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PERN - Pan-European Rhizosphere Network

European - Russian initiative on Banking Rhizosphere Micro-Organisms


Institute of Ecology and Genetics of Micro-organisms (IEGM) Ural Branch of the Russian Academy of Sciences

The Institute of Ecology and Genetics of Micro-organisms hosts a vast collection of nonpathogenic bacterial strains isolated from contrasting ecological regions in Russia. The collection holding comprises 2,000 strains of hydrocarbon-oxidizing bacteria. The IEGM is included in the World Federation for Culture Collections (acronym IEGM, WFCC#768; , issues catalogues of strains, and possesses methods of polyphase taxonomy, a computerized database and a qualified staff with professional expertise in taxonomy and preservation of cultures. Widely represented among the collection cultures are extremotolerant forms of significant industrial potential, strains-destructors of various organic pollutants, including crude oil and oil products, and strains-producers of valuable compounds. The core of the collection is comprised by the genus Rhodococcus actinobacteria predominant among the hydrocarbon-oxidizing microorganisms.
The professional reputation of the collection is confirmed by national and international grants (INTAS, NATO, Royal Society, UK, etc.). Also it has organized three international conferences on microbial diversity.
Based on the collection holding an oliophilic biopreparation applicable for clean-up of hydrocarbon-contaminated soils in regions of cold climates (RU 2180276) and a rapid bioremediation technology for oil-contaminated soils (RU 2193464) were developed.

Previous experience

IEGM has a relevant expertise in actinobacterial isolation, identification, taxonomy and ex situ preservation, application of bacterial cultures in bioremediation processes.
Also it is experienced in designing molecular tools (e.g. group-specific PCR of 16S rDNA) for in situ investigation of polluted rhizospere microbial diversity and applying an immunofluorescence method for monitoring of introduced and natural bacteria during bioremediation.

Key persons involved

Prof. Irina Ivshina (PhD Microbiology), Head of the Laboratory of Alkanotrophic Microorganisms, founder and  curator of the IEGM Collection, expert with 35 years of experience in microbial diversity and biotechnology (

Dr. Maria Kuyukina (PhD Microbiology), a microbiologist and molecular biologist with 20 years of experience in bacterial ecology, physiology and biochemistry. Leading researcher of the Laboratory of Alkanotrophic Microorganisms, IEGM (

Both are laureates of the Russian Federation Government Prize for developing a bioremediation technology of oil-contaminated soils.

Dr. Elena Plotnikova (PhD Genetics) a microbiologist and molecular geneticist with 20 years of experience in bacterial taxonomy and molecular biology. Senior researcher of the Laboratory of Chemical Mutagenesis, IEGM (

Dr. Aleksei Nazarov (PhD Microbiology) a microbiologist and taxonomist with 10 years of experience in bacterial ecology, plant taxonomy and ecology. Senior researcher of the Laboratory of Chemical Mutagenesis, IEGM (


Institute of Ecology and Genetics of Microorganisms, Ural Branch of the Russian Academy of Sciences (IEGM UB RAS)
13 Golev Street, Perm 614081
Russian Federation
Tel.: +7 342 2808114
Fax: +7 342 2809211




Grishko V.V., Nogovitsina E.M., Ivshina I.B. Bacterial transformations of terpenoids // Russian Chemistry Reviews. 2014. V. 83. P. 323−342.

Kuyukina M.S., Korshunova I.O., Rubtsova E.V., Ivshina I.B. Methods of microorganism immobilization for dynamic atomic-force studies (review) // Applied Biochemistry and Microbiology. 2014. V. 50. P. 1−9.

Ivshina I.B. Kuyukina M.S. Turning Russian specialized microbial culture collections into resource centers for biotechnology // Trends in Biotechnology. 2013. V. 31. P. 609−611.

Ivshina I.B. The Russian collection of alkanothrophs: current situation and future perspectives // WFCC Newsletter. 2013. N. 52. P. 6−10.

Ivshina I.B. Current situation and challenges of specialized microbial resource centres in Russia // Microbiology. 2012. V. 81. N. 5. P. 509−516.

Ivshina I.B. Kuyukina M.S. Kostina L.V. Adaptive mechanisms of nospecific resistance to heavy metal ions in alkanotrophic actinobacteria // Russian Journal of Ecology. 2013. V. 44. N. 1. P. 123−130.

Ivshina I.B. Kuyukina M.S. Krivoruchko A.V. Plekhov O.A. Naimark O.B. Podorozhko E.A. Lozinsky V.I. Biosurfactant-enhanced immobilization of hydrocarbon-oxidizing Rhodococcus ruber on sawdust // Applied Microbiology and Biotechnology. 2013. V. 97. P. 5315−5327.

Grishko V.V. Tarasova E.V. Ivshina I.B. Biotransformation of betulin to betulone by growing and resting cells of Rhodococcus rhodochrous IEGM 66 // Process Biochemistry. 2013. V. 48. N. 11. P. 1640−1644.

Elkin A.A. Kylosova T.I. Grishko V.V. Ivshina I.B. Enantioselective oxidation of sulfides to sulfoxides by Gordonia terrae IEGM 136 and Rhodococcus rhodochrous IEGM 66 // Journal of Molecular Catalysis B: Enzymatic. 2013. V. 89. P. 82−85.

Ivshina I.B. Tarasova E.V. Osipenko M.A. Nyashin Y.I. Grishko V.V. Gorbunov A.A. Mathematical modeling of biomechanics of the betulin biotransformation process by resting cells of Rhodococcus rhodochrous IEGM 66 // Russian Journal of Biomechanics. 2013. V. 17. N. 1 (59). P. 98−108.

Kuyukina M.S. Ivshina I.B. Serebrennikova M.K. Rubtsova E.V. Krivoruchko A.V. Simultaneous species-specific PCR detection and viability testing of poly(vinyl alcohol) cryogel-entrapped Rhodococcus spp. after their exposure to petroleum hydrocarbons // Journal of Microbiological Methods. 2013. V. 94. N. 2. P. 135−140.

Kuyukina M.S. Ivshina I.B. Kamenskikh T.N. Bulicheva M.V. Stukova G.I.
Survival of cryogel-immobilized Rhodococcus cells in crude oil-contaminated soil and their impact on biodegradation efficiency // International Biodeterioration & Biodegradation. 2013. V. 84. P. 118−125.

Ivshina I.B. Vikhareva E.V. Richkova M.I. Mukhutdinova A.N. Karpenko Ju.N.
Biodegradation of drotaverine hydrochloride by free and immobilized cells of Rhodococcus rhodochrous IEGM 608 // World Journal of Microbiology and Biotechnology. 2012. V. 28. P. 2997−3006.

Rubtsova E.V. Kuyukina M.S. Ivshina I.B. Effect of cultivation conditions on the adhesive activity of Rhodococcus cells towards n-hexadecane // Applied Biochemistry and Microbiology. 2012. V. 48. N. 5. P. 452−459.

Kuyukina M.S. Ivshina I.B. Serebrennikova M.K. Osipenko M.A. Nyashin Y.I. Experimental and theoretical studies of the actinobacterial immobilization process in a column fluidized-bed bioreactor // Russian Journal of Biomechanics. 2012. V. 16. N. 4 (58). P. 74−81.

Grishko V.V. Nogovitsina E.M. Ivshina I.B. Optimization of conditions for biocatalytic production of stigmast-4-en-3-one // Chemistry of Natural Compounds. 2012. V. 48. N. 3. P. 432−435.

Kuyukina M.S. Ivshina I.B. Makarov S.O. Philp J.C. Risk assessment and management of terrestrial ecosystems exposed to petroleum contamination // In: Environmental Contamination / Ed. J. K. Srivastava. InTech, 2012. Chapter 10. P. 177−198. ISBN 978-953-51-0120-8.

Gein S.V. Kuyukina M.S. Ivshina I.B. Bayeva T.A. Chereshnev V.A. In vitro cytokine stimulation assay for glycolipid biosurfactant from Rhodococcus ruber: role of monocyte adhesion // Cytotechnology. 2011. V. 63. P. 559−566.

Kuyukina M.S. Ivshina I.B. Rubtsova E.V. Ivanov R.V. Lozinsky V.I. Adsorptive immobilization of rhodococcal cells in hydrophobized derivatives of wide pore polyacrylamide cryogel // Applied Biochemistry and Microbiology. 2011. V. 47. N. 2. P. 158−164.

Nogovitsina Ye. Grishko V.V. Ivshina I.B. Biocatalytic synthesis of pharmacology perspective stigmast-4-en-3-one using rhodococci cells // Russian Journal of Bioorganic Chemistry. 2011. V. 37. N. 5. P. 626−633.

Korostina O.A. Kuyukina M.S. Ivshina I.B. Kostina L.V. Osipenko M.A. Nyashin Y.I.
The use of the application package for solving the problems concerning oil-and heavy metal-contaminated soil washing by means of biosurfactant // Russian Journal of Biomechanics. 2011. V. 15. N 3 (53). P. 72−77.

Scientific articles of public relevance

Ivshina I.B. (2012) Microbial collections: challenges and prospectives. Science of Ural. May. 13, 4.

Ivshina I.B. (2013) Infinite role of infinitesimal. Science in Russia. January-February 1(193), 9−15.

Ivshina I.B. (2013) Interdisciplinary product: multifunctional biocatalysts. Science of Ural. September. 21-22, 6-7.

Ivshina I.B. (2013) Collections unite! Science of Ural. November. 27, 3.