50% chemical fertilizer (MF), and organic fertilizer (OF).

Results and discussion

The results showed that the application of organic fertilizer significantly increased the soil organic carbon (SOC), dissolvable organic carbon (DOC), and microbial biomass carbon (MBC) contents and changed microbial community composition in all the different-sized soil aggregates. We observed that OF significantly reduced the relative abundance of bacterial communities in all aggregates and significantly increased the relative abundances of fungal communities in small macro-aggregates. The larger fungal communities in small macro-aggregates could promote soil aggregation and C sequestration.

Conclusions

Organic fertilization increased the substrate contents in soil aggregates and enhanced soil aggregation and microbial activity in macro-aggregates, which are critical factors that facilitate C transformation and sequestration. These improvements resulted in significantly improved soil fertility and increased vegetable yield in the greenhouses.

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References

  • Albiach R, Canet R, Pomares F, Ingelmo F (2001) Organic matter components and aggregate stability after the application of different amendments to a horticultural soil. Bioresour Technol 76:125–129

    CAS  Google Scholar 

  • Álvarez-Martín A, Hilton SL, Bending GD, Rodríguez-Cruz MS, Sánchez-Martín MJ (2016) Changes in activity and structure of the soil microbial community after application of azoxystrobin or pirimicarb and an organic amendment to an agricultural soil. Appl Soil Ecol 106:47–57

    Google Scholar 

  • Briar SS, Fonte SJ, Park I, Six J, Scow K, Ferris H (2011) The distribution of nematodes and soil microbial communities across soil aggregate fractions and farm management systems. Soil Biol Biochem 43:905–914

    CAS  Google Scholar 

  • Cai AD, Xu MG, Wang BR, Zhang WJ, Liang GP, Hou EQ, Luo YQ (2019) Manure acts as a better fertilizer for increasing crop yields than synthetic fertilizer does by improving soil fertility. Soil Till Res 189:168–175

    Google Scholar 

  • Chang J, Wu X, Wang Y, Meyerson LA, Gu B J, Min Y, Xue H, Peng CH, Ge Y (2013) Does growing vegetables in plastic greenhouses enhance regional ecosystem services beyond the food supply? Front Ecol Environ 11:43–49

    Google Scholar 

  • Chen Q, Zhang XS, Zhang HY, Christie P, Li XL, Horlacher D, Liebig HP (2004) Evaluation of current fertilizer practice and soil fertility in vegetable production in the Beijing region. Nutr Cycl Agroecosyst 69:51–58

    Google Scholar 

  • Christel W, Zhu K, Hoefer C, Kreuzeder A, Santner J, Bruun B, Magid J, Jensen LS (2016) Spatiotemporal dynamics of phosphorus release, oxygen consumption and greenhouse gas emissions after localised soil amendment with organic fertilisers. Sci Total Environ 554-555:119–129

    CAS  Google Scholar 

  • Diacono M, Montemurro F (2010) Long-term effects of organic amendments on soil fertility. Agron Sustain Dev 30:401–402

    CAS  Google Scholar 

  • Dorado J, Zancada MC, Almendros G, López-Fando Dr C (2003) Changes in soil properties and humic substances after long-term amendments with manure and crop residues in dryland faming systems. J Plant Nutr Soil Sci 166:31–38

    CAS  Google Scholar 

  • Dorodnikov M, Blagodatskaya E, Blagodatsky S, Marhan S, Fangmeier A, Kuzyakov Y (2009) Stimulation of microbial extracellular enzyme activities by elevated CO2 depends on soil aggregate size. Glob Chang Biol 15:1603–1614

    Google Scholar 

  • Edgar RC, Haas BJ, Clemente JC, Quince C, Knight R (2011) UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27:2194–2200

    CAS  Google Scholar 

  • Garcia-Franco N, Martínez-Mena M, Goberna M, Albaladejo J (2015) Changes in soil aggregation and microbial community structure control carbon sequestration after afforestation of semiarid shrublands. Soil Biol Biochem 87:110–121

    CAS  Google Scholar 

  • Gattinger A, Muller A, Haeni M, Skinner C, Fliessbach A, Buchmann N, Mader P, Stolze M, Smith P, Scialabba NEH, Niggli U (2012) Enhanced top soil carbon stocks under organic farming. P Natl Acad Sci USA. 109:18226–18231

    CAS  Google Scholar 

  • Grundmann GL (2004) Spatial scales of soil bacterial diversity – the size of a clone. FEMS Microbiol Ecol 48:119–127

    CAS  Google Scholar 

  • Guo ZC, Zhang JB, Fan J, Yang XY, Yi YL, Han XR, Wang DZ, Zhu P, Peng XH (2019) Does animal manure application improve soil aggregation? Insights from nine long-term fertilization experiments. Sci Total Environ 660:1029–1037

    CAS  Google Scholar 

  • Han JP, Luo YH, Yang LP, Liu XM, Wu LS, Xu JM (2014) Acidification and salinization of soils with different initial pH under greenhouse vegetable cultivation. J Soil Sediment 14:1683–1692

    CAS  Google Scholar 

  • Han JP, Shi JC, Zeng LZ, Xu JM, Wu LS (2017) Impacts of continuous excessive fertilization on soil potential nitrification activity and nitrifying microbial community dynamics in greenhouse system. J. Soils Sediments 17:471–480

    CAS  Google Scholar 

  • He YT, Zhang WJ, Xu MG, Tong XG, Sun FX, Wang JZ, Huang SM, Zhu P, He XH (2015) Long-term combined chemical and manure fertilizations increase soil organic carbon and total nitrogen in aggregate fractions at three typical cropland soils in China. Sci Total Environ 532:635–644

    CAS  Google Scholar 

  • Hurisso TT, Davis JG, Brummer JE, Stromberger ME, Mikha MM, Haddix ML, Booher MR, Paul EA (2013) Rapid changes in microbial biomass and aggregate size distribution in response to changes in organic matter management in grass pasture. Geoderma 193-194:68–75

    CAS  Google Scholar 

  • Jiang YJ, Liu MQ, Zhang JB, Chen Y, Chen XY, Chen LJ, Li HX, Zhang XX, Sun B (2017) Nematode grazing promotes bacterial community dynamics in soil at the aggregate level. ISME J 11:2705–2717

    Google Scholar 

  • Ju XT, Kou CL, Christie P, Dou ZX, Zhang FS (2007) Changes in the soil environment from excessive application of fertilizers and manures to two contrasting intensive cropping systems on the North China Plain. Environ Pollut 145:497–506

    CAS  Google Scholar 

  • King GM (2011) Enhancing soil carbon storage for carbon remediation: potential contributions and constraints by microbes. Trends Microbiol 19:75–84

    CAS  Google Scholar 

  • Kõljalg U, Nilsson RH, Abarenkov K, Tedersoo L, Taylor AFS, Bahram M, Bates ST, Bruns TD, Bengtsson-Palme J, Callaghan TM (2013) Towards a unified paradigm for sequence - based identification of fungi. Mol Ecol 22:5271–5277

    Google Scholar 

  • Kong AYY, Scow KM, Córdova-Kreylos AL, Holmes WE, Six J (2011) Microbial community composition and carbon cycling within soil microenvironments of conventional, low-input, and organic cropping systems. Soil Biol Biochem 43:20–30

    CAS  Google Scholar 

  • Li FQ, Qiu PF, Shen B, Shen QR (2019) Soil aggregate size modifies the impacts of fertilization on microbial communities. Geoderma 343:205–214

    CAS  Google Scholar 

  • Liang Q, Chen HQ, Gong YS, Fan MS, Yang HF, Lal R, Kuzyakov Y (2012) Effects of 15 years of manure and inorganic fertilizers on soil organic carbon fractions in a wheat-maize system in the North China plain. Nutr Cycl Agroecosyst 92:21–33

    Google Scholar 

  • Liao H, Zhang YC, Zuo QY, Du BB, Chen WL, Wei D, Huang QY (2018) Contrasting responses of bacterial and fungal communities to aggregate-size fractions and long-term fertilizations in soils of northeastern China. Sci Total Environ 635:784–792

    CAS  Google Scholar 

  • Liu EK, Yan CR, Mei XR, He WQ, Bing SH, Ding LP, Liu Q, Liu SA, Fan TL (2010) Long-term effect of chemical fertilizer, straw, and manure on soil chemical and biological properties in Northwest China. Geoderma 158:173–180

    CAS  Google Scholar 

  • Liu WX, Wang QL, Wang BZ, Wang XB, Franks AE, Teng Y, Li ZG, Luo YM (2015) Changes in the abundance and structure of bacterial communities under long-term fertilization treatments in a peanut monocropping system. Plant Soil 395:415–427

    CAS  Google Scholar 

  • Lupatini M, Suleiman AKA, Jacques RJS, Antoniolli ZI, Kuramae EE, Camargo FAD, Roesch LFW (2013) Soil-Borne Bacterial Structure and Diversity Does Not Reflect Community Activity in Pampa Biome. PLoS One 8

  • Maeder P, Fliessbach A, Dubois D, Gunst L, Fried P, Niggli U (2002) Soil fertility and biodiversity in organic farming. Science 296:1694–1697

    Google Scholar 

  • Mäkipää R, Rajala T, Schigel D, Rinne KT, Pennanen T, Abrego N, Ovaskainen O (2017) Interactions between soil- and dead wood-inhabiting fungal communities during the decay of Norway spruce logs. ISME J 11:1964–1974

    Google Scholar 

  • Mangalassery S, Kalaivanan D, Philip PS (2018) Effect of inorganic fertilisers and organic amendments on soil aggregation and biochemical characteristics in a weathered tropical soil. Soil Till Res 187:144–151

    Google Scholar 

  • Neumann D, Heuer A, Hemkemeyer M, Martens R, Tebbe CC (2013) Response of microbial communities to long-term fertilization depends on their microhabitat. FEMS Microbiol Ecol 86:71–84

    CAS  Google Scholar 

  • Poeplau C, Don A (2015) Carbon sequestration in agricultural soils via cultivation of cover crops – a meta-analysis. Agric Ecosyst Environ 200:33–41

    CAS  Google Scholar 

  • Purakayastha TJ, Rudrappa L, Singh D, Swarup A, Bhadraray B (2008) Long-term impact of fertilizers on soil organic carbon pools and sequestration rates in maize–wheat–cowpea cropping system. Geoderma 144:370–378

    CAS  Google Scholar 

  • Reichstein M, Bahn M, Ciais P, Frank D, Mahecha MD, Seneviratne SI, Zscheischler J, Beer C, Buchmann N, Frank DC, Papale D, Rammig A, Smith P, Thonicke K, van der Velde M, Vicca S, Walz A, Wattenbach M (2013) Climate extremes and the carbon cycle. Nature 500:287–295

    CAS  Google Scholar 

  • Ruamps LS, Nunan N, Chenu C (2011) Microbial biogeography at the soil pore scale. Soil Biol Biochem 43:280–286

    CAS  Google Scholar 

  • Shen WS, Lin XG, Shi WM, Min J, Gao N, Zhang HY, Yin R, He XH (2010) Higher rates of nitrogen fertilization decrease soil enzyme activities, microbial functional diversity and nitrification capacity in a Chinese polytunnel greenhouse vegetable land. Plant Soil 337:137–150

    CAS  Google Scholar 

  • Singh BK, Bardgett RD, Smith P, Reay DS (2010) Microorganisms and climate change: terrestrial feedbacks and mitigation options. Nat Rev Microbiol 8:779–790

    CAS  Google Scholar 

  • Six J, Elliott ET, Paustian K (2000a) Soil macroaggregate turnover and microaggregate formation: a mechanism for C sequestration under no-tillage agriculture. Soil Biol Biochem 32:2099–2103

    CAS  Google Scholar 

  • Six J, Frey SD, Thiet RK, Batten KM (2006) Bacterial and fungal contributions to carbon sequestration in agroecosystems. Soil Sci Soc Am J 70:555–569

    CAS  Google Scholar 

  • Six J, Paustian K, Elliott ET, Combrink C (2000b) Soil structure and organic matter I. distribution of aggregate-size classes and aggregate-associated carbon. Soil Sci Soc Am J 64:681–689

    CAS  Google Scholar 

  • Sodhi GPS, Beri V, Benbi DK (2009) Soil aggregation and distribution of carbon and nitrogen in different fractions under long-term application of compost in rice–wheat system. Soil Till Res 103:412–418

    Google Scholar 

  • Sun R, Zhang XX, Guo X, Wang D, Chu H (2015) Bacterial diversity in soils subjected to long-term chemical fertilization can be more stably maintained with the addition of livestock manure than wheat straw. Soil Biol Biochem 88:9–18

    CAS  Google Scholar 

  • Tiemann LK, Grandy AS (2015) Mechanisms of soil carbon accrual and storage in bioenergy cropping systems. GCB Bioenergy 7:161–174

    CAS  Google Scholar 

  • Tilman D, Cassman KG, Matson PA, Naylor R Polasky S (2002) Agricultural sustainability and intensive production practices. Nature 418:671–677

    CAS  Google Scholar 

  • Trivedi P, Delgado-Baquerizo M, Jeffries TC, Trivedi C, Anderson IC, Lai K, McNee M, Flower K, Pal Singh B, Minkey D, Singh BK (2017) Soil aggregation and associated microbial communities modify the impact of agricultural management on carbon content. Environ Microbiol 19:3070–3086

    CAS  Google Scholar 

  • Udom BE, Nuga BO (2014) Hydraulic conductivity and aggregation of fine-textured soil under intensive cattle grazing. J Agric Sci 6:37–42

    Google Scholar 

  • Wang Q, Garrity GM, Tiedje JM, Cole JR (2007) Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microb 73:5261–5267

    CAS  Google Scholar 

  • Wang YD, Wang ZL, Zhang QZ, Hu N, Li ZF, Lou YL, Li Y, Xue DM, Chen Y, Wu CY, Zou CB, Kuzyakov Y (2018) Long-term effects of nitrogen fertilization on aggregation and localization of carbon, nitrogen and microbial activities in soil. Sci Total Environ 624:1131–1139

    CAS  Google Scholar 

  • Williams MA, Jangid K, Shanmugam SG, Whitman WB (2013) Bacterial communities in soil mimic patterns of vegetative succession and ecosystem climax but are resilient to change between seasons. Soil Biol Biochem 57:749–757

    CAS  Google Scholar 

  • Xie JY, Xu MG, Ciren Q, Yang Y, Zhang SL, Sun BH, Yang XY (2015) Soil aggregation and aggregate associated organic carbon and total nitrogen under long-term contrasting soil management regimes in loess soil. J Integr Agric 14:2405–2416

    CAS  Google Scholar 

  • Yu HY, Ding WX, Luo JF, Geng RL, Cai ZC (2012) Long-term application of organic manure and mineral fertilizers on aggregation and aggregate-associated carbon in a sandy loam soil. Soil Till Res 124:170–177

    Google Scholar 

  • Zhao Y, Luo JH, Chen XQ, Zhang XJ, Zhang WL (2012) Greenhouse tomato–cucumber yield and soil N leaching as affected by reducing N rate and adding manure: a case study in the Yellow River irrigation region China. Nutr Cycl Agroecosyst 94:221–235

    Google Scholar 

  • Zhuang J, McCarthy JF, Perfect E, Mayer LM, Jastrow JD (2008) Soil water hysteresis in water-stable microaggregates as affected by organic matter. Soil Sci Soc Am J 72:212–220

    CAS  Google Scholar 

Download references

Acknowledgments

We thank the anonymous reviewers and editors for their helpful comments on the manuscript.

Funding

This study was financially supported by the National Key Research and Development Program of China (grant NO. 2018YFD0500202) and the National Natural Science Foundation of China (grant No. 41571317).

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Authors and Affiliations

  1. College of Resources and Environmental Sciences, China Agricultural University, Beijing, 100193, China

    Lihong Tong, Ling Zhu, Yizhong Lv, Kun Zhu, Xiayan Liu & Rui Zhao

  2. State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai, 200092, China

    Ling Zhu

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  1. Lihong Tong
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  2. Ling Zhu
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  4. Kun Zhu
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Correspondence to Yizhong Lv.

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Responsible editor: Zucong Cai

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Tong, L., Zhu, L., Lv, Y. et al. Response of organic carbon fractions and microbial community composition of soil aggregates to long-term fertilizations in an intensive greenhouse system. J Soils Sediments 20, 641–652 (2020). https://doi.org/10.1007/s11368-019-02436-x

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