Skip to main content

Advertisement

Log in

Conversion of Land Use from Upland to Paddy Field Changes Soil Bacterial Community Structure in Mollisols of Northeast China

  • Soil Microbiology
  • Published:
Microbial Ecology Aims and scope Submit manuscript

Abstract

Mollisols are extremely important soil resource for crop and forage production. In northeast China, it is a major land use management practice from dry land crops to irrigated rice. However, there is few data regarding soil quality and microbial composition in Mollisols during land use transition. Here, we analyzed the upper 30 cm of soil from land with more than 30 years of paddy use and from adjacent areas with upland crops. Our results showed that land use and soil depth had a significant effect on soil properties and enzyme activities. Soil moisture (SM) and soil organic carbon (SOC) contents were substantially higher in paddy fields than in upland crop lands, while nitrogen-related enzyme activities were lower. Following the land use change, bacterial diversity was increased and bacterial community composition changed. Taxonomic analyses showed that Proteobacteria, Chloroflexi, Firmicutes, and Bacteroidetes were the dominant phyla present. At family level, Gemmatimonadaceae decreased with land use change, while Syntrophorhabdaceae and Syntrophacea that play a part in methane cycling and nitrifying bacteria such as Nitrospiraceae increased, indicating that the structure and composition of the bacterial community might be a promising indicator of Mollisol health. Redundancy analysis indicated that land use type had a stronger effect on the soil bacterial community composition than soil depth. Additionally, bacterial community composition was closely associated with soil parameters such as soil moisture, pH, SOC, NO3-N, and NH4+-N. Overall, land use change affects the physical and chemical properties of the soil, resulting in changes in the composition of the soil bacterial community and flora. These changes could provide a view of the bacterial community assembly and functional shifts following land use change.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Fig. 1
Fig. 2
Fig. 3
Fig. 4
Fig. 5

Similar content being viewed by others

References

  1. Liu X, Burras CL, Kravchenko YS, Duran A, Huffman T, Morras H (2012) Overview of Mollisols in the world: distribution, land use and management. Can J Soil Sci 92:383–402

    CAS  Google Scholar 

  2. Liu J (2005) Effects of long-term continuous cropping, tillage, and fertilization on soil organic carbon and nitrogen of black soils in China. Commun Soil Sci Plan 36:1229–1239

    CAS  Google Scholar 

  3. Kharytonov M, Bagorka M, Gibson PT (2004) Erosion effects in the central steppe chernozem soils of Ukraine. I. soil properties. Agricultura 3:12–18

    Google Scholar 

  4. Russell AE, Laird DA, Parkin TB, Mallarino AP (2005) Impact of nitrogen fertilization and cropping system on carbon sequestration in midwestern mollisols. Soil Sci Soc Am J 69:413–422

    CAS  Google Scholar 

  5. Degens BP, Schipper LA, Sparling GP, Vojvodicvukovic M (2000) Decreases in organic C reserves in soils can reduce the catabolic diversity of soil microbial communities. Soil Biol Biochem 32:189–196

    CAS  Google Scholar 

  6. Brussaard L, Pcde R, Brown GG (2007) Soil biodiversity for agricultural sustainability. Agric Ecosyst Environ 121:233–244

    Google Scholar 

  7. Osler GHR, Sommerkorn M (2007) Toward a complete soil C and N cycle. Ecology 88:1611–1621

    PubMed  Google Scholar 

  8. Bolan NS (1991) A critical review on the role of mycorrhizal fungi in the uptake of phosphorus by plants. Plant & Soil 134:189–207

    CAS  Google Scholar 

  9. Long SR (1989) Rhizobium-legume nodulation: life together in the underground. Cell 56:203–214

    CAS  PubMed  Google Scholar 

  10. Zhang H, Sun Y, Xie X, Kim MS, Dowd SE, Paré PW (2009) A soil bacterium regulates plant acquisition of iron via deficiency-inducible mechanisms. Plant J. 58:568–577

    CAS  PubMed  Google Scholar 

  11. Lemenih M, Itanna F (2004) Soil carbon stocks and turnovers in various vegetation types and arable lands along an elevation gradient in southern Ethiopia. Geoderma 123:177–188

    CAS  Google Scholar 

  12. Li X, Zhang HH, Sun ML, Xu N, Sun GY, Zhao MC (2020) Land use change from upland to paddy field in Mollisols drives soil aggregation and associated microbial communities. Appl. Soil Ecol. 146:103351

    Google Scholar 

  13. Templer PH, Groffman PM, Flecker AS, Power AG (2005) Land use change and soil nutrient transformations in the Los Haitises region of the Dominican Republic. Soil Biol Biochem 37:215–225

    CAS  Google Scholar 

  14. Ying L, Bai W, Wang X, Cai Q, Liang W (2017) Responses of soil micro-food web to land use change from upland to paddy fields with different years of rice cultivation. Pedosphere 1:155–164

    Google Scholar 

  15. Liu Y, Chen X, Liu M, Qin J, Li H, Hu F (2013) Changes in soil microbial properties and nematode assemblage over time during rice cultivation. Biodivers. Sci. 21:334–342

    Google Scholar 

  16. Nüsslein K, Tiedje JM (1999) Soil bacteria community shift correlated with change from forest to pasture vegetation in a tropical soil. Appl Environ Microb 65:3622–3626

    Google Scholar 

  17. Alam MS, Ren GD, Lu L, Zheng Y, Peng XH, Jia ZJ (2013) Conversion of upland to paddy field specifically alters the community structure of archaeal ammonia oxidizers in an acid soil. Biogeosciences 10:5739–5753

    Google Scholar 

  18. Huang J, Sheng X, He L, Huang Z, Wang Q, Zhang Z (2013) Characterization of depth-related changes in bacterial community compositions and functions of a paddy soil profile. Fems Microbiol Lett 347:33–42

    CAS  PubMed  Google Scholar 

  19. Li XY, Wang HH, Li XY, Zhang HW (2019) Shifts in bacterial community composition increase with depth in three soil types from paddy fields in China. Pedobiologia 77:150589

    Google Scholar 

  20. Soil Survey Staff (2010) Keys to soil taxonomy,11th ed. USDA-Natural Resources Conservation Service, Washington, DC

    Google Scholar 

  21. Robertson GP, Wedin D, Groffman PM, Blair JM, Holland E, Nadelhoffer KJ, Harris D (1999) Soil carbon and nitrogen availability: Nitrogen mineralization, nitrification, and soil respiration potential. In: Robertson GP, Coleman DC, Bledsoe CS, Sollins P (eds) Standard Soil Methods for Long- Term Ecological Research. Oxford University Press, New York, pp 258–271

  22. Caporaso JG, Lauber CL, Walters WA, Berg-Lyons D, Lozupone CA, Turnbaugh PJ, Fierer N, Knight R (2011) Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample. P Natl Acade Sci USA 108:4516–4522

    CAS  Google Scholar 

  23. Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Peña AG, Goodrich JK, Gordon JI, Huttley GA, Kelley ST, Knights D, Koenig JE, Ley RE, Lozupone CA, McDonald D, Muegge BD, Pirrung M, Reeder J, Sevinsky JR, Turnbaugh PJ, Walters WA, Widmann J, Yatsunenko T, Zaneveld J, Knight R (2010) QIIME allows analysis of high-throughput community sequencing data. Nat Methods 7:335–336

    CAS  PubMed  PubMed Central  Google Scholar 

  24. Li HY, Wang H, Wang HT, Xin PY, Xu XH, Ma Y, Liu WP, Teng CY, Jiang CL, Lou LP, Arnold W, Cralle L, Zhu YG, Chu JF, Gilbert JA, Zhang ZJ (2018) The chemodiversity of paddy soil dissolved organic matter correlates with microbial community at continental scales. Microbiome 6:187

    PubMed  PubMed Central  Google Scholar 

  25. Pruesse E, Quast C, Knittel K, Fuchs BM, Ludwig W, Peplies J, Glöckner FO (2007) SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res. 35:7188–7196

    CAS  PubMed  PubMed Central  Google Scholar 

  26. Jiang N, Wei K, Chen L (2016) Long-term chronological shifts in bacterial communities and hydrolytic extracellular enzyme activities in the forty years following a land-use change from upland fields to paddy fields. Pedobiologia 59:17–26

    Google Scholar 

  27. Li Z, Wu X, Chen B (2007) Changes in transformation of soil organic C and functional diversity of soil microbial community under different land uses. Agr Sci China 6:1235–1245

    CAS  Google Scholar 

  28. Yu Z, Wanga G, Liu J, Liu X (2011) Soil microbial communities are affected more by land use than seasonal variation in restored grassland and cultivated Mollisols in Northeast China. Eur. J. Soil Biol. 47:357–363

    Google Scholar 

  29. Li Z (2002) Analysis for the balance of organic carbon pooles and their tendency in typical arable soils of eastern Chian. Acta Pedol. Sin. 39:351–360

    CAS  Google Scholar 

  30. Li ZP (1999) The utilization and development strategies of organic material in cultivated land of red soil regions. Soil Environ Sci 8:148–152

    CAS  Google Scholar 

  31. Ci E, Zhu J, Peng J, Fu ZW, Gao M, Xie DL (2013) Active fraction and δ 13C value of soil organic carbon in paddy fields under ridge-cultivation and no tillage system. Sci Agric Sin 46:978–986

  32. Shin-ichiOno (1989) Nitrogen mineralization from paddy and upland soils under flooded and nonflooded incubation. Soil Sci Plant Nutr 35:417–426

    Google Scholar 

  33. Suo QW, Ji BL, Gao JL, Sun ZRG, Gao HY, Hu M (2007) Analysis on distribution characteristics of soil nutrient in slit land by flood with high content of sand. Acta Agriculturae Boreali-Sinica 22:134–137

    Google Scholar 

  34. Yang YH, Chen YN, Li WH (2007) Soil properties and degree of desertification in lower reaches of Tarim river. J Soil Water Conserv 21:44–49

    Google Scholar 

  35. Kotroczó Z, Veres Z, Fekete I, Krakomperger Z, Tóth JA, Lajtha K, Tóthmérész B (2014) Soil enzyme activity in response to long-term organic matter manipulation. Soil Biol Biochem 70:237–243

    Google Scholar 

  36. Ling N, Sun Y, Ma J, Guo J, Zhu P, Peng C, Yu GH, Ran W, Guo SW, Shen Q (2014) Response of the bacterial diversity and soil enzyme activity in particle-size fractions of Mollisol after different fertilization in a long-term experiment. Biol Fert Soils 50:901–911

    CAS  Google Scholar 

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

    CAS  Google Scholar 

  38. Trivedi P, Rochester IJ, Trivedi C, Nostrand JDV, Zhou J, Karunaratne S, Anderson IA, Singh BK (2015) Soil aggregate size mediates the impacts of cropping regimes on soil carbon and microbial communities. Soil Biol Biochem 91:169–181

    CAS  Google Scholar 

  39. Kivlin SN, Treseder KK (2014) Soil extracellular enzyme activities correspond with abiotic factors more than fungal community composition. Biogeochemistry 117:23–37

    CAS  Google Scholar 

  40. Yang DW (2014) Evolution of soil properties and soil types after paddy field conversion to upland fields. Ph.D. Dissertation, Zhejiang University

  41. Brockett BFT, Prescott CE, Grayston SJ (2012) Soil moisture is the major factor influencing microbial community structure and enzyme activities across seven biogeoclimatic zones in western Canada. Soil Biol Biochem 44:9–20

    CAS  Google Scholar 

  42. Yan ZQ, Qi YC, Peng Q, Dong YS, Guo SF, He YL, Wang LQ, Li ZL (2017) Effects of increased precipitation and nitrogen deposition on soil enzyme activities. Acta Ecol Sin 37:3019–3027

    Google Scholar 

  43. Jin K, Sleutel S, Buchan D, Neve SD, Cai DX, Gabriels D, Jin JY (2009) Changes of soil enzyme activities under different tillage practices in the Chinese loess plateau. Soil Till Res 104:115–120

    Google Scholar 

  44. Kang H, Freeman C (1999) Phosphatase and arylsulphatase activities in wetland soils: annual variation and controlling factors. Soil Biol Biochem 31:449–454

    CAS  Google Scholar 

  45. Eilers KG, Debenport S, Anderson S, Fierer N (2012) Digging deeper to find unique microbial communities: the strong effect of depth on the structure of bacterial and archaeal communities in soil. Soil Biol Biochem 50:58–65

    CAS  Google Scholar 

  46. Watanabe T, Wang G, Taki K, Ohashi Y, Kimura M, Asakawa S (2010) Vertical changes in bacterial and archaeal communities with soil depth in Japanese paddy fields. Soil Sci Plant Nutr 56:705–715

    CAS  Google Scholar 

  47. Bi QF, Richter A, Lin XY, Zhu YG (2019) Functional diversity and dynamics of microbial communities in soil profiles along a 2000-year paddy soil chronosequence. EGU General Assembly 21:16787

    Google Scholar 

  48. Ye WJ, Liu XL, Lin SQ, Tan J, Pan JL, Li DT, Yang H (2009) The vertical distribution of bacterial and archaeal communities in the water and sediment of Lake Taihu. FEMS Microb Ecol 70:107–120

    Google Scholar 

  49. Logares R, Lindstrom ES, Langenheder S, Logue JB, Paterson H, Laybourn-Parry J, Rengefors K, Tranvik L, Bertilsson S (2013) Biogeography of bacterial communities exposed to progressive long-term environmental change. ISME J 7:937–948

    CAS  PubMed  Google Scholar 

  50. Zhang MM, Wang N, Zhang JY, Hu YB, Cai DJ, Guo JH, Wu D, Sun GY (2019) Soil physicochemical properties and the Rhizosphere soil fungal Community in a Mulberry (Morus alba L.)/alfalfa (Medicago sativa L.) intercropping system. Forests 10:167

    Google Scholar 

  51. Liang C, Jesus EDC, Duncan DS, Jackson RD, Tiedje JM, Balser TC (2012) Soil microbial communities under model biofuel cropping systems in southern Wisconsin, USA: impact of crop species and soil properties. Appl Soil Ecol 54:20–31

    Google Scholar 

  52. Rahman MH, Okubo A, Sugiyama S, Mayland HF (2008) Physical, chemical and microbiological properties of an andisol as related to land use and tillage practice. Soil Till Res 101:10–19

    Google Scholar 

  53. Steenwerth KL, Jackson LE, Francisco J, Calderón, Stromberg MR, Scow KM (2003) Soil microbial community composition and land use history in cultivated and grassland ecosystems of coastal California. Soil Biol Biochem 34:1599–1611

    Google Scholar 

  54. Liu J, Sui Y, Yu Z, Shi Y, Chu H, Jin J, Liu XB, Wang GH (2014) High throughput sequencing analysis of biogeographical distribution of bacterial communities in the black soils of Northeast China. Soil Biol Biochem 70:113–122

    CAS  Google Scholar 

  55. Yao Q, Liu JJ, Yu ZH, Li YS, Jin J, Liu XB, Wang GH (2017) Changes of bacterial community compositions after three years of biochar application in a black soil of northeast China. Appl Soil Ecol 113:11–21

    Google Scholar 

  56. Chen ML, Zeng QC, Huang YM, Ni YX (2018) Effects of the farmland-to-forest / grassland conversion program on the soil bacterial community in the loess hilly region. Environ Sci 039:1824–1832

    Google Scholar 

  57. Girvan MS, Bullimore J, Pretty JN, Osborn AM, Ball AS (2003) Soil type is the primary determinant of the composition of the total and active bacterial communities in arable soils. Appl Environ Microb 69:1800–1809

    CAS  Google Scholar 

  58. Chauhan PS, Chaudhry V, Mishra S, Nautiya LCS (2011) Uncultured bacterial diversity in tropical maize (Zea mays L.) rhizosphere. J Basic Microb 51:15–32

    CAS  Google Scholar 

  59. Green J, Bohannan BJ (2006) Spatial scaling of microbial biodiversity. Trends Ecol Evol 21:501–507

    PubMed  Google Scholar 

  60. Salles JF, van Veen JA, van Elsas JD (2004) Multivariate analyses of Burkholderia species in soil: effect of crop and land use history. Appl Environ Microbl 70:4012–4020

    CAS  Google Scholar 

  61. Ahmed Z (2012) Microbial communities in nutrient-removing membrane bioreactor: a review. J Environ Sci Technol 5:16–28

    CAS  Google Scholar 

  62. Ehrich S, Behrens D, Lebedeva E, Ludwig W, Bock E (1995) A new obligately chemolithoautotrophic, nitrite-oxidizing bacterium, Nitrospira moscoviensis sp. nov. and its phylogenetic relationship. Arch Microbiol 164:16–23

    CAS  PubMed  Google Scholar 

  63. Lopes AR, Manaia CM, Nunes OC (2014) Bacterial community variations in an alfalfa-rice rotation system revealed by 16S rRNA gene 454-pyrosequencing. FEMS Microbiol Ecol 87:650–663

    CAS  PubMed  Google Scholar 

  64. Lovely DR, Ueki T, Zhang T, Malvankar NS, Shrestha PM, Flanagan KA, Aklujkar M, Butler JE, Giloteaux L, Rotaru AE, Holmes DE, Franks AE, Orellana R, Risso C, Nevin KP (2011) Geobacter: the microbe electric’s physiology, ecology, and practical applications. Adv Microb Physiol 59:1–100

    Google Scholar 

  65. Röling WFM (2014) The family Geobacteraceae. In: Rosenberg E, DeLong EF, Lory S, Stackebrandt E, Thompson F (eds) The prokaryotes. Springer, Berlin, Heidelberg

    Google Scholar 

  66. Fawaz M (2013) Revealing the ecological role of Gemmatimonadetes through cultivation and molecular analysis of agricultural soils. Master's Thesis. University of Tennessee

  67. DeBruyn JM, Nixon LT, Fawaz MN, Johnson AM, Radosevich M (2011) Global biogeography and quantitative seasonal dynamics of Gemmatimonadetes in soil. Appl Environ Microb 77:6295–6300

    CAS  Google Scholar 

  68. Li X, Pang H, Zhao Y, Sun M, Zhang X, Xu N, He GQ, Zhang HH, Sun GY (2017) Shifts in the bacterial community structure and function along a vegetation gradient in the great Xing’an mountains. Scand J Forest Res 1:53

    Google Scholar 

  69. Fierer N, Schimel JP, Holden PA (2003) Variations in microbial community composition through two soil depth profiles. Soil Biol Biochem 35:167–176

    CAS  Google Scholar 

  70. Soraya A (2010) Tillage and nitrogen effects on soil physical and chemical properties and microbial community composition of an agricultural soil. Dement Geriatr Cogn 30:71

    Google Scholar 

  71. Opitz S, Küsel K, Spott O, Totsche KU, Herrmann M (2014) Oxygen availability and distance to surface environments determine community composition and abundance of ammonia-oxidizing prokaroytes in two superimposed pristine limestone aquifers in the Hainich region, Germany. FEMS Microbiol Ecol 90:39–53

    CAS  PubMed  Google Scholar 

Download references

Funding

The study was supported by the National Natural Science Foundation of China (41701289), China Postdoctoral Science Foundation (2018M640287), and “Young Talents” Project of Northeast Agricultural University (18QC11).

Author information

Authors and Affiliations

Authors

Corresponding authors

Correspondence to Lianfa Sun or Xin Li.

Supplementary Information

ESM 1

(DOCX 440 kb)

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Sun, M., Li, T., Li, D. et al. Conversion of Land Use from Upland to Paddy Field Changes Soil Bacterial Community Structure in Mollisols of Northeast China. Microb Ecol 81, 1018–1028 (2021). https://doi.org/10.1007/s00248-020-01632-4

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s00248-020-01632-4

Keywords

Navigation