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Aleksandrova YI, Shurpik DN, Nazmutdinova VA, Zelenikhin PV, Subakaeva EV, Sokolova EA, Leonteva YO, Mironova AV, Kayumov AR, Petrovskii VS, Potemkin II, Stoikov II. Antibacterial Activity of Various Morphologies of Films Based on Guanidine Derivatives of Pillar[5]arene: Influence of the Nature of One Substitute on Self-assembly. ACS Appl Mater Interfaces 2024; 16:17163-17181. [PMID: 38530408 DOI: 10.1021/acsami.3c18610] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/28/2024]
Abstract
The progress of the pillar[5]arene chemistry allowed us to set out a new concept on application of the supramolecular assemblies to create antimicrobial films with variable surface morphologies and biological activities. Antibacterial films were derived from the substituted pillar[5]arenes containing nine pharmacophoric guanidine fragments and one thioalkyl substituent. Changing the only thioalkyl fragment in the macrocycle structure made it possible to control the biological activity of the resulting antibacterial coating. Pretreatment of the surface with aqueous solution of the amphiphilic pillar[5]arenes reduced the biofilm thickness by 56 ± 10% of Gram-positive Staphylococcus aureus in the case of the pillar[5]arene containing a thiooctyl fragment and by 52 ± 7% for the biofilm of Gram-negative Klebsiella pneumoniae in the case of pillar[5]arene containing a thiooctadecyl fragment. Meanwhile, the cytotoxicity of the synthesized macrocycles was examined at a concentration of 50 μg/mL, which was significantly lower than that of bis-guanidine-based antimicrobial preparations.
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Affiliation(s)
- Yulia I Aleksandrova
- A. M. Butlerov Chemistry Institute, Kazan Federal University, 420008 Kremlevskaya Street, 18, Kazan, Russian Federation
| | - Dmitriy N Shurpik
- A. M. Butlerov Chemistry Institute, Kazan Federal University, 420008 Kremlevskaya Street, 18, Kazan, Russian Federation
| | - Viktoriya A Nazmutdinova
- A. M. Butlerov Chemistry Institute, Kazan Federal University, 420008 Kremlevskaya Street, 18, Kazan, Russian Federation
| | - Pavel V Zelenikhin
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kremlevskaya, 18, Kazan, Russian Federation
| | - Evgeniya V Subakaeva
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kremlevskaya, 18, Kazan, Russian Federation
| | - Evgeniya A Sokolova
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kremlevskaya, 18, Kazan, Russian Federation
| | - Yulia O Leonteva
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kremlevskaya, 18, Kazan, Russian Federation
| | - Anna V Mironova
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kremlevskaya, 18, Kazan, Russian Federation
| | - Airat R Kayumov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kremlevskaya, 18, Kazan, Russian Federation
| | - Vladislav S Petrovskii
- Physics Department, M. V. Lomonosov Moscow State University, Leninskie Gory 1-2, 119991 Moscow, Russian Federation
- N. N. Semenov Federal Research Center of Chemical Physics of Russian Academy of Sciences, Kosygina 4, 119991 Moscow, Russian Federation
| | - Igor I Potemkin
- Physics Department, M. V. Lomonosov Moscow State University, Leninskie Gory 1-2, 119991 Moscow, Russian Federation
| | - Ivan I Stoikov
- A. M. Butlerov Chemistry Institute, Kazan Federal University, 420008 Kremlevskaya Street, 18, Kazan, Russian Federation
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Guseva GB, Eremeeva YV, Antina EV, Gilfanov IR, Lisovskaya SA, Ostolopovskaya OV, Trizna EY, Kayumov AR, Nikitina LE. Effect of meso-substituents and medium properties on the photo- and pH-stability, penetration efficiency into bacterial and microscopic fungi cells of terpene-BODIPY conjugates. Spectrochim Acta A Mol Biomol Spectrosc 2024; 308:123701. [PMID: 38070313 DOI: 10.1016/j.saa.2023.123701] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2023] [Revised: 11/17/2023] [Accepted: 11/26/2023] [Indexed: 01/13/2024]
Abstract
In order to expand the arsenal of tools and areas for practical use of BODIPY dyes as bifunctional fluorescent theranostics, we studied the effect of the meso-substituents nature and medium properties on photo- and pH-stability, efficiency of singlet oxygen generation, and affinity to biostructures of terpene-BODIPY conjugates. The BODIPYs fused with myrtenol or thiotherpenoid via carboxylic acid residues exhibit high stability over a wide pH range and the presence of a bulky substituent at the meso-position of BODIPY conjugates increases their photostability two-fold compared to structurally related meso-unsubstituted analogues. Furthermore, the photodegradation rate of the conjugates directly depends on their ability to generate singlet oxygen and the course probability of the corresponding red-ox reactions involving reactive oxygen species. The conjugate of BODIPY with a thiotherpenoid demonstrated high ability to penetrate the membranes of filamentous and yeast-like fungi and bind to membrane of organelles in the fungal cell. At the same time, this compound also had a high ability to penetrate into biofilms of Staphylococcus aureus and Klebsiella pneumoniae and into bacterial cells within the matrix, which makes this compound promising for staining intracellular structures of eukaryotic cells and bacteria embedded into biofilms.
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Affiliation(s)
- Galina B Guseva
- G.A. Krestov Institute of Solution Chemistry of Russian Academy of Sciences, 153045 Ivanovo, Russia.
| | - Yuliya V Eremeeva
- G.A. Krestov Institute of Solution Chemistry of Russian Academy of Sciences, 153045 Ivanovo, Russia.
| | - Elena V Antina
- G.A. Krestov Institute of Solution Chemistry of Russian Academy of Sciences, 153045 Ivanovo, Russia.
| | - Ilmir R Gilfanov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia.
| | - Svetlana A Lisovskaya
- Kazan State Medical University, Faculty of Medicine and Biology, 420012 Kazan, Russia; Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia; Scientific Research Institute of Epidemiology and Microbiology, 420015 Kazan, Russia.
| | - Olga V Ostolopovskaya
- Kazan State Medical University, Faculty of Medicine and Biology, 420012 Kazan, Russia; Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia.
| | - Elena Y Trizna
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia.
| | - Airat R Kayumov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia.
| | - Liliya E Nikitina
- Kazan State Medical University, Faculty of Medicine and Biology, 420012 Kazan, Russia; Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia.
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Izmest'ev ES, Pestova SV, Kolesnikova AI, Baidamshina DR, Kayumov AR, Rubtsova SA. Terpene-Functionalized Fluoroquinolones as Potential Antimicrobials: Synthesis and Properties. ChemMedChem 2023; 18:e202300358. [PMID: 37872856 DOI: 10.1002/cmdc.202300358] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2023] [Revised: 10/22/2023] [Accepted: 10/23/2023] [Indexed: 10/25/2023]
Abstract
This study was the first to synthesize terpene-containing conjugates of fluoroquinolones, ciprofloxacin and norfloxacin, and to evaluate their antibacterial activity against gram-positive methicillin sensitive (MSSA) and methicillin resistant (MRSA) S. aureus, gram-negative P. aeruginosa as well as antifungal activity against C. albicans. The ability of obtained fluoroquinolones to inhibit S. aureus growth was found to depend upon the presence of a linker separating the bulky terpene and fluoroquinolone fragments, and this activity diminished with increasing its length. The highest activity against MSSA was demonstrated by ciprofloxacin derivatives with campholenic (MIC 1 μg/mL) and 2-(isobornan-2-yl-sulfanyl)acetyl (MIC 0.5 μg/mL) substituents. The compound with the last fragment showed high activity against MRSA (MIC 8 μg/mL). The terpene-functionalized norfloxacin derivatives generally proved to be less active than those containing ciprofloxacin fragment. Camphor-10-sulfonylamide derivative with the ciprofloxacin fragment was the only one of all compounds that showed high antifungal activity against C. albicans (8 μg/mL). The study presents data on docking fluoroquinolones to S. aureus DNA gyrase to explain the reasons for manifestation or disappearance of antibacterial activity. The cytotoxicity of fluoroquinolones that showed any antimicrobial activity was investigated against bovine primary lung cells, and they were found to be not toxic in most cases.
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Affiliation(s)
- Evgeniy S Izmest'ev
- Institute of Chemistry, FRC Komi Science Center Ural Branch of the Russian Academy of Sciences, 48, Pervomaiskaya St., 167000, Syktyvkar, Russian Federation
| | - Svetlana V Pestova
- Institute of Chemistry, FRC Komi Science Center Ural Branch of the Russian Academy of Sciences, 48, Pervomaiskaya St., 167000, Syktyvkar, Russian Federation
| | - Alena I Kolesnikova
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 18, Kremlevskaya St., 420008, Kazan, Russian Federation
| | - Diana R Baidamshina
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 18, Kremlevskaya St., 420008, Kazan, Russian Federation
| | - Airat R Kayumov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 18, Kremlevskaya St., 420008, Kazan, Russian Federation
| | - Svetlana A Rubtsova
- Institute of Chemistry, FRC Komi Science Center Ural Branch of the Russian Academy of Sciences, 48, Pervomaiskaya St., 167000, Syktyvkar, Russian Federation
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Shtyrlin NV, Kayumov AR, Agafonova MN, Garipov MR, Gatina AE, Pugachev MV, Bulatova ES, Grishaev DY, Iksanova AG, Khaziev RM, Ganiev IM, Aimaletdinov AM, Gnezdilov OI, Shtyrlin YG. Synthesis and biological evaluation of fluoroquinolones containing a pyridoxine derivatives moiety. Eur J Med Chem 2023; 261:115798. [PMID: 37729692 DOI: 10.1016/j.ejmech.2023.115798] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2023] [Revised: 08/29/2023] [Accepted: 09/06/2023] [Indexed: 09/22/2023]
Abstract
We report herein the design, synthesis and biological evaluation of series of 7-substituted fluoroquinolones with pyridoxine derivatives. In vitro screening of antibacterial activity and toxicity of 39 synthesized fluoroquinolones defined compounds 7 and 28 as lead compounds for further investigations. On various clinical isolates lead compounds 7 and 28 exhibited antibacterial activity comparable with reference fluoroqinolones. Mutagenic effects haven't been observed for these compounds in SOS-chromotest. Compound 7 are non-toxic in vivo on mice (LD50 > 2000 mg/kg, oral) and rats (LD50 > 2000 mg/kg, oral). Compound 28 was more toxic (LD50 = 474 mg/kg, oral, mice). Moreover compound 7 showed greater in vivo efficacy compared to ciprofloxacin in a murine model of staphylococcal sepsis. Taken together the described active compound are promising candidate for preclinical trials.
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Affiliation(s)
- Nikita V Shtyrlin
- Kazan (Volga region) Federal University, Kremlyovskaya St. 18, Kazan, 420008, Russian Federation.
| | - Airat R Kayumov
- Kazan (Volga region) Federal University, Kremlyovskaya St. 18, Kazan, 420008, Russian Federation
| | - Maria N Agafonova
- Kazan (Volga region) Federal University, Kremlyovskaya St. 18, Kazan, 420008, Russian Federation
| | - Marsel R Garipov
- Kazan (Volga region) Federal University, Kremlyovskaya St. 18, Kazan, 420008, Russian Federation
| | - Alina E Gatina
- Kazan (Volga region) Federal University, Kremlyovskaya St. 18, Kazan, 420008, Russian Federation
| | - Mikhail V Pugachev
- Kazan (Volga region) Federal University, Kremlyovskaya St. 18, Kazan, 420008, Russian Federation
| | - Elena S Bulatova
- Kazan (Volga region) Federal University, Kremlyovskaya St. 18, Kazan, 420008, Russian Federation
| | - Denis Y Grishaev
- Kazan (Volga region) Federal University, Kremlyovskaya St. 18, Kazan, 420008, Russian Federation
| | - Alfiya G Iksanova
- Kazan (Volga region) Federal University, Kremlyovskaya St. 18, Kazan, 420008, Russian Federation
| | - Rail M Khaziev
- Kazan (Volga region) Federal University, Kremlyovskaya St. 18, Kazan, 420008, Russian Federation
| | - Ilnur M Ganiev
- Kazan (Volga region) Federal University, Kremlyovskaya St. 18, Kazan, 420008, Russian Federation
| | - Aleksandr M Aimaletdinov
- Kazan (Volga region) Federal University, Kremlyovskaya St. 18, Kazan, 420008, Russian Federation
| | - Oleg I Gnezdilov
- Kazan E. K. Zavoisky Physical-Technical Institute, Federal Research Center "Kazan Scientific Center of the Russian Academy of Sciences", 10/7 ul. Sibirskiy trakt, Kazan, 420029, Russian Federation
| | - Yurii G Shtyrlin
- Kazan (Volga region) Federal University, Kremlyovskaya St. 18, Kazan, 420008, Russian Federation.
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5
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Nikitina LE, Bocharov PS, Ksenofontov AA, Antina EV, Gilfanov IR, Pavelyev RS, Ostolopovskaya OV, Fedyunina IV, Azizova ZR, Pestova SV, Izmest’ev ES, Rubtsova SA, Boichuk SV, Galembikova AR, Smolyarchuk EA, Mustafin IG, Kayumov AR, Samorodov AV. Unraveling the Mechanism of Platelet Aggregation Suppression by Thioterpenoids: Molecular Docking and In Vivo Antiaggregant Activity. Biomimetics (Basel) 2023; 8:570. [PMID: 38132509 PMCID: PMC10742178 DOI: 10.3390/biomimetics8080570] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2023] [Revised: 11/14/2023] [Accepted: 11/23/2023] [Indexed: 12/23/2023] Open
Abstract
Natural monoterpenes and their derivatives are widely considered the effective ingredients for the design and production of novel biologically active compounds. In this study, by using the molecular docking technique, we examined the effects of two series of "sulfide-sulfoxide-sulfone" thioterpenoids containing different (e.g., bornane and pinane) monoterpene skeletons on the platelet's aggregation. Our data revealed that all the synthesized compounds exhibit inhibitory activities on platelet aggregation. For example, compound 1 effectively inhibited platelet activation and demonstrated direct binding with CD61 integrin, a well-known platelet GPIIb-IIIa receptor on platelets. We further examined the antiaggregant activity of the most active compound, 1, in vivo and compared its activity with that of acetylsalicylic acid and an oral GPIIb-IIIa blocker, orbofiban. We found that compound 1 demonstrates antiaggregant activity in rats when administered per os and its activity was comparable with that of acetylsalicylic acid and orbofiban. Moreover, similarly, tirofiban, a well-known GPIIb-IIIa blocker, compound 1, effectively decreased the expression of P-selectin to the values similar to those of the intact platelets. Collectively, here, we show, for the first time, the potent antiaggregant activity of compound 1 both in vitro and in vivo due to its ability to bind with the GPIIb-IIIa receptor on platelets.
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Affiliation(s)
- Liliya E. Nikitina
- General and Organic Chemistry Department, Kazan State Medical University, 420012 Kazan, Russia; (O.V.O.); (I.V.F.); (Z.R.A.)
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia; (I.R.G.); (R.S.P.); (S.V.B.)
| | - Pavel S. Bocharov
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 153045 Ivanovo, Russia; (P.S.B.); (A.A.K.); (E.V.A.)
| | - Alexander A. Ksenofontov
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 153045 Ivanovo, Russia; (P.S.B.); (A.A.K.); (E.V.A.)
- Department of Inorganic Chemistry, Ivanovo State University of Chemistry and Technology, 153045 Ivanovo, Russia
| | - Elena V. Antina
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 153045 Ivanovo, Russia; (P.S.B.); (A.A.K.); (E.V.A.)
| | - Ilmir R. Gilfanov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia; (I.R.G.); (R.S.P.); (S.V.B.)
- Varnishes and Paints Coatings Department, Kazan National Research Technological University, 420015 Kazan, Russia
| | - Roman S. Pavelyev
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia; (I.R.G.); (R.S.P.); (S.V.B.)
| | - Olga V. Ostolopovskaya
- General and Organic Chemistry Department, Kazan State Medical University, 420012 Kazan, Russia; (O.V.O.); (I.V.F.); (Z.R.A.)
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia; (I.R.G.); (R.S.P.); (S.V.B.)
| | - Inna V. Fedyunina
- General and Organic Chemistry Department, Kazan State Medical University, 420012 Kazan, Russia; (O.V.O.); (I.V.F.); (Z.R.A.)
| | - Zulfiya R. Azizova
- General and Organic Chemistry Department, Kazan State Medical University, 420012 Kazan, Russia; (O.V.O.); (I.V.F.); (Z.R.A.)
| | - Svetlana V. Pestova
- Medical Chemistry Laboratory, Institute of Chemistry, Komi Scientific Centre, Ural Branch of Russian Academy of Sciences, 167000 Syktyvkar, Russia; (S.V.P.); (E.S.I.); (S.A.R.)
| | - Evgeniy S. Izmest’ev
- Medical Chemistry Laboratory, Institute of Chemistry, Komi Scientific Centre, Ural Branch of Russian Academy of Sciences, 167000 Syktyvkar, Russia; (S.V.P.); (E.S.I.); (S.A.R.)
| | - Svetlana A. Rubtsova
- Medical Chemistry Laboratory, Institute of Chemistry, Komi Scientific Centre, Ural Branch of Russian Academy of Sciences, 167000 Syktyvkar, Russia; (S.V.P.); (E.S.I.); (S.A.R.)
| | - Sergei V. Boichuk
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia; (I.R.G.); (R.S.P.); (S.V.B.)
- Department of Pathology, Kazan State Medical University, 420012 Kazan, Russia;
- Department of Radiotherapy and Radiology, Russian Medical Academy of Continuous Professional Education, 125993 Moscow, Russia
| | | | - Elena A. Smolyarchuk
- Department of Pharmacology, Sechenov First Moscow State Medical University (Sechenov University), 125993 Moscow, Russia;
| | - Ilshat G. Mustafin
- Biochemistry Department, Kazan State Medical University, 420012 Kazan, Russia;
| | - Airat R. Kayumov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia; (I.R.G.); (R.S.P.); (S.V.B.)
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6
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Baidamshina DR, Trizna EY, Goncharova SS, Sorokin AV, Lavlinskaya MS, Melnik AP, Gafarova LF, Kharitonova MA, Ostolopovskaya OV, Artyukhov VG, Sokolova EA, Holyavka MG, Bogachev MI, Kayumov AR, Zelenikhin PV. The Effect of Ficin Immobilized on Carboxymethyl Chitosan on Biofilms of Oral Pathogens. Int J Mol Sci 2023; 24:16090. [PMID: 38003281 PMCID: PMC10671066 DOI: 10.3390/ijms242216090] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2023] [Revised: 10/31/2023] [Accepted: 11/07/2023] [Indexed: 11/26/2023] Open
Abstract
In the last decade, Ficin, a proteolytic enzyme extracted from the latex sap of the wild fig tree, has been widely investigated as a promising tool for the treatment of microbial biofilms, wound healing, and oral care. Here we report the antibiofilm properties of the enzyme immobilized on soluble carboxymethyl chitosan (CMCh) and CMCh itself. Ficin was immobilized on CMCh with molecular weights of either 200, 350 or 600 kDa. Among them, the carrier with a molecular weight of 200 kDa bound the maximum amount of enzyme, binding up to 49% of the total protein compared to 19-32% of the total protein bound to other CMChs. Treatment with pure CMCh led to the destruction of biofilms formed by Streptococcus salivarius, Streptococcus gordonii, Streptococcus mutans, and Candida albicans, while no apparent effect on Staphylococcus aureus was observed. A soluble Ficin was less efficient in the destruction of the biofilms formed by Streptococcus sobrinus and S. gordonii. By contrast, treatment with CMCh200-immobilized Ficin led to a significant reduction of the biofilms of the primary colonizers S. gordonii and S. mutans. In model biofilms obtained by the inoculation of swabs from teeth of healthy volunteers, the destruction of the biofilm by both soluble and immobilized Ficin was observed, although the degree of the destruction varied between artificial plaque samples. Nevertheless, combined treatment of oral Streptococci biofilm by enzyme and chlorhexidine for 3 h led to a significant decrease in the viability of biofilm-embedded cells, compared to solely chlorhexidine application. This suggests that the use of either soluble or immobilized Ficin would allow decreasing the amount and/or concentration of the antiseptics required for oral care or improving the efficiency of oral cavity sanitization.
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Affiliation(s)
- Diana R. Baidamshina
- Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, 420008 Kazan, Russia; (D.R.B.); (E.Y.T.); (A.P.M.); (L.F.G.); (M.A.K.); (O.V.O.); (E.A.S.); (A.R.K.)
| | - Elena Yu. Trizna
- Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, 420008 Kazan, Russia; (D.R.B.); (E.Y.T.); (A.P.M.); (L.F.G.); (M.A.K.); (O.V.O.); (E.A.S.); (A.R.K.)
| | - Svetlana S. Goncharova
- Department of Biophysics and Biotechnology, Voronezh State University, 394018 Voronezh, Russia; (S.S.G.); (A.V.S.); (M.S.L.); (V.G.A.); (M.G.H.)
| | - Andrey V. Sorokin
- Department of Biophysics and Biotechnology, Voronezh State University, 394018 Voronezh, Russia; (S.S.G.); (A.V.S.); (M.S.L.); (V.G.A.); (M.G.H.)
- Laboratory of Bioresource Potential of Coastal Area, Institute for Advanced Studies, Sevastopol State University, 299053 Sevastopol, Russia
| | - Maria S. Lavlinskaya
- Department of Biophysics and Biotechnology, Voronezh State University, 394018 Voronezh, Russia; (S.S.G.); (A.V.S.); (M.S.L.); (V.G.A.); (M.G.H.)
- Laboratory of Bioresource Potential of Coastal Area, Institute for Advanced Studies, Sevastopol State University, 299053 Sevastopol, Russia
| | - Anastasia P. Melnik
- Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, 420008 Kazan, Russia; (D.R.B.); (E.Y.T.); (A.P.M.); (L.F.G.); (M.A.K.); (O.V.O.); (E.A.S.); (A.R.K.)
| | - Leysan F. Gafarova
- Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, 420008 Kazan, Russia; (D.R.B.); (E.Y.T.); (A.P.M.); (L.F.G.); (M.A.K.); (O.V.O.); (E.A.S.); (A.R.K.)
| | - Maya A. Kharitonova
- Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, 420008 Kazan, Russia; (D.R.B.); (E.Y.T.); (A.P.M.); (L.F.G.); (M.A.K.); (O.V.O.); (E.A.S.); (A.R.K.)
| | - Olga V. Ostolopovskaya
- Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, 420008 Kazan, Russia; (D.R.B.); (E.Y.T.); (A.P.M.); (L.F.G.); (M.A.K.); (O.V.O.); (E.A.S.); (A.R.K.)
| | - Valeriy G. Artyukhov
- Department of Biophysics and Biotechnology, Voronezh State University, 394018 Voronezh, Russia; (S.S.G.); (A.V.S.); (M.S.L.); (V.G.A.); (M.G.H.)
| | - Evgenia A. Sokolova
- Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, 420008 Kazan, Russia; (D.R.B.); (E.Y.T.); (A.P.M.); (L.F.G.); (M.A.K.); (O.V.O.); (E.A.S.); (A.R.K.)
| | - Marina G. Holyavka
- Department of Biophysics and Biotechnology, Voronezh State University, 394018 Voronezh, Russia; (S.S.G.); (A.V.S.); (M.S.L.); (V.G.A.); (M.G.H.)
- Laboratory of Bioresource Potential of Coastal Area, Institute for Advanced Studies, Sevastopol State University, 299053 Sevastopol, Russia
| | - Mikhail I. Bogachev
- Biomedical Engineering Research Centre, St. Petersburg Electrotechnical University, 197022 St. Petersburg, Russia;
| | - Airat R. Kayumov
- Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, 420008 Kazan, Russia; (D.R.B.); (E.Y.T.); (A.P.M.); (L.F.G.); (M.A.K.); (O.V.O.); (E.A.S.); (A.R.K.)
- Interdepartment Research Laboratory, Kazan State Academy of Veterinary Medicine Named after N. E. Bauman, 420029 Kazan, Russia
| | - Pavel V. Zelenikhin
- Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, 420008 Kazan, Russia; (D.R.B.); (E.Y.T.); (A.P.M.); (L.F.G.); (M.A.K.); (O.V.O.); (E.A.S.); (A.R.K.)
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7
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Bogachev MI, Gafurov AM, Iskandirov PY, Kaplun DI, Kayumov AR, Lyanova AI, Pyko NS, Pyko SA, Safonova AN, Sinitca AM, Usmanov BM, Tishin DV. Reversal in the drought stress response of the Scots pine forest ecosystem: Local soil water regime as a key to improving climate change resilience. Heliyon 2023; 9:e21574. [PMID: 37954317 PMCID: PMC10638002 DOI: 10.1016/j.heliyon.2023.e21574] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2023] [Revised: 10/13/2023] [Accepted: 10/24/2023] [Indexed: 11/14/2023] Open
Abstract
In a changing climate, forest ecosystems have become increasingly vulnerable to continuously exacerbating heat and associated drought conditions. Climate stress resilience is governed by a complex interplay of global, regional, and local factors, with hydrological conditions being among the key players. We studied a Scots pine (Pinus sylvestris L.) forest ecosystem located near the southern edge of the boreal ecotone, which is particularly subjected to frequent and prolonged droughts. By comparing the dendrochronological series of pines growing in apparently contrasting hydrological conditions ranging from the waterlogged peat bog area to the dry soil at the surrounding elevations, we investigated how the soil water regime affects the climate response and drought stress resilience of the forest ecosystem. We found that in the dry land area, a significant fraction of the trees were replaced after two major climate extremes: prolonged drought and extremely low winter temperatures. The latter has also been followed by a three- to ten-fold growth reduction of the trees that survived in the next year, whereas no similar effect has been observed in the peat bog area. Multi-scale detrended partial cross-correlation analysis (DPCCA) indicated that tree-ring width (TRW) was negatively correlated with spring and summer temperatures and positively correlated with the Palmer drought severity index (PDSI) for the same year. For the elevated dry land area, the above effect extends to interannual scales, indicating that prolonged heatwaves and associated droughts are among the factors that limit tree growth. In marked contrast, in the waterlogged peat bog area, a reversed tendency was observed, with prolonged dry periods as well as warmer springs and summers over several consecutive years, leading to increasing tree growth with a one- to three-year time lag. Altogether, our results indicate that the pessimal conditions of a warming climate could become favorable through the preservation of the soil water regime.
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Affiliation(s)
- Mikhail I. Bogachev
- St. Petersburg Electrotechnical University “LETI”, 5-F Professor Popov street, St. Petersburg, 197022, Russia
| | - Artur M. Gafurov
- Kazan Federal University, 18 Kremlevskaya street, Kazan, Tatarstan, 420008, Russia
| | - Pavel Y. Iskandirov
- Kazan Federal University, 18 Kremlevskaya street, Kazan, Tatarstan, 420008, Russia
| | - Dmitrii I. Kaplun
- St. Petersburg Electrotechnical University “LETI”, 5-F Professor Popov street, St. Petersburg, 197022, Russia
| | - Airat R. Kayumov
- Kazan Federal University, 18 Kremlevskaya street, Kazan, Tatarstan, 420008, Russia
| | - Asya I. Lyanova
- St. Petersburg Electrotechnical University “LETI”, 5-F Professor Popov street, St. Petersburg, 197022, Russia
| | - Nikita S. Pyko
- St. Petersburg Electrotechnical University “LETI”, 5-F Professor Popov street, St. Petersburg, 197022, Russia
| | - Svetlana A. Pyko
- St. Petersburg Electrotechnical University “LETI”, 5-F Professor Popov street, St. Petersburg, 197022, Russia
| | - Anastasiia N. Safonova
- St. Petersburg Electrotechnical University “LETI”, 5-F Professor Popov street, St. Petersburg, 197022, Russia
| | - Aleksandr M. Sinitca
- St. Petersburg Electrotechnical University “LETI”, 5-F Professor Popov street, St. Petersburg, 197022, Russia
| | - Bulat M. Usmanov
- Kazan Federal University, 18 Kremlevskaya street, Kazan, Tatarstan, 420008, Russia
| | - Denis V. Tishin
- St. Petersburg Electrotechnical University “LETI”, 5-F Professor Popov street, St. Petersburg, 197022, Russia
- Kazan Federal University, 18 Kremlevskaya street, Kazan, Tatarstan, 420008, Russia
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8
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Chernova LS, Vishnyakov IE, Börner J, Bogachev MI, Thormann KM, Kayumov AR. The Functionality of IbpA from Acholeplasma laidlawii Is Governed by Dynamic Rearrangement of Its Globular-Fibrillar Quaternary Structure. Int J Mol Sci 2023; 24:15445. [PMID: 37895124 PMCID: PMC10607609 DOI: 10.3390/ijms242015445] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2023] [Revised: 10/18/2023] [Accepted: 10/20/2023] [Indexed: 10/29/2023] Open
Abstract
Small heat shock proteins (sHSPs) represent a first line of stress defense in many bacteria. The primary function of these molecular chaperones involves preventing irreversible protein denaturation and aggregation. In Escherichia coli, fibrillar EcIbpA binds unfolded proteins and keeps them in a folding-competent state. Further, its structural homologue EcIbpB induces the transition of EcIbpA to globules, thereby facilitating the substrate transfer to the HSP70-HSP100 system for refolding. The phytopathogenic Acholeplasma laidlawii possesses only a single sHSP, AlIbpA. Here, we demonstrate non-trivial features of the function and regulation of the chaperone-like activity of AlIbpA according to its interaction with other components of the mycoplasma multi-chaperone network. Our results show that the efficiency of the A. laidlawii multi-chaperone system is driven with the ability of AlIbpA to form both globular and fibrillar structures, thus combining functions of both IbpA and IbpB when transferring the substrate proteins to the HSP70-HSP100 system. In contrast to EcIbpA and EcIbpB, AlIbpA appears as an sHSP, in which the competition between the N- and C-terminal domains regulates the shift of the protein quaternary structure between a fibrillar and globular form, thus representing a molecular mechanism of its functional regulation. While the C-terminus of AlIbpA is responsible for fibrils formation and substrate capture, the N-terminus seems to have a similar function to EcIbpB through facilitating further substrate protein disaggregation using HSP70. Moreover, our results indicate that prior to the final disaggregation process, AlIbpA can directly transfer the substrate to HSP100, thereby representing an alternative mechanism in the HSP interaction network.
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Affiliation(s)
- Liliya S. Chernova
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kremlevskaya 18, 420008 Kazan, Russia;
- Institute of Cytology, Russian Academy of Sciences, Tikhoretsky Ave. 4, 194064 St. Petersburg, Russia;
- Institute of Microbiology and Molecular Biology, Justus Liebig University, Heinrich-Buff-Ring 26, 35392 Giessen, Germany; (J.B.); (K.M.T.)
| | - Innokentii E. Vishnyakov
- Institute of Cytology, Russian Academy of Sciences, Tikhoretsky Ave. 4, 194064 St. Petersburg, Russia;
| | - Janek Börner
- Institute of Microbiology and Molecular Biology, Justus Liebig University, Heinrich-Buff-Ring 26, 35392 Giessen, Germany; (J.B.); (K.M.T.)
| | - Mikhail I. Bogachev
- Centre for Digital Telecommunication Technologies, St. Petersburg Electrotechnical University, Professora Popova 5, 197376 St. Petersburg, Russia;
| | - Kai M. Thormann
- Institute of Microbiology and Molecular Biology, Justus Liebig University, Heinrich-Buff-Ring 26, 35392 Giessen, Germany; (J.B.); (K.M.T.)
| | - Airat R. Kayumov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kremlevskaya 18, 420008 Kazan, Russia;
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9
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Mironova AV, Karimova AV, Bogachev MI, Kayumov AR, Trizna EY. Alterations in Antibiotic Susceptibility of Staphylococcus aureus and Klebsiella pneumoniae in Dual Species Biofilms. Int J Mol Sci 2023; 24:ijms24108475. [PMID: 37239822 DOI: 10.3390/ijms24108475] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2023] [Revised: 05/04/2023] [Accepted: 05/05/2023] [Indexed: 05/28/2023] Open
Abstract
In the last decades, it has been shown that biofilm-associated infections in most cases are caused by rather two or even more pathogens than by single microorganisms. Due to intermicrobial interactions in mixed communities, bacteria change their gene expression profile, in turn leading to alterations in the biofilm structure and properties, as well as susceptibility to antimicrobials. Here, we report the alterations of antimicrobials efficiency in mixed biofilms of Staphylococcus aureus-Klebsiella pneumoniae in comparison with mono-species biofilms of each counterpart and discuss possible mechanisms of these alterations. In cell clumps detached from dual-species biofilms, S. aureus became insensitive to vancomycin, ampicillin, and ceftazidime compared to solely S. aureus cell clumps. In turn, the increased efficiency of amikacin and ciprofloxacin against both bacteria could be observed, compared to mono-species biofilms of each counterpart. Scanning electron microscopy and confocal microscopy indicate the porous structure of the dual-species biofilm, and differential fluorescent staining revealed an increased number of polysaccharides in the matrix, in turn leading to more loose structure and thus apparently providing increased permeability of the dual-species biofilm to antimicrobials. The qRT-PCR showed that ica operon in S. aureus became repressed in mixed communities, and polysaccharides are produced mainly by K. pneumoniae. While the molecular trigger of these changes remains undiscovered, detailed knowledge of the alterations in antibiotic susceptibility to given drugs opens doors for treatment correction options for S. aureus-K. pneumoniae biofilm-associated infections.
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Affiliation(s)
- Anna V Mironova
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia
| | - Agniya V Karimova
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia
| | - Mikhail I Bogachev
- Biomedical Engineering Research Centre, St. Petersburg Electrotechnical University, 197022 St. Petersburg, Russia
| | - Airat R Kayumov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia
| | - Elena Y Trizna
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia
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10
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Trizna EY, Sinitca AM, Lyanova AI, Baidamshina DR, Zelenikhin PV, Kaplun DI, Kayumov AR, Bogachev MI. Brightfield vs Fluorescent Staining Dataset-A Test Bed Image Set for Machine Learning based Virtual Staining. Sci Data 2023; 10:160. [PMID: 36949058 PMCID: PMC10033900 DOI: 10.1038/s41597-023-02065-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2023] [Accepted: 03/10/2023] [Indexed: 03/24/2023] Open
Abstract
Differential fluorescent staining is an effective tool widely adopted for the visualization, segmentation and quantification of cells and cellular substructures as a part of standard microscopic imaging protocols. Incompatibility of staining agents with viable cells represents major and often inevitable limitations to its applicability in live experiments, requiring extraction of samples at different stages of experiment increasing laboratory costs. Accordingly, development of computerized image analysis methodology capable of segmentation and quantification of cells and cellular substructures from plain monochromatic images obtained by light microscopy without help of any physical markup techniques is of considerable interest. The enclosed set contains human colon adenocarcinoma Caco-2 cells microscopic images obtained under various imaging conditions with different viable vs non-viable cells fractions. Each field of view is provided in a three-fold representation, including phase-contrast microscopy and two differential fluorescent microscopy images with specific markup of viable and non-viable cells, respectively, produced using two different staining schemes, representing a prominent test bed for the validation of image analysis methods.
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Affiliation(s)
- Elena Y Trizna
- Institute for Fundamental Medicine and Biology, Kazan Federal University, Kazan, 420008, Russia
| | - Aleksandr M Sinitca
- Centre for Digital Telecommunication Technologies, St. Petersburg Electrotechnical University "LETI", St. Petersburg, 197022, Russia
| | - Asya I Lyanova
- Centre for Digital Telecommunication Technologies, St. Petersburg Electrotechnical University "LETI", St. Petersburg, 197022, Russia
| | - Diana R Baidamshina
- Institute for Fundamental Medicine and Biology, Kazan Federal University, Kazan, 420008, Russia
| | - Pavel V Zelenikhin
- Institute for Fundamental Medicine and Biology, Kazan Federal University, Kazan, 420008, Russia
| | - Dmitrii I Kaplun
- Centre for Digital Telecommunication Technologies, St. Petersburg Electrotechnical University "LETI", St. Petersburg, 197022, Russia
| | - Airat R Kayumov
- Institute for Fundamental Medicine and Biology, Kazan Federal University, Kazan, 420008, Russia.
| | - Mikhail I Bogachev
- Institute for Fundamental Medicine and Biology, Kazan Federal University, Kazan, 420008, Russia.
- Centre for Digital Telecommunication Technologies, St. Petersburg Electrotechnical University "LETI", St. Petersburg, 197022, Russia.
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11
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Sinitca AM, Kayumov AR, Zelenikhin PV, Porfiriev AG, Kaplun DI, Bogachev MI. Segmentation of patchy areas in biomedical images based on local edge density estimation. Biomed Signal Process Control 2023. [DOI: 10.1016/j.bspc.2022.104189] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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12
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Holyavka MG, Goncharova SS, Sorokin AV, Lavlinskaya MS, Redko YA, Faizullin DA, Baidamshina DR, Zuev YF, Kondratyev MS, Kayumov AR, Artyukhov VG. Novel Biocatalysts Based on Bromelain Immobilized on Functionalized Chitosans and Research on Their Structural Features. Polymers (Basel) 2022; 14:polym14235110. [PMID: 36501516 PMCID: PMC9739615 DOI: 10.3390/polym14235110] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2022] [Revised: 11/18/2022] [Accepted: 11/22/2022] [Indexed: 11/27/2022] Open
Abstract
Enzyme immobilization on various carriers represents an effective approach to improve their stability, reusability, and even change their catalytic properties. Here, we show the mechanism of interaction of cysteine protease bromelain with the water-soluble derivatives of chitosan-carboxymethylchitosan, N-(2-hydroxypropyl)-3-trimethylammonium chitosan, chitosan sulfate, and chitosan acetate-during immobilization and characterize the structural features and catalytic properties of obtained complexes. Chitosan sulfate and carboxymethylchitosan form the highest number of hydrogen bonds with bromelain in comparison with chitosan acetate and N-(2-hydroxypropyl)-3-trimethylammonium chitosan, leading to a higher yield of protein immobilization on chitosan sulfate and carboxymethylchitosan (up to 58 and 65%, respectively). In addition, all derivatives of chitosan studied in this work form hydrogen bonds with His158 located in the active site of bromelain (except N-(2-hydroxypropyl)-3-trimethylammonium chitosan), apparently explaining a significant decrease in the activity of biocatalysts. The N-(2-hydroxypropyl)-3-trimethylammonium chitosan displays only physical interactions with His158, thus possibly modulating the structure of the bromelain active site and leading to the hyperactivation of the enzyme, up to 208% of the total activity and 158% of the specific activity. The FTIR analysis revealed that interaction between N-(2-hydroxypropyl)-3-trimethylammonium chitosan and bromelain did not significantly change the enzyme structure. Perhaps this is due to the slowing down of aggregation and the autolysis processes during the complex formation of bromelain with a carrier, with a minimal modification of enzyme structure and its active site orientation.
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Affiliation(s)
- Marina G. Holyavka
- Biophysics and Biotechnology Department, Voronezh State University, 1 Universitetskaya Square, 394018 Voronezh, Russia
- Laboratory of Bioresource Potential of Coastal Area, Institute for Advanced Studies, Sevastopol State University, 33 Studencheskaya Street, 299053 Sevastopol, Russia
| | - Svetlana S. Goncharova
- Biophysics and Biotechnology Department, Voronezh State University, 1 Universitetskaya Square, 394018 Voronezh, Russia
| | - Andrey V. Sorokin
- Biophysics and Biotechnology Department, Voronezh State University, 1 Universitetskaya Square, 394018 Voronezh, Russia
- Laboratory of Bioresource Potential of Coastal Area, Institute for Advanced Studies, Sevastopol State University, 33 Studencheskaya Street, 299053 Sevastopol, Russia
- Metagenomics and Food Biotechnologies Laboratory, Voronezh State University of Engineering Technologies, 19 Revolutsii Avenue, 394036 Voronezh, Russia
| | - Maria S. Lavlinskaya
- Biophysics and Biotechnology Department, Voronezh State University, 1 Universitetskaya Square, 394018 Voronezh, Russia
- Laboratory of Bioresource Potential of Coastal Area, Institute for Advanced Studies, Sevastopol State University, 33 Studencheskaya Street, 299053 Sevastopol, Russia
- Metagenomics and Food Biotechnologies Laboratory, Voronezh State University of Engineering Technologies, 19 Revolutsii Avenue, 394036 Voronezh, Russia
| | - Yulia A. Redko
- Biophysics and Biotechnology Department, Voronezh State University, 1 Universitetskaya Square, 394018 Voronezh, Russia
| | - Dzhigangir A. Faizullin
- Kazan Institute of Biochemistry and Biophysics, FRC Kazan Scientific Center of the RAS, 2/31 Lobachevsky Street, 420111 Kazan, Russia
| | - Diana R. Baidamshina
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 18 Kremlevskaya Street, 420008 Kazan, Russia
| | - Yuriy F. Zuev
- Kazan Institute of Biochemistry and Biophysics, FRC Kazan Scientific Center of the RAS, 2/31 Lobachevsky Street, 420111 Kazan, Russia
- Correspondence:
| | - Maxim S. Kondratyev
- Biophysics and Biotechnology Department, Voronezh State University, 1 Universitetskaya Square, 394018 Voronezh, Russia
- Laboratory of Structure and Dynamics of Biomolecular Systems, Institute of Cell Biophysics of the RAS, 3 Institutskaya Street, 142290 Pushchino, Russia
| | - Airat R. Kayumov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 18 Kremlevskaya Street, 420008 Kazan, Russia
| | - Valeriy G. Artyukhov
- Biophysics and Biotechnology Department, Voronezh State University, 1 Universitetskaya Square, 394018 Voronezh, Russia
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13
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Ilchenko NO, Sudarikov DV, Rumyantcev RV, Baidamshina DR, Zakarova ND, Yahia MN, Kayumov AR, Kutchin AV, Rubtsova SA. Synthesis and Antimicrobial Activity of Sulfenimines Based on Pinane Hydroxythiols. Antibiotics (Basel) 2022; 11:1548. [PMID: 36358203 PMCID: PMC9686613 DOI: 10.3390/antibiotics11111548] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2022] [Revised: 10/27/2022] [Accepted: 11/02/2022] [Indexed: 11/15/2023] Open
Abstract
The widespread presence of multidrug-resistant pathogenic microorganisms challenges the development of novel chemotype antimicrobials, insensitive to microbial tools of resistance. To date, various monoterpenoids have been shown as potential antimicrobials. Among many classes of molecules with antimicrobial activity, terpenes and terpenoids are an attractive basis for the design of antimicrobials because of their low toxicity and availability for various modifications. In this work, we report on the synthesis of sulfenimines from chiral trifluoromethylated and non-fluorinated pinane-type thiols. Final compounds were obtained with yields of up to 81%. Among the 13 sulfenimines obtained, 3 compounds were able to repress the growth of both bacteria (S. aureus, both MSSA and MRSA; P. aeruginosa) and fungi (C. albicans) with an MIC of 8-32 µg/mL. Although compounds exhibited relatively high cytotoxicity (the therapeutic index of 3), their chemotype can be used as a starter point for the development of disinfectants and antiseptics for targeting multidrug-resistant pathogens.
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Affiliation(s)
- Nikita O. Ilchenko
- Institute of Chemistry, Federal Research Centre “Komi Scientific Centre”, Ural Branch of the Russian Academy of Sciences, Pervomayskaya St. 48, 167000 Syktyvkar, Komi Republic, Russia
| | - Denis V. Sudarikov
- Institute of Chemistry, Federal Research Centre “Komi Scientific Centre”, Ural Branch of the Russian Academy of Sciences, Pervomayskaya St. 48, 167000 Syktyvkar, Komi Republic, Russia
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 18 Kremlevskaya Street, 420008 Kazan, Russia
| | - Roman V. Rumyantcev
- G.A. Razuvaev Institute of Organometallic Chemistry of Russian Academy of Sciences, 49 Tropinina St., 603950 Nizhny Novgorod, Russia
| | - Diana R. Baidamshina
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 18 Kremlevskaya Street, 420008 Kazan, Russia
| | - Nargiza D. Zakarova
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 18 Kremlevskaya Street, 420008 Kazan, Russia
| | - Monyr Nait Yahia
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 18 Kremlevskaya Street, 420008 Kazan, Russia
| | - Airat R. Kayumov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 18 Kremlevskaya Street, 420008 Kazan, Russia
| | - Aleksandr V. Kutchin
- Institute of Chemistry, Federal Research Centre “Komi Scientific Centre”, Ural Branch of the Russian Academy of Sciences, Pervomayskaya St. 48, 167000 Syktyvkar, Komi Republic, Russia
| | - Svetlana A. Rubtsova
- Institute of Chemistry, Federal Research Centre “Komi Scientific Centre”, Ural Branch of the Russian Academy of Sciences, Pervomayskaya St. 48, 167000 Syktyvkar, Komi Republic, Russia
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14
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Iskhakova ZI, Zhuravleva DE, Heim C, Hartmann MD, Laykov AV, Forchhammer K, Kayumov AR. PotN represents a novel energy‐state sensing PII subfamily, occurring in firmicutes. FEBS J 2022; 289:5305-5321. [DOI: 10.1111/febs.16431] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2021] [Revised: 02/19/2022] [Accepted: 03/10/2022] [Indexed: 01/19/2023]
Affiliation(s)
| | | | - Christopher Heim
- Department of Protein Evolution Max Planck Institute for Developmental Biology Tübingen Germany
| | - Marcus D. Hartmann
- Department of Protein Evolution Max Planck Institute for Developmental Biology Tübingen Germany
| | | | - Karl Forchhammer
- Institut für Mikrobiologie Eberhard‐Karls‐Universität Tübingen Germany
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15
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Karpischenko SA, Vereschagina OE, Stancheva OA, Bibik PR, Kaplun DI, Bogachev MI, Kayumov AR. Case Report: Oncocytic Schneiderian Papilloma Originating From the Sphenoid Sinus. Front Med (Lausanne) 2022; 9:621705. [PMID: 35445038 PMCID: PMC9014847 DOI: 10.3389/fmed.2022.621705] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2020] [Accepted: 02/14/2022] [Indexed: 11/13/2022] Open
Abstract
A rare case of oncocytic Schneiderian papilloma originating from the sphenoid sinus characterised, for 3 years, by non-specific symptoms of severe headache, a block of nasal breathing, and deprecating sense of smell was presented by an elderly female patient. Sphenoid sinus functional endoscopic sinus surgery (FESS), with a one-block tumour excision, through an endonasal approach, with a histological study of removed tumour masses, were performed on the patient. Long observation in the post-operative period was necessary, considering the risk of recurrence and malignancy of oncocytic Schneiderian papilloma (OSP). Although the oncocytic papilloma of the sphenoid sinus is rare, non-specific symptoms make this pathology easily misdiagnosed. Thus, any isolated unilateral process in the paranasal sinuses with long-existing symptoms must be given careful attention due to the chance of this process being an inverted papilloma with malignization. CT scan indicating a unilateral opacification of paranasal sinuses with local calcifications is a typical manifestation, and endoscopic sphenoidotomy can be recommended as a treatment of choice.
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Affiliation(s)
- Sergey A Karpischenko
- Ear, Nose and Throat (ENT) Department, First Pavlov State Medical University, St. Petersburg, Russia
| | - Olga E Vereschagina
- Ear, Nose and Throat (ENT) Department, First Pavlov State Medical University, St. Petersburg, Russia
| | - Olga A Stancheva
- Ear, Nose and Throat (ENT) Department, First Pavlov State Medical University, St. Petersburg, Russia
| | - Pavel R Bibik
- Ear, Nose and Throat (ENT) Department, First Pavlov State Medical University, St. Petersburg, Russia
| | - Dmitry I Kaplun
- Department of Automation and Control Processes, St. Petersburg Electrotechnical University "LETI", St. Petersburg, Russia
| | - Mikhail I Bogachev
- Research Centre for Digital Telecommunication Technologies, St. Petersburg Electrotechnical University "LETI", St. Petersburg, Russia
| | - Airat R Kayumov
- Research Centre for Digital Telecommunication Technologies, St. Petersburg Electrotechnical University "LETI", St. Petersburg, Russia.,Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
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16
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Guseva GB, Antina EV, Berezin MB, Ksenofontov AA, Bocharov PS, Smirnova AS, Pavelyev RS, Gilfanov IR, Pestova SV, Izmest'ev ES, Rubtsova SA, Kayumov AR, Kiselev SV, Azizova ZR, Ostolopovskaya OV, Efimov SV, Klochkov VV, Khodov IA, Nikitina LE. Conjugate of meso-carboxysubstituted-BODIPY with thioterpenoid as an effective fluorescent probe: Synthesis, structure, spectral characteristics, and molecular docking. Spectrochim Acta A Mol Biomol Spectrosc 2022; 268:120638. [PMID: 34840052 DOI: 10.1016/j.saa.2021.120638] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2021] [Revised: 10/20/2021] [Accepted: 11/12/2021] [Indexed: 06/13/2023]
Abstract
This paper is devoted to the design of a fluorescent probe based on meso-carboxysubstituted-BODIPY with a thioterpene fragment. The functional replacement of the methoxy group in the BODIPY molecule on a thioterpene fragment was carried out in order to find out the antiplatelet and anticoagulant action mechanisms of thioterpenoids and to assess the membrane and receptor factors contributions. The molecular structure of the conjugate was confirmed via UV/vis-, NMR- and MS-spectra. It is found that the probe is a high fluorescence quantum yield (to ∼ 100%) in the blue-green region at 509-516 nm. Molecular docking of all studied molecules showed that the BODIPY with terpenoid conjugation is an excellent way to increase their affinity to platelet receptor P2Y12.
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Affiliation(s)
- Galina B Guseva
- G.A. Krestov Institute of Solution Chemistry of Russian Academy of Sciences, 1 Akademicheskaya st., 153045 Ivanovo, Russia.
| | - Elena V Antina
- G.A. Krestov Institute of Solution Chemistry of Russian Academy of Sciences, 1 Akademicheskaya st., 153045 Ivanovo, Russia
| | - Mikhail B Berezin
- G.A. Krestov Institute of Solution Chemistry of Russian Academy of Sciences, 1 Akademicheskaya st., 153045 Ivanovo, Russia
| | - Alexander A Ksenofontov
- G.A. Krestov Institute of Solution Chemistry of Russian Academy of Sciences, 1 Akademicheskaya st., 153045 Ivanovo, Russia
| | - Pavel S Bocharov
- G.A. Krestov Institute of Solution Chemistry of Russian Academy of Sciences, 1 Akademicheskaya st., 153045 Ivanovo, Russia; Ivanovo State University of Chemistry and Technology, 7, Sheremetevskiy Avenue, 153000 Ivanovo, Russia
| | - Anastassia S Smirnova
- G.A. Krestov Institute of Solution Chemistry of Russian Academy of Sciences, 1 Akademicheskaya st., 153045 Ivanovo, Russia; Ivanovo State University of Chemistry and Technology, 7, Sheremetevskiy Avenue, 153000 Ivanovo, Russia
| | - Roman S Pavelyev
- Kazan Federal University, 18 Kremlevskaya st., 420008 Kazan, Russia
| | - Ilmir R Gilfanov
- Kazan State Medical University, 49 Butlerova st., 420012 Kazan, Russia
| | - Svetlana V Pestova
- Institute of Chemistry, Federal Research Center "Komi Scientific Centre", Ural Branch, Russian Academy of Sciences, ul. Pervomaiskaya 48, 167000 Syktyvkar, Russia
| | - Evgeny S Izmest'ev
- Institute of Chemistry, Federal Research Center "Komi Scientific Centre", Ural Branch, Russian Academy of Sciences, ul. Pervomaiskaya 48, 167000 Syktyvkar, Russia
| | - Svetlana A Rubtsova
- Institute of Chemistry, Federal Research Center "Komi Scientific Centre", Ural Branch, Russian Academy of Sciences, ul. Pervomaiskaya 48, 167000 Syktyvkar, Russia
| | - Airat R Kayumov
- Kazan Federal University, 18 Kremlevskaya st., 420008 Kazan, Russia
| | - Sergei V Kiselev
- Kazan State Medical University, 49 Butlerova st., 420012 Kazan, Russia
| | - Zulfiya R Azizova
- Kazan State Medical University, 49 Butlerova st., 420012 Kazan, Russia
| | | | - Sergey V Efimov
- Kazan Federal University, 18 Kremlevskaya st., 420008 Kazan, Russia
| | | | - Ilya A Khodov
- G.A. Krestov Institute of Solution Chemistry of Russian Academy of Sciences, 1 Akademicheskaya st., 153045 Ivanovo, Russia
| | - Liliya E Nikitina
- Kazan State Medical University, 49 Butlerova st., 420012 Kazan, Russia; Kazan Federal University, 18 Kremlevskaya st., 420008 Kazan, Russia
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17
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Gyrdymova YV, Rumyantcev RV, Esaulkova YL, Belyaevskaya SV, Zarubaev VV, Kayumov AR, Rubtsova SA. New trifluoromethylated sesquiterpenoids: synthesis, rearrangement, and biological activity. NEW J CHEM 2022. [DOI: 10.1039/d2nj04611c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
Abstract
The tandem isomerization and trifluoromethylation reactions are a simple, convenient, and atom-economical strategy for the synthesis of various products in high yields from simple substrates.
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Affiliation(s)
- Yulia V. Gyrdymova
- Laboratory of Medicinal Chemistry, Institute of Chemistry, Ural Branch of the Russian Academy of Sciences, Syktyvkar, 167000, Russia
| | - Roman V. Rumyantcev
- G. A. Razuvaev Institute of Organometallic Chemistry of the Russian Academy of Sciences, Nizhny Novgorod, 603950, Russia
| | - Yana L. Esaulkova
- Pasteur Institute of Epidemiology and Microbiology, St. Petersburg, 197101, Russia
| | | | - Vladimir V. Zarubaev
- Pasteur Institute of Epidemiology and Microbiology, St. Petersburg, 197101, Russia
| | - Airat R. Kayumov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, 420008 Kazan, Russia
| | - Svetlana A. Rubtsova
- Laboratory of Medicinal Chemistry, Institute of Chemistry, Ural Branch of the Russian Academy of Sciences, Syktyvkar, 167000, Russia
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18
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Guseva GB, Antina EV, Berezin MB, Pavelyev RS, Kayumov AR, Ostolopovskaya OV, Gilfanov IR, Frolova LL, Kutchin AV, Akhverdiev RF, Lisovskaya SA, Trizna EY, Lodochnikova OA, Islamov DR, Efimov SV, Klochkov VV, Khodov IA, Boichuk SV, Nikitina LE. Design, Spectral Characteristics, and Possibilities for Practical Application of BODIPY FL-Labeled Monoterpenoid. ACS Appl Bio Mater 2021; 4:6227-6235. [PMID: 35006906 DOI: 10.1021/acsabm.1c00550] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
This article describes the design and biological properties of a BODIPY FL-labeled monoterpenoid BF2-meso-(4-((1″R)-6″,6″-dimethylbicyclo[3.1.1]hept-2″-ene-2″)yl-methoxycarbonylpropyl)-3,3',5,5'-tetramethyl-2,2'-dipyrromethene conjugate (BODIPYmyrt). The fluorophore was characterized using X-ray, NMR, MS, and UV/vis spectroscopy. The conjugate exhibits a high quantum yield (to ∼100%) in the region 515-518 nm. BODIPYmyrt effectively penetrates the membranes of the bacterial and fungal cells and therefore can be used to examine the features of a broad spectrum of Gram-positive and Gram-negative bacteria and pathogenic fungi as well. Moreover, BODIPYmyrt exhibits a moderate tropism to the subcellular structures in mammalian cells (e.g., mitochondria), thereby providing an attractive scaffold for fluorophores to examine these particular organelles.
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Affiliation(s)
- Galina B Guseva
- G.A. Krestov Institute of Solution Chemistry of Russian Academy of Sciences (ISC RAS), 153045 Ivanovo, Russian Federation
| | - Elena V Antina
- G.A. Krestov Institute of Solution Chemistry of Russian Academy of Sciences (ISC RAS), 153045 Ivanovo, Russian Federation
| | - Mikhail B Berezin
- G.A. Krestov Institute of Solution Chemistry of Russian Academy of Sciences (ISC RAS), 153045 Ivanovo, Russian Federation
| | | | | | | | - Ilmir R Gilfanov
- Kazan State Medical University, 420012 Kazan, Russian Federation
| | - Larisa L Frolova
- Institute of Chemistry, Federal Research Center "Komi Scientific Centre", 167000 Syktyvkar, Russian Federation
| | - Alexander V Kutchin
- Institute of Chemistry, Federal Research Center "Komi Scientific Centre", 167000 Syktyvkar, Russian Federation
| | | | - Svetlana A Lisovskaya
- Kazan State Medical University, Scientific Research Institute of Epidemiology and Microbiology, 420012 Kazan, Russian Federation
| | - Elena Y Trizna
- Kazan Federal University, 420008 Kazan, Russian Federation
| | - Olga A Lodochnikova
- Kazan Federal University, 420008 Kazan, Russian Federation.,Arbuzov Institute of Organic and Physical Chemistry, Kazan Scientific Center of Russian Academy of Sciences, 420008 Kazan, Russian Federation
| | - Daut R Islamov
- Kazan Federal University, 420008 Kazan, Russian Federation.,Arbuzov Institute of Organic and Physical Chemistry, Kazan Scientific Center of Russian Academy of Sciences, 420008 Kazan, Russian Federation
| | | | | | - Ilya A Khodov
- G.A. Krestov Institute of Solution Chemistry of Russian Academy of Sciences (ISC RAS), 153045 Ivanovo, Russian Federation.,Kazan Federal University, 420008 Kazan, Russian Federation
| | - Sergei V Boichuk
- Kazan State Medical University, 420012 Kazan, Russian Federation
| | - Liliya E Nikitina
- Kazan Federal University, 420008 Kazan, Russian Federation.,Kazan State Medical University, 420012 Kazan, Russian Federation
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19
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Baidamshina DR, Koroleva VA, Olshannikova SS, Trizna EY, Bogachev MI, Artyukhov VG, Holyavka MG, Kayumov AR. Biochemical Properties and Anti-Biofilm Activity of Chitosan-Immobilized Papain. Mar Drugs 2021; 19:md19040197. [PMID: 33807362 PMCID: PMC8066807 DOI: 10.3390/md19040197] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2021] [Revised: 03/25/2021] [Accepted: 03/29/2021] [Indexed: 12/18/2022] Open
Abstract
Chitosan, the product of chitin deacetylation, is an excellent candidate for enzyme immobilization purposes. Here we demonstrate that papain, an endolytic cysteine protease (EC: 3.4.22.2) from Carica papaya latex immobilized on the matrixes of medium molecular (200 kDa) and high molecular (350 kDa) weight chitosans exhibits anti-biofilm activity and increases the antimicrobials efficiency against biofilm-embedded bacteria. Immobilization in glycine buffer (pH 9.0) allowed adsorption up to 30% of the total protein (mg g chitosan−1) and specific activity (U mg protein−1), leading to the preservation of more than 90% of the initial total activity (U mL−1). While optimal pH and temperature of the immobilized papain did not change, the immobilized enzyme exhibited elevated thermal stability and 6–7-fold longer half-life time in comparison with the soluble papain. While one-half of the total enzyme dissociates from both carriers in 24 h, this property could be used for wound-dressing materials design with dosed release of the enzyme to overcome the relatively high cytotoxicity of soluble papain. Our results indicate that both soluble and immobilized papain efficiently destroy biofilms formed by Staphylococcus aureus and Staphylococcus epidermidis. As a consequence, papain, both soluble and immobilized on medium molecular weight chitosan, is capable of potentiating the efficacy of antimicrobials against biofilm-embedded Staphylococci. Thus, papain immobilized on medium molecular weight chitosan appears a presumably beneficial agent for outer wound treatment for biofilms destruction, increasing antimicrobial treatment effectiveness.
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Affiliation(s)
- Diana R. Baidamshina
- Laboratory of Molecular Genetics of Microorganisms, Kazan (Volga Region) Federal University, Kazan 420008, Russia; (D.R.B.); (E.Y.T.)
| | - Victoria A. Koroleva
- Department of Biophysics and Biotechnology, Voronezh State University, Voronezh 394018, Russia; (V.A.K.); (S.S.O.); (V.G.A.); (M.G.H.)
| | - Svetlana S. Olshannikova
- Department of Biophysics and Biotechnology, Voronezh State University, Voronezh 394018, Russia; (V.A.K.); (S.S.O.); (V.G.A.); (M.G.H.)
| | - Elena Yu. Trizna
- Laboratory of Molecular Genetics of Microorganisms, Kazan (Volga Region) Federal University, Kazan 420008, Russia; (D.R.B.); (E.Y.T.)
| | - Mikhail I. Bogachev
- Biomedical Engineering Research Centre, St. Petersburg Electrotechnical University, St. Petersburg 197376, Russia;
| | - Valeriy G. Artyukhov
- Department of Biophysics and Biotechnology, Voronezh State University, Voronezh 394018, Russia; (V.A.K.); (S.S.O.); (V.G.A.); (M.G.H.)
| | - Marina G. Holyavka
- Department of Biophysics and Biotechnology, Voronezh State University, Voronezh 394018, Russia; (V.A.K.); (S.S.O.); (V.G.A.); (M.G.H.)
| | - Airat R. Kayumov
- Laboratory of Molecular Genetics of Microorganisms, Kazan (Volga Region) Federal University, Kazan 420008, Russia; (D.R.B.); (E.Y.T.)
- Interdepartment Research Laboratory, Kazan State Academy of Veterinary Medicine named after N.E. Bauman, Kazan 420029, Russia
- Correspondence: ; Tel.: +7-(904)-665-19-08
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20
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Baidamshina DR, Koroleva VA, Trizna EY, Pankova SM, Agafonova MN, Chirkova MN, Vasileva OS, Akhmetov N, Shubina VV, Porfiryev AG, Semenova EV, Sachenkov OA, Bogachev MI, Artyukhov VG, Baltina TV, Holyavka MG, Kayumov AR. Anti-biofilm and wound-healing activity of chitosan-immobilized Ficin. Int J Biol Macromol 2020; 164:4205-4217. [DOI: 10.1016/j.ijbiomac.2020.09.030] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2020] [Revised: 09/01/2020] [Accepted: 09/03/2020] [Indexed: 01/08/2023]
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21
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Guseva GB, Antina EV, Berezin MB, Pavelyev RS, Kayumov AR, Sharafutdinov IS, Lisovskaya SА, Lodochnikova OA, Islamov DR, Usachev KS, Boichuk SV, Nikitina LE. Meso-substituted-BODIPY based fluorescent biomarker: Spectral characteristics, photostability and possibilities for practical application. J Photochem Photobiol A Chem 2020. [DOI: 10.1016/j.jphotochem.2020.112783] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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22
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Garipov MR, Sabirova AE, Pavelyev RS, Shtyrlin NV, Lisovskaya SA, Bondar OV, Laikov AV, Romanova JG, Bogachev MI, Kayumov AR, Shtyrlin YG. Targeting pathogenic fungi, bacteria and fungal-bacterial biofilms by newly synthesized quaternary ammonium derivative of pyridoxine and terbinafine with dual action profile. Bioorg Chem 2020; 104:104306. [PMID: 33011535 DOI: 10.1016/j.bioorg.2020.104306] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2020] [Revised: 09/18/2020] [Accepted: 09/20/2020] [Indexed: 01/29/2023]
Abstract
Many pathogenic bacteria and microscopic fungi form rigid polymicrobial biofilms this way enhancing their resistant to treatment. A series of novel pyridoxine-based quaternary ammonium derivatives of terbinafine characterized by both antifungal and antibacterial activities was designed. The leading compound named KFU-127 exhibits promising antifungal and antibacterial activities against various bacteria and micromycetes in both planktonic and biofilm-embedded forms demonstrating MIC values comparable with those of conventional antifungals and antimicrobials. Similar to other antiseptics like benzalkonium chloride and miramistin, KFU-127 is considerably toxic for eukaryotic cells that limits is application to topical treatment options. On the other hand, KFU-127 reduces the number of viable biofilm-embedded bacteria and C. albicans by 3 orders of magnitude at concentrations 2-4 times lower than those of reference drugs and successfully eradicates S. aureus-C. albicans mixed biofilms. The mechanism of antimicrobial action of KFU-127 is bimodal including both membrane integrity damage and pyridoxal-dependent enzymes targeting. We expect that this bilateral mechanism would result in lower rates of resistance development in both fungal and bacterial pathogens. Taken together, our data suggest KFU-127 as a new promising broad spectrum topical antimicrobial capable of one-shot targeting of bacterial and fungal-bacterial biofilms.
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Affiliation(s)
- Marsel R Garipov
- Kazan Federal University, 18 Kremlevskaya str, 420008 Kazan, Russian Federation
| | - Alina E Sabirova
- Kazan Federal University, 18 Kremlevskaya str, 420008 Kazan, Russian Federation
| | - Roman S Pavelyev
- Kazan Federal University, 18 Kremlevskaya str, 420008 Kazan, Russian Federation
| | - Nikita V Shtyrlin
- Kazan Federal University, 18 Kremlevskaya str, 420008 Kazan, Russian Federation
| | - Svetlana A Lisovskaya
- Kazan Scientific Research Institute of Epidemiology and Microbiology, 67 Bolshaya Krasnaya str, 420015 Kazan, Russian Federation; Kazan State Medical University
| | - Oksana V Bondar
- Kazan Federal University, 18 Kremlevskaya str, 420008 Kazan, Russian Federation
| | - Aleksandr V Laikov
- Kazan Federal University, 18 Kremlevskaya str, 420008 Kazan, Russian Federation
| | - Julia G Romanova
- Kazan Federal University, 18 Kremlevskaya str, 420008 Kazan, Russian Federation
| | - Mikhail I Bogachev
- St Petersburg Electrotechnical University, 5 Professor Popov str., 197376 St. Petersburg, Russian Federation
| | - Airat R Kayumov
- Kazan Federal University, 18 Kremlevskaya str, 420008 Kazan, Russian Federation.
| | - Yurii G Shtyrlin
- Kazan Federal University, 18 Kremlevskaya str, 420008 Kazan, Russian Federation.
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23
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Shtyrlin NV, Pugachev MV, Sapozhnikov SV, Garipov MR, Vafina RM, Grishaev DY, Pavelyev RS, Kazakova RR, Agafonova MN, Iksanova AG, Lisovskaya SA, Zeldi MI, Krylova ES, Nikitina EV, Sabirova AE, Kayumov AR, Shtyrlin YG. Novel Bis-Ammonium Salts of Pyridoxine: Synthesis and Antimicrobial Properties. Molecules 2020; 25:molecules25184341. [PMID: 32971844 PMCID: PMC7570726 DOI: 10.3390/molecules25184341] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2020] [Revised: 09/14/2020] [Accepted: 09/17/2020] [Indexed: 02/07/2023] Open
Abstract
A series of 108 novel quaternary bis-ammonium pyridoxine derivatives carrying various substituents at the quaternary nitrogen’s and acetal carbon was synthesized. Thirteen compounds exhibited antibacterial and antifungal activity (minimum inhibitory concentration (MIC) 0.25–16 µg/mL) comparable or superior than miramistin, benzalkonium chloride, and chlorhexidine. A strong correlation between the lipophilicity and antibacterial activity was found. The most active compounds had logP values in the range of 1–3, while compounds with logP > 6 and logP < 0 were almost inactive. All active compounds demonstrated cytotoxicity comparable with miramistin and chlorhexidine on HEK-293 cells and were three-fold less toxic when compared to benzalkonium chloride. The antibacterial activity of leading compound 5c12 on biofilm-embedded Staphylococcus aureus, Staphylococcus epidermidis, Escherichia coli or Pseudomonas aeruginosa was comparable or even higher than that of the benzalkonium chloride. In vivo 5c12 was considerably less toxic (LD50 1705 mg/kg) than benzalkonium chloride, miramistine, and chlorhexidine at oral administration on CD-1 mice. An aqueous solution of 5c12 (0.2%) was shown to be comparable to reference drugs efficiency on the rat’s skin model. The molecular target of 5c12 seems to be a cellular membrane as other quaternary ammonium salts. The obtained results make the described quaternary bis-ammonium pyridoxine derivatives promising and lead molecules in the development of the new antiseptics with a broad spectrum of antimicrobial activity.
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Affiliation(s)
- Nikita V. Shtyrlin
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Mikhail V. Pugachev
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Sergey V. Sapozhnikov
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Marsel R. Garipov
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Rusalia M. Vafina
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Denis Y. Grishaev
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Roman S. Pavelyev
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Renata R. Kazakova
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Mariya N. Agafonova
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Alfiya G. Iksanova
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Svetlana A. Lisovskaya
- Kazan Scientific Research Institute of Epidemiology and Microbiology, Kazan 420015, Russia;
| | - Marina I. Zeldi
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Elena S. Krylova
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Elena V. Nikitina
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Alina E. Sabirova
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Airat R. Kayumov
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
| | - Yurii G. Shtyrlin
- Kazan (Volga region) Federal University, Scientific and Educational Center of Pharmaceutics, Kremlyovskaya St. 18, Kazan 420008, Russia; (N.V.S.); (M.V.P.); (S.V.S.); (M.R.G.); (R.M.V.); (D.Y.G.); (R.S.P.); (R.R.K.); (M.N.A.); (A.G.I.); (M.I.Z.); (E.S.K.); (E.V.N.); (A.E.S.); (A.R.K.)
- Correspondence: ; Tel.: +7-843-233-7363
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24
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Trizna EY, Yarullina MN, Baidamshina DR, Mironova AV, Akhatova FS, Rozhina EV, Fakhrullin RF, Khabibrakhmanova AM, Kurbangalieva AR, Bogachev MI, Kayumov AR. Bidirectional alterations in antibiotics susceptibility in Staphylococcus aureus-Pseudomonas aeruginosa dual-species biofilm. Sci Rep 2020; 10:14849. [PMID: 32908166 PMCID: PMC7481796 DOI: 10.1038/s41598-020-71834-w] [Citation(s) in RCA: 39] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2018] [Accepted: 08/18/2020] [Indexed: 12/12/2022] Open
Abstract
In mixed infections, the bacterial susceptibility differs significantly compared to monocultures of bacteria, and generally the concentrations of antibiotics required for the treatment increases drastically. For S. aureus and P. aeruginosa dual species biofilms, it has been numerously reported that P. aeruginosa decreases S. aureus susceptibility to a broad range of antibiotics, including beta-lactams, glycopeptides, aminoglycosides, macrolides, while sensitizes to quinolones via secretion of various metabolites. Here we show that S. aureus also modulates the susceptibility of P. aeruginosa to antibiotics in mixed cultures. Thus, S. aureus-P. aeruginosa consortium was characterized by tenfold increase in susceptibility to ciprofloxacin and aminoglycosides compared to monocultures. The same effect could be also achieved by the addition of cell-free culture of S. aureus to P. aeruginosa biofilm. Moreover, similar increase in antibiotics efficacy could be observed following addition of S. aureus suspension to the P. aeruginosa mature biofilm, compared to P. aeruginosa monoculture, and vice versa. These findings open promising perspectives to increase the antimicrobial treatment efficacy of the wounds infected with nosocomial pathogens by the transplantation of the skin residential microflora.
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Affiliation(s)
- Elena Y Trizna
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Republic of Tatarstan, Russian Federation
| | - Maria N Yarullina
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Republic of Tatarstan, Russian Federation
| | - Diana R Baidamshina
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Republic of Tatarstan, Russian Federation
| | - Anna V Mironova
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Republic of Tatarstan, Russian Federation
| | - Farida S Akhatova
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Republic of Tatarstan, Russian Federation
| | - Elvira V Rozhina
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Republic of Tatarstan, Russian Federation
| | - Rawil F Fakhrullin
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Republic of Tatarstan, Russian Federation
| | - Alsu M Khabibrakhmanova
- Biofunctional Chemistry Laboratory, A. Butlerov Institute of Chemistry, Kazan Federal University, Kazan, Republic of Tatarstan, Russian Federation
| | - Almira R Kurbangalieva
- Biofunctional Chemistry Laboratory, A. Butlerov Institute of Chemistry, Kazan Federal University, Kazan, Republic of Tatarstan, Russian Federation
| | - Mikhail I Bogachev
- Biomedical Engineering Research Centre, St. Petersburg Electrotechnical University, St. Petersburg, Russian Federation
| | - Airat R Kayumov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Republic of Tatarstan, Russian Federation.
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25
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Ozhegov GD, Pavlova AS, Zhuravleva DE, Gogoleva NE, Shagimardanova EI, Markelova MI, Yarullina DR, Kayumov AR. Whole genome sequence data of Lactobacillus fermentum HFD1, the producer of antibacterial peptides. Data Brief 2020; 32:106105. [PMID: 32802923 PMCID: PMC7419572 DOI: 10.1016/j.dib.2020.106105] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2020] [Revised: 07/27/2020] [Accepted: 07/27/2020] [Indexed: 10/24/2022] Open
Abstract
Here we report the whole genome sequence of Lactobacillus fermentum HFD1 strain, the producer of antibacterial peptides. The genome consists of one circular chromosome with 2101878 bp in length and GC-content of 51.8%, and includes linear DNA with 5386 bp in length with 100% identity to bacteriophage phiX174. The analysis of the genome has revealed 2049 genes encoding for proteins including 867 proteins without known function and 70 genes encoding for RNAs (10 rRNAs, 59 tRNAs and 1 tmRNA). Putative genes responsible for the biosynthesis of 4 antimicrobial peptides were identified. The NCBI Bioproject has been deposited at NCBI under the accession number PRJNA615901 (https://www.ncbi.nlm.nih.gov/bioproject/PRJNA615901/) and consist of full annotated genome and raw sequence data.
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Affiliation(s)
| | - A S Pavlova
- Friedrich-Alexander University Erlangen, Nürnberg, Germany
| | | | - N E Gogoleva
- Kazan Federal University, Kazan, Russia.,Kazan Institute of Biochemistry and Biophysics, Kazan Science Centre, Russian Academy of Sciences, Kazan, Russia
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26
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Chernova LS, Bogachev MI, Chasov VV, Vishnyakov IE, Kayumov AR. N- and C-terminal regions of the small heat shock protein IbpA from Acholeplasma laidlawii competitively govern its oligomerization pattern and chaperone-like activity. RSC Adv 2020; 10:8364-8376. [PMID: 35497866 PMCID: PMC9050003 DOI: 10.1039/c9ra10172a] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2019] [Accepted: 02/18/2020] [Indexed: 12/11/2022] Open
Abstract
Small heat shock proteins (sHSPs) are ubiquitous molecular chaperones preventing the irreversible denaturation of proteins. While in Escherichia coli two sHSPs IbpA and IbpB work in strong cooperation, the sole Mollicute with free-living ability Acholeplasma laidlawii carries a single gene encoding the sHSP protein AlIbpA. In vitro, independently of the temperature, AlIbpA forms a heterogeneous mixture of approximately 24-mer globules, fibrils and huge protein aggregates. The removal of either 12 or 25 N-terminal amino acids led to the formation of fibrils and enhanced the protein ability to prevent the temperature-induced aggregation of insulin, assuming the fibrillar form as an active protein. In turn, the deletion of the C-terminus or substitution of C-terminal LEL motif by SEP decreased the temperature stability of AlIbpA and eliminated its chaperone function completely, although the protein remained predominantly in a globular state. This suggests that the C-terminal LEL motif is necessary for the chaperon-like activity of AlIbpA and fibril formation. Double N- and C-terminal truncations abolished both the chaperone-like activity and huge oligomer formation. Since the globular form of sHSPs is considered as their inactive form, our data suggest that the N-terminus of AlIbpA is responsible for the huge globule (low-active form) formation and behaves as an intramolecular inhibitor of the fibrils (active form) formation and substrates binding. Taken together these data demonstrate non-trivial properties of AlIbpA, in which the competitive action of N- and C-termini governs the equilibrium between either fibrillar or globular structures representing a possible molecular mechanism of the AlIbpA activity regulation. The CTD provides fibrils (active form) formation. The NTD leads to globules formation and behaves as an intramolecular inhibitor of CTD. Their competition governs the equilibrium between either fibrills or globules regulating the AlIbpA activity.![]()
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Affiliation(s)
- Liliya S Chernova
- Kazan Federal University 18 Kremlevskaya street 420008 Kazan Russia +7-843-233-78-02.,Institute of Cytology, Russian Academy of Sciences 4 Tikhoretsky Avenue 194064 St-Petersburg Russia +7-812-297-03-28
| | - Mikhail I Bogachev
- St. Petersburg Electrotechnical University 5 Professor Popov street 197376 St. Petersburg Russia
| | - Vitaly V Chasov
- Kazan Federal University 18 Kremlevskaya street 420008 Kazan Russia +7-843-233-78-02
| | - Innokentii E Vishnyakov
- Institute of Cytology, Russian Academy of Sciences 4 Tikhoretsky Avenue 194064 St-Petersburg Russia +7-812-297-03-28.,Peter the Great St.Petersburg Polytechnic University 29 Polytechnicheskaya street 195251 St-Petersburg Russia
| | - Airat R Kayumov
- Kazan Federal University 18 Kremlevskaya street 420008 Kazan Russia +7-843-233-78-02.,Institute of Cytology, Russian Academy of Sciences 4 Tikhoretsky Avenue 194064 St-Petersburg Russia +7-812-297-03-28
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27
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Sharafutdinov IS, Ozhegov GD, Sabirova AE, Novikova VV, Lisovskaya SA, Khabibrakhmanova AM, Kurbangalieva AR, Bogachev MI, Kayumov AR. Increasing Susceptibility of Drug-Resistant Candida albicans to Fluconazole and Terbinafine by 2(5 H)-Furanone Derivative. Molecules 2020; 25:molecules25030642. [PMID: 32024254 PMCID: PMC7036972 DOI: 10.3390/molecules25030642] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2020] [Revised: 01/28/2020] [Accepted: 02/01/2020] [Indexed: 12/14/2022] Open
Abstract
The frequency of mycoses caused by drug-resistant fungal pathogen Candida albicans has increased drastically over the last two decades. The spread of drug-resistant strains, along with the limitations of currently available antifungals, complicates the management of fungal infections, thereby representing great challenges for clinical healthcare. Among various antimicrobial pharmacophores, 2(5H)-furanone derivatives have demonstrated antimicrobial, antifungal, and antibiofilm activities. In this study, we report the antifungal activity of the 2(5H)-furanone derivative F105, consisting of three pharmacophores, namely chlorinated 2(5H)-furanone, sulfonyl group, and l-menthol moiety. Although exhibiting moderate antifungal activity alone with the minimum inhibitory concentration (MIC) values of 32–256 μg/mL, F105 potentiates the activity of fluconazole and terbinafine with fractional inhibitory concentration index (FICI) values of 0.27–0.50. Thus, 16 μg/mL of F105 reduced the MICs of these antifungals against fluconazole-resistant C. albicans isolates four-fold, achieving similar values as for the intermediately susceptible phenotype. Confocal laser scanning microscopy revealed that the fluorescent 2(5H)-furanone derivative F145 was also able to penetrate through biofilms formed by C. albicans. Indeed, in the presence of F105, even sub-MIC concentrations of both fluconazole and terbinafine led to significant reduction of C. albicans CFUs in the mature biofilm. Thus, F105 appears to be a promising candidate for the development of novel antifungal agents as well as enhancers of current antifungal agents, particularly for the treatment of drug-resistant C. albicans infections.
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Affiliation(s)
- Irshad S. Sharafutdinov
- Laboratory of Molecular Genetics of Microorganisms, Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan 420008, Russia; (G.D.O.); (A.E.S.)
- Correspondence: (I.S.S.); (A.R.K.); Tel.: +7-927-402-1105 (I.S.S.); +7-904-665-1908 (A.R.K.)
| | - Georgii D. Ozhegov
- Laboratory of Molecular Genetics of Microorganisms, Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan 420008, Russia; (G.D.O.); (A.E.S.)
- Industrial Drug Technology and Biotechnology, Perm State Pharmaceutical Academy, Perm 614990, Russia
| | - Alina E. Sabirova
- Laboratory of Molecular Genetics of Microorganisms, Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan 420008, Russia; (G.D.O.); (A.E.S.)
| | | | - Svetlana A. Lisovskaya
- Kazan Scientific Research Institute of Epidemiology and Microbiology, Kazan 420015, Russia;
- Kazan State Medical University, Kazan 420012, Russia
| | - Alsu M. Khabibrakhmanova
- Biofunctional Chemistry Laboratory, Alexander Butlerov Institute of Chemistry, Kazan Federal University, Kazan 420008, Russia; (A.M.K.); (A.R.K.)
| | - Almira R. Kurbangalieva
- Biofunctional Chemistry Laboratory, Alexander Butlerov Institute of Chemistry, Kazan Federal University, Kazan 420008, Russia; (A.M.K.); (A.R.K.)
| | - Mikhail I. Bogachev
- Radio Systems Department & Biomedical Engineering Research Centre, St. Petersburg Electrotechnical University, St. Petersburg 197376, Russia;
| | - Airat R. Kayumov
- Laboratory of Molecular Genetics of Microorganisms, Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan 420008, Russia; (G.D.O.); (A.E.S.)
- Correspondence: (I.S.S.); (A.R.K.); Tel.: +7-927-402-1105 (I.S.S.); +7-904-665-1908 (A.R.K.)
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28
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29
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Kayumov AR, Bogachev MI, Manuvera VA, Lazarev VN, Sabantsev AV, Artamonova TO, Borchsenius SN, Vishnyakov IE. [Recombinant small heat shock protein from Acholeplasma laidlawii increases the Escherichia coli viability in thermal stress by selective protein rescue]. Mol Biol (Mosk) 2019; 51:131-141. [PMID: 28251976 DOI: 10.7868/s0026898417010086] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2016] [Accepted: 03/14/2016] [Indexed: 11/23/2022]
Abstract
In both prokaryotes and eukaryotes, the survival at temperatures considerably exceeding the optimum is supported by intense synthesis of the so-called heat shock proteins (HSPs), which act to overcome the adverse effects of heat stress. Among mycoplasmas (class Mollicutes), which have significantly reduced genomes, only some members of the Acholeplasmataceae family possess small HSPs of the α-crystallin type. Overproduction of a recombinant HSP IbpA (Hsp20) from the free-living mycoplasma Acholeplasma laidlawii was shown to increase the resistance of Escherichia coli to short-term heat shock. It has been long assumed that IbpA prevents protein aggregation and precipitation thereby increasing viability of E. coli cells. Several potential target proteins interacting with IbpA under heat stress were identified, including biosynthetic enzymes, enzymes of energy metabolism, and components of the protein synthesis machinery. Statistical analysis of physicochemical properties indicated that IbpA interaction partners significantly differ in molecular weight, charge, and isoelectric point from other members of the E. coli proteome. Upon shortterm exposure to increased temperature, IbpA was found to preferentially interact with high-molecular weight proteins having a pI of about 5.1, significantly lower than the typical values of E. coli proteins.
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Affiliation(s)
- A R Kayumov
- Kazan Federal University, Kazan, 420008 Russia
| | - M I Bogachev
- LETI St. Petersburg State Electrotechnical University, St. Petersburg, 197376 Russia
| | - V A Manuvera
- Institute of Physico-Chemical Medicine, Federal Medical-Biological Agency of Russia, Moscow, 119992 Russia
| | - V N Lazarev
- Institute of Physico-Chemical Medicine, Federal Medical-Biological Agency of Russia, Moscow, 119992 Russia
| | - A V Sabantsev
- Peter the Great St. Petersburg Polytechnic University, St. Petersburg, 195251 Russia
| | - T O Artamonova
- Peter the Great St. Petersburg Polytechnic University, St. Petersburg, 195251 Russia
| | - S N Borchsenius
- Institute of Cytology, Russian Academy of Sciences, St. Petersburg, 194064 Russia
| | - I E Vishnyakov
- Peter the Great St. Petersburg Polytechnic University, St. Petersburg, 195251 Russia.,Institute of Cytology, Russian Academy of Sciences, St. Petersburg, 194064 Russia.,
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30
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Sharafutdinov IS, Pavlova AS, Khabibrakhmanova AM, Faizova RG, Kurbangalieva AR, Tanaka K, Trizna EY, Baidamshina DR, Bogachev MI, Kayumov AR. Targeting Bacillus cereus cells: increasing efficiency of antimicrobials by the bornylpossessing 2(5Н)-furanone derivative. New Microbiol 2019; 42:29-36. [PMID: 30671584] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Subscribe] [Scholar Register] [Received: 04/08/2019] [Accepted: 04/08/2019] [Indexed: 06/09/2023]
Abstract
Among a variety of antimicrobial compounds, the derivatives of 2(5H)-furanone exhibit different effects on Firmicutes and Proteobacteria. While inhibiting quorum-dependent biofilm formation and virulence factor expression by Gram-negative bacteria through specific interference with the AI-2 signaling pathways, these compounds demonstrate bactericidal effects against Gram-positive bacteria. Here we report that 3,4-dichloro-5(S)-[(1S,2R,4S)-1,7,7-trimethylbicyclo[2.2.1]heptan-2-yloxy]-2(5H)-furanone designed as F123 inhibits growth and biofilm formation by the food-poisoning bacterium Bacillus cereus at 8 μg/ ml and kills bacteria at 16 μg/ml. While the growth of Staphylococcus aureus, Staphylococcus epidermidis, Micrococcus luteus, Bacillus subtilis were also inhibited at 8-16 μg/ml of F123, no bactericidal effect on these strains was observed at concentrations up to 128 μg/ml, suggesting pronounced specificity of F123 for B. cereus. In a checker-board assay F123 increased the efficacy of amikacin, gentamicin and benzalkonium chloride against B. cereus with medians of fractional inhibitory concentration index of 0.38, 0.56 and 0.56, respectively. Moreover, the number of viable B. cereus cells in biofilm was reduced by more than 3 orders of magnitude at 64 μg/ml of F123, suggesting its chemotype as a promising enhancer for specific treatment of B. cereus-associated topical infections, including biofilm-embedded bacteria.
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Affiliation(s)
- Irshad S Sharafutdinov
- Laboratory of Molecular Genetics of Microorganisms, Institute of Fundamental Medicine and Biology, Kazan Federal University, 18 Kremlyovskaya street, Kazan 420008, Russia
| | - Anna S Pavlova
- Laboratory of Molecular Genetics of Microorganisms, Institute of Fundamental Medicine and Biology, Kazan Federal University, 18 Kremlyovskaya street, Kazan 420008, Russia
| | - Alsu M Khabibrakhmanova
- Biofunctional Chemistry Laboratory, A. Butlerov Institute of Chemistry, Kazan Federal University, 18 Kremlyovskaya street, Kazan 420008, Russia
| | - Roza G Faizova
- Biofunctional Chemistry Laboratory, A. Butlerov Institute of Chemistry, Kazan Federal University, 18 Kremlyovskaya street, Kazan 420008, Russia
| | - Almira R Kurbangalieva
- Biofunctional Chemistry Laboratory, A. Butlerov Institute of Chemistry, Kazan Federal University, 18 Kremlyovskaya street, Kazan 420008, Russia
| | - Katsunori Tanaka
- Biofunctional Chemistry Laboratory, A. Butlerov Institute of Chemistry, Kazan Federal University, 18 Kremlyovskaya street, Kazan 420008, Russia
- Biofunctional Synthetic Chemistry Laboratory, RIKEN Cluster for Pioneering Research, 2-1 Hirosawa, Wako-shi, Saitama, 351-0198, Japan
| | - Elena Y Trizna
- Laboratory of Molecular Genetics of Microorganisms, Institute of Fundamental Medicine and Biology, Kazan Federal University, 18 Kremlyovskaya street, Kazan 420008, Russia
| | - Diana R Baidamshina
- Laboratory of Molecular Genetics of Microorganisms, Institute of Fundamental Medicine and Biology, Kazan Federal University, 18 Kremlyovskaya street, Kazan 420008, Russia
| | - Mikhail I Bogachev
- Laboratory of Molecular Genetics of Microorganisms, Institute of Fundamental Medicine and Biology, Kazan Federal University, 18 Kremlyovskaya street, Kazan 420008, Russia
- Biomedical Engineering Research Centre, Saint Petersburg Electrotechnical University, Saint Petersburg, Russia
| | - Airat R Kayumov
- Laboratory of Molecular Genetics of Microorganisms, Institute of Fundamental Medicine and Biology, Kazan Federal University, 18 Kremlyovskaya street, Kazan 420008, Russia
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31
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Bogachev MI, Volkov VY, Markelov OA, Trizna EY, Baydamshina DR, Melnikov V, Murtazina RR, Zelenikhin PV, Sharafutdinov IS, Kayumov AR. Fast and simple tool for the quantification of biofilm-embedded cells sub-populations from fluorescent microscopic images. PLoS One 2018; 13:e0193267. [PMID: 29715298 PMCID: PMC5929543 DOI: 10.1371/journal.pone.0193267] [Citation(s) in RCA: 47] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2017] [Accepted: 02/07/2018] [Indexed: 01/30/2023] Open
Abstract
Fluorescent staining is a common tool for both quantitative and qualitative assessment of pro- and eukaryotic cells sub-population fractions by using microscopy and flow cytometry. However, direct cell counting by flow cytometry is often limited, for example when working with cells rigidly adhered either to each other or to external surfaces like bacterial biofilms or adherent cell lines and tissue samples. An alternative approach is provided by using fluorescent microscopy and confocal laser scanning microscopy (CLSM), which enables the evaluation of fractions of cells subpopulations in a given sample. For the quantitative assessment of cell fractions in microphotographs, we suggest a simple two-step algorithm that combines single cells selection and the statistical analysis. To facilitate the first step, we suggest a simple procedure that supports finding the balance between the detection threshold and the typical size of single cells based on objective cell size distribution analysis. Based on a series of experimental measurements performed on bacterial and eukaryotic cells under various conditions, we show explicitly that the suggested approach effectively accounts for the fractions of different cell sub-populations (like the live/dead staining in our samples) in all studied cases that are in good agreement with manual cell counting on microphotographs and flow cytometry data. This algorithm is implemented as a simple software tool that includes an intuitive and user-friendly graphical interface for the initial adjustment of algorithm parameters to the microphotographs analysis as well as for the sequential analysis of homogeneous series of similar microscopic images without further user intervention. The software tool entitled BioFilmAnalyzer is freely available online at https://bitbucket.org/rogex/biofilmanalyzer/downloads/.
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Affiliation(s)
- Mikhail I. Bogachev
- Radio Systems Department & Biomedical Engineering Research Center, St. Petersburg Electrotechnical University, St. Petersburg, Russia
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
| | - Vladimir Yu Volkov
- Radio Systems Department & Biomedical Engineering Research Center, St. Petersburg Electrotechnical University, St. Petersburg, Russia
- Department of Radio Systems and Signal Processing, Bonch-Bruevich State Telecommunication University, St. Petersburg, Russia
- Department of Radio Engineering Systems, State University of Aerospace Instrumentation, St. Petersburg, Russia
| | - Oleg A. Markelov
- Radio Systems Department & Biomedical Engineering Research Center, St. Petersburg Electrotechnical University, St. Petersburg, Russia
| | - Elena Yu Trizna
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
| | - Diana R. Baydamshina
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
| | - Vladislav Melnikov
- Radio Systems Department & Biomedical Engineering Research Center, St. Petersburg Electrotechnical University, St. Petersburg, Russia
| | - Regina R. Murtazina
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
| | - Pavel V. Zelenikhin
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
| | | | - Airat R. Kayumov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
- * E-mail:
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32
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Holyavka MG, Kayumov AR, Baydamshina DR, Koroleva VA, Trizna EY, Trushin MV, Artyukhov VG. Efficient fructose production from plant extracts by immobilized inulinases from Kluyveromyces marxianus and Helianthus tuberosus. Int J Biol Macromol 2018; 115:829-834. [PMID: 29698764 DOI: 10.1016/j.ijbiomac.2018.04.107] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2017] [Revised: 02/14/2018] [Accepted: 04/20/2018] [Indexed: 01/01/2023]
Abstract
The enzymatic hydrolysis of poly- and oligosaccharides from plants seems like an advantageous approach for sugars production. Two inulinases producing fructose from plant oligosaccharides were isolated from yeast Kluyveromyces marxianus and plant Helianthus tuberosus. Both enzymes were immobilized on polymeric carriers by using the static adsorption approach. We could save 80.4% of the initial catalytic activity of plant inulinase immobilized on KU-2 cation-exchange resin and 75.5% of yeast enzyme activity adsorbed on AV-17-2P anion-exchange resin. After immobilization, the Km values increased 1.5 and 6 times for enzymes from K. marxianus and H. tuberosus, respectively. The optimal temperatures for catalysis of both enzymes were increased from 48-50 °C up to 70 °C. The activities of both immobilized enzymes remained unchanged after the 10 cycles of 20-min hydrolysis reaction at 70 °C model batch reactor. Sorbents, native and immobilized enzymes did not exhibit any mutagenic or cytotoxic activity.
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33
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Sharafutdinov IS, Trizna EY, Baidamshina DR, Ryzhikova MN, Sibgatullina RR, Khabibrakhmanova AM, Latypova LZ, Kurbangalieva AR, Rozhina EV, Klinger-Strobel M, Fakhrullin RF, Pletz MW, Bogachev MI, Kayumov AR, Makarewicz O. Antimicrobial Effects of Sulfonyl Derivative of 2(5 H)-Furanone against Planktonic and Biofilm Associated Methicillin-Resistant and -Susceptible Staphylococcus aureus. Front Microbiol 2017; 8:2246. [PMID: 29209288 PMCID: PMC5701942 DOI: 10.3389/fmicb.2017.02246] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2017] [Accepted: 10/31/2017] [Indexed: 01/15/2023] Open
Abstract
The gram-positive opportunistic bacterium Staphylococcus aureus is one of the most common causatives of a variety of diseases including skin and skin structure infection or nosocomial catheter-associated infections. The biofilm formation that is an important virulence factor of this microorganism renders the antibiotic therapy ineffective, because biofilm-embedded bacteria exhibit strongly increased tolerance to antimicrobials. Here, we describe a novel 3-chloro-5(S)-[(1R,2S,5R)-2-isopropyl-5-methylcyclohexyloxy]-4-[4-methylphenylsulfonyl]-2(5H)-furanone (F105), possessing a sulfonyl group and l-menthol moiety. Minimal inhibitory and bactericidal concentration values (MIC and MBC) of F105 were 10 and 40 mg/L, respectively, suggesting F105 biocidal properties. F105 exhibits pronounced activity against biofilm-embedded S. aureus and increases the efficacy of aminoglycosides (amikacin, gentamicin, and kanamycin) and benzalkonium chloride with fractional inhibitory concentration index values of 0.33–0.44 and 0.29, respectively, suggesting an alternative external treatment option, e.g., for wound infections. Moreover, low concentrations (0.5–1.3 mg/L) of F105 reduced the MICs of these antimicrobials twofold. By using confocal laser scanning microscopy and CFU counting, we show explicitly that F105 also restores the antimicrobial activity of gentamicin and ampicillin against S. aureus biofilms by several orders of magnitude. Biofilm structures were not destroyed but sterilized, with embedded cells being almost completely killed at twofold MBC. While F105 is quite toxic (CC50/MBC ratio 0.2), our data suggest that the F105 chemotype might be a promising starting point for the development of complex topical agents for combined anti-staphylococcal biofilm-therapies restoring the efficacy of some antibiotics against difficult to treat S. aureus biofilm.
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Affiliation(s)
| | - Elena Y Trizna
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
| | - Diana R Baidamshina
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
| | - Maria N Ryzhikova
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
| | - Regina R Sibgatullina
- Biofunctional Chemistry Laboratory, Alexander Butlerov Institute of Chemistry, Kazan Federal University, Kazan, Russia
| | - Alsu M Khabibrakhmanova
- Biofunctional Chemistry Laboratory, Alexander Butlerov Institute of Chemistry, Kazan Federal University, Kazan, Russia
| | - Liliya Z Latypova
- Biofunctional Chemistry Laboratory, Alexander Butlerov Institute of Chemistry, Kazan Federal University, Kazan, Russia
| | - Almira R Kurbangalieva
- Biofunctional Chemistry Laboratory, Alexander Butlerov Institute of Chemistry, Kazan Federal University, Kazan, Russia
| | - Elvira V Rozhina
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
| | - Mareike Klinger-Strobel
- Center for Infectious Diseases and Infection Control, Jena University Hospital, Jena, Germany
| | - Rawil F Fakhrullin
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
| | - Mathias W Pletz
- Center for Infectious Diseases and Infection Control, Jena University Hospital, Jena, Germany
| | - Mikhail I Bogachev
- Biomedical Engineering Research Centre, Saint Petersburg Electrotechnical University, Saint Petersburg, Russia
| | - Airat R Kayumov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
| | - Oliwia Makarewicz
- Center for Infectious Diseases and Infection Control, Jena University Hospital, Jena, Germany
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Sapozhnikov SV, Shtyrlin NV, Kayumov AR, Zamaldinova AE, Iksanova AG, Nikitina ЕV, Krylova ЕS, Grishaev DY, Balakin KV, Shtyrlin YG. New quaternary ammonium pyridoxine derivatives: synthesis and antibacterial activity. Med Chem Res 2017. [DOI: 10.1007/s00044-017-2012-9] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
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Baidamshina DR, Trizna EY, Holyavka MG, Bogachev MI, Artyukhov VG, Akhatova FS, Rozhina EV, Fakhrullin RF, Kayumov AR. Targeting microbial biofilms using Ficin, a nonspecific plant protease. Sci Rep 2017; 7:46068. [PMID: 28387349 PMCID: PMC5384253 DOI: 10.1038/srep46068] [Citation(s) in RCA: 63] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2016] [Accepted: 03/08/2017] [Indexed: 11/09/2022] Open
Abstract
Biofilms, the communities of surface-attached bacteria embedded into extracellular matrix, are ubiquitous microbial consortia securing the effective resistance of constituent cells to environmental impacts and host immune responses. Biofilm-embedded bacteria are generally inaccessible for antimicrobials, therefore the disruption of biofilm matrix is the potent approach to eradicate microbial biofilms. We demonstrate here the destruction of Staphylococcus aureus and Staphylococcus epidermidis biofilms with Ficin, a nonspecific plant protease. The biofilm thickness decreased two-fold after 24 hours treatment with Ficin at 10 μg/ml and six-fold at 1000 μg/ml concentration. We confirmed the successful destruction of biofilm structures and the significant decrease of non-specific bacterial adhesion to the surfaces after Ficin treatment using confocal laser scanning and atomic force microscopy. Importantly, Ficin treatment enhanced the effects of antibiotics on biofilms-embedded cells via disruption of biofilm matrices. Pre-treatment with Ficin (1000 μg/ml) considerably reduced the concentrations of ciprofloxacin and bezalkonium chloride required to suppress the viable Staphylococci by 3 orders of magnitude. We also demonstrated that Ficin is not cytotoxic towards human breast adenocarcinoma cells (MCF7) and dog adipose derived stem cells. Overall, Ficin is a potent tool for staphylococcal biofilm treatment and fabrication of novel antimicrobial therapeutics for medical and veterinary applications.
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Affiliation(s)
- Diana R Baidamshina
- Kazan Federal University, Institute of Fundamental Medicine and Biology, Kazan, Republic of Tatarstan, Russian Federation
| | - Elena Y Trizna
- Kazan Federal University, Institute of Fundamental Medicine and Biology, Kazan, Republic of Tatarstan, Russian Federation
| | - Marina G Holyavka
- Voronezh State University, Medicine and Biology Faculty, Voronezh, Russian Federation
| | - Mikhail I Bogachev
- St Petersburg Electrotechnical University, Biomedical Engineering Research Centre, St. Petersburg, Russian Federation
| | - Valeriy G Artyukhov
- Voronezh State University, Medicine and Biology Faculty, Voronezh, Russian Federation
| | - Farida S Akhatova
- Kazan Federal University, Institute of Fundamental Medicine and Biology, Kazan, Republic of Tatarstan, Russian Federation
| | - Elvira V Rozhina
- Kazan Federal University, Institute of Fundamental Medicine and Biology, Kazan, Republic of Tatarstan, Russian Federation
| | - Rawil F Fakhrullin
- Kazan Federal University, Institute of Fundamental Medicine and Biology, Kazan, Republic of Tatarstan, Russian Federation
| | - Airat R Kayumov
- Kazan Federal University, Institute of Fundamental Medicine and Biology, Kazan, Republic of Tatarstan, Russian Federation
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Abstract
Understanding the physical principles that govern the complex DNA structural organization as well as its mechanical and thermodynamical properties is essential for the advancement in both life sciences and genetic engineering. Recently we have discovered that the complex DNA organization is explicitly reflected in the arrangement of nucleotides depicted by the universal power law tailed internucleotide interval distribution that is valid for complete genomes of various prokaryotic and eukaryotic organisms. Here we suggest a superstatistical model that represents a long DNA molecule by a series of consecutive ~150 bp DNA segments with the alternation of the local nucleotide composition between segments exhibiting long-range correlations. We show that the superstatistical model and the corresponding DNA generation algorithm explicitly reproduce the laws governing the empirical nucleotide arrangement properties of the DNA sequences for various global GC contents and optimal living temperatures. Finally, we discuss the relevance of our model in terms of the DNA mechanical properties. As an outlook, we focus on finding the DNA sequences that encode a given protein while simultaneously reproducing the nucleotide arrangement laws observed from empirical genomes, that may be of interest in the optimization of genetic engineering of long DNA molecules.
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Affiliation(s)
- Mikhail I. Bogachev
- Biomedical Engineering Research Centre, St. Petersburg Electrotechnical University, St. Petersburg, 197376, Russia
- Molecular Genetics of Microorganisms Lab, Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, Kazan, Tatarstan, 420008, Russia
| | - Oleg A. Markelov
- Biomedical Engineering Research Centre, St. Petersburg Electrotechnical University, St. Petersburg, 197376, Russia
| | - Airat R. Kayumov
- Molecular Genetics of Microorganisms Lab, Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, Kazan, Tatarstan, 420008, Russia
| | - Armin Bunde
- Institut für Theoretische Physik, Justus-Liebig-Universität Giessen, 35392 Giessen, Germany
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Vedyaykin AD, Sabantsev AV, Khodorkovskii MA, Kayumov AR, Vishnyakov IE. Recombinant FtsZ Proteins from Mollicutes Interact with Escherichia coli Division Machinery. BioNanoSci 2016. [DOI: 10.1007/s12668-016-0248-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Shtyrlin NV, Sapozhnikov SV, Koshkin SA, Iksanova AG, Sabirov AH, Kayumov AR, Nureeva AA, Zeldi MI, Shtyrlin YG. Synthesis and Antibacterial Activity of Novel Quaternary Ammonium Pyridoxine Derivatives. Med Chem 2016; 11:656-65. [PMID: 25938426 DOI: 10.2174/1573406411666150504122930] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2014] [Revised: 04/25/2015] [Accepted: 04/25/2015] [Indexed: 11/22/2022]
Abstract
A series of 26 quaternary ammonium pyridoxine derivatives were synthesized and their cytotoxicity and antibacterial activities against clinically relevant bacterial strains were tested in vitro. The antibacterial activity of mono-ammonium salts increased with the rise of the lipophilicity and compound 3,3,5-trimethyl-8,8-dioctyl-1,7,8,9-tetrahydro-[1,3]dioxino[5,4-d]pyrrolo[3,4-b]pyridin-8-ium chloride (2d) reaches a maximum among them. Bis-ammonium salt of pyridoxine 4 with two dimethyloctylamine groups also demonstrated high antibacterial activity despite lower lipophilicity. The results of MTT assay indicated that HEK 293 cells were more sensitive than HSF to quaternary ammonium pyridoxine derivatives. Compounds 2d and 4 did not induce the damage of the DNA and might be of interest in the development of new antimicrobials.
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Affiliation(s)
| | | | | | | | | | | | | | | | - Yurii G Shtyrlin
- Research and Educational Center of Pharmacy, Kazan Federal University, Kazan, 420008, Russian Federation.
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Bogachev MI, Kayumov AR, Bunde A. Universal internucleotide statistics in full genomes: a footprint of the DNA structure and packaging? PLoS One 2014; 9:e112534. [PMID: 25438044 PMCID: PMC4249851 DOI: 10.1371/journal.pone.0112534] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2014] [Accepted: 10/07/2014] [Indexed: 11/18/2022] Open
Abstract
Uncovering the fundamental laws that govern the complex DNA structural organization remains challenging and is largely based upon reconstructions from the primary nucleotide sequences. Here we investigate the distributions of the internucleotide intervals and their persistence properties in complete genomes of various organisms from Archaea and Bacteria to H. Sapiens aiming to reveal the manifestation of the universal DNA architecture. We find that in all considered organisms the internucleotide interval distributions exhibit the same -exponential form. While in prokaryotes a single -exponential function makes the best fit, in eukaryotes the PDF contains additionally a second -exponential, which in the human genome makes a perfect approximation over nearly 10 decades. We suggest that this functional form is a footprint of the heterogeneous DNA structure, where the first -exponential reflects the universal helical pitch that appears both in pro- and eukaryotic DNA, while the second -exponential is a specific marker of the large-scale eukaryotic DNA organization.
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Affiliation(s)
- Mikhail I. Bogachev
- Radio Systems Department & Biomedical Engineering Research Center, Saint Petersburg Electrotechnical University, Saint Petersburg, Russia
- * E-mail:
| | - Airat R. Kayumov
- Department of Genetics & Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, Kazan, Tatarstan, Russia
| | - Armin Bunde
- Institut für Theoretische Physik, Justus-Liebig-Universität Giessen, Giessen, Hessen, Germany
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