Dr. Mohammad Reza Shakibaie

Professor of Department


M.R. Shakibaie earned his PhD from University of Pune India from 1992 to 1997. His thesis was” Molecular Genetics of plasmid Mediated Silver and Antibiotic Resistances in Acinetobacter baumannii”. He completed one year Postdoctoral research training at Aquatic Microbial Lab in Mysore, India during 2006. His research title was Horizontal Gene Transfer in Gram-Negative Bacteria. Dr. Shakibaie Joined the Department of Microbiology, Kerman University of Medical Sciences in 1998. He guided more than 24 master (M.Sc.) and 4 Ph.D. students and 35 projected. He received university award for best researcher in 20013 and 2017. MEMBERSHIP IN SCIENTIFIC SOCIETIES Member, New York Academy of Science, Science Advisory Board (USA) Member, Asian -Pacific Research Foundation for Infectious Diseases (ARFFID) Affiliated member of European Society for Microbiologists (FEMS) Member of Iranian Society of Microbiology Editorial Board Member – JMC (Journal of Microscopic Creatures) Editorial board World Academy of Sciences (Waset) Editor of International Journal Biological and Life Sciences Editorial team J Biotechnology and Molecular Biology Review Editor of Current Research Journal of Biological Sciences Editor team of African Journal of Bacteriology Research - Academic Journals Editorial board of Current Research Journal of Biological Sciences, Maxwell Scientific organization Editorial team Journal of Environmental Health Science and Engineering Editor Journal of report of biochemistry and molecular biology Member Iranian biotechnology society Editorial member journal of antimicrobial agents (OMICS)

Contacts information







Honors and awards

 Best scientific award

In research,

 Best scientific award

In research,


 Cloning Sequencing Real Time PCR

 Microbial biofilm. mechanism of quorum sensing in bacteria





Journal papers

1. Shakibaie MR, Dhakephalker PA, Kapadnis BP, and Chopade BA, Removal of silver from Waste water effluents using Acenitobacter baumannii BL54

Canadian Journal Microbiology, 45, -, 995-1000, 19999
Impactfactor: 2.33

2. Taghadosi R, Shakibaie MR, Alizade H, Hosseini-Nave H, Askari A, Ghanbarpour R, Serogroups, subtypes and virulence factors of shiga toxin-producing Escherichia coli isolated from human, calves and goats in Kerman, Iran

Gastroenterol Hepatol Bed Bench, 11, 1, 60-67, 2018

3. Mohammad Reza Shakibaie, Bacterial Biofilm and its Clinical Implications

Annals of Microbiology and Research, 2, 1, 45-50, 2018
Review article

4. Mohammad Reza Shakibaie, Omid Azizi , Fereshteh Shahcheraghi, Insight into stereochemistry of a new IMP allelic variant (IMP-55) metallo-β-lactamase identified in a clinical strain of Acinetobacter baumannii

Infection, Genetics and Evolution, 51, 118-126, 2017
Metallo-β-lactamases (MBLs) such as IMPs are broad-spectrum β-lactamases that inactivate virtually all β-lactam antibiotics including carbapenems. In this study, we investigated the hydrolytic activity, phylogenetic relationship, three dimensional (3D) structure including zinc binding motif of a new IMP variant (IMP-55) identified in a clinical strain of Acinetobacter baumannii (AB). AB strain 56 was isolated from an adult ICU of a teaching hospital in Kerman, Iran. It exhibited MIC 32 μg/ml to imipenem and showed MBL activity. Hydrolytic property of the MBL enzymewas measured phenotypically. Presence of blaIMP gene encoded by class 1 integrons was detected by PCR-sequencing. Phylogenetic tree of IMP protein was constructed using the Unweighted Pair GroupMethodwith ArithmeticMean (UPGMA) and 3Dmodel including zinc binding motifwas predicted by bioinformatics softwares. Analysis of IMP sequence led to the identification of a novel IMP-type designated as IMP- 55 (GenBank: KU299753.1; UniprotKB: A0A0S2MTX2). Impact in term of hydrolytic activity compared to the closest variants suggested efficient imipenem hydrolysis by this enzyme. Evolutionary distance matrix assessment indicated that IMP-55 protein is not closely related to other A. baumannii IMPs, however, shared 98% homology with Escherichia coli IMP-30 (UniprotKB: A0A0C5PJR0) and Pseudomonas aeruginosa IMP-1 (UniprotKB: Q19KT1). It consisted of five α-helices, ten β-sheets and six loops. A monovalent zinc ion attached to core of enzymevia His95, His97, His157 and Cys176.Multiple amino acid sequence alignments and mutational trajectory with reported IMPs showed 4 amino acid substitutions at positions 12(Phe → Ile), 31(Asp → Glu), 172(Leu→Phe) and 185(Asn→Lys).We suggest that the pleiotropic effect of mutations due to frequent administration of imipenem is responsible for emergence of new IMP variant in our hospitals. © 2017 Elsevier B.V. All rights reserved.

5. Melika Gholamrezazadeh a, Mohammad Reza Shakibaie a,b,c,*, Fatemeh Monirzadeh a, Shalaleh Masoumi a, Zahra Hashemizadeh a, Effect of nano-silver, nano-copper, deconex and benzalkonium chloride on biofilm formation and expression of transcription regulatory quorum sensing gene (rh1R) in drug-resistance Pseudomonas aeruginosa burn isolates

Burns Journal, in press, 28 December, 1-10, 2017

6. Roholla Taghadosi1, Mohammad Reza Shakibaie1*, Reza Ghanbarpour2, Hossein Hosseini-Nave1, Role of antigen-43 on biofilm formation and horizontal antibiotic resistance gene transfer in non-O157 Shiga toxin producing Escherichia coli strains

IRAN. J. MICROBIOL., 9, 2, 89-96, 2017

7. Roya Ahmadrajabi, Mohammad Reza Shakibaie, Zahra Iranmanesh, Hamid Reza Mollaei & Mohammad Hossein Sobhanipoor, Prevalence of mip virulence gene and PCR-base sequence typing of Legionella pneumophila from cooling water systems of two cities in Iran

Journal Virulence, 8, 3, 1-7, 2016

8. Farzan Modarresi1, Omid Azizi1, Mohammad Reza Shakibaie1,2,3*, Mohammad Motamedifar4, Shahla Mansouri1, Cloning and expression of quorum sensing N-Acyl-homoserine synthase (luxI) gene detected in Acinetobacter baumannii

Iranian Journal of Microbiology, 8, 2, 24-27, 2016

9. Omid Azizi1, Fereshteh Shahcheraghi2, Himen Salimizand3, Farzan Modarresi4, Mohammad Reza Shakibaie*1, 5, 6, Shahla Mansouri1, Rashid Ramazanzadeh7, Farzad Badmasti2, Vajihe Nikbin2, Molecular Analysis and Expression of bap Gene in Biofilm-Forming Multi-Drug-Resistant Acinetobacter baumannii

Reports of Biochemistry & Molecular Biology, 5, 1, 1-8, 2016

10. Omid Azizi1, Mohammad Reza Shakibaie2, Farzad Badmasti3, Farzan Modarresi4, Rashid Ramazanzadeh5, Shahla Mansouri6, Fereshteh Shahcheraghi7, Class 1 integrons in non-clonal multidrug resistant Acinetobacter baumannii from Iran, description of the new blaIMP-55 allele in In1243

Journal Medical Microbiology, 2016

11. Mina Aryanezhad , Mohammad Reza Shakibaie *, Afsaneh Karmostaji , Samane Shakibaie, Prevalence of Class 1, 2 and 3 Integrons and Biofilm Formation in Pseudomonas aeruginosa and Acinetobacter baumannii among ICU and non-ICU Patients

Infect Epidemiol Med, 2, 4, 1-7., 2016

12. Omid Azizi,1 Mohammad Reza Shakibaie,1,2,3 Farzad Badmasti,4 Farzan Modarresi,5 Rashid Ramazanzadeh,6 Shahla Mansouri1 and Fereshteh Shahcheraghi4, Class 1 integrons in non-clonal multidrugresistant Acinetobacter baumannii from Iran, description of the new blaIMP-55 allele in In1243

Journal of Medical Microbiology, 65, -, 928–936, 2016

13. Razieh Nezarieh 1; Mohammad Reza Shakibaie 1,2,*; Hossein Hosseini Nave 1; Amin Norouzi 1; Gholamabas Salajegheh 3; Mehdi Hayatbakhsh 4, Distribution of Virulence Genes, Enterotoxin and Biofilm Formation Among Enteroaggregative Escherichia Coli (EAEC) Strains Isolated From Stools of Children With Diarrhea in South East Iran

Arch Pediatr Infect Dis, 3, 3, e29745, 2015

14. Omid Azizi, Mohammad Reza Shakibaie, Farzan Modarresi, Fereshteh Shahcherghi., Molecular detection of Class- D (OXA) carbapenemase genes in biofilm and non-biofilm forming clinical Isolates of Acinetobacter baumannii.

Jundishapur Journal of Microbiology, 8, 1, e21042, 2015
Impact factor: 0.8 Shakibaie MR: corresponding author

15. Mojtaba Shakibaie, Hamid Forootanfar, Yaser Golkari, Tayebe Mohammadi-Khorsand, Mohammad Reza Shakibaie., Anti-biofilm activity of biogenic selenium nanoparticle and selenium dioxide against clinical isolates of Staphylococcus aureus, Pseudomonas aeruginosa, and Proteus mirabilis.

Journal of Trace Elements in Medicine and Biology, 29, -, 29:235–241, 2015
Impact Factor: 2.5 Shakibaie MR corresponding author

16. Taghadosi R, Shakibaie MR, Masoumi S., Biochemical detection of Nacyl homoserine lactone (AHL) in biofilm forming uropathogenic E. coli isolated from UTI patients.

Reports in Biochemistry and Molecular Biology, 3, 2, 1-8, 2015
Shakibaie MR corresponding author

17. FARZAN MODARRESI,1,† OMID AZIZI,1,† MOHAMMAD REZA SHAKIBAIE,1,2,3,† MOHAMMAD MOTAMEDIFAR,4,5 BEHNAZ VALIBEIGI6 and SHAHLA MANSOURI, Effect of iron on expression of efflux pump (adeABC) and quorum sensing (luxI, luxR) genes in clinical isolates of Acinetobacter baumannii

2015 APMIS. Published by John Wiley & Sons Ltd. DOI 10.1111/apm.12455, -, -, -, 2015

18. FARZAN MODARRESI,1,† OMID AZIZI,1,† MOHAMMAD REZA SHAKIBAIE,1,2,3,† MOHAMMAD 1 MOTAMEDIFAR,4,5 BEHNAZ VALIBEIGI6 and SHAHLA MANSOURI1, Effect of iron on expression of efflux pump (adeABC) and quorum sensing (luxI, luxR) genes in clinical isolates of Acinetobacter baumannii

2015 APMIS. Published by John Wiley & Sons Ltd. DOI 10.1111/apm.12455, -, -, -, 2015

19. Farzan Modarresi, Mohammad Reza Shakibaie, Omid Azizi, Mohammad Motamedifar, Ellahe Mosadegh and Shahla Mansouri, Iron limitation enhances biofilm formation in A. baumannii

Journal of Virulence, 6, 2, 152-168, 2015
Impact factor 3.4 Shakibaie MR corresponding author

20. Amin Norouzi1, Omid Azizi1, Hossein Hosseini Nave1, Samane Shakibaie2, *Mohammad Reza Shakibaie1, 3, Analysis of Amino Acid Substitution Mutations of gyrA and parC Genes in Clonal Lineage of Klebsiella pneumoniae Conferring High-level Quinolone Resistance

J Med Microbiol Infec Dis,, 2, 3, 109-117, 2014

21. Mohammad Reza Shakibaie, Yasser Golkari, Gholamabas Salajegheh, Evaluation of the antimicrobial susceptibility, virulence factors and biofilm formation among Staphylococcus aureus hospital infections in Kerman, Iran

Journal Microbiology and Infectious diseases, 4, 4, 87-90, 2014

22. Mohammad Reza Shakibaie, Saied Adeli and Mohammad H. Salehi., Antimicrobial susceptibility pattern and ESBL production among uropathogenic Escherichia coli isolated from children in pediatric unit of a hospital in Kerman, Iran.

British Microbiology Research Journal, 4, 3, 262-271, 2014
1 http://dx.doi.10.9734/ BMRJ/2014/ 6563

23. Jafari E, Shakibaie MR, Poor masoomi L, Isolation of a novel antibiotic resistance plasmid DNA from hospital isolates of Pseudomonas aeruginosa.

Clinical and Experimental Pathology, 2, -, 1-5, 2013
Shakibaie MR corresponding author

24. Shikh-Bardsiri H, and Mohammad Reza Shakibaie., Antibiotic resistance pattern among biofilm producing and nonproducing Proteus strains isolated from hospitalized patients; matter of hospital hygiene and antimicrobial stewardship

Pakistan Journal of Biological Sciences, 16, 22, 1496-1502, 2013
Index in PuMed and ISI

25. Mohammad Reza Shakibaie et al., Antibiotic resistant pattern and ESBL production among Acinetobacter spp. isolated from ICU of a hospital in Kerman, Iran.

Journal Antibiotic Resistance Infection Control, 1, 1, 1-8, 2012
Impact factor: 1.6

26. Ehsan Mirkamandar, Mohammad Reza Shakibaie, Saeed Adeli, Mitra Mehrabani, Mohammad Mehdi Hayatbakhsh., In vitro antimicrobial activity of Salvadora persica extract on Helicobacter pylori strains isolated from duodenal ulcer biopsies

Microbiology Research, 3, e9, 38-41, 2012
Shakibaie MR corresponding author

27. M.R. Shakibaie, KA. Jalilzadeh, SM. Yamakanamardi., Horizontal transfer ofantibiotic resistance genes among Gram negative bacteria in sewage and lake waterand influence of some physico-chemical parameters of water on conjugation process

Journal of Environmental Biology, 30, 1, 45-49, 2009
ISI, PubMed. 37 citation

28. Abbas Mohammadi, Ali Vaziri Gohar and Mohammad Reza Shakibaie, Mutations in tumor suppressor tp53 gene in formalinfixed, paraffin embedded tissues of squamous cell carcinoma (scc) of lung cancer.

American Journal of Biochemistry and Biotechnology, 4, 1, 1-6, 2008

29. Melika Gholamrezazadeh a, Mohammad Reza Shakibaie a,b,c,*, Fatemeh Monirzadeh a, Shalaleh Masoumi a, Zahra Hashemizadeh, Effect of nano-silver, nano-copper, deconex and benzalkonium chloride on biofilm formation and expression of transcription regulatory quorum sensing gene (rh1R) in drug-resistance Pseudomonas aeruginosa burn isolates

Burns Journal, -, -, 1-10, 0

Conference papers

1. Shakibaie MR, Norouzi A, Analysis of amino acid substitution mutations of gyrA and parC genes in the clonal lineage of Klebsiella pneumoniae conferring high-level quinolone resistance || Abstract #6770

European clinical microbiology (ESCMIC), Masteright- Holand (Naderland), 2016

2. Shakibaie MR, Molecular identification of ESBL genes blaGES-1, blaVEB-1, blaCTX-M, blaOXA-1, blaOXA-4, blaOXA-10 and blaPER-1 in Pseudomonas aeruginosa isolated from burn patients by PCR-RFLP and sequencing techniques

4th Conference of European Microbiologist, Geneva, SWISS, 2011

3. Shakibaie MR, Horizontal transfer of antibiotic resistance genes among Gram negative bacteria in sewage and lake water and effect of some physicochemical of water in conjugation

3rd Conference of European Microbiologist, Gothenburg, Sweden, 2009


 Molecular Biology

 PCR, Cloning, Bioinformatics, Medical Microbiology, Gene transfer