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<article article-type="research-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">microbe</journal-id><journal-title-group><journal-title xml:lang="ru">Проблемы особо опасных инфекций</journal-title><trans-title-group xml:lang="en"><trans-title>Problems of Particularly Dangerous Infections</trans-title></trans-title-group></journal-title-group><issn pub-type="ppub">0370-1069</issn><issn pub-type="epub">2658-719X</issn><publisher><publisher-name>Russian Research Anti-Plague Institute “Microbe”</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="doi">10.21055/0370-1069-2022-3-6-13</article-id><article-id custom-type="elpub" pub-id-type="custom">microbe-1720</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>Исследования in silico на этапах конструирования современных средств иммунопрофилактики чумы (на примере субъединичных вакцин)</article-title><trans-title-group xml:lang="en"><trans-title>In silico Research at the Stages of Designing Modern Means for Prevention of Plague (by the Example of Subunit Vaccines)</trans-title></trans-title-group></title-group><contrib-group><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0000-0002-5092-432X</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Буданова</surname><given-names>А. А.</given-names></name><name name-style="western" xml:lang="en"><surname>Budanova</surname><given-names>A. A.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Буданова Ангелина Андреевна</p><p>410005, Саратов, ул. Университетская, 46</p></bio><bio xml:lang="en"><p>Angelina A. Budanova</p><p>46, Universitetskaya St., Saratov, 410005</p></bio><email xlink:type="simple">rusrapi@microbe.ru</email><xref ref-type="aff" rid="aff-1"/></contrib><contrib contrib-type="author" corresp="yes"><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Щуковская</surname><given-names>Т. Н.</given-names></name><name name-style="western" xml:lang="en"><surname>Shchukovskaya</surname><given-names>T. N.</given-names></name></name-alternatives><bio xml:lang="ru"><p>410005, Саратов, ул. Университетская, 46</p></bio><bio xml:lang="en"><p>46, Universitetskaya St., Saratov, 410005</p></bio><email xlink:type="simple">rusrapi@microbe.ru</email><xref ref-type="aff" rid="aff-1"/></contrib></contrib-group><aff-alternatives id="aff-1"><aff xml:lang="ru">ФКУН «Российский научно-исследовательский противочумный институт «Микроб»<country>Россия</country></aff><aff xml:lang="en">Russian Research Anti-Plague Institute “Microbe”<country>Russian Federation</country></aff></aff-alternatives><pub-date pub-type="collection"><year>2022</year></pub-date><pub-date pub-type="epub"><day>29</day><month>10</month><year>2022</year></pub-date><volume>0</volume><issue>3</issue><fpage>6</fpage><lpage>13</lpage><permissions><copyright-statement>Copyright &amp;#x00A9; Буданова А.А., Щуковская Т.Н., 2022</copyright-statement><copyright-year>2022</copyright-year><copyright-holder xml:lang="ru">Буданова А.А., Щуковская Т.Н.</copyright-holder><copyright-holder xml:lang="en">Budanova A.A., Shchukovskaya T.N.</copyright-holder><license license-type="creative-commons-attribution" xlink:href="https://creativecommons.org/licenses/by/4.0/" xlink:type="simple"><license-p>This work is licensed under a Creative Commons Attribution 4.0 License.</license-p></license></permissions><self-uri xlink:href="https://journal.microbe.ru/jour/article/view/1720">https://journal.microbe.ru/jour/article/view/1720</self-uri><abstract><p>Цель обзора – проанализировать результаты отечественных и зарубежных исследователей по разработке современных препаратов для специфической профилактики чумы и показать возможности применения биоинформационного анализа на этапах конструирования для создания эффективной и безопасной вакцины. Работа по созданию эффективной чумной вакцины нового поколения затруднена ввиду нескольких факторов, связанных прежде всего с наличием у чумного микроба механизмов уклонения от иммунной системы макроорганизма, а также большого числа детерминант патогенности. Благодаря разработке подходов, основанных на исследованиях in silico, наблюдается прогрессивное развитие вакцинных технологий, основанных, прежде всего, на применении важнейших иммуногенов чумного микроба (F1 и V-антиген). В качестве актуальных способов применения биоинформационного анализа данных при разработке способов повышения эффективности защиты при вакцинации субъединичными препаратами рассматриваются исследования, направленные на улучшение антигенных характеристик F1 и LcrV, а также работы по биоинформационному поиску и анализу дополнительных перспективных компонентов для включения в состав субъединичных вакцин.</p></abstract><trans-abstract xml:lang="en"><p>The purpose of this review was to analyze the findings of domestic and foreign researchers on the development of modern drugs for the specific prevention of plague and to illustrate the possibilities of using bioinformatics analysis at the design stages to create an effective and safe vaccine. Work on the creation of an effective new-generation plague vaccine is hampered by several factors associated primarily with the presence of mechanisms of evasion from the immune system of the macroorganism, as well as a large number of pathogenicity determinants in the plague agent. Due to the development of approaches that are based on in silico studies, there is a progressive development of vaccine technologies oriented primarily to the use of the most important immunogens of the plague microbe (F1 and V antigen). Studies aimed at improving the antigenic properties of F1 and LcrV, as well as work on bioinformatic search and analysis of additional promising components to be included in the composition of subunit vaccines are considered as topical applications of bioinformatics data analysis in developing the tools for enhancing the effectiveness of protection through vaccination with subunit preparations.</p></trans-abstract><kwd-group xml:lang="ru"><kwd>Yersinia pestis</kwd><kwd>субъединичные вакцины</kwd><kwd>F1</kwd><kwd>V-антиген</kwd><kwd>исследования in silico</kwd><kwd>протективные антигены чумного микроба</kwd></kwd-group><kwd-group xml:lang="en"><kwd>Yersinia pestis</kwd><kwd>subunit vaccines</kwd><kwd>F1</kwd><kwd>V-antigen</kwd><kwd>in silico studies</kwd><kwd>protective antigens of the plague microbe</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">Книрель Ю.А., Федорова В.А., Анисимов А.П. В борьбе за контролем над чумой. Прошлое и настоящее «черного мора». Вестник Российской академии наук. 2011; 81(1):33–42.</mixed-citation><mixed-citation xml:lang="en">Knirel’ Yu.A., Fedorova V.A., Anisimov A.P. [Struggling for control over the plague. The past and present of the Black Death]. Vestnik Rossiiskoi Akademii Nauk [Herald of the Russian Academy of Sciences]. 2011; 81(1):33–42.</mixed-citation></citation-alternatives></ref><ref id="cit2"><label>2</label><citation-alternatives><mixed-citation xml:lang="ru">Дентовская С.В., Копылов П.Х., Иванов С.А., Агеев С.А., Анисимов А.П. Молекулярные основы вакцинопрофилактики чумы. Молекулярная генетика, микробиология и вирусология. 2013; 3:3–12.</mixed-citation><mixed-citation xml:lang="en">Dentovskaya S.V., Kopylov P.Kh., Ivanov S.A., Ageev S.A., Anisimov A.P. [Molecular bases of vaccine-prevention of plague]. Molekulyarnaya Genetika, Mikrobiologiya i Virusologiya [Molecular Genetics, Microbiology and Virology]. 2013; (3):3–12.</mixed-citation></citation-alternatives></ref><ref id="cit3"><label>3</label><citation-alternatives><mixed-citation xml:lang="ru">Cui Y., Yang X., Xiao X., Anisimov A.P., Li D., Yan Y., Zhou D., Rajerison M., Carniel E., Achtman M., Yang R., Song Y. Genetic variations of live attenuated plague vaccine strains (Yersinia pestis EV76 lineage) during laboratory passages in different countries. Infect. Genet. Evol. 2014; 26:172–9. DOI: 10.1016/j.meegid.2014.05.023.</mixed-citation><mixed-citation xml:lang="en">Cui Y., Yang X., Xiao X., Anisimov A.P., Li D., Yan Y., Zhou D., Rajerison M., Carniel E., Achtman M., Yang R., Song Y. Genetic variations of live attenuated plague vaccine strains (Yersinia pestis EV76 lineage) during laboratory passages in different countries. Infect. Genet. Evol. 2014; 26:172–9. DOI: 10.1016/j.meegid.2014.05.023.</mixed-citation></citation-alternatives></ref><ref id="cit4"><label>4</label><citation-alternatives><mixed-citation xml:lang="ru">WHO – Plague vaccines workshop April 23 2018 [Электронный ресурс]. URL: https://www.who.int/blueprint/what/norms-standards/Plague_vaccines_workshop-23-april-2018/en/ (дата обращения 20.03.2021).</mixed-citation><mixed-citation xml:lang="en">WHO – Plague vaccines workshop April 23 2018 (Cited 20 March 2021) [Internet]. Available from: https://www.who.int/blueprint/what/norms-standards/Plague_vaccines_workshop-23-april2018/en/.</mixed-citation></citation-alternatives></ref><ref id="cit5"><label>5</label><citation-alternatives><mixed-citation xml:lang="ru">Sun W., Singh A.K. Plague vaccine: recent progress and prospects. Vaccines. 2019; 4:11. DOI: 10.1038/s41541-019-0105-9.</mixed-citation><mixed-citation xml:lang="en">Sun W., Singh A.K. Plague vaccine: recent progress and prospects. Vaccines. 2019; 4:11. DOI: 10.1038/s41541-019-0105-9.</mixed-citation></citation-alternatives></ref><ref id="cit6"><label>6</label><citation-alternatives><mixed-citation xml:lang="ru">Семакова А.П., Кудрявцева О.М., Попова П.Ю., Комиссаров А.В., Микшис Н.И. Стабилизация путем лиофилизации иммуногенных антигенов Bacillus anthracis в составе прототипа рекомбинантной вакцины против сибирской язвы. Биотехнология. 2017; 33(3):57–65. DOI: 10.21519/0234-27582017-33-3-57-65.</mixed-citation><mixed-citation xml:lang="en">Semakova A.P., Kudryavtseva O.M., Popova P.Yu., Komissarov A.V., Mikshis N.I. [Stabilization by freeze-drying of Bacillus anthracis immunogenic antigens as a component of anthrax recombinant vaccine prototype]. Biotekhnologiya [Biotechnology]. 2017; 33(3):57–65. DOI: 10.21519/0234-2758-2017-33-3-57-65.</mixed-citation></citation-alternatives></ref><ref id="cit7"><label>7</label><citation-alternatives><mixed-citation xml:lang="ru">Красильникова Е.А., Трунякова А.С., Вагайская А.С., Светоч Т.Э., Шайхутдинова Р.З., Дентовская С.В. Подбор новых молекулярных мишеней для оптимизации вакцинопрофилактики и терапии чумы. Инфекция и иммунитет. 2021; 11(2):265–82. DOI: 10.15789/2220-7619-SNM-1254.</mixed-citation><mixed-citation xml:lang="en">Krasil’nikova E.A., Trunyakova A.S., Vagaiskaya A.S., Svetoch T.E., Shaikhutdinova R.Z., Dentovskaya S.V. [A search for new molecular targets for optimizing plague preventive vaccination and therapy]. Infektsiya i Immunitet [Russian Journal of Infection and Immunity]. 2021; 11(2):265–82. DOI: 10.15789/2220-7619SNM-1254.</mixed-citation></citation-alternatives></ref><ref id="cit8"><label>8</label><citation-alternatives><mixed-citation xml:lang="ru">Микшис Н.И., Кутырев В.В. Современное состояние проблемы разработки вакцин для специфической профилактики чумы. Проблемы особо опасных инфекций. 2019; 1:50–63. DOI: 10.21055/0370-1069-2019-1-50-63.</mixed-citation><mixed-citation xml:lang="en">Mikshis N.I., Kutyrev V.V. [Current state of the problem of vaccine development for specific prophylaxis of plague]. Problemy Osobo Opasnykh Infektsii [Problems of Particularly Dangerous Infections]. 2019; (1):50–63. DOI: 10.21055/0370-1069-2019-1.50-63.</mixed-citation></citation-alternatives></ref><ref id="cit9"><label>9</label><citation-alternatives><mixed-citation xml:lang="ru">Flower D.R., Davies M.N., Doytchinova I.A. Identification of candidate vaccine antigens in silico. In: Flower D.R., Perrie Y., editors. Immunomic Discovery of Adjuvants and Candidate Subunit Vaccines. New York: Springer; 2013. P. 39–71. DOI: 10.1007/978-1-4614-5070-2_3.</mixed-citation><mixed-citation xml:lang="en">Flower D.R., Davies M.N., Doytchinova I.A. Identification of candidate vaccine antigens in silico. In: Flower D.R., Perrie Y., editors. Immunomic Discovery of Adjuvants and Candidate Subunit Vaccines. New York: Springer; 2013. P. 39–71. DOI: 10.1007/978-1-4614-5070-2_3.</mixed-citation></citation-alternatives></ref><ref id="cit10"><label>10</label><citation-alternatives><mixed-citation xml:lang="ru">Toseland C.P., Clayton D.J., McSparron H., Hemsley S.L., Blythe M.J., Paine K., Doytchinova I.A., Guan P., Hattotuwagama C.K., Flower D.R. AntiJen: a quantitative immunology database integrating functional, thermodynamic, kinetic, biophysical, and cellular data. Immunome Res. 2005; 1(1):4. DOI: 10.1186/1745-7580-1-4.</mixed-citation><mixed-citation xml:lang="en">Toseland C.P., Clayton D.J., McSparron H., Hemsley S.L., Blythe M.J., Paine K., Doytchinova I.A., Guan P., Hattotuwagama C.K., Flower D.R. AntiJen: a quantitative immunology database integrating functional, thermodynamic, kinetic, biophysical, and cellular data. Immunome Res. 2005; 1(1):4. DOI: 10.1186/1745-7580-1-4.</mixed-citation></citation-alternatives></ref><ref id="cit11"><label>11</label><citation-alternatives><mixed-citation xml:lang="ru">McSparron H., Blythe M.J., Zygouri C., Doytchinova I.A., Flower D.R. JenPep: a novel computational information resource for immunobiology and vaccinology. J. Chem. Inf. Comput. Sci. 2003; 43(4):1276–87. DOI: 10.1021/ci030461e.</mixed-citation><mixed-citation xml:lang="en">McSparron H., Blythe M.J., Zygouri C., Doytchinova I.A., Flower D.R. JenPep: a novel computational information resource for immunobiology and vaccinology. J. Chem. Inf. Comput. Sci. 2003; 43(4):1276–87. DOI: 10.1021/ci030461e.</mixed-citation></citation-alternatives></ref><ref id="cit12"><label>12</label><citation-alternatives><mixed-citation xml:lang="ru">Blythe M.J., Doytchinova I.A., Flower D.R. JenPep: a database of quantitative functional peptide data for immunology. Bioinformatics. 2002; 18(3):434–9. DOI: 10.1093/bioinformatics/18.3.434.</mixed-citation><mixed-citation xml:lang="en">Blythe M.J., Doytchinova I.A., Flower D.R. JenPep: a database of quantitative functional peptide data for immunology. Bioinformatics. 2002; 18(3):434–9. DOI: 10.1093/bioinformatics/18.3.434.</mixed-citation></citation-alternatives></ref><ref id="cit13"><label>13</label><citation-alternatives><mixed-citation xml:lang="ru">Vita R., Zarebski L., Greenbaum J.A., Emami H., Hoof I., Salimi N., Damle R., Sette A., Peters B. The immune epitope database 2.0. Nucleic Acids Res. 2010; 38:D854-62. DOI: 10.1093/nar/gkp1004.</mixed-citation><mixed-citation xml:lang="en">Vita R., Zarebski L., Greenbaum J.A., Emami H., Hoof I., Salimi N., Damle R., Sette A., Peters B. The immune epitope database 2.0. Nucleic Acids Res. 2010; 38:D854-62. DOI: 10.1093/nar/gkp1004.</mixed-citation></citation-alternatives></ref><ref id="cit14"><label>14</label><citation-alternatives><mixed-citation xml:lang="ru">Ansari H.R., Flower D.R., Raghava G.P.S. AntigenDB: an immunoinformatics database of pathogen antigens. Nucleic Acids Res. 2010; 38:D847-53. DOI: 10.1093/nar/gkp830.</mixed-citation><mixed-citation xml:lang="en">Ansari H.R., Flower D.R., Raghava G.P.S. AntigenDB: an immunoinformatics database of pathogen antigens. Nucleic Acids Res. 2010; 38:D847-53. DOI: 10.1093/nar/gkp830.</mixed-citation></citation-alternatives></ref><ref id="cit15"><label>15</label><citation-alternatives><mixed-citation xml:lang="ru">Xiang Z., Todd T., Ku K.P., Kovacic B.L., Larson C.B., Chen F., Hodges A.P., Tian Y., Olenzek E.A., Zhao B., Colby L.A., Rush H.G., Gilsdorf J.R., Jourdian G.W., He Y. VIOLIN: vaccine investigation and online information network. Nucleic Acids Res. 2008; 36:D923-8. DOI: 10.1093/nar/gkm1039.</mixed-citation><mixed-citation xml:lang="en">Xiang Z., Todd T., Ku K.P., Kovacic B.L., Larson C.B., Chen F., Hodges A.P., Tian Y., Olenzek E.A., Zhao B., Colby L.A., Rush H.G., Gilsdorf J.R., Jourdian G.W., He Y. VIOLIN: vaccine investigation and online information network. Nucleic Acids Res. 2008; 36:D923-8. DOI: 10.1093/nar/gkm1039.</mixed-citation></citation-alternatives></ref><ref id="cit16"><label>16</label><citation-alternatives><mixed-citation xml:lang="ru">Petsko G.A., Ringe D. Protein Structure and Function. New Science Press; 2004. 195 p.</mixed-citation><mixed-citation xml:lang="en">Petsko G.A., Ringe D. Protein Structure and Function. New Science Press; 2004. 195 p.</mixed-citation></citation-alternatives></ref><ref id="cit17"><label>17</label><citation-alternatives><mixed-citation xml:lang="ru">Doytchinova I.A., Flower D.R. VaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines. BMC Bioinform. 2007; 8:4. DOI: 10.1186/1471-2105-8-4.</mixed-citation><mixed-citation xml:lang="en">Doytchinova I.A., Flower D.R. VaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines. BMC Bioinform. 2007; 8:4. DOI: 10.1186/1471-2105-8-4.</mixed-citation></citation-alternatives></ref><ref id="cit18"><label>18</label><citation-alternatives><mixed-citation xml:lang="ru">Wold S., Jonsson J., Sjöström M., Sandberg M., Rännar S. DNA and peptide sequences and chemical processes multivariately modeled by principal component analysis and partial least-squares projections to latent structures. Anal. Chim. Acta. 1993; 277(2):239– 53. DOI: 10.1016/0003-2670(93)80437-P.</mixed-citation><mixed-citation xml:lang="en">Wold S., Jonsson J., Sjöström M., Sandberg M., Rännar S. DNA and peptide sequences and chemical processes multivariately modeled by principal component analysis and partial least-squares projections to latent structures. Anal. Chim. Acta. 1993; 277(2):239– 53. DOI: 10.1016/0003-2670(93)80437-P.</mixed-citation></citation-alternatives></ref><ref id="cit19"><label>19</label><citation-alternatives><mixed-citation xml:lang="ru">Сутягин В.В., Ковалёва Г.Г. Белки вакцинного штамма чумного микроба (Yersinia pestis EV НИИЭГ) с потенциальными свойствами аллергенов. Проблемы особо опасных инфекций. 2019; 4:97–101. DOI: 10.21055/0370-1069-2019-4-97-101.</mixed-citation><mixed-citation xml:lang="en">Sutyagin V.V., Kovaleva G.G. [Proteins of the plague microbe vaccine strain (Yersinia pestis EV NIIEG) with potential allergen properties]. Problemy Osobo Opasnykh Infektsii [Problems of Particularly Dangerous Infections]. 2019; (4):97–101. DOI: 10.21055/0370-1069-2019-4-97-101.</mixed-citation></citation-alternatives></ref><ref id="cit20"><label>20</label><citation-alternatives><mixed-citation xml:lang="ru">Брагин А.О., Соколов В.С., Деменков П.С., Иванисенко Т.В., Брагина Е.Ю., Матушкин Ю.Г., Иванисенко В.А. Программа AllPred для предсказания аллергенности бактерий и архей. Молекулярная биология. 2018; 52(2):326–32. DOI: 10.7868/S0026898418020179.</mixed-citation><mixed-citation xml:lang="en">Bragin A.O., Sokolov V.S., Demenkov P.S., Ivanisenko T.V., Bragina E.Yu., Matushkin Yu.G., Ivanisenko V.A. [Prediction of bacterial and archaeal allergenicity with AllPred program]. Molekulyarnaya Biologiya [Molecular Biology]. 2018; 52(2):326– 32. DOI: 10.7868/S0026898418020179.</mixed-citation></citation-alternatives></ref><ref id="cit21"><label>21</label><citation-alternatives><mixed-citation xml:lang="ru">De Groot A.S., Sbai H., Aubin C.S., McMurry J., Martin W. Immuno-informatics: Mining genomes for vaccine components. Immunol. Cell Biol. 2002; 80(3):255–69. DOI: 10.1046/j.1440-1711.2002.01092.x.</mixed-citation><mixed-citation xml:lang="en">De Groot A.S., Sbai H., Aubin C.S., McMurry J., Martin W. Immuno-informatics: Mining genomes for vaccine components. Immunol. Cell Biol. 2002; 80(3):255–69. DOI: 10.1046/j.1440-1711.2002.01092.x.</mixed-citation></citation-alternatives></ref><ref id="cit22"><label>22</label><citation-alternatives><mixed-citation xml:lang="ru">Pizza M., Scarlato V., Masignani V., Giuliani M.M., Aricò B., Comanducci M., Jennings G.T., Baldi L., Bartolini E., Capecchi B., Galeotti C.L., Luzzi E., Manetti R., Marchetti E., Mora M., Nuti S., Ratti G., Santini L., Savino S., Scarselli M., Storni E., Zuo P., Broeker M., Hundt E., Knapp B., Blair E., Mason T., Tettelin H., Hood D.W., Jeffries A.C., Saunders N.J., Granoff D.M., Venter J.C., Moxon E.R., Grandi G., Rappuoli R. Identification of vaccine candidates against serogroup B meningococcus by whole-genome sequencing. Science. 2000; 287:1816–20. DOI: 10.1126/science.287.5459.1816.</mixed-citation><mixed-citation xml:lang="en">Pizza M., Scarlato V., Masignani V., Giuliani M.M., Aricò B., Comanducci M., Jennings G.T., Baldi L., Bartolini E., Capecchi B., Galeotti C.L., Luzzi E., Manetti R., Marchetti E., Mora M., Nuti S., Ratti G., Santini L., Savino S., Scarselli M., Storni E., Zuo P., Broeker M., Hundt E., Knapp B., Blair E., Mason T., Tettelin H., Hood D.W., Jeffries A.C., Saunders N.J., Granoff D.M., Venter J.C., Moxon E.R., Grandi G., Rappuoli R. Identification of vaccine candidates against serogroup B meningococcus by wholegenome sequencing. Science. 2000; 287:1816–20. DOI: 10.1126/science.287.5459.1816.</mixed-citation></citation-alternatives></ref><ref id="cit23"><label>23</label><citation-alternatives><mixed-citation xml:lang="ru">Ribas-Aparicio R.M., Castelán-Vega J.A., Jiménez-Alberto A., Monterrubio-López G.P., Aparicio-Ozores G. The impact of bioinformatics on vaccine design and development. In: Afrin F., Hemeg H., Ozbak H., editors. Vaccines. InTechOpen; 2017. P. 123–45. DOI: 10.5772/intechopen.69273.</mixed-citation><mixed-citation xml:lang="en">Ribas-Aparicio R.M., Castelán-Vega J.A., Jiménez-Alberto A., Monterrubio-López G.P., Aparicio-Ozores G. The impact of bioinformatics on vaccine design and development. In: Afrin F., Hemeg H., Ozbak H., editors. Vaccines. InTechOpen; 2017. P. 123–45. DOI: 10.5772/intechopen.69273.</mixed-citation></citation-alternatives></ref><ref id="cit24"><label>24</label><citation-alternatives><mixed-citation xml:lang="ru">Cornick J.E., Bishop Ö.T., Yalcin F., Kiran A.M., Kumwenda B., Chaguza C., Govindpershad S., Ousmane S., Senghore M., Plessis M., Pluschke G., Ebruke C., McGee L., Sigaùque B., Collard J.-M., Bentley S.D., Kadioglu A., Antonio M., von Gottberg A., French N., Klugman K.P., Heyderman R.S., Alderson M., Everett D.B. The global distribution and diversity of protein vaccine candidate antigens in the highly virulent Streptococcus pnuemoniae serotype 1. Vaccine. 2017; 35(6):972–80. DOI: 10.1016/j.vaccine.2016.12.037.</mixed-citation><mixed-citation xml:lang="en">Cornick J.E., Bishop Ö.T., Yalcin F., Kiran A.M., Kumwenda B., Chaguza C., Govindpershad S., Ousmane S., Senghore M., Plessis M., Pluschke G., Ebruke C., McGee L., Sigaùque B., Collard J.-M., Bentley S.D., Kadioglu A., Antonio M., von Gottberg A., French N., Klugman K.P., Heyderman R.S., Alderson M., Everett D.B. The global distribution and diversity of protein vaccine candidate antigens in the highly virulent Streptococcus pnuemoniae serotype 1. Vaccine. 2017; 35(6):972– 80. DOI: 10.1016/j.vaccine.2016.12.037.</mixed-citation></citation-alternatives></ref><ref id="cit25"><label>25</label><citation-alternatives><mixed-citation xml:lang="ru">Bosio C.F., Jarrett C.O., Gardner D., Hinnebusch B.J. Kinetics of innate immune response to Yersinia pestis after intradermal infection in a mouse model. Infect. Immun. 2012; 80(11):4034– 45. DOI: 10.1128/IAI.00606-12.</mixed-citation><mixed-citation xml:lang="en">Bosio C.F., Jarrett C.O., Gardner D., Hinnebusch B.J. Kinetics of innate immune response to Yersinia pestis after intradermal infection in a mouse model. Infect. Immun. 2012; 80(11):4034– 45. DOI: 10.1128/IAI.00606-12.</mixed-citation></citation-alternatives></ref><ref id="cit26"><label>26</label><citation-alternatives><mixed-citation xml:lang="ru">Подладчикова О.Н. Современные представления о молекулярных механизмах патогенеза чумы. Проблемы особо опасных инфекций. 2017; 3:33–40. DOI: 10.21055/0370-1069-2017-3-33-40.</mixed-citation><mixed-citation xml:lang="en">Podladchikova O.N. [Modern views on molecular mechanisms of plague pathogenesis]. Problemy Osobo Opasnykh Infektsii [Problems of Particularly Dangerous Infections]. 2017; (3):33–40. DOI: 10.21055/0370-1069-2017-3-33-40.</mixed-citation></citation-alternatives></ref><ref id="cit27"><label>27</label><citation-alternatives><mixed-citation xml:lang="ru">Копылов П.Х., Анисимов А.П. Современные требования к чумным вакцинам. Бактериология. 2019; 4(4):42–6. DOI: 10.20953/2500-1027-2019-4-42-46.</mixed-citation><mixed-citation xml:lang="en">Kopylov P.Kh., Anisimov A.P. [Modern requirements for plague vaccines]. Bakteriologiya [Bacteriology]. 2019; 4(4):42–6. DOI: 10.20953/25001027-2019-4-46-46.</mixed-citation></citation-alternatives></ref><ref id="cit28"><label>28</label><citation-alternatives><mixed-citation xml:lang="ru">Feodorova V.A., Lyapina A.M., Khizhnyakova M.A., Zaitsev S.S., Saltykov Y.V., Motin V.L. Yersinia pestis antigen F1 but not LcrV induced humoral and cellular immune responses in humans immunized with live plague vaccine-comparison of immunoinformatic and immunological approaches. Vaccines. 2020; 8(4):698. DOI: 10.3390/vaccines8040698.</mixed-citation><mixed-citation xml:lang="en">Feodorova V.A., Lyapina A.M., Khizhnyakova M.A., Zaitsev S.S., Saltykov Y.V., Motin V.L. Yersinia pestis antigen F1 but not LcrV induced humoral and cellular immune responses in humans immunized with live plague vaccine-comparison of immunoinformatic and immunological approaches. Vaccines. 2020; 8(4):698. DOI: 10.3390/vaccines8040698.</mixed-citation></citation-alternatives></ref><ref id="cit29"><label>29</label><citation-alternatives><mixed-citation xml:lang="ru">Williamson E.D., Flick-Smith H.C., Waters E., Miller J., Hodgson I., Le Butt C.S., Hill J. Immunogenicity of the rF1+rV vaccine for plague with identification of potential immune correlates. Microb. Pathog. 2007; 42(1):11–21. DOI: 10.1016/j.micpath.2006.09.003.</mixed-citation><mixed-citation xml:lang="en">Williamson E.D., Flick-Smith H.C., Waters E., Miller J., Hodgson I., Le Butt C.S., Hill J. Immunogenicity of the rF1+rV vaccine for plague with identification of potential immune correlates. Microb. Pathog. 2007; 42(1):11–21. DOI: 10.1016/j.micpath.2006.09.003.</mixed-citation></citation-alternatives></ref><ref id="cit30"><label>30</label><citation-alternatives><mixed-citation xml:lang="ru">Demeure C., Dussurget O., Mas Fiol G., Le Guern A.-S., Savin C., Pizarro-Cerdá J. Yersinia pestis and plague: an updated view on evolution, virulence determinants, immune subversion, vaccination and diagnostics. Microbes Infect. 2019; 21(5-6):202–12. DOI: 10.1016/j.micinf.2019.06.007.</mixed-citation><mixed-citation xml:lang="en">Demeure C., Dussurget O., Mas Fiol G., Le Guern A.-S., Savin C., Pizarro-Cerdá J. Yersinia pestis and plague: an updated view on evolution, virulence determinants, immune subversion, vaccination and diagnostics. Microbes Infect. 2019; 21(5-6):202–12. DOI: 10.1016/j.micinf.2019.06.007.</mixed-citation></citation-alternatives></ref><ref id="cit31"><label>31</label><citation-alternatives><mixed-citation xml:lang="ru">Cornelius C., Quenee L., Anderson D., Schneewind O. Protective immunity against plague. Adv. Exp. Med. Biol. 2007; 603:415–24. DOI: 10.1007/978-0-387-72124-8_38.</mixed-citation><mixed-citation xml:lang="en">Cornelius C., Quenee L., Anderson D., Schneewind O. Protective immunity against plague. Adv. Exp. Med. Biol. 2007; 603:415–24. DOI: 10.1007/978-0-387-72124-8_38.</mixed-citation></citation-alternatives></ref><ref id="cit32"><label>32</label><citation-alternatives><mixed-citation xml:lang="ru">Brubaker R.R. Interleukin-10 and the inhibition of innate immunity to Yersinia: roles of Yops and LcrV (V antigen). Infect. Immun. 2003; 71(7):3673–81. DOI: 10.1128/IAI.71.7.36733681.2003.</mixed-citation><mixed-citation xml:lang="en">Brubaker R.R. Interleukin-10 and the inhibition of innate immunity to Yersinia: roles of Yops and LcrV (V antigen). Infect. Immun. 2003; 71(7):3673–81. DOI: 10.1128/IAI.71.7.36733681.2003.</mixed-citation></citation-alternatives></ref><ref id="cit33"><label>33</label><citation-alternatives><mixed-citation xml:lang="ru">Quenee L.E., Schneewind O. Plague vaccines and the molecular basis of immunity against Yersinia pestis. Hum. Vaccin. 2009; 5(12):817–23. DOI: 10.4161/hv.9866.</mixed-citation><mixed-citation xml:lang="en">Quenee L.E., Schneewind O. Plague vaccines and the molecular basis of immunity against Yersinia pestis. Hum. Vaccin. 2009; 5(12):817–23. DOI: 10.4161/hv.9866.</mixed-citation></citation-alternatives></ref><ref id="cit34"><label>34</label><citation-alternatives><mixed-citation xml:lang="ru">Overheim K.A., Depaolo R.W., Debord K.L., Morrin E.M., Anderson D.M., Green N.M., Brubaker R.R., Jabri B., Schneewind O. LcrV plague vaccine with altered immunomodulatory properties. Infect. Immun. 2005; 73(8):5152–9. DOI: 10.1128/IAI.73.8.51525159.2005.</mixed-citation><mixed-citation xml:lang="en">Overheim K.A., Depaolo R.W., Debord K.L., Morrin E.M., Anderson D.M., Green N.M., Brubaker R.R., Jabri B., Schneewind O. LcrV plague vaccine with altered immunomodulatory properties. Infect. Immun. 2005; 73(8):5152–9. DOI: 10.1128/IAI.73.8.51525159.2005.</mixed-citation></citation-alternatives></ref><ref id="cit35"><label>35</label><citation-alternatives><mixed-citation xml:lang="ru">DeBord K.L., Anderson D.M., Marketon M.M., Overheim K.A., DePaolo R.W., Ciletti N.A., Jabri B., Schneewind O. Immunogenicity and protective immunity against bubonic plague and pneumonic plague by immunization of mice with the recombinant V10 antigen, a variant of LcrV. Infect. Immun. 2006; 74(8):4910–4. DOI: 10.1128/IAI.01860-05.</mixed-citation><mixed-citation xml:lang="en">DeBord K.L., Anderson D.M., Marketon M.M., Overheim K.A., DePaolo R.W., Ciletti N.A., Jabri B., Schneewind O. Immunogenicity and protective immunity against bubonic plague and pneumonic plague by immunization of mice with the recombinant V10 antigen, a variant of LcrV. Infect. Immun. 2006; 74(8):4910–4. DOI: 10.1128/IAI.01860-05.</mixed-citation></citation-alternatives></ref><ref id="cit36"><label>36</label><citation-alternatives><mixed-citation xml:lang="ru">Daniel C., Dewitte A., Poiret S., Marceau M., Simonet M., Marceau L., Descombes G., Boutillier D., Bennaceur N., BontempsGallo S., Lemaître N., Sebbane F. Polymorphism in the Yersinia LcrV antigen enables immune escape from the protection conferred by an LcrV-secreting Lactococcus lactis in a Pseudotuberculosis mouse model. Front. Immunol. 2019; 10:1830. DOI: 10.3389/fimmu.2019.01830.</mixed-citation><mixed-citation xml:lang="en">Daniel C., Dewitte A., Poiret S., Marceau M., Simonet M., Marceau L., Descombes G., Boutillier D., Bennaceur N., BontempsGallo S., Lemaître N., Sebbane F. Polymorphism in the Yersinia LcrV antigen enables immune escape from the protection conferred by an LcrV-secreting Lactococcus lactis in a Pseudotuberculosis mouse model. Front. Immunol. 2019; 10:1830. DOI: 10.3389/fimmu.2019.01830.</mixed-citation></citation-alternatives></ref><ref id="cit37"><label>37</label><citation-alternatives><mixed-citation xml:lang="ru">Demeure C.E., Dussurget O., Fiol G.M., Le Guern A.S., Savin C., Pizarro-Cerdá J. Yersinia pestis and plague: an updated view on evolution, virulence determinants, immune subversion, vaccination, and diagnostics. Genes Immun. 2019; 20(5):357–70. DOI: 10.1038/s41435-019-0065-0.</mixed-citation><mixed-citation xml:lang="en">Demeure C.E., Dussurget O., Fiol G.M., Le Guern A.S., Savin C., Pizarro-Cerdá J. Yersinia pestis and plague: an updated view on evolution, virulence determinants, immune subversion, vaccination, and diagnostics. Genes Immun. 2019; 20(5):357–70. DOI: 10.1038/s41435-019-0065-0.</mixed-citation></citation-alternatives></ref><ref id="cit38"><label>38</label><citation-alternatives><mixed-citation xml:lang="ru">Li B., Zhou L., Guo J., Wang X., Ni B., Ke Y., Zhu Z., Guo Z., Yang R. High-throughput identification of new protective antigens from a Yersinia pestis live vaccine by enzyme-linked immunospot assay. Infect. Immun. 2009; 77(10): 4356–61. DOI: 10.1128/IAI.00242-09.</mixed-citation><mixed-citation xml:lang="en">Li B., Zhou L., Guo J., Wang X., Ni B., Ke Y., Zhu Z., Guo Z., Yang R. High-throughput identification of new protective antigens from a Yersinia pestis live vaccine by enzyme-linked immunospot assay. Infect. Immun. 2009; 77(10): 4356–61. DOI: 10.1128/IAI.00242-09.</mixed-citation></citation-alternatives></ref><ref id="cit39"><label>39</label><citation-alternatives><mixed-citation xml:lang="ru">Erova T.E., Rosenzweig J.A., Sha J., Suarez G., Sierra J.C., Kirtley M.L., van Lier C.J., Telepnev M.V., Motin V.L., Chopra A.K. Evaluation of protective potential of Yersinia pestis outer membrane protein antigens as possible candidates for a new-generation recombinant plague vaccine. Clin. Vaccine Immunol. 2013; 20(2):227–38. DOI: 10.1128/CVI.00597-12.</mixed-citation><mixed-citation xml:lang="en">Erova T.E., Rosenzweig J.A., Sha J., Suarez G., Sierra J.C., Kirtley M.L., van Lier C.J., Telepnev M.V., Motin V.L., Chopra A.K. Evaluation of protective potential of Yersinia pestis outer membrane protein antigens as possible candidates for a new-generation recombinant plague vaccine. Clin. Vaccine Immunol. 2013; 20(2):227–38. DOI: 10.1128/CVI.00597-12.</mixed-citation></citation-alternatives></ref><ref id="cit40"><label>40</label><citation-alternatives><mixed-citation xml:lang="ru">Lin J.S., Szaba F.M., Kummer L.W., Chromy B.A., Smiley S.T. Yersinia pestis YopE contains a dominant CD8 T cell epitope that confers protection in a mouse model of pneumonic plague. J. Immunol. 2011; 187(2):897–904. DOI: 10.4049/jimmunol.1100174.</mixed-citation><mixed-citation xml:lang="en">Lin J.S., Szaba F.M., Kummer L.W., Chromy B.A., Smiley S.T. Yersinia pestis YopE contains a dominant CD8 T cell epitope that confers protection in a mouse model of pneumonic plague. J. Immunol. 2011; 187(2):897–904. DOI: 10.4049/jimmunol.1100174.</mixed-citation></citation-alternatives></ref><ref id="cit41"><label>41</label><citation-alternatives><mixed-citation xml:lang="ru">Zhang Y., Mena P., Romanov G., Bliska J.B. Effector CD8+ T cells are generated in response to an immunodominant epitope in type III effector YopE during primary Yersinia pseudotuberculosis infection. Infect. Immun. 2014; 82(7):3033–44. DOI: 10.1128/IAI.01687-14.</mixed-citation><mixed-citation xml:lang="en">Zhang Y., Mena P., Romanov G., Bliska J.B. Effector CD8+ T cells are generated in response to an immunodominant epitope in type III effector YopE during primary Yersinia pseudotuberculo¬ sis infection. Infect. Immun. 2014; 82(7):3033–44. DOI: 10.1128/IAI.01687-14.</mixed-citation></citation-alternatives></ref><ref id="cit42"><label>42</label><citation-alternatives><mixed-citation xml:lang="ru">Szaba F.M., Kummer L.W., Wilhelm L.B., Lin J.S., Parent M.A., Montminy-Paquette S.W., Lien E., Johnson L.L., Smiley S.T. D27-pLpxL, an avirulent strain of Yersinia pestis, primes T cells that protect against pneumonic plague. Infect. Immun. 2009; 77(10):4295– 304. DOI: 10.1128/IAI.00273-09.</mixed-citation><mixed-citation xml:lang="en">Szaba F.M., Kummer L.W., Wilhelm L.B., Lin J.S., Parent M.A., Montminy-Paquette S.W., Lien E., Johnson L.L., Smiley S.T. D27-pLpxL, an avirulent strain of Yersinia pestis, primes T cells that protect against pneumonic plague. Infect. Immun. 2009; 77(10):4295– 304. DOI: 10.1128/IAI.00273-09.</mixed-citation></citation-alternatives></ref><ref id="cit43"><label>43</label><citation-alternatives><mixed-citation xml:lang="ru">Szaba F.M., Kummer L.W., Duso D.K., Koroleva E.P., Tumanov A.V., Cooper A.M., Bliska J.B., Smiley S.T., Lin J.S. TNFα and IFNγ but not perforin are critical for CD8 T cell-mediated protection against pulmonary Yersinia pestis infection. PLoS Pathog. 2014; 10(5):e1004142. DOI: 10.1371/journal.ppat.1004142.</mixed-citation><mixed-citation xml:lang="en">Szaba F.M., Kummer L.W., Duso D.K., Koroleva E.P., Tumanov A.V., Cooper A.M., Bliska J.B., Smiley S.T., Lin J.S. TNFα and IFNγ but not perforin are critical for CD8 T cell-mediated protection against pulmonary Yersinia pestis infection. PLoS Pathog. 2014; 10(5):e1004142. DOI: 10.1371/journal.ppat.1004142.</mixed-citation></citation-alternatives></ref><ref id="cit44"><label>44</label><citation-alternatives><mixed-citation xml:lang="ru">Zvi A., Rotem S., Zauberman A., Elia U., Aftalion M., Bar-Haim E., Mamroud E., Cohen O. Novel CTL epitopes identified through a Y. pestis proteome-wide analysis in the search for vaccine candidates against plague. Vaccine. 2017; 35(44):5995–6006. DOI: 10.1016/j.vaccine.2017.05.092.</mixed-citation><mixed-citation xml:lang="en">Zvi A., Rotem S., Zauberman A., Elia U., Aftalion M., Bar-Haim E., Mamroud E., Cohen O. Novel CTL epitopes identified through a Y. pestis proteome-wide analysis in the search for vaccine candidates against plague. Vaccine. 2017; 35(44):5995–6006. DOI: 10.1016/j.vaccine.2017.05.092.</mixed-citation></citation-alternatives></ref><ref id="cit45"><label>45</label><citation-alternatives><mixed-citation xml:lang="ru">Chowell D., Krishna S., Becker P.D., Cocita C., Shu J., Tan X., Greenberge P.D., Klavinskis L.S., Blattman J.N., Anderson K.S. TCR contact residue hydrophobicity is a hallmark of immunogenic CD8+ T cell epitopes. Proc. Natl Acad. Sci. USA. 2015; 112(14):E1754–62. DOI: 10.1073/pnas.1500973112.</mixed-citation><mixed-citation xml:lang="en">Chowell D., Krishna S., Becker P.D., Cocita C., Shu J., Tan X., Greenberge P.D., Klavinskis L.S., Blattman J.N., Anderson K.S. TCR contact residue hydrophobicity is a hallmark of immunogenic CD8+ T cell epitopes. Proc. Natl Acad. Sci. USA. 2015; 112(14):E1754–62. DOI: 10.1073/pnas.1500973112.</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>
