Patterns and Dynamics of the Soil Microbial Community with Gradual Vegetation Succession in the Yellow River Delta, China

Abstract

As one of the youngest coastal wetland ecosystems in China, the Yellow River Delta has a gradual succession from bare land to grassland. Six typical communities were selected for the present study of the patterns and dynamics of soil microbial community under the gradual transitional succession. In which soil physicochemical properties such as soil pH, electrical conductivity, soil organic carbon, total nitrogen, and available phosphorus were measured simultaneously. The composition, structure, and variety of soil microorganisms were explored. Our results revealed that soil salinity decreased with succession, while soil organic carbon and total nitrogen exhibited an upward trend. Soil salinity, soil organic carbon, and total nitrogen were found to be the main factors that affect microbial composition and diversity in the Yellow River Delta. The phylum Gemmatimonadetes had the highest abundance in the saline bare land. Changes in the soil microbial composition and structure were observed under different succession stages, and microbial richness increased with succession. This research advances our understanding of the relationships among microbial species resources and soil environment with community succession in the Yellow River Delta. It could assist the identification of salt-tolerant microorganisms beneficial for future applications and saline-alkali land improvements.

This is a preview of subscription content, access via your institution.

Fig. 1
Fig. 2
Fig. 3
Fig. 4
Fig. 5

References

  1. Bokulich NA, Subramanian S, Faith JJ, Gevers D, Gordon JI, Knight R, Mills DA, Caporaso JG (2012) Quality-filtering vastly improves diversity estimates from illumina amplicon sequencing. Nature Methods 10(1):57–59

    Article  Google Scholar 

  2. 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. Nature Methods 7(5):335–336

    CAS  Article  Google Scholar 

  3. Cline LC, Zak DR (2016) Soil microbial communities are shaped by plant-driven changes in resource availability during secondary succession. Ecology 96(12):3374–3385

    Article  Google Scholar 

  4. Cong J, Yang YF, Liu XD, Lu H, Liu X, Zhou JZ, Li DQ, Yin HQ, Ding JJ, Zhang YG (2015) Analyses of soil microbial community compositions and functional genes reveal potential consequences of natural forest succession. Scientific Reports 5:10007

    CAS  Article  Google Scholar 

  5. Debruyn JM, Nixon LT, Fawaz MN, Johnson AM, Radosevich M (2011) Global biogeography and quantitative seasonal dynamics of gemmatimonadetes in soil. Applied and Environmental Microbiology 77(17):6295–6300

    CAS  Article  Google Scholar 

  6. Dini-Andreote F, Pylro VS, Baldrian P, van Elsas D, Salles JF (2016) Ecological succession reveals potential signatures of marine–terrestrial transition in salt marsh fungal communities. The ISME Journal 10(8):1984–1997

    CAS  Article  Google Scholar 

  7. Edgar RC (2013) Uparse: highly accurate otu sequences from microbial amplicon reads. Nature Methods 10(10):996–998

    CAS  Article  Google Scholar 

  8. Edgar RC, Haas BJ, Clemente JC, Quince C, Knight R (2011) Uchime improves sensitivity and speed of chimera detection. Bioinformatics 27(16):2194–2200

    CAS  Article  Google Scholar 

  9. Gholz HL, Wedin DA, Smitherman SM, Harmon ME, Parton WJ (2000) Long-term dynamics of pine and hardwood litter in contrasting environments: toward a global model of decomposition. Global Change Biology 6(7):751–765

    Article  Google Scholar 

  10. Haas BJ, Gevers D, Earl AM, Feldgarden M, Ward DV, Giannoukos G, Ciulla D, Tabbaa D, Highlander SK, Sodergren E, Methe B, DeSantis TZ, Petrosino JF, Knight R, Birren BW (2011) Chimeric 16S rRNA sequence formation and detection in sanger and 454-pyrosequenced PCR amplicons. Genome Research 21(3):494–504

    CAS  Article  Google Scholar 

  11. Harris J (2009) Soil microbial communities and restoration ecology: facilitators or followers? Science 325:573–574

    CAS  Article  Google Scholar 

  12. Heimann M, Reichstein M (2008) Terrestrial ecosystem carbon dynamics and climate feedbacks. Nature 451(7176):289–292

    CAS  Article  Google Scholar 

  13. Hou BD, Ma FY, Xing SJ, Song YM, Liu Y (2007) Soil and vegetation characteristics of wetland communities at different successive stages in the huanghe river delta. Journal of Zhejiang Forestry College 24(3):313–318

    CAS  Google Scholar 

  14. Huang LB, Bai JH, Wen XJ, Zhang GL, Zhang CD, Cui BS, Liu XH (2020) Microbial resistance and resilience in response to environmental changes under the higher intensity of human activities than global average level. Global Change Biology 26(4):2377–2389

    Article  Google Scholar 

  15. Jangid K, Williams MA, Franzluebbers AJ, Schmidt TM, Coleman DC, Whitman WB (2011) Land-use history has a stronger impact on soil microbial community composition than aboveground vegetation and soil properties. Soil Biology and Biochemistry 43(10):2184–2219

    CAS  Article  Google Scholar 

  16. Kuramae EE, Gamper HA, Yergeau E, Piceno YM, Brodie EL, DeSantis TZ, Andersen GL, Veen JA, Kowalchuk GA (2010) Microbial secondary succession in a chronosequence of chalk grasslands. The ISME Journal 4(5):711–715

    Article  Google Scholar 

  17. Li SN, Wang GX, Deng W, Hu YM, Hu WW (2009) Influence of hydrology process on wetland landscape pattern: a case study in the Yellow River Delta. Ecological Engineering 35(12):1719–1726

    Article  Google Scholar 

  18. Li H, Chi ZF, Li JL, Wu HT, Yan BX (2019) Bacterial community structure and function in soils from tidal freshwater wetlands in a chinese delta: potential impacts of salinity and nutrient. Science of The Total Environment. 696:134029

    CAS  Article  Google Scholar 

  19. Magoc T, Salzberg SL (2011) Flash: fast length adjustment of short reads to improve genome assemblies. Bioinformatics 27(21):2957–2963

    CAS  Article  Google Scholar 

  20. Moreno-Mateos D, Comin FA, Pedrocchi C, Rodriguez-Ochoa R (2008) Effects of wetland construction on nutrient, som and salt content in semi-arid zones degraded by intensive agricultural use. Applied Soil Ecology 40(1):57–66

    Article  Google Scholar 

  21. Palomo A, Jane Fowler S, Gülay A, Rasmussen S, Sicheritz-Ponten T, Smets BF (2016) Metagenomic analysis of rapid gravity sand filter microbial communities suggests novel physiology of nitrospira spp. The ISME Journal 10(11):2569–2581

    CAS  Article  Google Scholar 

  22. Pan SC, Wang XL, Chen M, Tan XN (2015) Determination of the effective phosphorus in soil by full Spectrum direct Reading plasma emission spectrometry. Multipurpose Utilization of Mineral Resources 3:59–61

    Google Scholar 

  23. Székely AJ, Berga M, Langenheder S (2013) Mechanisms determining the fate of dispersed bacterial communities in new environments. The ISME Journal 7(1):61–71

    Article  Google Scholar 

  24. Tang YS, Wang L, Jia JW, Fu XH, Le YQ, Chen XZ, Sun Y (2011) Response of soil microbial community in Jiuduansha wetland to different successional stages and its implications for soil microbial respiration and carbon turnover. Soil Biology & Biochemistry 43(3):638–646

    CAS  Article  Google Scholar 

  25. Vasquez-Cardenas D, van de Vossenberg J, Polerecky L, Malkin SY, Schauer R, Hidalgo-Martinez S, Confurius V, Middelburg JJ, Meysman FJR, Boschker HTS (2015) Microbial carbon metabolism associated with electrogenic Sulphur oxidation in coastal sediments. The ISME Journal 9(9):1966–1978

    CAS  Article  Google Scholar 

  26. Wang ZY, Xin YZ, Gao DM, Li FM, Morgan J, Xing BS (2010) Microbial community characteristics in a degraded wetland of the Yellow River Delta. Pedosphere 20(4):466–478

    Article  Google Scholar 

  27. Wang GH, Liu JJ, Yu ZH, Wang XZ, Jin J, Liu XB (2016) Research progress of Acidobacteria ecology in soils. Biotechnology Bulletin 32(2):14–20

    Google Scholar 

  28. Xi JB, Song YM, Xing SJ, Ma BY, Zhang JF, Chang LH (2002) The characteristics and succession law of ecosystem in the Yellow River Delta area. Journal of Northeast Forestry University 30(6):111–114

    Google Scholar 

  29. Yang H, Hu JX, Long XH, Liu ZP, Rengel Z (2016) Salinity altered root distribution and increased diversity of bacterial communities in the rhizosphere soil of Jerusalem artichoke. Scientific Reports 6:20687

    CAS  Article  Google Scholar 

  30. Yu Y, Wang H, Liu J, Wang Q, Shen TL, Guo WH, Wang RQ (2012) Shifts in microbial community function and structure along the successional gradient of coastal wetlands in Yellow River estuary. European Journal of Soil Biology 49:12–21

    Article  Google Scholar 

  31. Yu JB, Li YZ, Han GX, Zhou D, Fu YQ, Guan B, Wang GM, Ning K, Wu HF, Wang JH (2014) The spatial distribution characteristics of soil salinity in coastal zone of the Yellow River Delta. Environmental Earth Sciences 72(2):589–599

    Article  Google Scholar 

  32. Yuan BC, Li ZZ, Liu H, Gao M, Zhang YY (2007) Microbial biomass and activity in salt affected soils under and conditions. Applied Soil Ecology 35(2):319–328

    Article  Google Scholar 

  33. Zhang GS, Wang RQ, Song BM (2007) Plant community succession in modern Yellow River Delta, China. Journal of Zhejiang University-Science B 8(8):540–548

    Article  Google Scholar 

  34. Zhang C, Liu GB, Xue S, Wang GL (2016) Soil bacterial community dynamics reflect changes in plant community and soil properties during the secondary succession of abandoned farmland in the loess plateau. Soil Biology and Biochemistry 97:40–49

    CAS  Article  Google Scholar 

  35. Zhang GL, Bai JH, Jia J, Wang W, Wang X, Zhao QQ, Lu QQ (2019) Shifts of soil microbial community composition along a short-term invasion chronosequence of Spartina alterniflora in a Chinese estuary. Science of the Total Environment 657:222–233

    CAS  Article  Google Scholar 

  36. Zhao KF, Feng LT, Zhang SQ (1998) Adaptive physiology of different ecotypes of phragmites communis to salinity in the Yellow River Delta. Acta Ecologica Sinica 18(5):463–469

    Google Scholar 

  37. Zhao QQ, Bai JH, Gao YC, Zhao HX, Zhang GL, Cui BS (2020) Shifts of soil bacterial community along a salinity gradient in the Yellow River Delta. Land Degradation & Development. 31:2255–2267. https://doi.org/10.1002/ldr.3594

    Article  Google Scholar 

  38. Zhou DY, Guo WH, Li MY, Eller F, Zhang CY, Wu P, Yi SJ, Yang SR, Du N, Yu XN, Guo X (2020) No fertile island effects or salt island effects of Tamarix chinensis on understory herbaceous communities were found in the coastal area of Laizhou Bay. China. Wetlands. 40:2679–2689. https://doi.org/10.1007/s13157-020-01316-2

    Article  Google Scholar 

Download references

Acknowledgements

Thanks for the funding from the Ministry of Science and Technology and the National Foundation of China. And we would like to thank Jian Liu and Xiao Guo for their comments, and Huijuan Xia for provide and draw local images. The constructive comments from two anonymous reviewers and editors significantly improved our manuscript.

Availability of Data and Material

Not applicable.

Code Availability

Not applicable.

Funding

This research was supported by the following funds: National Key R&D Program of China (No. 2017YFC0505905), Key R&D Program of Shandong Province (No. 2019GSF109070), and National Natural Science Foundation of China (Nos. 31770361, and 31970347).

Author information

Affiliations

Authors

Contributions

PC Zhu, XN Yu, SR Yang conceived and designed the research. YF Gao, PC Zhu executed the research. PC Zhu, WH Guo perform data analysis. YF Gao, LL Liu, and XN Yu wrote the manuscript.

Corresponding author

Correspondence to Xiaona Yu.

Ethics declarations

Conflicts of Interest/Competing Interests

The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper.

Ethics Approval

Not applicable.

Consent to Participate

The authors guaranteed that this article would only participate in Wetlands.

Consent for Publication

The authors guaranteed that this article would only published in Wetlands.

Additional information

Publisher’s Note

Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

Supplementary Information

Fig S1
figure6

(PNG 8998 kb)

High resolution (TIF 49028 kb)

ESM 1

(DOCX 16 kb)

Rights and permissions

Reprints and Permissions

About this article

Verify currency and authenticity via CrossMark

Cite this article

Gao, Y., Liu, L., Zhu, P. et al. Patterns and Dynamics of the Soil Microbial Community with Gradual Vegetation Succession in the Yellow River Delta, China. Wetlands 41, 9 (2021). https://doi.org/10.1007/s13157-021-01414-9

Download citation

Keywords

  • The Yellow River Delta
  • Vegetation succession
  • Soil physicochemical properties
  • Soil microbial community
  • Biodiversity