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<article article-type="review-article" dtd-version="1.3" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xml:lang="ru"><front><journal-meta><journal-id journal-id-type="publisher-id">antibiotics</journal-id><journal-title-group><journal-title xml:lang="ru">Антибиотики и Химиотерапия</journal-title><trans-title-group xml:lang="en"><trans-title>Antibiot Khimioter = Antibiotics and Chemotherapy</trans-title></trans-title-group></journal-title-group><issn pub-type="ppub">0235-2990</issn><publisher><publisher-name>ООО «Издательство ОКИ»</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="doi">10.37489/0235-2990-2026-71-5-6-61-73</article-id><article-id custom-type="edn" pub-id-type="custom">QJRZYS</article-id><article-id custom-type="elpub" pub-id-type="custom">antibiotics-1380</article-id><article-categories><subj-group subj-group-type="heading"><subject>Research Article</subject></subj-group><subj-group subj-group-type="section-heading" xml:lang="ru"><subject>ОБЗОРЫ</subject></subj-group><subj-group subj-group-type="section-heading" xml:lang="en"><subject>REVIEWS</subject></subj-group></article-categories><title-group><article-title>Генетические маркеры антибиотикорезистентности в экспериментальных моделях и системах эпидемиологического надзора</article-title><trans-title-group xml:lang="en"><trans-title>Genetic markers of antimicrobial resistance in experimental models and surveillance systems</trans-title></trans-title-group></title-group><contrib-group><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0009-0005-7022-3132</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Исматов</surname><given-names>А. Х.</given-names></name><name name-style="western" xml:lang="en"><surname>Ismatov</surname><given-names>A. Kh.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Исматов Абдулло Хабибуллоевич - cтудент 6 курса, лечебный факультет, Федеральное государственное бюджетное образовательное учреждение высшего образования «Воронежский государственный медицинский университет имени Н.Н. Бурденко», Воронеж, Российская Федерация</p></bio><bio xml:lang="en"><p>Ismatov Abdullo Khabibulloevich - sixth-year student, Faculty of General Medicine, Federal State Budgetary Educational Institution of Higher Education "Voronezh State Medical University named after N.N. Burdenko", Voronezh, Russian Federation</p></bio><email xlink:type="simple">mff5475485@gmail.com</email><xref ref-type="aff" rid="aff-1"/></contrib><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0009-0003-5637-8205</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Рахманина</surname><given-names>В. С.</given-names></name><name name-style="western" xml:lang="en"><surname>Rakhmanina</surname><given-names>V. S.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Рахманина Виктория Сергеевна - cтудентка 6 курса, лечебный факультет, Федеральное государственное бюджетное образовательное учреждение высшего образования «Воронежский государственный медицинский университет имени Н.Н. Бурденко», Воронеж, Российская Федерация</p></bio><bio xml:lang="en"><p>Rakhmanina Victoria Sergeevna - sixth-year student, Faculty of General Medicine, Federal State Budgetary Educational Institution of Higher Education "Voronezh State Medical University named after N.N. Burdenko", Voronezh, Russian Federation</p></bio><xref ref-type="aff" rid="aff-1"/></contrib><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0000-0001-5499-9807</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Алексахина</surname><given-names>М. А.</given-names></name><name name-style="western" xml:lang="en"><surname>Aleksakhina</surname><given-names>M. A.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Алексахина Марина Александровна - cтудентка 6 курса, Федеральное государственное бюджетное образовательное учреждение высшего образования «Воронежский государственный медицинский университет имени Н.Н. Бурденко», Воронеж, Российская Федерация</p></bio><bio xml:lang="en"><p>Aleksakhina Marina Aleksandrovna - sixth-year student, Federal State Budgetary Educational Institution of Higher Education "Voronezh State Medical University named after N.N. Burdenko", Voronezh, Russian Federation</p></bio><xref ref-type="aff" rid="aff-1"/></contrib><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0009-0003-6191-7832</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Азизова</surname><given-names>Г. Ф.</given-names></name><name name-style="western" xml:lang="en"><surname>Azizova</surname><given-names>G. F.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Азизова Гюльсона Фикретовна - cтудентка 6 курса, лечебный факультет, Федеральное государственное бюджетное образовательное учреждение высшего образования «Воронежский государственный медицинский университет имени Н.Н. Бурденко», Воронеж, Российская Федерация</p></bio><bio xml:lang="en"><p>Azizova Gyulsona Fikretovna - sixth-year student, Faculty of General Medicine, Federal State Budgetary Educational Institution of Higher Education "Voronezh State Medical University named after N.N. Burdenko", Voronezh, Russian Federation</p></bio><xref ref-type="aff" rid="aff-1"/></contrib><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0000-0003-2637-1312</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Измалкова</surname><given-names>А. А.</given-names></name><name name-style="western" xml:lang="en"><surname>Izmalkova</surname><given-names>A. A.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Измалкова Алина Андреевна - cтудентка 6 курса, педиатрический факультет, Федеральное государственное бюджетное образовательное учреждение высшего образования «Воронежский государственный медицинский университет имени Н.Н. Бурденко», Воронеж, Российская Федерация</p></bio><bio xml:lang="en"><p>Izmalkova Alina Andreevna - sixth-year student, Faculty of Pediatrics, Federal State Budgetary Educational Institution of Higher Education "Voronezh State Medical University named after N.N. Burdenko", Voronezh, Russian Federation</p></bio><xref ref-type="aff" rid="aff-1"/></contrib><contrib contrib-type="author" corresp="yes"><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Рощупкин</surname><given-names>М. В.</given-names></name><name name-style="western" xml:lang="en"><surname>Roshchupkin</surname><given-names>M. V.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Рощупкин Михаил Вячеславович - cтудент 5 курса, стоматологический факультет, Федеральное государственное бюджетное образовательное учреждение высшего образования «Воронежский государственный медицинский университет имени Н.Н. Бурденко», Воронеж, Российская Федерация</p></bio><bio xml:lang="en"><p>Roshchupkin Mikhail Vyacheslavovich - 5th-year student, Faculty of Dentistry, Voronezh State Medical University named after N.N. Burdenko, Voronezh, Russian Federation</p></bio><xref ref-type="aff" rid="aff-1"/></contrib><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0009-0005-7260-2961</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Иванюк</surname><given-names>А. Ю.</given-names></name><name name-style="western" xml:lang="en"><surname>Ivanyuk</surname><given-names>A. Yu.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Иванюк Ангелина Юрьевна - cтудентка 6 курса, лечебный факультет, Федеральное государственное бюджетное образовательное учреждение высшего образования «Курский государственный медицинский университет», Курск, Российская Федерация</p></bio><bio xml:lang="en"><p>Ivanyuk Angelina Yuryevna - 6th-year student, Faculty of General Medicine, Kursk State Medical University, Kursk, Russian Federation</p></bio><xref ref-type="aff" rid="aff-2"/></contrib><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0009-0003-8310-0671</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Шустрова</surname><given-names>О. М.</given-names></name><name name-style="western" xml:lang="en"><surname>Shustrova</surname><given-names>O. M.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Шустрова Ольга Михайловна - cтудентка 6 курса, лечебный факультет, Федеральное государственное бюджетное образовательное учреждение высшего образования «Курский государственный медицинский университет», Курск, Российская Федерация</p></bio><bio xml:lang="en"><p>Shustrova Olga Mikhailovna - 6th-year student, Faculty of General Medicine, Kursk State Medical University, Kursk, Russian Federation</p></bio><xref ref-type="aff" rid="aff-2"/></contrib><contrib contrib-type="author" corresp="yes"><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Алиева</surname><given-names>С. Р.</given-names></name><name name-style="western" xml:lang="en"><surname>Aliyeva</surname><given-names>S. R.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Алиева Сабият Расуловна - cтудентка 6 курса, лечебный факультет, Федеральное государственное бюджетное образовательное учреждение высшего образования «Курский государственный медицинский университет», Курск, Российская Федерация</p></bio><bio xml:lang="en"><p>Aliyeva Sabiyat Rasulovna - sixth-year student, Faculty of General Medicine, Federal State Budgetary Educational Institution of Higher Education "Kursk State Medical University," Kursk, Russian Federation</p></bio><xref ref-type="aff" rid="aff-2"/></contrib><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0009-0001-8451-015X</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Яковлева</surname><given-names>А. О.</given-names></name><name name-style="western" xml:lang="en"><surname>Yakovleva</surname><given-names>A. O.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Яковлева Арина Олеговна - cтудентка 6 курса, лечебный факультет, Федеральное государственное бюджетное образовательное учреждение высшего образования «Курский государственный медицинский университет», Курск, Российская Федерация</p></bio><bio xml:lang="en"><p>Yakovleva Arina Olegovna - sixth-year student, Faculty of General Medicine, Federal State Budgetary Educational Institution of Higher Education "Kursk State Medical University," Kursk, Russian Federation</p></bio><xref ref-type="aff" rid="aff-2"/></contrib><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0009-0002-0966-0075</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Пирумян</surname><given-names>Л. Г.</given-names></name><name name-style="western" xml:lang="en"><surname>Pirumyan</surname><given-names>L. G.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Пирумян Лиана Герасимовна - врач-терапевт поликлинического отделения ГБУ РО «Центральная районная больница» в Неклиновском районе, Ростов-на-Дону, Российская Федерация</p></bio><bio xml:lang="en"><p>Pirumyan Liana Gerasimovna - physician, outpatient department, Central District Hospital in Neklinovsky District, Rostov-on-Don, Russian Federation</p></bio><xref ref-type="aff" rid="aff-3"/></contrib><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0009-0002-9306-294X</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Мартынова</surname><given-names>Я. А.</given-names></name><name name-style="western" xml:lang="en"><surname>Martynova</surname><given-names>Y. A.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Мартынова Яна Андреевна - студентка 6 курса, педиатрический факультет, Федеральное государственное бюджетное образовательное учреждение высшего образования «Ростовский государственный медицинский университет», Ростов-на-Дону, Российская Федерация</p></bio><bio xml:lang="en"><p>Martynova Yana Andreevna - 6th-year student, Faculty of Pediatrics, Rostov State Medical University, Rostov-on-Don, Russian Federation</p></bio><xref ref-type="aff" rid="aff-4"/></contrib><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0009-0007-8082-4331</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Макаева</surname><given-names>Э. Т.</given-names></name><name name-style="western" xml:lang="en"><surname>Makayeva</surname><given-names>E. T.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Макаева Эльвина Тахировна - врач-терапевт участковый, Государственное учреждение здравоохранения «Липецкая городская поликлиника №1», Липецк, Российская Федерация</p></bio><bio xml:lang="en"><p>Makayeva Elvina Takhirovna - District General Practitioner, Lipetsk City Polyclinic No. 1, Lipetsk, Russian Federation</p></bio><xref ref-type="aff" rid="aff-5"/></contrib></contrib-group><aff-alternatives id="aff-1"><aff xml:lang="ru"><institution>Федеральное государственное бюджетное образовательное учреждение высшего образования «Воронежский государственный медицинский университет имени Н.Н. Бурденко», Воронеж, Российская Федерация</institution><country>Россия</country></aff><aff xml:lang="en"><institution>Voronezh State Medical University named after N.N. Burdenko</institution><country>Russian Federation</country></aff></aff-alternatives><aff-alternatives id="aff-2"><aff xml:lang="ru"><institution>Федеральное государственное бюджетное образовательное учреждение высшего образования «Курский государственный медицинский университет», Курск, Российская Федерация</institution><country>Россия</country></aff><aff xml:lang="en"><institution>Kursk State Medical University</institution><country>Russian Federation</country></aff></aff-alternatives><aff-alternatives id="aff-3"><aff xml:lang="ru"><institution>ГБУ РО «Центральная районная больница» в Неклиновском районе, Ростов-на-Дону, Российская Федерация</institution><country>Россия</country></aff><aff xml:lang="en"><institution>Central District Hospital in Neklinovsky District</institution><country>Russian Federation</country></aff></aff-alternatives><aff-alternatives id="aff-4"><aff xml:lang="ru"><institution>Федеральное государственное бюджетное образовательное учреждение высшего образования «Ростовский государственный медицинский университет», Ростов-на-Дону, Российская Федерация</institution><country>Россия</country></aff><aff xml:lang="en"><institution>Rostov State Medical University</institution><country>Russian Federation</country></aff></aff-alternatives><aff-alternatives id="aff-5"><aff xml:lang="ru"><institution>Государственное учреждение здравоохранения «Липецкая городская поликлиника №1», Липецк, Российская Федерация</institution><country>Россия</country></aff><aff xml:lang="en"><institution>Lipetsk City Polyclinic No. 1</institution><country>Russian Federation</country></aff></aff-alternatives><pub-date pub-type="collection"><year>2022</year></pub-date><pub-date pub-type="epub"><day>22</day><month>07</month><year>2026</year></pub-date><volume>0</volume><issue>0</issue><issue-title>Принято в печать</issue-title><fpage>61</fpage><lpage>73</lpage><permissions><copyright-statement>Copyright &amp;#x00A9; ООО «Издательство ОКИ», 2022</copyright-statement><copyright-year>2022</copyright-year><copyright-holder xml:lang="ru">ООО «Издательство ОКИ»</copyright-holder><copyright-holder xml:lang="en">ООО «Издательство ОКИ»</copyright-holder><license xlink:href="https://www.antibiotics-chemotherapy.ru/jour/about/submissions#copyrightNotice" xlink:type="simple"><license-p>https://www.antibiotics-chemotherapy.ru/jour/about/submissions#copyrightNotice</license-p></license></permissions><self-uri xlink:href="https://www.antibiotics-chemotherapy.ru/jour/article/view/1380">https://www.antibiotics-chemotherapy.ru/jour/article/view/1380</self-uri><abstract><sec><title>Актуальность</title><p>Актуальность. Антибиотикорезистентность (АМР) имеет высокую медико-социальную значимость, поскольку формируется на пересечении клинического применения антимикробных препаратов, ветеринарной практики, пищевого производства, экологического загрязнения и горизонтального переноса мобильных генетических элементов. Анализ АМР требует оценки не только отдельных генов устойчивости, но и моделей, диагностических подходов и систем эпиднадзора, прослеживающих распространение генов антибиотикорезистентности (antibiotic resistance genes, ARG) между клиническими, животными и экологическими резервуарами.</p></sec><sec><title>Цель</title><p>Цель. Обобщить данные об экспериментальных и вычислительных моделях распространения ARG, охарактеризовать выбранные генетические маркеры АМР и оценить современные подходы к их выявлению.</p></sec><sec><title>Материал и методы</title><p>Материал и методы. Выполнен нарративный обзор с прозрачной методологией поиска и тематическим синтезом. Поиск проводился в PubMed/MEDLINE, Scopus, Web of Science и Google Scholar; последний поиск выполнен 2 мая 2026 г. После полнотекстовой оценки включено 46 источников.</p></sec><sec><title>Результаты</title><p>Результаты. Рассмотрены маркеры blaCTX-M-15, blaNDM, blaKPC, blaOXA-23, floR и intI1, а также мобильные генетические элементы, участвующие в их распространении. Обобщены возможности и ограничения in vitro-моделей, моделей кишечника, мышиных моделей, биоплёночных систем, математического моделирования, AST, ПЦР/qPCR, WGS, mNGS, ML и CRISPR-Cas12a-диагностики.</p></sec><sec><title>Заключение</title><p>Заключение. CRISPR-Cas12a-платформы могут использоваться для быстрого целевого скрининга заранее выбранных ARG, но не заменяют фенотипическое тестирование и геномный анализ. Наиболее обоснованным направлением является интеграция AST, WGS/mNGS, целевой молекулярной диагностики, ML и One Health-надзора.</p></sec></abstract><trans-abstract xml:lang="en"><sec><title>Background</title><p>Background. Antimicrobial resistance (AMR) is shaped by clinical, veterinary, agricultural and environmental processes. Its analysis requires the assessment of resistance genes, experimental models, diagnostic approaches and surveillance systems that track antibiotic resistance genes (ARGs) across human, animal and environmental reservoirs.</p></sec><sec><title>Objective</title><p>Objective. To summarize data on experimental and computational models of ARG dissemination, characterize selected AMR markers and evaluate current methods for their detection.</p></sec><sec><title>Material and methods</title><p>Material and methods. A narrative review with a transparent search strategy and thematic synthesis was conducted. PubMed/MEDLINE, Scopus, Web of Science and Google Scholar were searched; the last search was performed on May 2, 2026. After full-text assessment, 46 sources were included.</p></sec><sec><title>Results</title><p>Results. The review discusses blaCTX-M-15, blaNDM, blaKPC, blaOXA-23, floR and intI1, as well as mobile genetic elements involved in their dissemination. It summarizes the strengths and limitations of in vitro models, gut models, mouse models, biofilm systems, mathematical modelling, AST, PCR/qPCR, WGS, mNGS, machine learning and CRISPR-Cas12a diagnostics.</p></sec><sec><title>Conclusion</title><p>Conclusion. CRISPR-Cas12a platforms may support rapid targeted screening of predefined ARGs but do not replace phenotypic susceptibility testing or genome-scale analysis. The most robust strategy is the integration of AST, WGS/mNGS, targeted molecular diagnostics, machine learning and One Health surveillance.</p></sec></trans-abstract><kwd-group xml:lang="ru"><kwd>антибиотикорезистентность</kwd><kwd>ARG</kwd><kwd>HGT</kwd><kwd>конъюгативные плазмиды</kwd><kwd>интегроны класса 1</kwd><kwd>blaCTX-M-15</kwd><kwd>floR</kwd><kwd>Escherichia coli</kwd><kwd>CRISPR-Cas12a</kwd><kwd>One Health</kwd></kwd-group><kwd-group xml:lang="en"><kwd>antimicrobial resistance</kwd><kwd>ARGs</kwd><kwd>horizontal gene transfer</kwd><kwd>conjugative plasmids</kwd><kwd>class 1 integrons</kwd><kwd>blaCTX-M-15</kwd><kwd>floR</kwd><kwd>Escherichia coli</kwd><kwd>CRISPR-Cas12a</kwd><kwd>One Health</kwd></kwd-group></article-meta></front><back><ref-list><title>References</title><ref id="cit1"><label>1</label><citation-alternatives><mixed-citation xml:lang="ru">Naghavi M, Vollset SE, Ikuta KS, Swetschinski LR, Gray AP, Wool EE, et al. Global burden of bacterial antimicrobial resistance 1990-2021: a systematic analysis with forecasts to 2050. Lancet. 2024; 404(10459): 1199–1226. doi: 10.1016/S0140-6736(24)01867-1.</mixed-citation><mixed-citation xml:lang="en">Naghavi M, Vollset SE, Ikuta KS, Swetschinski LR, Gray AP, Wool EE, et al. Global burden of bacterial antimicrobial resistance 1990-2021: a systematic analysis with forecasts to 2050. Lancet. 2024; 404(10459): 1199–1226. doi: 10.1016/S0140-6736(24)01867-1.</mixed-citation></citation-alternatives></ref><ref id="cit2"><label>2</label><citation-alternatives><mixed-citation xml:lang="ru">Hutchings M, Truman A, Wilkinson B. Antibiotics: past, present and future. Curr Opin Microbiol. 2019; 51: 72–80. doi: 10.1016/j.mib.2019.10.008.</mixed-citation><mixed-citation xml:lang="en">Hutchings M, Truman A, Wilkinson B. Antibiotics: past, present and future. Curr Opin Microbiol. 2019; 51: 72–80. doi: 10.1016/j.mib.2019.10.008.</mixed-citation></citation-alternatives></ref><ref id="cit3"><label>3</label><citation-alternatives><mixed-citation xml:lang="ru">Lipsitch M, Samore MH. Antimicrobial use and antimicrobial resistance: a population perspective. Emerg Infect Dis. 2002; 8 (4): 347–354. doi: 10.3201/eid0804.010312.</mixed-citation><mixed-citation xml:lang="en">Lipsitch M, Samore MH. Antimicrobial use and antimicrobial resistance: a population perspective. Emerg Infect Dis. 2002; 8 (4): 347–354. doi: 10.3201/eid0804.010312.</mixed-citation></citation-alternatives></ref><ref id="cit4"><label>4</label><citation-alternatives><mixed-citation xml:lang="ru">Arnold KE, Laing G, McMahon BJ, Fanniing S, Stekel DJ, et al. The need for One Health systems-thinking approaches to understand multiscale dissemination of antimicrobial resistance. Lancet Planet Health. 2024; 8: e124–e133. doi: 10.1016/S2542-5196(23)00278-4.</mixed-citation><mixed-citation xml:lang="en">Arnold KE, Laing G, McMahon BJ, Fanniing S, Stekel DJ, et al. The need for One Health systems-thinking approaches to understand multiscale dissemination of antimicrobial resistance. Lancet Planet Health. 2024; 8: e124–e133. doi: 10.1016/S2542-5196(23)00278-4.</mixed-citation></citation-alternatives></ref><ref id="cit5"><label>5</label><citation-alternatives><mixed-citation xml:lang="ru">Huijbers PMC, Blaak H, de Jong MCM, Graat EAM, Vandenbroucke-Grauls CMJE, de Roda Husman AM. Role of the Environment in the Transmission of Antimicrobial Resistance to Humans: A Review. Environ Sci Technol. 2015; 49 (20): 11993–12004. doi: 10.1021/acs.est.5b02566.</mixed-citation><mixed-citation xml:lang="en">Huijbers PMC, Blaak H, de Jong MCM, Graat EAM, Vandenbroucke-Grauls CMJE, de Roda Husman AM. Role of the Environment in the Transmission of Antimicrobial Resistance to Humans: A Review. Environ Sci Technol. 2015; 49 (20): 11993–12004. doi: 10.1021/acs.est.5b02566.</mixed-citation></citation-alternatives></ref><ref id="cit6"><label>6</label><citation-alternatives><mixed-citation xml:lang="ru">von Wintersdorff CJH, Penders J, van Niekerk JM, Mills N, Majumder S, van Alphen LB, Savelkoul PHM, Wolffs PFG. Dissemination of antimicrobial resistance in microbial ecosystems through horizontal gene transfer. Front Microbiol. 2016; 7: 173. 10.3389/fmicb.2016.00173.</mixed-citation><mixed-citation xml:lang="en">von Wintersdorff CJH, Penders J, van Niekerk JM, Mills N, Majumder S, van Alphen LB, Savelkoul PHM, Wolffs PFG. Dissemination of antimicrobial resistance in microbial ecosystems through horizontal gene transfer. Front Microbiol. 2016; 7: 173. 10.3389/fmicb.2016.00173.</mixed-citation></citation-alternatives></ref><ref id="cit7"><label>7</label><citation-alternatives><mixed-citation xml:lang="ru">D’Andrea MM, Arena F, Pallecchi L, Rossolini GM. CTX-M-type β-lactamases: A successful story of antibiotic resistance. Int J Med Microbiol. 2013; 303 (6–7): 305–317. doi: 10.1016/j.ijmm.2013.02.008.</mixed-citation><mixed-citation xml:lang="en">D’Andrea MM, Arena F, Pallecchi L, Rossolini GM. CTX-M-type β-lactamases: A successful story of antibiotic resistance. Int J Med Microbiol. 2013; 303 (6–7): 305–317. doi: 10.1016/j.ijmm.2013.02.008.</mixed-citation></citation-alternatives></ref><ref id="cit8"><label>8</label><citation-alternatives><mixed-citation xml:lang="ru">Castanheira M, Simner PJ, Bradford PA. Extended-spectrum β-lactamases: an update on their characteristics, epidemiology and detection. JAC Antimicrob Resist. 2021; 3 (3): dlab092. doi: 10.1093/jacamr/dlab092.</mixed-citation><mixed-citation xml:lang="en">Castanheira M, Simner PJ, Bradford PA. Extended-spectrum β-lactamases: an update on their characteristics, epidemiology and detection. JAC Antimicrob Resist. 2021; 3 (3): dlab092. doi: 10.1093/jacamr/dlab092.</mixed-citation></citation-alternatives></ref><ref id="cit9"><label>9</label><citation-alternatives><mixed-citation xml:lang="ru">Poirel L, Nordmann P. Carbapenem resistance in Acinetobacter baumannii: mechanisms and epidemiology. Clin Microbiol Infect. 2006; 12 (9): 826–836. doi: 10.1111/j.1469-0691.2006.01456.x.</mixed-citation><mixed-citation xml:lang="en">Poirel L, Nordmann P. Carbapenem resistance in Acinetobacter baumannii: mechanisms and epidemiology. Clin Microbiol Infect. 2006; 12 (9): 826–836. doi: 10.1111/j.1469-0691.2006.01456.x.</mixed-citation></citation-alternatives></ref><ref id="cit10"><label>10</label><citation-alternatives><mixed-citation xml:lang="ru">Tokuda M, Shintani M. Microbial evolution through horizontal gene transfer by mobile genetic elements. Microb Biotechnol. 2024; 17: e14408. doi: 10.1111/1751-7915.14408.</mixed-citation><mixed-citation xml:lang="en">Tokuda M, Shintani M. Microbial evolution through horizontal gene transfer by mobile genetic elements. Microb Biotechnol. 2024; 17: e14408. doi: 10.1111/1751-7915.14408.</mixed-citation></citation-alternatives></ref><ref id="cit11"><label>11</label><citation-alternatives><mixed-citation xml:lang="ru">Li P, Zhu T, Zhou D, Lu W, Liu H, Sun Z et al. Analysis of resistance to florfenicol and the related mechanism of dissemination in different animal-derived bacteria. Front Cell Infect Microbiol. 2020; 10: 369. doi: 10.3389/fcimb.2020.00369.</mixed-citation><mixed-citation xml:lang="en">Li P, Zhu T, Zhou D, Lu W, Liu H, Sun Z et al. Analysis of resistance to florfenicol and the related mechanism of dissemination in different animal-derived bacteria. Front Cell Infect Microbiol. 2020; 10: 369. doi: 10.3389/fcimb.2020.00369.</mixed-citation></citation-alternatives></ref><ref id="cit12"><label>12</label><citation-alternatives><mixed-citation xml:lang="ru">Lu J, Zhang J, Xu L, Liu Y, Li P, Zhu T, et al. Spread of the florfenicol resistance floR gene among clinical Klebsiella pneumoniae isolates in China. Antimicrob Resist Infect Control. 2018; 7: 127. doi: 10.1186/s13756-018-0415-0.</mixed-citation><mixed-citation xml:lang="en">Lu J, Zhang J, Xu L, Liu Y, Li P, Zhu T, et al. Spread of the florfenicol resistance floR gene among clinical Klebsiella pneumoniae isolates in China. Antimicrob Resist Infect Control. 2018; 7: 127. doi: 10.1186/s13756-018-0415-0.</mixed-citation></citation-alternatives></ref><ref id="cit13"><label>13</label><citation-alternatives><mixed-citation xml:lang="ru">Gillings MR, Gaze WH, Pruden A, Smalla K, Tiedje JM, Zhu Y-G. Using the class 1 integron-integrase gene as a proxy for anthropogenic pollution. ISME J. 2015; 9 (6): 1269–1279. doi: 10.1038/ismej.2014.226.</mixed-citation><mixed-citation xml:lang="en">Gillings MR, Gaze WH, Pruden A, Smalla K, Tiedje JM, Zhu Y-G. Using the class 1 integron-integrase gene as a proxy for anthropogenic pollution. ISME J. 2015; 9 (6): 1269–1279. doi: 10.1038/ismej.2014.226.</mixed-citation></citation-alternatives></ref><ref id="cit14"><label>14</label><citation-alternatives><mixed-citation xml:lang="ru">Zhang S, Abbas M, Rehman MU, Huang Y, Zhou R, Gong S, et al. Dissemination of antibiotic resistance genes via integrons in Escherichia coli: a risk to human health. Environ Pollut. 2020; 266 (Pt 2): 115260. doi: 10.1016/j.envpol.2020.115260.</mixed-citation><mixed-citation xml:lang="en">Zhang S, Abbas M, Rehman MU, Huang Y, Zhou R, Gong S, et al. Dissemination of antibiotic resistance genes via integrons in Escherichia coli: a risk to human health. Environ Pollut. 2020; 266 (Pt 2): 115260. doi: 10.1016/j.envpol.2020.115260.</mixed-citation></citation-alternatives></ref><ref id="cit15"><label>15</label><citation-alternatives><mixed-citation xml:lang="ru">Stalder T, Barraud O, Casellas M, Dagot C, Ploy MC. Integron involvement in environmental spread of antibiotic resistance. Front Microbiol. 2012; 3: 119. doi: 10.3389/fmicb.2012.00119.</mixed-citation><mixed-citation xml:lang="en">Stalder T, Barraud O, Casellas M, Dagot C, Ploy MC. Integron involvement in environmental spread of antibiotic resistance. Front Microbiol. 2012; 3: 119. doi: 10.3389/fmicb.2012.00119.</mixed-citation></citation-alternatives></ref><ref id="cit16"><label>16</label><citation-alternatives><mixed-citation xml:lang="ru">Tang L, Yang W, Yang L, Lv Y, Zhang J. Targeting horizontal gene transfer to combat antimicrobial resistance: a review of mechanisms, drivers, and multi-omics strategies. Infect Drug Resist. 2026:589-962. doi: 10.2147/IDR.S589962. doi: 10.2147/IDR.S589962.</mixed-citation><mixed-citation xml:lang="en">Tang L, Yang W, Yang L, Lv Y, Zhang J. Targeting horizontal gene transfer to combat antimicrobial resistance: a review of mechanisms, drivers, and multi-omics strategies. Infect Drug Resist. 2026:589-962. doi: 10.2147/IDR.S589962. doi: 10.2147/IDR.S589962.</mixed-citation></citation-alternatives></ref><ref id="cit17"><label>17</label><citation-alternatives><mixed-citation xml:lang="ru">Liu G, Thomsen LE, Olsen JE. Antimicrobial-induced horizontal transfer of antimicrobial resistance genes in bacteria: a mini-review. J Antimicrob Chemother. 2022; 77 (3): 556–567. doi: 10.1093/jac/dkab450.</mixed-citation><mixed-citation xml:lang="en">Liu G, Thomsen LE, Olsen JE. Antimicrobial-induced horizontal transfer of antimicrobial resistance genes in bacteria: a mini-review. J Antimicrob Chemother. 2022; 77 (3): 556–567. doi: 10.1093/jac/dkab450.</mixed-citation></citation-alternatives></ref><ref id="cit18"><label>18</label><citation-alternatives><mixed-citation xml:lang="ru">Ji J, Zhu Y, Zhao F, Zhang J, Yao B, Zhu M, et al. Co-colonization of different species harboring KPC or NDM carbapenemase in the same host gut: insight of resistance evolution by horizontal gene transfer. Front Microbiol. 2024; 15: 1416454. doi: 10.3389/fmicb.2024.1416454.</mixed-citation><mixed-citation xml:lang="en">Ji J, Zhu Y, Zhao F, Zhang J, Yao B, Zhu M, et al. Co-colonization of different species harboring KPC or NDM carbapenemase in the same host gut: insight of resistance evolution by horizontal gene transfer. Front Microbiol. 2024; 15: 1416454. doi: 10.3389/fmicb.2024.1416454.</mixed-citation></citation-alternatives></ref><ref id="cit19"><label>19</label><citation-alternatives><mixed-citation xml:lang="ru">Rooney CM, Sheppard AE, Clark E, Davies K, Hubbard ATM, Sebra R, et al. Dissemination of multiple carbapenem resistance genes in an in vitro gut model simulating the human colon. J Antimicrob Chemother. 2019;74(7):1876-1883. doi: 10.1093/jac/dkz106.</mixed-citation><mixed-citation xml:lang="en">Rooney CM, Sheppard AE, Clark E, Davies K, Hubbard ATM, Sebra R, et al. Dissemination of multiple carbapenem resistance genes in an in vitro gut model simulating the human colon. J Antimicrob Chemother. 2019;74(7):1876-1883. doi: 10.1093/jac/dkz106.</mixed-citation></citation-alternatives></ref><ref id="cit20"><label>20</label><citation-alternatives><mixed-citation xml:lang="ru">Hernández-Beltrán JCR, San Millán A, Fuentes-Hernández A, Peña-Miller R. Mathematical models of plasmid population dynamics. Front Microbiol. 2021; 12: 606396. doi: 10.3389/fmicb.2021.606396.</mixed-citation><mixed-citation xml:lang="en">Hernández-Beltrán JCR, San Millán A, Fuentes-Hernández A, Peña-Miller R. Mathematical models of plasmid population dynamics. Front Microbiol. 2021; 12: 606396. doi: 10.3389/fmicb.2021.606396.</mixed-citation></citation-alternatives></ref><ref id="cit21"><label>21</label><citation-alternatives><mixed-citation xml:lang="ru">Liu F, Luo Y, Xu T, Lin H, Qiu Y, Li B. Current examining methods and mathematical models of horizontal transfer of antibiotic resistance genes in the environment. Front Microbiol. 2024; 15: 1371388. doi: 10.3389/fmicb.2024.1371388.</mixed-citation><mixed-citation xml:lang="en">Liu F, Luo Y, Xu T, Lin H, Qiu Y, Li B. Current examining methods and mathematical models of horizontal transfer of antibiotic resistance genes in the environment. Front Microbiol. 2024; 15: 1371388. doi: 10.3389/fmicb.2024.1371388.</mixed-citation></citation-alternatives></ref><ref id="cit22"><label>22</label><citation-alternatives><mixed-citation xml:lang="ru">Lopez JG, Donia MS, Wingreen NS. Modeling the ecology of parasitic plasmids. ISME J. 2021; 15 (10): 2843–2852. doi: 10.1038/s41396-021-00954-6.</mixed-citation><mixed-citation xml:lang="en">Lopez JG, Donia MS, Wingreen NS. Modeling the ecology of parasitic plasmids. ISME J. 2021; 15 (10): 2843–2852. doi: 10.1038/s41396-021-00954-6.</mixed-citation></citation-alternatives></ref><ref id="cit23"><label>23</label><citation-alternatives><mixed-citation xml:lang="ru">Yong M, Low WW, Mishra S, et al. Differential gut transmission of IncP plasmid clades involving hypervirulent Klebsiella pneumoniae reveals plasmid-specific ecological adaptation. Nat Commun. 2025; 16: 11353. doi: 10.1038/s41467-025-66413-4.</mixed-citation><mixed-citation xml:lang="en">Yong M, Low WW, Mishra S, et al. Differential gut transmission of IncP plasmid clades involving hypervirulent Klebsiella pneumoniae reveals plasmid-specific ecological adaptation. Nat Commun. 2025; 16: 11353. doi: 10.1038/s41467-025-66413-4.</mixed-citation></citation-alternatives></ref><ref id="cit24"><label>24</label><citation-alternatives><mixed-citation xml:lang="ru">Huisman JS, Bernhard A, Igler C. Should I stay or should I go: transmission trade-offs in phages and plasmids. Trends Microbiol. 2025; 33 (5): 484–495. doi: 10.1016/j.tim.2025.01.007.</mixed-citation><mixed-citation xml:lang="en">Huisman JS, Bernhard A, Igler C. Should I stay or should I go: transmission trade-offs in phages and plasmids. Trends Microbiol. 2025; 33 (5): 484–495. doi: 10.1016/j.tim.2025.01.007.</mixed-citation></citation-alternatives></ref><ref id="cit25"><label>25</label><citation-alternatives><mixed-citation xml:lang="ru">Wang S, Jiang Y, Che L, Wang RH, Li SC. Enhancing insights into diseases through horizontal gene transfer event detection from gut microbiome. Nucleic Acids Res. 2024; 52 (14): e61. doi: 10.1093/nar/gkae515.</mixed-citation><mixed-citation xml:lang="en">Wang S, Jiang Y, Che L, Wang RH, Li SC. Enhancing insights into diseases through horizontal gene transfer event detection from gut microbiome. Nucleic Acids Res. 2024; 52 (14): e61. doi: 10.1093/nar/gkae515.</mixed-citation></citation-alternatives></ref><ref id="cit26"><label>26</label><citation-alternatives><mixed-citation xml:lang="ru">Neil K, Allard N, Rodrigue S. Molecular mechanisms influencing bacterial conjugation in the intestinal microbiota. Front Microbiol. 2021; 12: 673260. doi: 10.3389/fmicb.2021.673260.</mixed-citation><mixed-citation xml:lang="en">Neil K, Allard N, Rodrigue S. Molecular mechanisms influencing bacterial conjugation in the intestinal microbiota. Front Microbiol. 2021; 12: 673260. doi: 10.3389/fmicb.2021.673260.</mixed-citation></citation-alternatives></ref><ref id="cit27"><label>27</label><citation-alternatives><mixed-citation xml:lang="ru">Lerner A, Matthias T, Aminov R. Potential effects of horizontal gene exchange in the human gut. Front Immunol. 2017; 8: 1630. doi: 10.3389/fimmu.2017.01630.</mixed-citation><mixed-citation xml:lang="en">Lerner A, Matthias T, Aminov R. Potential effects of horizontal gene exchange in the human gut. Front Immunol. 2017; 8: 1630. doi: 10.3389/fimmu.2017.01630.</mixed-citation></citation-alternatives></ref><ref id="cit28"><label>28</label><citation-alternatives><mixed-citation xml:lang="ru">Sher AA, Whitehead-Tillery CE, Peer AM, Bell JA, Vocelle DB, Dippel JT, et al. dynamic spread of antibiotic resistance determinants by conjugation to a human-derived gut microbiota in a transplanted mouse model. Antibiotics (Basel). 2025; 14 (2): 152. doi: 10.3390/antibiotics14020152.</mixed-citation><mixed-citation xml:lang="en">Sher AA, Whitehead-Tillery CE, Peer AM, Bell JA, Vocelle DB, Dippel JT, et al. dynamic spread of antibiotic resistance determinants by conjugation to a human-derived gut microbiota in a transplanted mouse model. Antibiotics (Basel). 2025; 14 (2): 152. doi: 10.3390/antibiotics14020152.</mixed-citation></citation-alternatives></ref><ref id="cit29"><label>29</label><citation-alternatives><mixed-citation xml:lang="ru">Kessler C, Hou J, Neo O, Buckner MMC. In situ, in vivo, and in vitro approaches for studying AMR plasmid conjugation in the gut microbiome. FEMS Microbiol Rev. 2023; 47 (1): fuac044. doi: 10.1093/femsre/fuac044.</mixed-citation><mixed-citation xml:lang="en">Kessler C, Hou J, Neo O, Buckner MMC. In situ, in vivo, and in vitro approaches for studying AMR plasmid conjugation in the gut microbiome. FEMS Microbiol Rev. 2023; 47 (1): fuac044. doi: 10.1093/femsre/fuac044.</mixed-citation></citation-alternatives></ref><ref id="cit30"><label>30</label><citation-alternatives><mixed-citation xml:lang="ru">Stercz B, Farkas FB, Tóth Á, Gajdács M, Domokos J, Horváth V, et al. The influence of antibiotics on transitory resistome during gut colonization with CTX-M-15 and OXA-162 producing Klebsiella pneumoniae ST15. Sci Rep. 2021; 11: 6335. doi: 10.1038/s41598-021-85766-6.</mixed-citation><mixed-citation xml:lang="en">Stercz B, Farkas FB, Tóth Á, Gajdács M, Domokos J, Horváth V, et al. The influence of antibiotics on transitory resistome during gut colonization with CTX-M-15 and OXA-162 producing Klebsiella pneumoniae ST15. Sci Rep. 2021; 11: 6335. doi: 10.1038/s41598-021-85766-6.</mixed-citation></citation-alternatives></ref><ref id="cit31"><label>31</label><citation-alternatives><mixed-citation xml:lang="ru">Liu W, Huang Y, Zhang H, Liu Z, Huan Q, Xiao X, et al. Factors and mechanisms influencing conjugation in vivo in the gastrointestinal tract environment: a review. Int J Mol Sci. 2023; 24 (6): 5919. doi: 10.3390/ijms24065919.</mixed-citation><mixed-citation xml:lang="en">Liu W, Huang Y, Zhang H, Liu Z, Huan Q, Xiao X, et al. Factors and mechanisms influencing conjugation in vivo in the gastrointestinal tract environment: a review. Int J Mol Sci. 2023; 24 (6): 5919. doi: 10.3390/ijms24065919.</mixed-citation></citation-alternatives></ref><ref id="cit32"><label>32</label><citation-alternatives><mixed-citation xml:lang="ru">Kaprou GD, Bergšpica I, Alexa EA, Alvarez-Ordóñez A, Prieto M. Rapid methods for antimicrobial resistance diagnostics. Antibiotics (Basel). 2021; 10 (2): 209. doi: 10.3390/antibiotics10020209.</mixed-citation><mixed-citation xml:lang="en">Kaprou GD, Bergšpica I, Alexa EA, Alvarez-Ordóñez A, Prieto M. Rapid methods for antimicrobial resistance diagnostics. Antibiotics (Basel). 2021; 10 (2): 209. doi: 10.3390/antibiotics10020209.</mixed-citation></citation-alternatives></ref><ref id="cit33"><label>33</label><citation-alternatives><mixed-citation xml:lang="ru">Oniciuc EA, Likotrafiti E, Alvarez-Molina A, Prieto M, Santos JA, Alvarez-Ordóñez A. The present and future of whole genome sequencing and whole metagenome sequencing for surveillance of antimicrobial resistant microorganisms and antimicrobial resistance genes across the food chain. Genes (Basel). 2018; 9 (5): 268. doi: 10.3390/genes9050268.</mixed-citation><mixed-citation xml:lang="en">Oniciuc EA, Likotrafiti E, Alvarez-Molina A, Prieto M, Santos JA, Alvarez-Ordóñez A. The present and future of whole genome sequencing and whole metagenome sequencing for surveillance of antimicrobial resistant microorganisms and antimicrobial resistance genes across the food chain. Genes (Basel). 2018; 9 (5): 268. doi: 10.3390/genes9050268.</mixed-citation></citation-alternatives></ref><ref id="cit34"><label>34</label><citation-alternatives><mixed-citation xml:lang="ru">Juraschek K, Borowiak M, Tausch SH, Malorny B, Käsbohrer A, Otani S, et al. Outcome of different sequencing and assembly approaches on the detection of plasmids and localization of antimicrobial resistance genes in commensal Escherichia coli. Microorganisms. 2021; 9 (3): 598. doi: 10.3390/microorganisms9030598.</mixed-citation><mixed-citation xml:lang="en">Juraschek K, Borowiak M, Tausch SH, Malorny B, Käsbohrer A, Otani S, et al. Outcome of different sequencing and assembly approaches on the detection of plasmids and localization of antimicrobial resistance genes in commensal Escherichia coli. Microorganisms. 2021; 9 (3): 598. doi: 10.3390/microorganisms9030598.</mixed-citation></citation-alternatives></ref><ref id="cit35"><label>35</label><citation-alternatives><mixed-citation xml:lang="ru">Sierra R, Roch M, Moraz M, Prados J, Vuilleumier N, Emonet S, et al. Contributions of Long-Read Sequencing for the Detection of Antimicrobial Resistance. Pathogens. 2024; 13 (9): 730. doi: 10.3390/pathogens13090730.</mixed-citation><mixed-citation xml:lang="en">Sierra R, Roch M, Moraz M, Prados J, Vuilleumier N, Emonet S, et al. Contributions of Long-Read Sequencing for the Detection of Antimicrobial Resistance. Pathogens. 2024; 13 (9): 730. doi: 10.3390/pathogens13090730.</mixed-citation></citation-alternatives></ref><ref id="cit36"><label>36</label><citation-alternatives><mixed-citation xml:lang="ru">Rebelo AR, Bortolaia V, Leekitcharoenphon P, Hansen DS, Nielsen HL, Ellermann-Eriksen S, et al. One day in denmark: comparison of phenotypic and genotypic antimicrobial susceptibility testing in bacterial isolates from clinical settings. Front Microbiol. 2022; 13: 804627. doi: 10.3389/fmicb.2022.804627.</mixed-citation><mixed-citation xml:lang="en">Rebelo AR, Bortolaia V, Leekitcharoenphon P, Hansen DS, Nielsen HL, Ellermann-Eriksen S, et al. One day in denmark: comparison of phenotypic and genotypic antimicrobial susceptibility testing in bacterial isolates from clinical settings. Front Microbiol. 2022; 13: 804627. doi: 10.3389/fmicb.2022.804627.</mixed-citation></citation-alternatives></ref><ref id="cit37"><label>37</label><citation-alternatives><mixed-citation xml:lang="ru">Li SY, Cheng Q-X, Wang J-M, Li X, Zhang Z-L, Gao S, et al. CRISPR-Cas12a-assisted nucleic acid detection. Cell Discov. 2018; 4: 20. doi: 10.1038/s41421-018-0028-z.</mixed-citation><mixed-citation xml:lang="en">Li SY, Cheng Q-X, Wang J-M, Li X, Zhang Z-L, Gao S, et al. CRISPR-Cas12a-assisted nucleic acid detection. Cell Discov. 2018; 4: 20. doi: 10.1038/s41421-018-0028-z.</mixed-citation></citation-alternatives></ref><ref id="cit38"><label>38</label><citation-alternatives><mixed-citation xml:lang="ru">Stella S, Mesa P, Thomsen J, Paul B, Alcón P, Jensen SB, et al. Conformational activation promotes CRISPR-Cas12a catalysis and resetting of the endonuclease activity. Cell. 2018; 175: 1856–1871.e21. doi: 10.1016/j.cell.2018.10.045.</mixed-citation><mixed-citation xml:lang="en">Stella S, Mesa P, Thomsen J, Paul B, Alcón P, Jensen SB, et al. Conformational activation promotes CRISPR-Cas12a catalysis and resetting of the endonuclease activity. Cell. 2018; 175: 1856–1871.e21. doi: 10.1016/j.cell.2018.10.045.</mixed-citation></citation-alternatives></ref><ref id="cit39"><label>39</label><citation-alternatives><mixed-citation xml:lang="ru">Kaminski MM, Abudayyeh OO, Gootenberg JS, Zhang F, Collins JJ. CRISPR-based diagnostics. Nat Biomed Eng. 2021; 5: 643–656. doi: 10.1038/s41551-021-00760-7.</mixed-citation><mixed-citation xml:lang="en">Kaminski MM, Abudayyeh OO, Gootenberg JS, Zhang F, Collins JJ. CRISPR-based diagnostics. Nat Biomed Eng. 2021; 5: 643–656. doi: 10.1038/s41551-021-00760-7.</mixed-citation></citation-alternatives></ref><ref id="cit40"><label>40</label><citation-alternatives><mixed-citation xml:lang="ru">Vargas-Reyes M, Alcántara R, Alfonsi S, Peñaranda K, Petrelli D, Spurio R, et al. Versatile and portable Cas12a-mediated detection of antibiotic resistance markers. Sci Rep. 2026;16:11509. doi: 10.1038/s41598-026-42073-2.</mixed-citation><mixed-citation xml:lang="en">Vargas-Reyes M, Alcántara R, Alfonsi S, Peñaranda K, Petrelli D, Spurio R, et al. Versatile and portable Cas12a-mediated detection of antibiotic resistance markers. Sci Rep. 2026;16:11509. doi: 10.1038/s41598-026-42073-2.</mixed-citation></citation-alternatives></ref><ref id="cit41"><label>41</label><citation-alternatives><mixed-citation xml:lang="ru">Ren Y, Chakraborty T, Doijad S, Falgenhauer L, Falgenhauer J, Goesmann A, et al. Prediction of antimicrobial resistance based on whole-genome sequencing and machine learning. Bioinformatics. 2022; 38 (2): 325–334. doi: 10.1093/bioinformatics/btab681.</mixed-citation><mixed-citation xml:lang="en">Ren Y, Chakraborty T, Doijad S, Falgenhauer L, Falgenhauer J, Goesmann A, et al. Prediction of antimicrobial resistance based on whole-genome sequencing and machine learning. Bioinformatics. 2022; 38 (2): 325–334. doi: 10.1093/bioinformatics/btab681.</mixed-citation></citation-alternatives></ref><ref id="cit42"><label>42</label><citation-alternatives><mixed-citation xml:lang="ru">Noman SM, Zeeshan M, Arshad J, Deressa Amentie M, Shafiq M, Yuan Y, et al. Machine learning techniques for antimicrobial resistance prediction of Pseudomonas aeruginosa from whole genome sequence data. Comput Intell Neurosci. 2023; 2023: 5236168. doi: 10.1155/2023/5236168.</mixed-citation><mixed-citation xml:lang="en">Noman SM, Zeeshan M, Arshad J, Deressa Amentie M, Shafiq M, Yuan Y, et al. Machine learning techniques for antimicrobial resistance prediction of Pseudomonas aeruginosa from whole genome sequence data. Comput Intell Neurosci. 2023; 2023: 5236168. doi: 10.1155/2023/5236168.</mixed-citation></citation-alternatives></ref><ref id="cit43"><label>43</label><citation-alternatives><mixed-citation xml:lang="ru">Scaglione G, Mastroianni N, Rizzo A, Palomba E, Carcione D, Brigante G, et al. Integrating artificial intelligence with genome sequencing against antimicrobial resistance: a narrative review. Front Public Health. 2026; 14: 1757161. doi: 10.3389/fpubh.2026.1757161.</mixed-citation><mixed-citation xml:lang="en">Scaglione G, Mastroianni N, Rizzo A, Palomba E, Carcione D, Brigante G, et al. Integrating artificial intelligence with genome sequencing against antimicrobial resistance: a narrative review. Front Public Health. 2026; 14: 1757161. doi: 10.3389/fpubh.2026.1757161.</mixed-citation></citation-alternatives></ref><ref id="cit44"><label>44</label><citation-alternatives><mixed-citation xml:lang="ru">Genova R, Laborda P, Cuesta T, Martínez JL, Sanz-García F. Collateral Sensitivity to fosfomycin of tobramycin-resistant mutants of Pseudomonas aeruginosa is contingent on bacterial genomic background. Int J Mol Sci. 2023; 24 (8): 6892. doi: 10.3390/ijms24086892.</mixed-citation><mixed-citation xml:lang="en">Genova R, Laborda P, Cuesta T, Martínez JL, Sanz-García F. Collateral Sensitivity to fosfomycin of tobramycin-resistant mutants of Pseudomonas aeruginosa is contingent on bacterial genomic background. Int J Mol Sci. 2023; 24 (8): 6892. doi: 10.3390/ijms24086892.</mixed-citation></citation-alternatives></ref><ref id="cit45"><label>45</label><citation-alternatives><mixed-citation xml:lang="ru">Barbosa C, Trebosc V, Kemmer C, Rosenstiel P, Beardmore R, Schulenburg H, et al. Alternative evolutionary paths to bacterial antibiotic resistance cause distinct collateral effects. Mol Biol Evol. 2017; 34 (9): 2229–2244. doi: 10.1093/molbev/msx158.</mixed-citation><mixed-citation xml:lang="en">Barbosa C, Trebosc V, Kemmer C, Rosenstiel P, Beardmore R, Schulenburg H, et al. Alternative evolutionary paths to bacterial antibiotic resistance cause distinct collateral effects. Mol Biol Evol. 2017; 34 (9): 2229–2244. doi: 10.1093/molbev/msx158.</mixed-citation></citation-alternatives></ref><ref id="cit46"><label>46</label><citation-alternatives><mixed-citation xml:lang="ru">Barbosa C, Roemhild R, Rosenstiel P, Schulenburg H. Evolutionary stability of collateral sensitivity to antibiotics in the model pathogen Pseudomonas aeruginosa. eLife. 2019; 8: e51481. doi: 10.7554/eLife.51481.</mixed-citation><mixed-citation xml:lang="en">Barbosa C, Roemhild R, Rosenstiel P, Schulenburg H. Evolutionary stability of collateral sensitivity to antibiotics in the model pathogen Pseudomonas aeruginosa. eLife. 2019; 8: e51481. doi: 10.7554/eLife.51481.</mixed-citation></citation-alternatives></ref></ref-list><fn-group><fn fn-type="conflict"><p>The authors declare that there are no conflicts of interest present.</p></fn></fn-group></back></article>
