Application of an indigenous bacterium in comparison with Sporosarcina pasteurii for improvement of fine granular soil

  • H. Badiee
  • M. SabermahaniEmail author
  • F. Tabandeh
  • A. Saeedi Javadi
Original Paper


An indigenous non-spore-forming urease-positive bacterium, Staphylococcus pasteuri was isolated from the soil to reduce the risk of variation in the microbial flora of soil after bio-cementation and was evaluated for its potential to strengthen sands by microbial-induced calcite precipitation (MICP). Its effectiveness and survival time were compared to those of Sporosarcina pasteurii, a well-known bacterium that is commonly used for MICP. The results revealed that S. pasteuri has no viability in the soil for more than 10 days, whereas Sp. pasteurii remained in the soil for more than 30 days because of spore formation. The unconfined compressive strength of soil, after the bio-cementation by both bacteria, reached about 2.3 MPa at the strain rate of 0.005 mm/s. The hydraulic conductivity of soil columns treated with S. pasteuri and Sp. pasteurii was reduced from 13 to 7.5 m/day and 6.8 m/day, respectively. Finally, using either bacterium resulted in achieving the same geotechnical properties. Therefore, according to the results, a non-spore-forming indigenous bacterium with low viability, such as the one isolated here, could be applied for soil improvement applications to reduce the environmental impacts.


Calcite Hydraulic conductivity Loading rate Microbially induced calcite precipitation Survival test Unconfined compressive strength 



The authors wish to express their gratitude to Dr. F. Naeimpoor, the head of the Biotechnological Research Laboratory at Iran University of Science and Technology to help in the fermentation process, Saman Pey Co. and the National Institute of Genetic Engineering and Biotechnology (Project No. 103) for financial support.


  1. Al Qabany A, Soga K, Santamarina C (2012) Factors affecting efficiency of microbially induced calcite precipitation. J Geotech Geoenviron Eng 138:992–1001. CrossRefGoogle Scholar
  2. Alnaimat S, Abu Shattal S, Althunibat O, Alsbou E, Amasha R (2017) Iron(II) and other heavy-metal tolerance in bacteria isolated from rock varnish in the arid region of Al-Jafer Basin, Jordan. Biodiversitas J Biol Divers 18:1250–1257CrossRefGoogle Scholar
  3. Andreazza R, Pieniz S, Okeke BC, Camargo FADO (2011) Evaluation of copper resistant bacteria from vineyard soils and mining waste for copper biosorption. Braz J Microbiol 42:66–74CrossRefGoogle Scholar
  4. ASTM International (2002) ASTM D2938-95(2002) Standard test method for unconfined compressive strength of intact rock core specimens. ASTM International, West ConshohockenGoogle Scholar
  5. ASTM International (2004) ASTM D2664-04 Standard test method for triaxial compressive strength of undrained rock core specimens without pore pressure measurements. ASTM International, West ConshohockenGoogle Scholar
  6. ASTM International (2007a) ASTM D422-63(2007)e2 Standard test method for particle-size analysis of soils. ASTM International, West ConshohockenGoogle Scholar
  7. ASTM International (2007b) ASTM D1633-00(2007) Standard test methods for compressive strength of molded soil–cement cylinders. ASTM International, West ConshohockenGoogle Scholar
  8. Bellezza I, Fratalocchi E (2006) Effectiveness of cement on hydraulic conductivity of compacted soil–cement mixtures. Ground Improv 10:77–90. CrossRefGoogle Scholar
  9. Bernardi D, Dejong JT, Montoya BM, Martinez BC (2014) Bio-bricks: biologically cemented sandstone bricks. Constr Build Mater 55:462–469. CrossRefGoogle Scholar
  10. Brown ET (1981) Rock characterization, testing and monitoring. Pergamon Press, New YorkGoogle Scholar
  11. Chapin FS III, Zavaleta ES, Eviner VT, Naylor RL, Vitousek PM, Reynolds HL, Hooper DU, Lavorel S, Sala OE, Hobbie SE, Mack MC, Díaz S (2000) Consequences of changing biodiversity. Nature 405:234–242. CrossRefGoogle Scholar
  12. Clough GW, Iwabuchi J, Rad NS, Kuppusamy T (1989) Influence of cementation on liquefaction of sands. J Geotech Eng 115:1102–1117. CrossRefGoogle Scholar
  13. Consoli NC, Foppa D, Festugato L, Heineck KS (2007) Key parameters for strength control of artificially cemented soils. J Geotech Geoenviron Eng 133:197–205. CrossRefGoogle Scholar
  14. DeJong JT, Fritzges MB, Nüsslein K (2006) Microbially induced cementation to control sand response to undrained shear. J Geotech Geoenviron Eng 132:1381–1392. CrossRefGoogle Scholar
  15. DeJong JT, Mortensen BM, Martinez BC, Nelson DC (2010) Bio-mediated soil improvement. Ecol Eng 36:197–210. CrossRefGoogle Scholar
  16. DeJong JT, Soga K, Banwart SA, Whalley WR, Ginn TR, Nelson DC, Mortensen BM, Martinez BC, Barkouki T (2011) Soil engineering in vivo: harnessing natural biogeochemical systems for sustainable, multi-functional engineering solutions. J R Soc Interface 8:1–15. CrossRefGoogle Scholar
  17. Feng K, Montoya BM (2015) Influence of confinement and cementation level on the behavior of microbial-induced calcite precipitated Sands under monotonic drained loading. J Geotech Geoenviron Eng 2:04015057. CrossRefGoogle Scholar
  18. Fuenkajorn K, Kenkhunthod N (2010) Influence of loading rate on deformability and compressive strength of three thai sandstones. Geotech Geol Eng 28:707–715. CrossRefGoogle Scholar
  19. Guthrie WS, Shea MS, Eggett DL (2012) Hydraulic conductivity of cement-treated soils and aggregates after freezing. In: Cold regions engineering 2012: sustainable infrastructure development in a changing cold environment. ASCE, pp 93–103.
  20. Ismail MA, Joer HA, Randolph MF, Meritt A (2002) Cementation of porous materials using calcite. Géotechnique 52:313–324. CrossRefGoogle Scholar
  21. Ivanov V, Chu J (2008) Applications of microorganisms to geotechnical engineering for bioclogging and biocementation of soil in situ. Rev Environ Sci Biotechnol 7:139–153. CrossRefGoogle Scholar
  22. Kanji MA (2014) Critical issues in soft rocks. J Rock Mech Geotech Eng 6:186–195. CrossRefGoogle Scholar
  23. Kim MM, Ko HY (1979) Multistage triaxial testing of rocks. Geotech Test J 2:98–105. CrossRefGoogle Scholar
  24. Ma L, Daemen JJK (2006) Strain rate dependent strength and stress–strain characteristics of a welded tuff. Bull Eng Geol Environ 65:221–230. CrossRefGoogle Scholar
  25. Mitchell JK, Soga K (1993) Fundamentals of soil behavior. Wiley, New YorkGoogle Scholar
  26. Montoya BM, DeJong JT (2015) Stress–strain behavior of sands cemented by microbially induced calcite precipitation. J Geotech Geoenviron Eng 141:04015019. CrossRefGoogle Scholar
  27. Moosazadeh R, Tabandeh F, Kalantary F, Ganjian N, Fallah H, Lotfabad TB, Yazdian F (2018) Correction to: Mitigation of the liquefaction potential of soil by Ca-carbonate precipitation induced by indigenous urease-producing Staphylococcus sp. IR-103. Int J Environ Sci Technol 4:5. CrossRefGoogle Scholar
  28. Natarajan KR, Road H, Principle A, Assay E (1995) Kinetic study of the enzyme urease from Dolichos biflorus. J Chem Educ 72:556–557. CrossRefGoogle Scholar
  29. Saeedi Javadi A, Badiee H, Sabermahani M (2018) Mechanical properties and durability of bio-blocks with recycled concrete aggregates. Constr Build Mater 165:859–865. CrossRefGoogle Scholar
  30. Salifu E, MacLachlan E, Iyer KR, Knapp CW, Tarantino A (2016) Application of microbially induced calcite precipitation in erosion mitigation and stabilisation of sandy soil foreshore slopes: a preliminary investigation. Eng Geol 201:96–105. CrossRefGoogle Scholar
  31. Schnaid F, Prietto PDM, Consoli NC (2001) Characterization of cemented sand in triaxial compression. J Geotech Geoenviron Eng 127:857–868. CrossRefGoogle Scholar
  32. Shah SP (2012) Application of fracture mechanics to cementitious composites. Springer, DordrechtGoogle Scholar
  33. Shoda M (2000) Bacterial control of plant diseases. J Biosci Bioeng 89:515–521. CrossRefGoogle Scholar
  34. Van Paassen LA, Daza CM, Staal M, Sorokin DY, van der Zon W, van Loosdrecht MCM (2010a) Potential soil reinforcement by biological denitrification. Ecol Eng 36:168–175. CrossRefGoogle Scholar
  35. Van Paassen LA, Van Loosdrecht MCM, Pieron M, Mulder A, Ngan-Tillard DJM, Van Der Linden TJM (2010b) Strength and deformation of biologically cemented sandstone. In: Rock engineering in difficult ground conditions—soft rocks and karst—proceedings of the regional symposium of the International Society for Rock Mechanics (EUROCK 2009), pp 405–410Google Scholar
  36. Wells-Bennik MHJ, Eijlander RT, den Besten HMW, Berendsen EM, Warda AK, Krawczyk AO, Nierop Groot MN, Xiao Y, Zwietering MH, Kuipers OP, Abee T (2016) Bacterial spores in food: survival, emergence, and outgrowth. Annu Rev Food Sci Technol 7:457–482. CrossRefGoogle Scholar
  37. Whiffin VS (2004) Microbial CaCO3 precipitation for the production of biocement. Dissertation, Murdoch University, Western AustraliaGoogle Scholar
  38. Whiffin VS, van Paassen LA, Harkes MP (2007) Microbial carbonate precipitation as a soil improvement technique. Geomicrobiol J 24:417–423. CrossRefGoogle Scholar
  39. Wong LS (2015) Microbial cementation of ureolytic bacteria from the genus Bacillus: a review of the bacterial application on cement-based materials for cleaner production. J Clean Prod 93:5–17CrossRefGoogle Scholar
  40. Youn H, Tonon F (2010) Multi-stage triaxial test on brittle rock. Int J Rock Mech Min Sci 47:678–684. CrossRefGoogle Scholar

Copyright information

© Islamic Azad University (IAU) 2019

Authors and Affiliations

  • H. Badiee
    • 1
  • M. Sabermahani
    • 1
    Email author
  • F. Tabandeh
    • 2
  • A. Saeedi Javadi
    • 1
  1. 1.School of Civil EngineeringIran University of Science and Technology (IUST)Narmak, TehranIran
  2. 2.Bioprocess Engineering Group, Department of Industrial and Environmental BiotechnologyNational Institute of Genetic Engineering and Biotechnology (NIGEB)TehranIran

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