Effects of different long-term fertilization on rhizosphere soil nitrogen mineralization and microbial community composition under the double-cropping rice field

References

• Acosta-Martínez V, Tabatabai MA. 2000. Arylamidase activity of soils. Soil Sci Soc Am J. 64(1):215–221. doi: 10.2136/sssaj2000.641215x.
   Web of Science ®Google Scholar
• Bach HJ, Hartmann A, Schloter M, Munch JC. 2001. PCR primers and functional probes for amplification and detection of bacterial genes for extracellular peptidases in single strains and in soil. J Microbiol Methods. 44(2):173–182. doi: 10.1016/S0167-7012(00)00239-6.
   PubMed Web of Science ®Google Scholar
• Carpenter-Boggs L, Pikul JL, Vigil MF, Riedell WE. 2000. Soil nitrogen mineralization influenced by crop rotation and nitrogen fertilization. Soil Sci Soc Am J. 64(6):2038–2045. doi: 10.2136/sssaj2000.6462038x.
   Web of Science ®Google Scholar
• Cheng WG, Padre AT, Sato C, Shiono H, Hattori S, Kajihara A, Aoyama M, Tawaraya K, Kumagai K. 2016. Changes in the soil C and N contents, C decomposition and N mineralization potentials in a rice paddy after long-term application of inorganic fertilizers and organic matter. Soil Sci Plant Nutr. 62(2):212–219. doi: 10.1080/00380768.2016.1155169.
   Web of Science ®Google Scholar
• Collier JL, Baker KM, Bell SL. 2009. Diversity of urea-degrading microorganisms in open-ocean and estuarine planktonic communities. Environ Microbiol. 11(12):3118–3131. doi: 10.1111/j.1462-2920.2009.02016.x.
   PubMed Web of Science ®Google Scholar
• Daims H, Lebedeva EV, Pjevac P, Han P, Herbold C, Albertsen M, Jehmlich N, Palatinszky M, Vierheilig J, Bulaev A, et al. 2015. Complete nitrification by Nitrospira bacteria. Nature. 528(7583):504–509. doi:10.1038/nature16461.
   PubMed Web of Science ®Google Scholar
• Ding J, Jiang X, Ma M, Zhou B, Guan D, Zhao B, Zhou J, Cao F, Li L, Li J. 2016. Effect of 35 years inorganic fertilizer and manure amendment on structure of bacterial and archaeal communities in black soil of northeast China. Appl Soil Ecol. 105:187–195. doi: 10.1016/j.apsoil.2016.04.010.
   Web of Science ®Google Scholar
• Edgar RC. 2013. UPARSE: highly accurate OTU sequences from microbial amplicon reads. Nat Methods. 10(10):996–998. doi: 10.1038/nmeth.2604.
   PubMed Web of Science ®Google Scholar
• Fish JA, Chai B, Wang Q, Sun Y, Brown CT, Tiedje JM, Cole JR. 2013. FunGene: the functional gene pipeline and repository. Front Microbiol. 4:291. doi: 10.3389/fmicb.2013.00291.
   PubMed Web of Science ®Google Scholar
• Gou Z, Zheng H, He Z, Su Y, Chen S, Chen H, Chen G, Sun Y, Ma NL. 2023. The combined action of biochar and nitrogen-fixing bacteria on microbial and enzymatic activities of soil N cycling. Environ Pollut. 317:120790. doi: 10.1016/j.envpol.2022.120790.
   PubMed Web of Science ®Google Scholar
• Hartz TK, Mitchell JP, Giannini C. 2000. Nitrogen and carbon mineralization dynamics of manures and composts. Hortic Sci. 35(2):209–212. doi: 10.21273/HORTSCI.35.2.209.
   Google Scholar
• Herbold CW, Pelikan C, Kuzyk O, Hausmann B, Angel R, Berry D, Loy A. 2015. A flexible and economical barcoding approach for highly multiplexed amplicon sequencing of diverse target genes. Front Microbiol. 6:731. doi: 10.3389/fmicb.2015.00731.
   PubMed Web of Science ®Google Scholar
• Huang QR, Hu F, Huang S, Li HX, Yuan YH, Pan GX, Zhang WJ. 2009. Effect of long-term fertilization on organic carbon and nitrogen in a subtropical paddy soil. Pedosphere. 19(6):727–734. doi: 10.1016/S1002-0160(09)60168-5.
   Web of Science ®Google Scholar
• Jalali M, Mahdavi S, Ranjbar F. 2014. Nitrogen, phosphorus and sulfur mineralization as affected by soil depth in rangeland ecosystems. Environ Earth Sci. 72(6):1775–1788. doi: 10.1007/s12665-014-3082-3.
   Web of Science ®Google Scholar
• Kader MA, Sleutel S, Begum SA, Moslehuddin AZM, De Neve S. 2013. Nitrogen mineralization in sub-tropical paddy soils in relation to soil mineralogy, management, pH, carbon, nitrogen and iron contents. Eur J Soil Sci. 64(1):47–57. doi: 10.1111/ejss.12005.
   Web of Science ®Google Scholar
• Kader MA, Yeasmin S, Solaiman ZM, De NS, Sleutel S. 2017. Response of hydrolytic enzyme activities and nitrogen mineralization to fertilizer and organic matter application in subtropical paddy soils. Eur J Soil Biol. 80:27–34. doi: 10.1016/j.ejsobi.2017.03.004.
   Web of Science ®Google Scholar
• Khorsandi N, Nourbakhsh F. 2008. Prediction of potentially mineralizable N from amidohydrolase activities in a manure-applied, corn residue-amended soil. Eur J Soil Biol. 44(3):341–346. doi: 10.1016/j.ejsobi.2008.03.001.
   Web of Science ®Google Scholar
• Kielak AM, Cretoiu MS, Semenov AV, Sørensen S, van Elsas JD. 2013. Bacterial chitinolytic communities respond to chitin and pH alteration in soil. Appl Environ Microbiol. 79(1):263–272. doi: 10.1128/AEM.02546-12.
   PubMed Web of Science ®Google Scholar
• Li XF, Hou LJ, Liu M, Lin XB, Li Y, Li SW. 2016. Primary effects of extracellular enzyme activity and microbial community on carbon and nitrogen mineralization in estuarine and tidal wetlands. Appl Microbiol Biotechnol. 99(6):2895–2909. doi: 10.1007/s00253-014-6187-4.
   Web of Science ®Google Scholar
• McMurdie PJ, Holmes S, Watson M. 2013. Phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data. PloS One. 8(4):e61217. doi: 10.1371/journal.pone.0061217.
   PubMed Web of Science ®Google Scholar
• Mohanty M, Reddy SK, Probert ME, Dalal RC, Rao SA, Menzies NW. 2011. Modelling N mineralization from green manure and farmyard manure from a laboratory incubation study. Ecol Model. 222(3):719–726. doi: 10.1016/j.ecolmodel.2010.10.027.
   Web of Science ®Google Scholar
• Muruganandam S, Israel DW, Robarge WP. 2009. Activities of nitrogen mineralization enzymes associated with soil aggregate size fractions of three tillage systems. Soil Sci Soc Am J. 73(3):751–759. doi: 10.2136/sssaj2008.0231.
   Web of Science ®Google Scholar
• Nannipieri P, Giagnoni L, Renella G, Puglisi E, Ceccanti B, Masciandaro G, Fornasier F, Moscatelli MC, Marinari S. 2012. Soil enzymology: classical and molecular approaches. Biol Fertil Soils. 48(7):743–762. doi: 10.1007/s00374-012-0723-0.
   Web of Science ®Google Scholar
• Ouyang Y, Norton JM, Parales RE. 2020. Short-term nitrogen fertilization affects microbial community composition and nitrogen mineralization functions in an agricultural soil. Appl Environ Microbiol. 86(5):e02278–19. doi: 10.1128/AEM.02278-19.
   PubMed Web of Science ®Google Scholar
• Price MN, Dehal PS, Arkin AP. 2010. FastTree 2 – approximately maximum-likelihood trees for large alignments. PloS One. 5(3):e9490. doi: 10.1371/journal.pone.0009490.
   PubMed Web of Science ®Google Scholar
• SAS. 2008. SAS software of the SAS system for windows. Cary, NC, USA: SAS Institute Inc.
   Google Scholar
• Spiertz JHJ. 2010. Nitrogen, sustainable agriculture and food security. A review. Agron Sustain Dev. 30(1):43–55. doi: 10.1051/agro:2008064.
   Web of Science ®Google Scholar
• Stark JM, Hart SC. 1996. Diffusion technique for preparing salt solutions, Kjeldahl digests, and persulfate digests for nitrogen-15 analysis. Soil Sci Soc Am J. 60(6):1846–1855. doi: 10.2136/sssaj1996.03615995006000060033x.
   Web of Science ®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. doi: 10.1016/j.soilbio.2015.05.007.
   Web of Science ®Google Scholar
• Tabatabai MA, Bremner JM. 1972. Assay of urease activity in soils. Soil Biol Biochem. 4(4):479–487. doi: 10.1016/0038-0717(72)90064-8.
   Google Scholar
• Tabatabai MA, Ekenler M, Senwo ZN. 2010. Significance of enzyme activities in soil nitrogen mineralization, Commun. Soil Sci Plant Anal. 41(5):595–605. doi: 10.1080/00103620903531177.
   Web of Science ®Google Scholar
• Tang HM, Li C, Xiao XP, Pan XC, Cheng KK, Shi LH, Li WY, Wen L, Wang K. 2020. Effects of long-term fertiliser regime on soil organic carbon and its labile fractions under double cropping rice system of southern China. Acta Agric Scand Sect B—Soil Plant Sci. 70(5):409–418. doi: 10.1080/09064710.2020.1758763.
   Web of Science ®Google Scholar
• Tang HM, Xiao XP, Li C, Cheng KK, Pan XC, Li WY. 2019. Effects of rhizosphere and long-term fertilization practices on the activity and community structure of ammonia oxidisers under double-cropping rice field. Acta Agric Scand Sect B—Soil Plant Sci. 69(4):356–368. doi: 10.1080/09064710.2019.1576763.
   Web of Science ®Google Scholar
• Tang HM, Xiao XP, Tang WG, Li C, Wang K, Li WY, Cheng KK, Pan XC. 2018. Long-term effects of NPK fertilizers and organic manures on soil organic carbon and carbon management index under a double-cropping rice system in Southern China. Commun Soil Sci Plan. 49(16):1976–1989. doi: 10.1080/00103624.2018.1492600.
   Web of Science ®Google Scholar
• Whalen JK, Kernecker ML, Thomas BW, Ngosong C, Sachdeva V. 2013. Soil food web controls on nitrogen mineralization are influenced by agricultural practices in humid temperate climates. CAB Rev. 8:1–18. doi: 10.1079/PAVSNNR20138023.
   Google Scholar
• Yang S, Xiao J, Liang T, Tan H. 2023. Response of bacterial compositions to the use of slow-release fertilizers with long-acting agents and synergists. Appl Soil Ecol. 182:104699. doi: 10.1016/j.apsoil.2022.104699.
   Web of Science ®Google Scholar
• Zhang Q, Liang G, Zhou W, Sun J, Wang X, He P. 2016. Fatty-acid profiles and enzyme activities in soil particle-size fractions under long-term fertilization. Soil Sci Soc Am J. 80(1):97–111. doi: 10.2136/sssaj2015.07.0255.
   Web of Science ®Google Scholar
• Zhang J, Nie J, Cao W, Gao Y, Lu Y, Liao Y. 2023. Long-term green manuring to substitute partial chemical fertilizer simultaneously improving crop productivity and soil quality in a double-rice cropping system. Eur J Agron. 142:126641. doi: 10.1016/j.eja.2022.126641.
   Web of Science ®Google Scholar
• Zhu X, Ros GH, Xu M, Cai Z, Sun N, Duan Y, De VW. 2023. Long-term impacts of mineral and organic fertilizer inputs on nitrogen use efficiency for different cropping systems and site conditions in Southern China. Eur J Agron. 146:126797. doi: 10.1016/j.eja.2023.126797.
   Web of Science ®Google Scholar