Preliminary evaluation of antibiotic susceptibility patterns of pathogens isolated from private laboratory specimens in Ukraine

Analysis of resistance to antimicrobial drugs of pathogens that were obtained in a private laboratory. Methods of assessing sensitivity to antimicrobial drugs of selected isolates. Strains obtained from patients of a clinic, their antibiotic resistance.

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Kharkiv National Medical University

Preliminary evaluation of antibiotic susceptibility patterns of pathogens isolated from private laboratory specimens in Ukraine

Railian M.V., Chumachenko T.O., Railian H.M.

Objective. This study aims at conducting an analysis of data on antibiotic resistance to antimicrobials that were obtained for the period from April 28, 2018, to December 31, 2019, in a private laboratory in the city of Kharkiv. Materials and methods. We conducted an investigation into the identification and analysis of antimicrobial sensitivity for isolates obtained from patients at a private clinic in the city of Kharkiv from 2018 to 2019. Results. The analysis revealed that patients most frequently sought bacteriological examination for materials from the throat (34.5%) and nose (29.9%), while the least common requests were for examination of the mucous membrane of the oral cavity (2.3%) and skin (3.4%). The positive results accounted for 94.3% of the cases. The isolated strains included Staphylococcus aureus (29.4%), Neisseria spp. (16.5%), Staphylococcus epidermidis (14.1%), Streptococcus spp. of the Viridans group (12.9%), Candida albicans (5.9%), Moraxella spp. (1.2%), Streptococcus anhaemolyticus, Klebsiella pneumoniae, Escherichia coli, Pseudomonas aeruginosa (each constituting 3.5%), molds (2.4%), and Streptococcus haemolyticus, Enterobacter aerogenes, and Enterococcus faecalis (each accounting for 1.2%). The isolated strains obtained from patients of the private laboratory had a pronounced antibiotic resistance to antimicrobial drugs of the following groups: beta-lactams, tetracycline, aminoglycosides, and sulfonamides. This should be taken into account by doctors when prescribing antibacterial therapy. Conclusions. The data indicate disturbingly high levels of antimicrobial resistance in isolates collected from patients at a private clinic in the city of Kharkiv.

Keywords: antimicrobial resistance, isolates, strains, antimicrobial agents, Ukraine.

Реферат

Оцінка чутливості до антимікробних препаратів ізолятів, виділених в приватній лабораторії в Україні

Райлян М.В., Чумаченко Т.О., Райлян Г.М.

Ключові слова. Єдине здоров'я, антимікробна резистентність, ізоляти, штами, протимікробні препарати, Україна.

Мета. Метою дослідження було провести аналіз резистентності до антимікробних препаратів пато- генів, які були отримані за період з 28 квітня 2018 року по 31 грудня 2019 року в приватній лабораторії в м. Харкові.

Матеріали та методи. Проаналізовано результати ідентифікації та аналіз чутливості до антимікробних препаратів ізолятів, отриманих від пацієнтів приватної клініки м. Харкова за 2018-2019 рр. Результати. Аналіз показав, що найчастіше хворі зверталися для бактеріологічного дослідження матеріалу зіву (34,5 %) та носа (29,9 %), рідше - для дослідження слизової оболонки ротової порожнини (2,3 %) та шкіри (3,4 %). Питома вага позитивних результатів склала 94,3%. Виділені штами: Staphylococcus aureus (29,4 %), Neisseria spp. (16,5 %), Staphylococcus epidermidis (14,1 %), Streptococcus spp. групи Viridans (12,9 %), Candida albicans (5,9 %), Moraxella spp. (1,2 %), Streptococcus anhaemolyticus, Klebsiella pneumoniae, Esherichia coli, Pseudomonas aeruginosa (становили по 3,5 %), плісняви - 2,4 %, Streptococcus haemolyticus, Enterobacter aerogenes і Enterococcus faecalis (по 1,2 %). Виділені штами, отримані від пацієнтів приватної клініки, мали виражену антибіоти- корезистентність до антимікробних препаратів груп: бета-лактами, тетрациклін, аміноглікозиди, сульфаніламіди. Це повинні враховувати лікарі при призначенні антибактеріальної терапії. Висновки. Дані свідчать про загрозливо високі результати резистентності до антимікробних препаратів у ізолятів, отриманих від пацієнтів приватної клініки міста Харкова.

Introduction

The last decade was marked by a global increase in antibiotic resistance among common disease-causing bacteria including the causative agents of hospital infections in all regions of the world, including Ukraine [1, 2, 5]. Targeting resistant organisms is becoming increasingly difficult, requiring the use of alternative drugs or higher doses that can be more costly or more toxic [3, 4]. Microbes resistant to several antimicrobials are called multidrug-resistant (MR); or sometimes superbugs [6, 11, 12]. Antimicrobial resistance is on the rise, causing millions of deaths each year Currently, several infections have become completely incurable due to resistance [7, 9, 10].

Antibiotic resistance may arise through natural selection due to random mutations and/or exposure to the antibiotic [8, 13, 14]. An important aspect is the capability of microorganisms to transmit antibiotic resistance genetic information through horizontal gene transfer, i. e. from a microorganism with a random resistance mutation to other susceptible microorganisms, leading to the development of resistance [15, 16]. Moreover, antibiotic resistance of microorganisms can be created artificially by genetic transformation, which should also be taken into account.

In order to timely detect microorganisms with possible new resistance genes to certain antibiotics, it is necessary to constantly monitor microbiological strains of microorganisms circulating among the population. At the first stage of such monitoring, simple methods for assessing resistance patterns, which are cheaper, can be used. In the future, resistant strains can be studied by molecular genetic methods. Currently, most antimicrobial drugs in the clinical development are modifications of already-existing classes of antibiotics that indicates a growing global medical challenge, the resolution of which is conceivable only through the assessment of pathogen resistance levels to various antibiotics at both regional and national levels.

Limited material resources hinder the comprehensive evaluation of the full spectrum of circulating pathogens and their resistance to antimicrobial drugs commonly used in medical practice. However, in Ukraine, individuals can opt for bacteriological examinations in private laboratories without requiring a prior referral from a doctor. There is an opportunity for the population to conduct a bacteriological examination in a private laboratory regardless of the nosological form and disease severity that gives an additional opportunity to assess the extent of the antibiotic resistance problem under the current conditions in Ukraine [17, 19, 20].

The objective of this study is to evaluate the antibiotic resistance of pathogens isolated in biological samples collected from clients of private laboratories in Ukraine. Knowledge of the spectrum of antibiotic resistance in circulating strains can help in the selection of antibacterial drugs for the treatment of patients [18, 21,22].

Material and methods

In Ukraine, antibiotic resistance monitoring is carried out in accordance with the Order of the Ministry of Health (MoH) of Ukraine dated August 3, 2021 No. 1614 "On the organization of infection prevention and infection control in health care institutions and institutions/institutions providing social services/social protection of the population". The results of bacteria culture tests of biological samples collected from patients of a private laboratory in the city of Kharkiv from 24 March 2018 to 31 December 2019 were examined. The samples comprise 30 throat culture specimens, 26 nose culture specimens, 5 urogenital culture specimens, 8 ear culture specimens, 13 urine culture specimens, 3 skin culture specimens, and 2 oral cavity culture specimens, totaling 87 samples. According to the Clinical & Laboratory Standards Institute (CLSI) guidelines, a total of 82 strains of opportunistic pathogens were isolated. Antibiotic resistance levels were assessed using the agar disk diffusion method, involving 15 groups of antimicrobial agents.

The analysis of statistical data was performed using Microsoft Excel.

Inclusion criteria: The study included adult patients who applied to the private laboratory of Kharkiv with suspicion of bacterial infection during March 24, 2018, to December 31, 2019. Exclusion criteria: repeated bacteriological culture obtained from the same patient.

Microbial analysis. In this study, bacterial species identification was performed with standard microbial methods. Antibiotic susceptibility testing of bacteria was determined by Kirby-Bauer disc diffusion test according to the protocol of the European Committee on Antimicrobial Susceptibility Testing (EUCAST) (http://eucast.org).

Ethics. Ethical considerations including privacy of personal data were considered during all steps of the research.

Results

Over the study period, there were 82 (94.2%) positive results, while 5 (5.8%) laboratory tests results were negative.

The analysis revealed that most often bacteriological examinations were carried out of the material taking from the throat (34.5 %) and nose (29.9 %), and less often from the oral mucosa (2.3 %) and skin (3.4%).

Analysis of the positive culturing results showed that the strains of Staphylococcus aureus (29.4 %) were mostly isolated. In addition, the strains of Neisseria spp. (16.5 %), Staphylococcus epidermidis (14.1 %), Streptococcus spp. of viri- dans group (12.9 %), Candida albicans (5.9 %), Moraxella spp. (1.2 %), Streptococcus anhaemo- lyticus, Klebsiella pneumoniae, Esherichia coli, Pseudomonas aeruginosa (each amounted to 3.5 %), Moulds - 2.4 %, Streptococcus haemolyticus, Enterobacter aerogenes and Enterococcus faecalis (each 1.2 %) were isolated. The structure of the culturing samples is shown in (Table 1,2).

Out of 14.9 % of urine samples analyzed, 5 samples (38.5%) were negative, while pathogens were isolated in 8 samples (61.5%). The isolates of E. coli (33.3 %) and P. aeruginosa (22.2%) made up the largest proportion, as well as the strains of S. epidermidis, K. рneumonia, E. faecalis, E. аerogenes each accounted for 11.1 %. In one culture, an association of E. faecalis and K. рneumonia. was detected. Studying susceptibility of the isolates from urine samples showed that E. coli was resistant to tetracyclines (tetracycline, doxycycline), beta-lactams (amoxicillin, amoxiclav, cefazolin, cefpodoxime), and sulfanilamides (co- trimoxazole).

The P. аeruginosa strains demonstrated resistance to antibiotics of the tetracycline group (tetracycline, doxycycline), beta-lactams (amoxicillin, amoxiclav, cefazolin, cefpodoxime, cefuroxime, ceftriaxone, meropenem), and sulfanilamides (co- trimoxazole).

The E. faecalis isolates were resistant to beta- lactams (cefazolin, cefpodoxime, cefuroxime, ce- fepime), aminoglycosides (amikacin, gentamycin, tobramycin), quinolones (gatifloxacin, ofloxacin, pe- floxacin, norfloxacin), and tetracyclines (tetracycline, doxycycline).

The isolates of E. аerogenes were resistant to beta-lactams (amoxicillin, amoxiclav, cefixime, cefazolin, cefpodoxime, cefuroxime), aminoglycosides (gentamycin, tobramycin), quinolones (gatifloxacin, ofloxacin, pefloxacin, norfloxacin, ciprofloxacin, levofloxacin), and tetracyclines (tetracycline, doxycycline).

The S. еpidermidis strains demonstrated marked resistance to beta-lactams (benzylpenicillin, oxacillin, amoxicillin, amoxiclav, cefazolin, cefpodoxime) and tetracyclines (tetracycline).

The isolates of K. рneumonia were resistant to beta-lactams (amoxicillin, amoxiclav, cefixime, cefazolin, cefpodoxime, cefuroxime, cefoperazone, ceftriaxone, cefepime), aminoglycosides (amikacin), quinolones (gatifloxacin, ofloxacin, pefloxacin, ciprofloxacin, levofloxacin, norfloxacin), and tetracyclines (tetracycline, doxycycline).

Table 1.

Distribution of pathogens isolated from biological samples taken in the clients of a private laboratory in Kharkiv from March 24, 2018, to December 31, 2019.

Microorganism

Frequency

(n=85)

Percentage

(%)

Gram-positive cocci

St. aureus

25

29.4

St. epidermidis

12

14.1

Streptococcus spp.

11

12.9

Strept. anhaemolyticus

3

3.5

Enterobacter faecalis

1

1.2

St. haemolyticus

1

1.2

Gram-negative bacilli

E. coli

3

3.5

Enterobacter aerogenes

1

1.2

Neisseria spp.

14

16.5

Moraxella spp.

1

1.2

Klebsiella pneumoniae

3

3.5

Pseudomonas aeruginosa

3

3.5

Candida albicans

5

5.9

Fungi

2

2.4

Table 2.

Antimicrobial Resistance in the Most Common Gram-Positive Isolates from Patients' Biological Samples in a Private Laboratory in Kharkiv: March 24, 2018, to December 31, 2019, n=85

Antmicrobal medicine

Microorganisms

S. aureus (n=14)

S. epidermidis (n=12)

Resistance

(%)

Resistance

(%)

benzylpenicillin

64.3

75

oxacillin

85.7

75

amoxicillin

78.6

81.2

Amoxiclav

78.6

81.2

cefazolin

85.7

93.7

cefpodoxime

92.8

81.2

cefuroxime

35.7

25

cefoperazone

14.3

0

amikacin

0

6.2

gentamicin

7.1

6.2

tobramycin

7.1

6.2

norfloxacin

7.1

6.2

tetracycline

85.7

75

doxycycline

57.1

43.7

clarithromycin

7.1

18.8

azithromycin

42.8

50

clindamycin

78.6

37.5

chloramphenicol

35.7

6.2

levofloxacin

0

6.2

rifampicin

7.1

6.2

lincomycin

28.6

18.8

roxithromycin

28.6

18.8

spiramycin

28.6

18.8

Thus, the examination of urine cultures has de- monstraetd that all isolated strains possessed the highest resistance to antimicrobial drugs of the tetracycline group (100 %) and beta-lactams (100 %), and the resistance to the sulfanilamides was 33.3%, to aminoglycosides and the quinolones amounted to 50%.

Out of 5.7 % samples taked from the urogenital tract during bacteriological examination, 7 pathogens were isolated, of which the strains of S. еpidermidis (28.5%), Streptococcus spp. (28.5%), Candida albicans, Streptococcus an- haemolyticus, S. aureus, each amounted to 14.3%. The antimicrobial resistance was expressed to beta-lactams and tetracyclines.

The isolates of S. еpidermidis demonstrated resistance to beta-lactams (benzylpenicillin, oxacillin, amoxicillin, amoxiclav, cefazolin, cefpodoxime) and tetracyclines (tetracycline, clindamycin).

The strains of Streptococcus spp. were resistant to beta-lactams (cefazolin, cefpodoxime), aminoglycosides (amikacin, gentamycin, tobramycin), and qui- nolones (gatifloxacin, ofloxacin, pefloxacin, ciprofloxacin, levofloxacin, gemifloxacin, norfloxacin).

The isolated strain of Streptococcus anhaemo- lyticus was resistant to cephalosporins (cefazolin, cefepime), macrolides (azithromycin, clarithromycin), and amphenicols (chloramphenicol).

The strains of S. aureus showed resistance to beta-lactams (benzylpenicillin, ampicillin, oxacillin, amoxicillin, cefixime, cefazolin), and tetracyclines (tetracycline, doxycycline). The isolates of Candida albicans were resistant to antifungal agents (fluconazole, itraconazole, nitroxoline, amphotericin).

The Neisseria spp. strains isolated from the oral cavity were resistant to beta-lactams (cefazolin, cefpodoxime, cefuroxime), quinolones (gatifloxacin, ofloxacin, pefloxacin, ciprofloxacin, levofloxacin, norfloxacin), macrolides (azithromycin), and tetracyclines (tetracycline, doxycycline).

In the bacteriological culture obtained from the skin in three analyses, five pathogens were isolated: S. aureus, Streptococcus anhaemolyticus, Candida albicans.

The resistance of S. aureus isolates was detected to beta-lactams (benzylpenicillin, oxacillin, amoxicillin, amoxiclav, cefazolin), tetracyclines (tetracycline, doxycycline), cephalosporins (cefazolin, cefpodoxime), macrolides (azithromycin, roxithromycin, spiramycin), lincosamides (clindamycin, lin- comycin), and sulfanilamides (co-trimoxazole).

In Streptococcus anhaemolyticus strains, resistance was observed against cephalosporins (cephalosporin, cefazolin, cefpodoxime, cefuroxime), aminoglycosides (amikacin, gentamicin, tobramycin), macrolides (azithromycin, roxithromycin, spiramycin), and lincosamides (clindamycin, lincomycin).

The strains of Candida albicans showed resistance to antifungul agents (nystatin, itraconazole, amphotericin, nitroxoline).

Eight pathogens were identified in the bacterial culture tests from the ear: S. aureus (25%), K. pneumonia (25%), S. epidermidis (25%), Streptococcus haemolyticus (12.5%), and P. аeruginosa (12.5%). Also, in two analyses, mould fungi resistant to antifungal agents (fluconazole, itraconazole, clotrimazole, amphotericin, nitroxoline) were isolated. The isolated strains of K. pneumonia were resistant to beta-lactams (amoxicillin, amoxiclav, cefazolin, cefixim, cefpodoxime), tetracyclines (tetracycline, doxycycline), cephalosporins (cefazolin, cefpodoxime, cefuroxime), macrolides (azithromycin), lincosamides (lincomycin), and sulfanilamides (co-trimoxazole). The strains of S. aureus were resistant to beta-lactams, cephalosporins, tetracyclines, macrolides, and lincosamides. The isolates of S. epidermidis were resistant to beta-lactams, and tetracyclines. The strains of Streptococcus haemolyticus were resistant to beta-lactams, tetracyclines, cephalosporins, macrolides, lincosamides, and sulfanilamides. The isolates of P. аeruginosa were also resistant to beta-lactams, tetracyclines, cephalosporins, carbopenems, amphenicolams, and sulfanilamides.

In 34.5 % throat cultures, 35 pathogens were isolated: S. aureus (40%), Neisseria spp. (34.3%), Streptococcus spp. (17.1%), and Candida albicans (8.6%). The strains of Neisseria spp. were the most resistant to the group of beta-lactams (cefazolin) and tetracycline (tetracycline). The isolates of Streptococcus spp. were resistant to aminoglycosides (amikacin, gentamycin, tobramycin) and qui- nolones (gatifloxacin, ofloxacin, pefloxacin). The marked resistance in S. aureus isolates was observed to the groups of tetracyclines (tetracycline) and beta-lactams (oxacillin). The strains of Candida albicans were resistant to antifungals (fluconazole, amphotericin).

During the study of 29.9 % nose cultures, 20 pathogens were isolated, namely S. epidermidis (80%), Streptococcus spp. (15%), and Moraxella spp. (5%), which were resistant to beta-lactams (cefazolin, benzylpenicillin, oxacillin, amoxicillin, amoxiclav, cefazolin, cefpodoxime), aminoglycosides (amikacin, gentamycin, tobramycin), qui- nolones (gatifloxacin, ofloxacin, pefloxacin, ciprofloxacin, levofloxacin), and tetracyclines (tetracycline, doxycycline).

Out of all 87 strains isolated, 27% of the isolates were resistant to antiseptics, of which Streptococcus haemolyticus, Streptococcus anhaemolyticus, K. pneumonia, P. аeruginosa, S. epidermidis, S. aureus were resistant to miramistin (52%), ec- tericid (39%), and chlorophyllipt (8%). Resistance to antiseptics was predominantly evident in 68% of S. aureus isolates: 32% to miramistin, 32% to ecteri- cid, and 4% to chlorophyllipt.

Summarizing all the results, it is evident that the obtained isolates demonstrated resistance to various groups of antimicrobial agents. The highest resistance was observed in the cephalosporin group, accounting for 17.5%, with cefazolin being the most resistant at 38.95%, followed by cefpodoxime at 34.9%, and cefuroxime at 15.7%. In the quinolone group, resistance was noted at 14.2%, with norfloxacin showing the highest resistance at 17.98%, followed by pefloxacin at 17.3%, and ofloxacin at 16.5%. Tetracycline group resistance stood at 11.9%, with higher resistance to tetracycline at 53.8% and doxycycline at 39.3%. The macrolide group exhibited a resistance rate of 6.1%, with azithromycin at 53.3%, roxithromycin at 18.3%, and spiramycin at 18.3%.

Antibiotic resistance to the group of linco- samides was 4.6%, more pronounced to clindamycin at 71.1%. In the aminoglycoside group, it was 4.7%, most of all to gentamycin reaching 34.8%, and to amikacin and tobramycin, reaching 32.6% each.

The resistance was expressed in the group of antifungal agents, composed 2.9%, of which to nitroxoline made up 21.4%, to fluconazole, itraconazole and amphotericin achieved 17.9% each. Resistance to the sulfanilamides was 7.4%; it is noteworthy that resistance to the co-trimoxazole reached up to 100%.

Resistance to antiseptics was 4.2%, mostly to miramistin reaching 46.3%, etericid at 34.1%. Resistance to the bacteriophages amounted to 7.5%, of which to the polyvalent pyobacteriophage reaching 58.1% and to staphylococcal bacteriophage, at 25.7%.

Resistance of the main opportunistic pathogens emphasizes the need for constant microbiological monitoring of the formation and circulation of hospital strains in order to improve the tactics of using antibacterial drugs.

Conclusions

antimicrobial isolate resistance

In the city of Kharkiv, opportunistic pathogens isolated from patients in the private laboratory such as the strains of Staphylococcus aureus, Neisseria spp., Staphylococcus epidermidis, Streptococcus spp of the viridans group were identified. The highly-resistant bacteria were resistant to the such group of antimicrobial drugs as beta-lactams, tetracyclines, aminoglycosides, sulfanilamides.

The emergence and spread which must be considered by doctors when prescribing antibacterial therapy.

The study conducted showed the relevance of the microbial resistance issue to the action of antimicrobial drugs and allowed us to outline the direction for further improvement of the antibiotic resistance preventive measures.

Thus, the identification of the emergence and spread of antimicrobial resistance strains necessitates further microbiological monitoring of the antibiotic-resistant strain circulation based on the special programs (e.g. WHONET) using molecular epidemiology. high frequency of carrying out such studies will allow to resolve the problem of rational antimicrobial therapy and adequately regulate the administration of antibacterial drugs in the outpatient practice, thereby improving the results of treating infections and introducing the correction of existing therapeutic regimens for diseases.

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