Advertisement

Response of soil bacterial community structure to different reclamation years of abandoned salinized farmland in arid China

  • Yaguang Zhao
  • Fenghua ZhangEmail author
  • Lei Yang
  • Dan Wang
  • Weichao Wang
Original Paper

Abstract

In recent years, understanding the impact of reclamation of abandoned salinized field on microbial community structure is of great importance for ecosystem restoration in arid regions. The aim of this work was to investigate the effects of reclamation years on soil properties, bacterial community composition and diversity based on field sampling and llumina MiSeq sequencing. The five reclamation years are: unreclaimed salinized and reclaimed (1, 5, 10, and 15 years) fields. The results showed soil properties are significantly altered by abandoned salinized field. In particular, reclamation significantly decreased soil electrical conductivity, Cl, SO42−, Na+, and Ca2+, during 5 years of reclamation. In addition, reclamation increased the richness and diversity of the bacterial community, except for the 1-year field soils. There was a large difference in the abundant bacterial phyla in 1-year field soils compared with other field soils. Proteobacteria were the most abundant in all of the field soils. Principal coordinates analysis showed that the abandoned and 1-year field soils exhibited specific differences in bacterial community structures compared with other field soils. Statistical analyses showed that available phosphorus, SO42−, Mg2+, and Ca2+ were the main physicochemical properties affecting the soil bacterial communities. Overall, reclamation improved soil physicochemical properties and altered the structure and composition of soil bacterial communities compared with unreclaimed salinized soil.

Keywords

Salinized soil Reclamation years MiSeq sequencing Soil bacterial community Soil bacterial diversity 

Notes

Acknowledgements

This research was financially supported by the National Key Technology R & D Program (Grant No. 2016YFC0501406), the Special Fund for Agro-scientific Research in the Public Interest of China (201503120).

Author contributions

YZ and FZ designed and carried out the experiment. YZ and LY collected the data. YZ performed the analysis. YZ, FZ, DW, and WW contributed to the interpretation of the results. YZ wrote the manuscript. YZ and FZ contributed to the final version of the manuscript. All authors provided critical feedback and helped to shape the research, analysis, and manuscript.

References

  1. Ashraf M (2013) Improving salinity tolerance in cereals. Crit Rev Plant Sci 32:237–249Google Scholar
  2. Azziz G, Trasante T, Monza J, Irisarri P (2016) The effect of soil type, rice cultivar and water management on ammonia-oxidizing archaea and bacteria populations. Appl Soil Ecol 100:8–17Google Scholar
  3. Badger MR, Price GD (2003) CO2 concentrating mechanisms in cyanobacteria: molecular components, their diversity and evolution. J Exp Bot 54:609–622Google Scholar
  4. Bauer M, Kube M, Teeling H, Richter M, Lombardot T, Allers E, Würdemann CA, Quast C, Kuhl H, Knaust F, Woebken D, Bischof K, Mussmann M, Choudhuri JV, Meyer F, Reinhardt R, Amann RI, Glöckner FO (2006) Whole genome analysis of the marine bacteroidetes ‘gramella forsetii’ reveals adaptations to degradation of polymeric organic matter. Environ Microbiol 8:2201–2213Google Scholar
  5. Bradfield EG, Cooke DT (1985) Determination of inorganic anions in water extracts of plants and soils by ion chromatography. Analyst 110:1409–1410Google Scholar
  6. Broeckling CD, Broz AK, Bergelson J, Manter DK, Vivanco JM (2008) Root exudates regulate soil fungal community composition and diversity. Appl Environ Microbiol 74:738–744Google Scholar
  7. Ciavatta C, Govi M, L. Antisari V, Sequi P (1991) Determination of organic carbon in aqueous extracts of soils and fertilizers. Commun Soil Sci Plant 22:795–807Google Scholar
  8. Cookson WR, O’Donnell AJ, Grant CD, Grierson PF, Murphy DV (2008) Impact of ecosystem management on microbial community level physiological profiles of postmining forest rehabilitation. Microb Ecol 55:321–332Google Scholar
  9. Crowther TW, Maynard DS, Leff JW, Oldfield EE, McCulley RL, Fierer N, Bradford MA (2014) Predicting the responsiveness of soil biodiversity to deforestation: a cross-biome study. Glob Change Biol 20:2983–2994Google Scholar
  10. Dangi SR, Stahl PD, Wick AF, Ingram LJ, Buyer JS (2012) Soil microbial community recovery in reclaimed soils on a surface coal mine site. Soil Sci Soc Am J 76:915Google Scholar
  11. Darby AC, Armstrong SD, Bah GS, Kaur G, Hughes MA, Kay SM, Koldkjær P, Rainbow L, Radford AD, Blaxter ML, Tanya VN, Trees AJ, Cordaux R, Wastling JM, Makepeace BL (2012) Analysis of gene expression from the wolbachia genome of a filarial nematode supports both metabolic and defensive roles within the symbiosis. Genome Res 22:2467–2477Google Scholar
  12. Darwish T, Atallah T, Moujabber ME, Khatib N (2005) Salinity evolution and crop response to secondary soil salinity in two agro-climatic zones in lebanon. Agr Water Manage 78:152–164Google Scholar
  13. Díaz-Zorita M (1999) Soil organic carbon recovery by the Walkley–Black method in a typic hapludoll. Commun Soil Sci Plant Anal 30:739–745Google Scholar
  14. Dimitriu PA, Grayston SJ (2010) Relationship between soil properties and patterns of bacterial β-diversity across reclaimed and natural boreal forest soils. Microb Ecol 59:563–573Google Scholar
  15. 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 164:16–23Google Scholar
  16. Eichorst SA, Trojan D, Roux S, Herbold C, Rattei T, Woebken D (2018) Genomic insights into the acidobacteria reveal strategies for their success in terrestrial environments. Environ Microbiol 20:1041–1063Google Scholar
  17. Fan H, Pan X, Li Y, Chen F, Zhang F (2008) Evaluation of soil environment after saline soil reclamation of Xinjiang Oasis, China. Agron J 100:471–476Google Scholar
  18. Fu Q, Liu C, Ding N, Lin Y, Guo B, Luo J, Wang H (2012) Soil microbial communities and enzyme activities in a reclaimed coastal soil chronosequence under rice–barley cropping. J Soil Sediment 12:1134–1144Google Scholar
  19. Fuerst JA, Sagulenko E (2011) Beyond the bacterium: planctomycetes challenge our concepts of microbial structure and function. Nat Rev Microbiol 9:403–413Google Scholar
  20. Gans J, Wolinsky M, Dunbar J (2005) Computational improvements reveal great bacterial diversity and high metal toxicity in soil. Science 309:1387–1390Google Scholar
  21. Glaciela K, Odair A, Mariangela H (2010) Three decades of soil microbial biomass studies in brazilian ecosystems: lessons learned about soil quality and indications for improving sustainability. Soil Biol Biochem 42:1–13Google Scholar
  22. Gruber-Dorninger C, Pester M, Kitzinger K, Savio DF, Loy A, Rattei T, Wagner M, Daims H (2015) Functionally relevant diversity of closely related Nitrospira in activated sludge. ISME J 9:643Google Scholar
  23. Hartman WH, Richardson CJ, Vilgalys R, Bruland GL (2008) Environmental and anthropogenic controls over bacterial communities in wetland soils. Proc Natl Acad Sci USA 105:17842–17847Google Scholar
  24. Herrero A, Muropastor AM, Flores E (2001) Nitrogen control in cyanobacteria. J Bacteriol 183:411–425Google Scholar
  25. Hua J, Feng Y, Jiang Q, Bao X, Yin Y (2017) Shift of bacterial community structure along different coastal reclamation histories in Jiangsu, Eastern China. Sci Rep 7:10096Google Scholar
  26. Jiang X, Peng X, Deng G, Sheng H, Wang Y, Zhou H, Tam NF (2013) Illumina sequencing of 16 s rrna tag revealed spatial variations of bacterial communities in a mangrove wetland. Microb Ecol 66:96–104Google Scholar
  27. Kandeler E (2007) Physiological and biochemical methods for studying soil biota and their functions. In: Paul EA (ed) Soil microbiology ecology and biochemistry, 3rd edn. Elsevier, Pittsburgh, pp 187–222Google Scholar
  28. Lee KC, Morgan XC, Dunfield PF, Tamas I, Mcdonald IR, Stott MB (2014) Genomic analysis of chthonomonas calidirosea, the first sequenced isolate of the phylum armatimonadetes. ISME J 8:1522–1533Google Scholar
  29. Li Y, Zhang W, Ma L, Huang G, Oenema O, Zhang F, Dou Z (2013) An analysis of china’s fertilizer policies: impacts on the industry, food security, and the environment. J Environ Qual 42:972Google Scholar
  30. Li J, Pu L, Zhu M, Zhang J, Li P, Dai X, Xu Y, Liu L (2014a) Evolution of soil properties following reclamation in coastal areas: a review. Geoderma 226:130–139Google Scholar
  31. Li C, Yan K, Tang L, Jia Z, Li Y (2014b) Change in deep soil microbial communities due to long-term fertilization. Soil Biol Biochem 75:264–272Google Scholar
  32. Li Y, Chen L, Wen H (2015) Changes in the composition and diversity of bacterial communities 13 years after soil reclamation of abandoned mine land in eastern China. Ecol Res 30:357–366Google Scholar
  33. Li X, Sun J, Wang H, Li X, Wang J, Zhang H (2017) Changes in the soil microbial phospholipid fatty acid profile with depth in three soil types of paddy fields in China. Geoderma 290:69–74Google Scholar
  34. Mastrogianni A, Papatheodorou EM, Monokrousos N, Menkissoglu-Spiroudi U, Stamou GP (2014) Reclamation of lignite mine areas with triticum aestivum: the dynamics of soil functions and microbial communities. Appl Soil Ecol 80:51–59Google Scholar
  35. Mulvaney RL, Khan SA (2001) Diffusion methods to determine different forms of nitrogen in soil hydrolysates. Soil Sci Soc Am J 65:1284–1292Google Scholar
  36. Nacke H, Thürmer A, Wollherr A, Will C, Hodac L, Herold N, Schöning I, Schrumpf M, Daniel R (2011) Pyrosequencing-based assessment of bacterial community structure along different management types in German forest and grassland soils. PLoS One 6:e17000Google Scholar
  37. Neufeld JD, Mohn WW (2005) Unexpectedly high bacterial diversity in arctic tundra relative to boreal forest soils, revealed by serial analysis of ribosomal sequence tags. Appl Environ Microbiol 71:5710–5718Google Scholar
  38. Niu D (2014) Insights into microbial mats and possible stromatolite formation from little hot creek, California. J Acoust Soc Am 69:S36–S36Google Scholar
  39. Orr CH, Stewart CJ, Leifert C, Cooper JM, Cummings SP (2015) Effect of crop management and sample year on abundance of soil bacterial communities in organic and conventional cropping systems. J Appl Microb 119:208–214Google Scholar
  40. Page AL, Miller RH, Keeney DR (1982) Methods of soil analysis. Part 2: chemical and microbiological properties, 2nd edn. American Society of Agronomy, Soil Science Society of America, MadisonGoogle Scholar
  41. Peng M, Jia H, Wang Q (2017) The effect of land use on bacterial communities in saline-alkali soil. Curr Microbiol 74:325–333Google Scholar
  42. Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P, Peplies J, Glöckner FO (2012) The silva ribosomal rna gene database project: improved data processing and web-based tools. Nucleic Acids Res 41:D590–D596Google Scholar
  43. Rampelotto PH, de Siqueira Ferreira A, Barboza ADM, Roesch LFW (2013) Changes in diversity, abundance, and structure of soil bacterial communities in Brazilian Savanna under different land use systems. Microb Ecol 66:593–607Google Scholar
  44. Ren C, Zhang W, Zhong Z, Han X, Yang G, Feng Y, Ren G (2018) Differential responses of soil microbial biomass, diversity, and compositions to altitudinal gradients depend on plant and soil characteristics. Sci Total Environ 610:750–758Google Scholar
  45. Satoshi Y (2008) Responses of crops to soil salinization in south Baja California, Mexico. J Plant Nutr 31:1800–1810Google Scholar
  46. Sattley WM, Madigan MT, Swingley WD, Cheung PC, Clocksin KM, Conrad AL, L. Dejesa C, Honchak BM, Jung DO, Karbach LE, Lahiri S, Mastrian SD, Page LE, Taylor HL, Wang ZT, Raymond J, Chen M, Blankenship RE, Touchman JW (2008) The genome of heliobacterium modesticaldum, a phototrophic representative of the firmicutes containing the simplest photosynthetic apparatus. J Bacteriol 190:4687Google Scholar
  47. Schmalenberger A, O’Sullivan O, Gahan J, Cotter PD, Courtney R (2013) Bacterial communities established in bauxite residues with different restoration histories. Environ Sci Technol 47:7110–7119Google Scholar
  48. Shen Z, Zhong S, Wang Y, Wang B, Mei X, Li R, Ruan Y, Shen Q (2013) Induced soil microbial suppression of banana fusarium wilt disease using compost and biofertilizers to improve yield and quality. Eur J Soil Biol 57:1–8Google Scholar
  49. Shi Y, Yang H, Zhang T, Sun J, Lou K (2014) Illumina-based analysis of endophytic bacterial diversity and space-time dynamics in sugar beet on the north slope of tianshan mountain. Appl Microbiol Biotechnol 98:6375–6385Google Scholar
  50. Spain AM, Krumholz LR, Elshahed MS (2009) Abundance, composition, diversity and novelty of soil proteobacteria. ISME J 3:992Google Scholar
  51. Sun R, Zhang X, 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 88:9–18Google Scholar
  52. Tringe SG, Rubin EM (2005) Metagenomics: dna sequencing of environmental samples. Nat Rev Genet 6:805Google Scholar
  53. Vries FT, Hoffland E, Eekeren N, Brussaard L, Bloem J (2006) Fungal/bacterial ratios in grasslands with contrasting nitrogen management. Soil Biol Biochem 38:2092–2103Google Scholar
  54. Wang L, Coles N, Wu C, Wu J (2014) Effect of long-term reclamation on soil properties on a coastal plain, southeast China. J Coast Res 30:661–669Google Scholar
  55. Xie X, Pu L, Wang Q, Zhu M, Xu Y, Zhang M (2017) Response of soil physicochemical properties and enzyme activities to long-term reclamation of coastal saline soil, eastern China. Sci Total Environ 607:1419–1427Google Scholar
  56. Xu X, Sun W, Wu W, Liu H, Li F, Dou C (2010) Effect of irrigation with reclaimed water on soil salt and ion content in Beijing. Trans CSAE 26:34–39Google Scholar
  57. Yamada T, Sekiguchi Y (2009) Cultivation of uncultured chloroflexi subphyla: significance and ecophysiology of formerly uncultured chloroflexi ‘subphylum i’ with natural and biotechnological relevance. Microbes Environ 24:205–216Google Scholar
  58. Yang D, Zeng D, Zhang J, Li L, Mao R (2012) Chemical and microbial properties in contaminated soils around a magnesite mine in northeast China. Land Degrad Dev 23:256–262Google Scholar
  59. Yang J, Jiang H, Dong H, Wu G, Hou W, Zhao W, Sun Y, Lai Z (2013) Diversity of carbon monoxide-oxidizing bacteria in five lakes on the Qinghai-Tibet Plateau, China. Geomicrobiol J 30:758–767Google Scholar
  60. Yang L, Tan L, Zhang F, Gale WJ, Cheng Z, Sang W (2017) Duration of continuous cropping with straw return affects the composition and structure of soil bacterial communities in cotton fields. Can J Microbiol 64:167–181Google Scholar
  61. Yang F, Wu J, Zhang D, Chen Q, Zhang Q, Cheng X (2018) Soil bacterial community composition and diversity in relation to edaphic properties and plant traits in grasslands of southern China. Appl Soil Ecol 128:43–53Google Scholar
  62. Ying N, Wang D, Zhao G, Song Y, Wang H (2016) Effects of betaine aldehyde dehydrogenase-transgenic soybean on phosphatase activities and rhizospheric bacterial community of the saline-alkali soil. Biomed Res Int 2016:1–9Google Scholar
  63. Yuan W, Su X, Cui G, Wang H (2016) Microbial community structure in hypolentic zones of a brine lake in a desert plateau, China. Environ Earth Sci 75:1–14Google Scholar
  64. Zeng Q, Dong Y, An S (2016) Bacterial community responses to soils along a latitudinal and vegetation gradient on the Loess Plateau, China. PLoS One 11:e0152894Google Scholar
  65. Zhang T, Kang Y, Liu S, Liu S (2014) Alkaline phosphatase activity and its relationship to soil properties in a saline–sodic soil reclaimed by cropping wolfberry (lycium barbarum, l.) with drip irrigation. Paddy Water Environ 12:309–317Google Scholar
  66. Zhang W, Mo Y, Yang J, Zhou J, Lin Y, Isabwe A, Zhang J, Gao X, Yu Z (2018) Genetic diversity pattern of microeukaryotic communities and its relationship with the environment based on PCR-DGGE and T-RFLP techniques in Dongshan Bay, southeast China. Cont Shelf Res 164:1–9Google Scholar
  67. Zhao J, Ni T, Li Y, Xiong W, Ran W, Shen B, Shen Q, Zhang R (2014) Responses of bacterial communities in arable soils in a rice-wheat cropping system to different fertilizer regimes and sampling times. PLoS One 9:e85301Google Scholar

Copyright information

© Springer-Verlag GmbH Germany, part of Springer Nature 2019

Authors and Affiliations

  • Yaguang Zhao
    • 1
  • Fenghua Zhang
    • 1
    Email author
  • Lei Yang
    • 1
  • Dan Wang
    • 1
  • Weichao Wang
    • 1
  1. 1.Key Laboratory of Oasis Ecology Agriculture of Xinjiang BingtuanShihezi UniversityShiheziChina

Personalised recommendations