1- Bialvaei AZ, Samadi Kafil H. Colistin, mechanisms and prevalence of resistance. Curr Med Res Opin. 2015; 31(4):707-21.
2- Binsker U, Käsbohrer A, Hammerl JA. Global colistin use: a review of the emergence of resistant Enterobacterales and the impact on their genetic basis. FEMS Microbiol Rev. 2022; 46(1).
3- Maldonado RF, Sá-Correia I, Valvano MA. Lipopolysaccharide modification in Gram-negative bacteria during chronic infection. FEMS Microbiol Rev. 2016; 40(4): 480-93.
4- Loho T, Dharmayanti A. Colistin: an antibiotic and its role in multiresistant Gram-negative infections. Acta Med Indones. 2015; 47(2): 157-68.
5- Baijal K, Abramchuk I, Herrera CM, Stephen Trent M, Lavallée-Adam M, Downey M. Proteomics analysis reveals a role for E. coli polyphosphate kinase in membrane structure and polymyxin resistance during starvation. bioRxiv. 2023.
6- Rogga V, Kosalec I. Untying the anchor for the lipopolysaccharide: lipid A structural modification systems offer diagnostic and therapeutic options to tackle polymyxin resistance. Arh Hig Rada Toksikol. 2023; 74(3): 145-66.
7- Tula MY, Filgona J, Kyauta SE, Elisha R. Screening for some virulent factors among bacterial isolates from surfaces of hospital fomites and hands of healthcare workers. CMBR. 2023; 3(1): 9-16.
8- Tula MY, Filgona J, Pukuma MS. A Systematic review on the status of diarrheagenic Escherichia coli (DEC) pathotypes in Nigeria; the year 2000 – 2022. CMBR. 2022; 2(4): 213-29.
9- Shiri Y, Solouki M, Ebrahimie E, Emamjomeh A, Zahiri J. Gibberellin causes wide transcriptional modifications in the early stage of grape cluster development. Genomics. 2020; 112(1): 820-30. [In Persian]
10- Narimisa N, Goodarzi F, Bavari S. Prevalence of colistin resistance of Klebsiella pneumoniae isolates in Iran: a systematic review and meta-analysis. Ann clin microbiol antimicrob. 2022; 21(1): 29. [In Persian]
11- Chang K, Wang H, Zhao J, Yang X, Wu B, Sun W, et al. Risk factors for polymyxin B-associated acute kidney injury. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases. 2022; 117: 37-44.
12- Gogry FA, Siddiqui MT, Sultan I, Haq QMR. Current Update on Intrinsic and Acquired Colistin Resistance Mechanisms in Bacteria. Frontiers in medicine. 2021; 8: 677720.
13- Legese MH, Asrat D, Mihret A, Hasan B, Mekasha A, Aseffa A, et al. Genomic Epidemiology of Carbapenemase-Producing and Colistin-Resistant Enterobacteriaceae among Sepsis Patients in Ethiopia: a Whole-Genome Analysis. AAC. 2022; 66(8): e0053422-e.
14- Apweiler R, Bairoch A, Wu CH, Barker WC, Boeckmann B, Ferro S, et al. UniProt: the Universal Protein knowledgebase. Nucleic Acids Res. 2004; 32(Database issue): D115-D9.
15- Szklarczyk D, Morris JH, Cook H, Kuhn M, Wyder S, Simonovic M, et al. The STRING database in 2017: quality-controlled protein–protein association networks, made broadly accessible. Nucleic Acids Res. 2017; 45(Database issue): D362-D8.
16- Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, Ramage D, et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome res. 2003; 13(11): 2498-504.
17- Assenov Y, Ramirez F, Schelhorn SE, Lengauer T, Albrecht M. Computing topological parameters of biological networks. Bioinformatics. 2008; 24(2): 282-4.
18- Shiri Y, Solouki M, Ebrahimi E, Emamjomeh A, Zahiri J. Gibberellin causes wide transcriptional modifications in the early stage of grape cluster development. Genomics. 2019. [In Persian]
19- Shiri Y, Solouki M, Ebrahimi E, Emamjomeh A, Zahiri J. Unraveling the Transcriptional Complexity of Compactness in Sistan Grape Cluster. Plant Science. 2018. [In Persian]
20- Shiri Y, Karimiyan Ma. Reconstitution of Gene Network on Penicillin Resistance in E.coli Using Databases Information. NFVM. 2020; 2(2): 1-9. [In Persian]
21- Shiri Y, Mohkami Z, Bidarnamani F. Reconstruction of co-expression network of ampC gene as the main factor of Pseudomonas aeruginosa resistance to the new antibiotic Ceftolozane/Tazobactam. NFVM. 2022; 5(1): 96-107. [In Persian]
22- Shiri Y, fazeli nasab B. Evaluation of gene network on tetracycline antibiotic resistance controlled by tetA and tetB genes using databases information. NFVM. 2019; 2(1): 88-96. [In Persian]
23- Shiri Y, Khodavirdipour A, Kalkali N. Re-construction of Co-expression Network of Genes Involved in Bacterial Cell Wall Synthesis and Their Role in Penicillin Resistance. AJCMI. 2020; 7(3): 65-71. [In Persian]
24- Jiao X, Sherman BT, Huang DW, Stephens R, Baseler MW, Lane HC, et al. DAVID-WS: a stateful web service to facilitate gene/protein list analysis. Bioinformatics (Oxford, England). 2012; 28(13): 1805-6.
25- Benjamini Y, Hochberg Y. Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing. J R Sta. Soc Ser B Methodol. 1995; 57(1): 289-300.
26- Takahashi H, Carlson RW, Muszynski A, Choudhury B, Kim KS, Stephens DS, et al. Modification of lipooligosaccharide with phosphoethanolamine by LptA in Neisseria meningitidis enhances meningococcal adhesion to human endothelial and epithelial cells. Infect Immun. 2008; 76(12): 5777-89.
27- Ly NS, Yang J, Bulitta JB, Tsuji BT. Impact of two-component regulatory systems PhoP-PhoQ and PmrA-PmrB on colistin pharmacodynamics in Pseudomonas aeruginosa. Antimicrob Agents Chemother. 2012; 56(6): 3453-6.
28- Guo H, Zhao T, Huang C, Chen J. The Role of the Two-Component System PhoP/PhoQ in Intrinsic Resistance of Yersinia enterocolitica to Polymyxin. Front Microbiol. 2022; 13: 758571.
29- Bishop RE, Gibbons HS, Guina T, Trent MS, Miller SI, Raetz CR. Transfer of palmitate from phospholipids to lipid A in outer membranes of gram-negative bacteria. EMBO. 2000; 19(19): 5071-80.
30- Rubin EJ, Herrera CM, Crofts AA, Trent MS. PmrD is required for modifications to escherichia coli endotoxin that promote antimicrobial resistance. AAC. 2015; 59(4): 2051-61.
31- Kawahara K. Variation, Modification and Engineering of Lipid A in Endotoxin of Gram-Negative Bacteria. Int J Mol Sci. 2021; 22(5).
32- Bishop RE. The lipid A palmitoyltransferase PagP: molecular mechanisms and role in bacterial pathogenesis. Molecular microbiology. 2005; 57(4): 900-12.
33- Elizabeth R, Baishya S, Kalita B, Wangkheimayum J, Choudhury MD, Chanda DD, et al. Colistin exposure enhances expression of eptB in colistin-resistant Escherichia coli co-harboring mcr-1. Scientific reports. 2022; 12(1): 1348.
34- Protonotariou E, Meletis G, Malousi A, Kotzamanidis C, Tychala A, Mantzana P, et al. First detection of mcr-1-producing Escherichia coli in Greece. J Glob Antimicrob Resist. 2022; 31: 252-5.
