Seasonal Change in Microbial Diversity and Its Relationship with Soil Chemical Properties in an Orchard

Autoři: Xuhui Luo aff001;  Ming Kuang Wang aff002;  Guiping Hu aff003;  Boqi Weng aff004
Působiště autorů: Agricultural Ecology Institute, Fujian Academy of Agricultural Sciences, Fuzhou, Fujian Province, China aff001;  Department of Agricultural Chemistry, National Taiwan University, Taipei, Taiwan aff002;  Jiangxi Sericulture and Tea of Research Institute, Nanchang, Jiangxi Province, China aff003;  Fuzhou Scientific Observing and Experimental Station of Agro-Environment, Ministry of Agriculture and Rural Affairs of People’s Republic China, Fuzhou, Fujian Province, China aff004;  Fujian Key Laboratory on Ecological Processes of Hilly Agriculture in Red Soil Region, Agency of Fujian Science and Technology, Fuzhou, Fujian Province, China aff005
Vyšlo v časopise: PLoS ONE 14(12)
Kategorie: Research Article
prolekare.web.journal.doi_sk: 10.1371/journal.pone.0215556


This study aimed to determine the microbial diversity at different soil depths (0–5 and 5–20 cm) in a subtropical orchard during different seasons (i.e., spring, summer and autumn) to advance knowledge of the roles of microbes in orchard ecosystem balance. In tracking experiments conducted in an orchard (established in 1996), the phospholipid fatty acid (PLFA) biomarker method was employed to determine the soil microbial system. The total PLFA concentration did not vary significantly between soil depths but changed between seasons. It peaked in the summer at 258.97 ± 23.48 μg g soil-1 from 0–5 cm and at 270.99 ± 58.94 μg g soil-1 from 5–20 cm. A total of 33 microbial fatty acid biomarkers were observed and identified in the sampled soil. The quantities of PLFAs for 29 microbial groups varied significantly between seasons, except for 15:0 iso 3OH, 15:1 iso G, 16:0 2OH, and 17:0 iso 3OH. The bacterial PLFAs and fungal and actinomycetic PLFAs in the orchard soil collected in summer were significantly more abundant than those collected in the spring or autumn (P < 0.01). The number of soil microorganism species (richness) and the Simpson and Shannon-Wiener indexes were all highest in summer. The total PLFAs, bacterial PLFAs, fungal PLFAs, actinomycetic PLFAs, richness, and Simpson and Shannon-Wiener indexes were all significantly negatively correlated with soil pH, total organic carbon (TOC), total nitrogen (TN) and the cation exchange capacity (CEC) (P < 0.05).

Klíčová slova:

Bacteria – Cation exchange capacity – Orchards – Seasons – Shannon index – Simpson index – Soil chemistry – Spring


1. Simon S, Bouvier JC, Debras JF, Sauphanor B. Biodiversity and pest management in orchard systems. A review. Agron. Sustainable Dev. 2010; 30: 139–152.

2. Labrière N, Locatelli B, Laumonier Y, Freycon V, Bernoux M. Soil erosion in the humid tropics: A systematic quantitative review. Agric. Ecosyst. Environ. 2015; 203: 127–139.

3. Rowlings DW, Grace PR, Scheer C, Kiese R. Influence of nitrogen fertiliser application and timing on greenhouse gas emissions from a lychee (Litchi chinensis) orchard in humid subtropical Australia. Agric. Ecosyst. Environ. 2013; 179: 168–178.

4. Cai MF, Mcbride MB, Li KM. Bioaccessibility of Ba, Cu, Pb, and Zn in urban garden and orchard soils. Environ. Pollut. 2016; 208: 145–152. doi: 10.1016/j.envpol.2015.09.050 26477581

5. Young IM, Crawford JW. Interactions and self-organization in the soil-microbe complex. Science (New series), 2004; 304: 1634–1637.

6. Yao H, He Z, Wilson MJ, Campbell CD. Microbial biomass and community structure in a sequence of soils with increasing fertility and changing land use. Microb. Ecol. 2000; 40: 223–237. doi: 10.1007/s002480000053 11080380

7. Li R, Khafipour E, Krause DO, Entz MH, de Kievit TR. Pyrosequencing reveals the influence of organic and conventional farming systems on bacterial communities. PLoS One; 2012; 7, e51897. doi: 10.1371/journal.pone.0051897 23284808

8. Mercier A, Dictor MC, Harris-Hellal J, Breeze D, Mouvet C. Distinct bacterial community structure of 3 tropical volcanic soils from banana plantations contaminated with chlordecone in Guadeloupe (French West Indies). Chemosphere. 2013; 92: 787–794. doi: 10.1016/j.chemosphere.2013.04.016 23706897

9. Joa JH, Weon YH, Hyun HN, Jeun YC, Koh SW. Effect of long-term different fertilization on bacterial community structures and diversity in citrus orchard soil of volcanic ash. J. Microbiol. 2014; 52: 995–1001. doi: 10.1007/s12275-014-4129-6 25467117

10. Yang DW, Zhang MK. Effects of land-use conversion from paddy field to orchard farm on soil microbial genetic diversity and community structure. Eur. J. Soil Biol. 2014; 64: 30–39.

11. Gilbert JA, Field D, Swift P, Thomas S, Cummings D, Temperton B, et al. The taxonomic and functional diversity of microbes at a temperate voastal site: a ‘Multi-Omic’ study of seasonal and diel temporal variation. PloS One. 2010; 5: 1–17.

12. Bardgett RD, Lovell RD, Hobbs PJ, Jarvis SC. Seasonal changes in soil microbial communities along a fertility gradient of temperate grasslands. Soil Biol. Biochem. 1999; 31: 1021–1030.

13. Shishido M, Sakamoto K, Yokoyama H, Momma N, Miyashita S. Changes in microbial communities in an apple orchard and its adjacent bush soil in response to season, land-use, and violet root rot infestation. Soil Biol. Biochem. 2008; 40: 1460–1473.

14. Zhu WZ, Cai XH, Liu XL, Wang JX, Cheng JX, Cheng S, et al. Soil microbial population dynamics along a chronosequence of moist evergreen broad-leaved forest succession in southwestern China. J. Mount. Sci. 2010; 7: 327–338.

15. Qi LH, Ai WS, Fan SH, Du MY, Meng Y, Mao C. Soil microbial biomass carbon dynamics of Phyllostachys edulis forests under different managing patterns in the hilly region of central Hunan, southern China. J. Nanjing Forest Univ. 2013; 37: 45–48 (in Chinese with English abstract).

16. Shi Y, Lalande R, Hamel C, Ziadi N, Gagnon B, Hu Z. Seasonal variation of microbial biomass, activity, and community structure in soil under different tillage and phosphorus management practices. Biol. Fert. Soils. 2013; 49: 803–818.

17. Kim CS, Nam JW, Jo JW, Kim SY, Han JG, Hyun MW, et al. Studies on seasonal dynamics of soil-higher fungal communities in Mongolian oak-dominant Gwangneung forest in Korea. J. Microbiol. 2016; 54: 14–22. doi: 10.1007/s12275-016-5521-1 26727897

18. Liu LZ, Qin SJ, Lu DG, Wang BY, Yang ZY. Variation of potential nitrification and ammonia-oxidizing bacterial community with plant-growing period in apple orchard soil. J. Integr. Agric. 2014; 13: 415–425.

19. Zhuan WM. Map of Fujian Province. Fuzhou: Fujian provincial map and atlas publishing house; 2008.

20. Nelson DW, Sommers LE. Total carbon, organic carbon and organic matter. In Page AL, Miller RH. and Keeney DR. editors. Methods of Soil Analysis. Madison WI: Soil Sci. Soc. Am. 1982; 539–577.

21. Bremner JM, Mulvaney CS. Total nitrogen. In: Page AL, Miller RH, Keeney DR, editors. Methods of Soil Analysis. Madison WI: Soil Sci. Soc. Am.; 1982.

22. Jackson ML. Soil Chemical Analysis. Published by Author, 2nd ed. Madison WI; 1979.

23. Zhu YJ, Hu GP, Liu B, Xie HA, Zheng XF, Zhang JF. Using phospholipid fatty acid technique to analysis the rhizosphere specific microbial community of seven hybrid rice cultivars. J. Integr. Agric. 2012; 11: 1817–1827.

24. Soil Survey Staff. Keys to Soil Taxonomy. 11th ed. Washington, DC: USDA-Natural Resources Conservation Service; 2010.

25. Huang PM, Wang MK, Chiu CY. Soil mineral-organic matter-microbe interactions: impacts on biogeochemical processes and biodiversity in soils. Pedobiogia. 2005; 49: 609–635.

26. Huang PM, Wang SL, Tzou YM, Huang YB, Weng BQ, Zhuang SY, et al. Physicochemical and biological interfacial interactions: impacts on soil ecosystem and biodiversity. Environ. Earth. Sci. 2013; 28: 2199–2209.

Článok vyšiel v časopise


2019 Číslo 12