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Olen nõus

Siiri Kõljalg

https://www.etis.ee/CV/Siiri_Kõljalg/est
737 4178
siiri.koljalg@ut.ee

Teenistuskäik

Töökohad ja ametid
01.12.2017–30.04.2022   
Tartu Ülikool, Meditsiiniteaduste valdkond, bio- ja siirdemeditsiini instituut, meditsiinilise mikrobioloogia teadur (0,50)

Kvalifikatsioon

Teaduskraadid
Siiri Kõljalg, doktorikraad, 1999, (juh) Marika Mikelsaar, Acinetobacter - an important nosocomial pathogen, Tartu Ülikool, Arstiteaduskond, Mikrobioloogia instituut.
 
 
Teadustöö põhisuunad
ETIS VALDKOND: 3. Terviseuuringud; 3.11. Terviseuuringutega seotud uuringud, näiteks biokeemia, geneetika, mikrobioloogia, biotehnoloogia, molekulaarbioloogia, rakubioloogia, biofüüsika ja bioinformaatika; TÄPSUSTUS: Hospitaalinfektsioonid. Infektsioonide epidemioloogia ja antibiootikumresistentsus
 
 
Lisainfo
meditsiinidoktor
Tartu Ülikool 1999

Jooksvad projektid

Lõppenud projektid

Juhendatud väitekirjad

Publikatsioonid

Klass
Aasta
Publikatsioon
 
1.1.
2022
Sepp, Epp; Smidt, Imbi; Rööp, Tiiu; Štšepetova, Jelena; Kõljalg, Siiri; Mikelsaar, Marika; Soidla, Indrek; Ainsaar, Mare; Kolk, Helgi; Vallas, Mirjam; Jaagura, Madis; Mändar, Reet. (2022). Comparative analysis of gut microbiota in centenarians and young people: impact of eating habits and childhood living environment. Frontiers in Cellular and Infection Microbiology, x.
1.1.
2022
Nguyen, Anh Thi Chau; Le Nguyen, Na Thi; Hoang, Thu Thi Anh; Nguyen, Tuyen Thi; Tran, Trang Thi Quynh; Tran, Dan Nu Tam; Nguyen, Anh Thi Kim; Tran, Linh Manh; Nguyen, Duc Huu Chau; Le, Tam Minh; Ho, Binh Duy; Rööp, Tiiu; Kõljalg, Siiri; Štšepetova, Jelena; Van Le, An; Salumets, Andres; Mändar, Reet (2022). Aerobic vaginitis in the third trimester and its impact on pregnancy outcomes. BMC Pregnancy and Childbirth, 22 (1), 432. DOI: 10.1186/s12884-022-04761-5.
2.4.
2022
Merits, Andres; Abroi, Aare; Kurg, Reet; Žusinaite, Eva; Truve, Erkki; Sarmiento, Cecilia; Sõmera, Merike; Saar, Tiiu; Viltrop, Arvo; Lutsar, Irja; Avi, Radko; Karki, Tõnis; Huik, Kristi; Kõljalg, Siiri; Brilene, Tatjana; Roots, Irja;Inno, Heleri (2022). Üldine ja Meditsiiniline viroloogia. Tartu: Tartu Ülikooli kirjastus [ilmumas].
1.1.
2021
Kõljalg, S.; Vaikjärv, R.; Smidt, I.; Rööp, T.; Chakrabarti, A.; Kasenõmm, P.; Mändar, R. (2021). Effect of erythritol and xylitol on Streptococcus pyogenes causing peritonsillar abscesses. Scientific Reports, 11 (1). DOI: 10.1038/s41598-021-95367-y.
1.1.
2021
Cook, Aislinn; Sharland, Mike; Yau, Yasmine; Bielicki, Julia, PediBSI Group: Keith Grimwood, Jack Cross, Kaman Cheung, Deena Parbhoo, Cristiane Henriques Teixeira, Eitan Naaman Berezin, Cely Barreto da Silva, Izabel Ales Leal, Cristina Vieira Souza, Cristina Gardonyi Carvalheiro, Cleonice Barbosa Sandoval de Souza, Paul Turner, Thyl Miliya, Lijuan Wu, Ping Jin, Jikui Deng, Hongmei Wang, Jinxing Feng, Yunsheng Chen, Marika Jürna, Irja Lutsar, Siiri Kõljalg, Vesa Kirjavainen, Satu Kekomäki, Saffiatou Darboe, Uduak Adiakot Okomo, André Ricardo Araujo da Silva, Johannes Hübner, Martin Christner, Ulf Schulze-Sturm, Markus Hufnagel, Benjamin Bluemel, Dimitra Dimopoulou, Vassiliki Papaevangelou, Despoina Gkentzi, Fevronia Kolonitsiou, Sofia Maraki, Eleni Vergadi, Sanjeev Singh, Anu George, Dhanya Dharmapalan, Rajesh Rai, Keertana Shetty, Vijay Yewale, Ranganathan N Iyer, Gerardo Alvarez-Uria, Dasaratha R Jinka, Liat Ashkenazi- Hoffnung, Haim Ben-Zvi, Maia de Luca, Paola Bernaschi, Paola Pansa, Sonia Bianchini, Susanna Esposito, Yuho Horikoshi, Hiroshi Higuchi, Maria del Carmen Castellanos-Cruz, Lilia Pichardo-Villalon, Ewelina Gowin, Regina Pirumova, Si Min Chan, Kean Lee Chew, Trusha Nana, Rose Bandini, Angela Dramowski, Andrew Whitelaw, Angela Manzanares, María Ángela Orellana, Federico Martinon-Torres, Ana Isabel Dacosta Urbieta, Linus Olson, Mattias Larsson, Kanchana Preedisripipat, Tim R. Cressey, Suvaporn Anugulruengkitt, Tanittha Chatsuwan, Sorasak Lochindarat, Sutawan Mutitanon, Willy Ssengooba, Hannington B Tasimwa, Philippa Musoke, Fiona Shaw, Andrew Riordan, Katy Fidler, William Schilling, James Hatcher, Alasdair Bamford, Paddy McMaster, Christian Harkensee, Jonathan Moore, Lynne Speirs, Paul Moriarty, Emily Chesshyre, Cressida Auckland, Avni Hindocha, Philip Ashcroft, Sarah Thompson, Sanjay Patel, Dave Browning, Dien Tran Minh, Ngoc Hoang Thi Bich (2021). Improving empiric antibiotic prescribing in pediatric bloodstream infections: a potential application of weighted-incidence syndromic combination antibiograms (WISCA). Expert Review of Anti-infective Therapy, 1−12. DOI: 10.1080/14787210.2021.1967145.
1.3.
2021
Krista Lõivukene, Siiri Kõljalg, Kadri Kermes, Epp Sepp, Paul Naaber (2021). Anaeroobsete bakterite spekter ja antibiootikumitundlikkus 2016. ja 2020. aastal TÜ Kliinikumi ühendlabori kliinilise mikrobioloogia osakonna andmetel. Eesti Arst, 100 (11), 605−614.
1.1.
2020
Kõljalg, Siiri; Smidt, Imbi; Chakrabarti, Anirikh; Bosscher, Douwina; Mändar, Reet (2020). Exploration of singular and synergistic effect of xylitol and erythritol on causative agents of dental caries. Scientific Reports, 10 (1), 6297. DOI: 10.1038/s41598-020-63153-x.
1.3.
2020
Ainsaar, M.; Soidla, I.; Sepp, E.; Kõljalg, S.; Štšepetova,J.; Rööp, T.; Smidt, I.; Mikelsaar, M.; Mändar, R. (2020). Kelle poole pöördub abi saamiseks Eesti 100-aastane? Sotsiaaltöö, 3.
1.1.
2019
Bilozor, Anastasia; Balode, Arta; Chakhunashvili, Giorgi; Chumachenko, Tetyana; Egorova, Svetlana; Ivanova, Marina; Kaftyreva, Liidia; Kõljalg, Siiri; Kõressaar, Triinu; Lysenko, Olga; Miciuleviciene, Jolanta; Mändar, Reet; Lis, Danuta O.; Wesolowska, Monika Pomorska; Ratnik, Kaspar; Remm, Maido; Rudzko, Jelena; Rööp, Tiiu; Saule, Mara; Sepp, Epp ... Naaber, Paul (2019). Application of Molecular Methods for Carbapenemase Detection. Frontiers in Microbiology, 10, ARTN 1755. DOI: 10.3389/fmicb.2019.01755.
1.1.
2019
Sepp, Epp; Andreson, Reidar; Balode, Arta; Bilozor, Anastasia; Brauer, Age; Egorova, Svetlana; Huik, Kristi; Ivanova, Marina; Kaftyreva, Lidia; Kõljalg, Siiri; Koressaar, Triinu; Makarova, Maria; Miciuleviciene, Jolanta; Pai, Kristiine; Remm, Maido; Rööp, Tiiu; Naaber, Paul (2019). Phenotypic and Molecular Epidemiology of ESBL-, AmpC-, and Carbapenemase-Producing Escherichia coli in Northern and Eastern Europe. Frontiers in Microbiology, 10, ARTN 2465. DOI: 10.3389/fmicb.2019.02465.
5.2.
2018
Naaber, Paul; Rudzko, Jelena; Pavelkovich, Anastasia; Ivanova, Marina; Sepp, Epp; Ratnik, Kaspar; Kõljalg, Siiri; Rööp, Tiiu; Remm, Maido; Kaftyreva, Liidia; Egorova, Svetlana; Miciuleviciene, Jolanta; Balode, Arta; Saule, Marta; Tsereteli, David; Chakhunashvili, Giorgi; Titiv, Leonid; Shyshporonok, Julia; Lysenko, Olga; Chumachenko, Tatyana ... Wesolowska, Monika (2018). Comparison of Coris rapid test with other methods for carbapenemases detectiotion in Klebsiella pneumoniae. In: (60). 35h annual meeting NSCMID, Reykjavik 19-22 august. Reykjavik, Island.
5.2.
2018
Sepp, Epp; Smidt, Imbi; Štšepetova, Jelena; Mändar, Reet;Kõljalg, Siiri; Truusalu, Kai; Rööp, Tiiu; Mikelsaar, Marika (2018). Laboratoorne teadustöö probiootikute ja sünbiootikute loomiseks. Eesti Arst (68−68). Eesti Arst. (2).
1.1.
2017
Ahonen, M.; Kahru, A.; Ivask, A.; Kasemets, K.; Kõljalg,S.; Mantecca, P.; Vinković Vrček, I.; Keinänen-Toivola, M.; Crijns, F. (2017). Proactive Approach for Safe Use of Antimicrobial Coatings in Healthcare Settings: Opinion of the COST Action Network AMiCI. International Journal of Environmental Research and Public Health, 14 (4), 366. DOI: 10.3390/ijerph14040366.
1.1.
2017
Roosaare, Märt; Vaher, Mihkel; Kaplinski, Lauris; Möls, Märt; Andreson, Reidar; Lepamets, Maarja; Kõressaar, Triinu; Naaber, Paul; Kõljalg, Siiri; Remm, Maido (2017). StrainSeeker: fast identification of bacterial strains from raw sequencing reads using user-provided guide trees. PeerJ, 5, ARTN e3353−e3353. DOI: 10.7717/peerj.3353.
1.1.
2017
Rätsep M.; Kõljalg S.; Sepp E.; Smidt I.; Truusalu K.; Songisepp E.; Stsepetova J.; Naaber P.; Mikelsaar R.H.; Mikelsaar M. (2017). A combination of the probiotic and prebiotic product can prevent the germination of Clostridium difficile spores and infection. Anaerobe, 47, 94−103. DOI: 10.1016/j.anaerobe.2017.03.019.
1.1.
2017
Kõljalg, Siiri; Mändar, Rando; Sõber, Tiina; Rööp, Tiiu; Mändar, Reet (2017). High level bacterial contamination of secondary school students' mobile phones. GERMS, 7, 73−77. DOI: 10.18683/germs.2017.1111.
2.4.
2017
Lutsar, Irja; Mändar, Reet; Mikelsaar, Marika; Karki, Tõnis; Brilene, Tatjana; Kõljalg, Siiri; Meriste, Sirli; Sepp, Epp; Avi, Radko; Truusalu, Kai; Parm, Ülle (2017). Meditsiiniline Mikrobioloogia. Üldmikrobioloogia. Tartu: TÜ kirjastus.
1.1.
2016
Mändar, Karsten; Sõber, Tiina; Kõljalg, Siiri; Rööp, Tiiu; Mändar, Reet; Sepp, Epp. (2016). Microbiological contamination of the euro currency in Estonia. Infectious Diseases, 48 (10), 772−774. DOI: 10.1080/23744235.2016.1201725.
1.1.
2016
Bielicki, J.A., Sharland, M., Johnson, A.P., Henderson, K.L., Cromwell, D.A. , Berger, C., Esposito, S., Danieli, E., Tenconi, R., Folgori, L., Bernaschi, P., Santiago, B., Saavedra, J., Cercenado, E., Brett, A., Rodrigues, F., Cizman, M., Jazbec, J., Babnik, J., Pavčnik, M., Pirš, M., Mueller Premrov, M., Lindner, M., Borte, M., Lippmann, N., Schuster, V., Thürmer, A., Lander, F., Elias, J., Liese, J., Durst, A., Weichert, S., Schneider, C., Hufnagel, M., Rack, A., Hübner, J., Dubos, F., Lagree, M., Dessein, R., Tissieres, P., Cuzon, G., Gajdos, V., Doucet-Populaire, F., Usonis, V., Gurksniene, V., Bernatoniene, G., Tsolia, M., Spyridis, N., Lebessi, E., Doudoulakakis, A., Lutsar, I., Kõljalg, S., Schülin, T., Warris, A. (2016). Selecting appropriate empirical antibiotic regimens for paediatric bloodstream infections: Application of a Bayesian decision model to local and pooled antimicroabial resistance surveillance data. Journal of Antimicrobial Chemotherapy, 71 (3), 794−802. DOI: 10.1093/jac/dkv397.
5.2.
2016
Pavelkovich, A.; Ivanova, M.; Kõljalg, S.; Naaber, P.; Pai, K.; Sepp, E.; BEEp research team (2016). Epidemiology of AB resistant gram-negative bacteria in the Baltic Sea region. Eesti Arst, 95 (Supplement1): XIII Baltic Congress in Laboratory Medicine; Tartu, Estonia; May 12-14 2016. OÜ Celsius Healthcare, 39.
1.1.
2015
Koljalg, Siiri; Telling, Kaidi; Huik, Kristi; Murruste, Marko; Saarevet, Virve; Pauskar, Merit; Lutsar, Irja (2015). First report of Wohlfahrtiimonas chitiniclastica from soft tissue and bone infection at an unusually high northern latitude. Folia Microbiologica, 60 (2), 155−158. DOI: 10.1007/s12223-014-0355-x.
5.2.
2015
Naaber, Paul; Balode, Arta; Egorova, Svetlana; Huik, Kristi; Ivanova, Marina; Kaftyreva, Lidia; Kõljalg, Siiri; Kõressaar, Triinu; Lillo, Jana; Löhr, Iren; Miciuleviciene, Jolanta; Pai, Kristiine; Pavelkovich, Anastassia; Remm, Maido; Sepp, Epp (2015). The epidemiology of CTX-M group genes among clinical Escherichia coli strains in Estonia, Latvia, Lithuania, Norway and Russia.
5.2.
2015
Truusalu, Kai; Vainumäe, Inga; Stsepetova, Jelena; Smidt, Imbi; Sepp, Epp; Mikelsaar, Marika; Kõljalg, Siiri (2015). The impact of the initial antibiotic treatment to subsequent recurrences in childhood urinary tract infection caused by Escherichia coli: beta-lactams vs gentamicin. In: . ECCMID 2015 Copenhagen, Denmark, 25-28 April 2015. ECCMID 2015 Copenhagen, Denmark, 25-28 April 2015.
1.1.
2014
Lillo, Jana; Pai, Kristiine; Bolde, Arta; Makarova, Mariia; Huik, Kristi; Kõljalg, Siiri; Ivanova, Marina; Kaftyreva, Lidia; Miciuleviciene, Jolanata; Naaber, Paul; Parv, Kristel; Pavelkovich, Anastasia; Rööp, Tiiu; Toompere, Karolin; Suzhaeva, Ludmila; Sepp, Epp (2014). Differences in extended-spectrum beta-lactamase producing Escherichia coli virulence factor genes in the Baltic Sea region. BioMed Research International, 427254, 1−7. DOI: 10.1155/2014/427254.
1.1.
2014
Pavelkovich, Anastasia; Balode, Arta; Edquist, Petra; Egorova, Svetlana; Ivanova, Marina; Kaftyreva, Lidia; Konovalenko, Irina; Kõljalg, Siiri; Lillo, Jana; Lipskaya, Lidia; Miciuleviciene, Jolanta; Pai, Kristiine; Parv, Kristel; Pärna, Katri; Rööp, Tiiu; Sepp, Epp; Štšepetova, Jelena; Naaber, Paul (2014). Detection of Carbapenemase-Producing Enterobacteriaceae in the Baltic Countries and St. Petersburg Area. BioMed Research International, 2014, Article 548960. DOI: 10.1155/2014/548960.
1.1.
2014
Kõljalg, Siiri; Truusalu, Kai; Štšepetova, Jelena; Pai, Kristiine; Vainumäe, Inga; Sepp, Epp; Mikelsaar, Marika (2014). The Escherichia coli phylogenetic group B2 with integrons prevails in childhood recurrent urinary tract infections. APMIS, 122 (5), 452−458. DOI: 10.1111/apm.12167.
1.2.
2014
Rätsep, Merle; Naaber, Paul; Kõljalg, Siiri; Shkut, Elena; Sepp, Epp (2014). Effect of Lactobacillus Strain on Clinical Isoletes of Clostridium difficile in vitro. Journal of Probiotics and Health, 2, 1−5. DOI: 10.4172/2329-8901.1000119.
5.1.
2014
Truusalu, K; Smidt, I; Hütt, P; Stsepetova, J; Vainumäe, I; Sepp, E; Mikelsaar, M; Kõljalg, S. (2014). Comparison of phylogenetic groups, antibacterial resistance and integron containment of Escherichia coli from initial episode of childhood urinary tract infections with different outcomes. 24th European Congress of Clinical Microbiology and Infectious Diseases in Barcelona, Spain, 10 – 13 May 2014.. x, x.
5.2.
2014
Pärna, K.; Balode, A.; Edquist, A.; Egorova, P.; Kaftyreva, S.; Miciuleviciene, L.; Ivanova, M.; Kõljalg, S.; Pai, K.; Pavelkovich, A.; Rööp, T.; Sepp, E.; Naaber, P.; Stsepetova, J. (2014). Detection of class 1, 2 and 3 integrons among extended-spectrum beta-lactamase-producing Klebsiella pneumoniae isolated from Baltic sea region. European Congress of Cilinical Microbiology and Infestious Diseases, Barcelona, Spain, 10-13 May 2014. x, x.
5.2.
2014
Pai, K.; Huik, K.; Ivanova, M.; Kõljalg, S.; Pavelkovich, K.; Parv, K.; Rööp, T.; Sepp, E.; Naaber, P. (2014). Detection and molecular characterisation of extended-spectrum beta-lactamase-producing Escherichia coli sequence type ST131 from the Baltic region. European Congress of Clinical Microbiology and Infectious Diseases, Barcelona, Spain, 10-13 May 2014.
1.1.
2013
Brilene, T.; Soeorg, H.; Kiis, M.; Sepp, E.; Kõljalg, S.; Lõivukene, K.; Jürna-Ellam, M.; Kalinina, J.; Stšepetova, J.; Metsvaht, T.; Lutsar, I. (2013). In vitro synergy of oxacillin and gentamicin against coagulase-negative staphylococci from blood cultures of neonates with late-onset sepsis. APMIS, 121 (9), 859−864. DOI: 10.1111/apm.12048.
1.3.
2013
Егорова, СА; Кафтыреща, ЛА; Липская, ЛВ; Коноваленко, ИБ; Пясетская, МФ; Курчикова, ТС; Ведерникова, НБ; Морозова, ОТ; Смирнова, МБ; Попенко, ЛН; Любушкина, МИ; Савочкина, ЮА; Макарова, МА; Сужаева, ЛВ; Останкова, ЮВ; Иванова, МН; Павелкович, АМ; Наабер, П; Сепп, Э; Кыльялг, С ... Балоде, А. (2013). Штаммы энтеробактерий, продуцирующие бета-лактамазы пасширенного спектра и металло-В-лактамазу НДМ-1, выделенные в стационарах в странах Балтийского региона. Инфекция и иммунитет, 3 (1), 29−36.
5.2.
2013
Lillo, J; Balode, A; Egorova, S; Huik, K; Ivanova, M; Kaftyreva, L; Makarova, M; Miciuleviciene, J; Naaber, P; Pai, K; Parv, K; Pavelkovich, A; Rööp, T; Sepp, E. (2013). Differences in virulence factors of Escherichia coli isolated from the Baltic Sea region. 23 nd European Congress ofClinical Microbiology and Infectious Diseases; Berlin; 27-30 April 2013.
5.2.
2013
Naaber, P; Balode, A; Djundika, T; Egorova, S; Huik, K; Kaftyreva, L; Kamõnina, N; Kirs, K; Kõljalg, S; Konovalenko, I; Kurchikova, T; Lillo, J; Lipskaya, L; Lõivukene, L; Makarova, M; Makstutis, G; Miciuleviciene, J; Morozova, O; Pai, K; Parv, K ... Ivanova, M (2013). Epidemiology of extended-spectrum beta-lactamases-producing Escherichia coli and Klebsiella pneumoniae in the Baltic Sea region. 23 nd European Congress ofClinical Microbiology and Infectious Diseases; Berlin; 27-30 April 2013.
5.2.
2013
Pai, K; Balode, B; Egorova, S; Huik, K; Ivanova, M; Kaftyreva, L; Kõljalg, S; Lillo, J; Miciuleviciene, J; Naaber, P; Parv, K; Pavelkovich, A; Rööp, T; Sepp, E. (2013). The molecular epidemiology of extended-spectrum beta-lactamases-producing Escherichia coli and Klebsiella pneumoniae in the Baltic Sea region. 23 nd European Congress ofClinical Microbiology and Infectious Diseases; Berlin; 27-30 April 2013.
5.2.
2013
Rätsep, Merle; Naaber, Paul; Kõljalg, Siiri; Smidt, Imbi; Shkut, Leena; Sepp, Epp (2013). Antagonistic activity of culture supernatant of lactobacilli against the growth of Clostridium difficile in vitro. ClostPath 2013 Meeting; Palm Cove, Australia; 22.-26. October 2013.
5.2.
2013
Pavelkovich, A; Balode, A; Edquist, P; Egorova, S; Ivanova, M; Kaftyreva, L; Kõljalg, S; Lillo, J; Lipskaya, L; Miciuleviciene, J; Pai, K; Sepp, E; Sparbier, K; Naaber, P (2013). Detection of carbapenem-non-susceptible Escherichia coli and Klebsiella pneumoniae in the Baltic Sea region. 23nd European Congress ofClinical Microbiology and Infectious Diseases; Berlin; 27-30 April 2013..
1.1.
2012
Songisepp, E.; Hütt, P.; Rätsep, M.; Shkut, E.; Kõljalg, S.; Truusalu, K.; Stsepetova, J.; Smidt, I.; Kolk, H.; Zagura, M.; Mikelsaar, M. (2012). Safety of probiotic cheese containing Lactobacillus plantarum Tensia according to a variety of health indices in different age groups. Journal of Dairy Science, 95 (10), 5495−5509. DOI: 10.3168/jds.2011-4756.
5.2.
2012
Kõljalg, S.; Truusalu, K.; Stsepetova, J.; Pai, K.; Vainumäe, I.; Hütt, P.; Smidt, I.; Mändar, R.; Sepp, E.; Mikelsaar, M. (2012). The role of phylogenetic groups of Escherichia coli in childhood recurrent urinary tract infections. 22nd European Congress ofClinical Microbiology and Infectious Diseases, London, United Kingdom, 31 March – 3 April 2012.
5.2.
2012
Naaber, P.; Sepp, E.; Pai, K.; LilĮo, J.; Pavelkovich, A.; Stsepetova, J .; Ivanova, M.; Lõįvukene, K.; Kõljalg, S. (2012). Molecular Epidemiology of Extended Spectrum Beta-Lactamases (ESBLs) in Estonia. BIT's 2nd Annual World Congress of Microbes-2012(WCM-2012), Guangzhou, China, July 30-August 1, 2012.
5.2.
2012
Kõljalg, S.; Naaber, P.; Rätsep, M.; Smidt, I.; Shkut, J.; Jaanimäe, L.; Löhr, L.H; ,Stsepetova, J.; Mändar, R.; Sepp, E. (2012). Population dynamics and sporulation of quinolone resistant and sensitive Clostridium difficile strains in different environmental conditions. 4th International Clostridium difficile Symposium; Bled, Slovenia, September 20-22, 2012.
1.1.
2011
Sepp, Epp; Stšepetova, Jelena; Smidt, Imbi; Rätsep, Merle; Kõljalg, Siiri; Lõivukene, Krista; Mändar, Reet; Jaanimäe, Liis; Löhr, IH; Natås, OB; Naaber, Paul (2011). Intestinal lactoflora in Estonian and Norwegian patients with antibiotic associated diarrhea. Anaerobe, 17, 407−409.
1.1.
2011
Naaber, Paul; Stsepetova, Jelena; Smidt, Imbi; Rätsep, Merle; Kõljalg, Siiri; Lõivukene, Krista; Jaanimäe, Liis; Löhr, Iren; Natås, Olav; Truusalu, Kai; Sepp, Epp (2011). Quantification of Clostridium difficile in Antibiotic-Associated Diarrhea Patients. Journal of Clinical Microbiology, 49 (10), 3656−3658. DOI: 10.1128/JCM.05115-11.
5.2.
2011
Tiina, Drell; Jelena, Stsepetova; Irja, Lutsar; Tuuli, Metsvaht; Ülle, Parm; Kaja, Julge; Mari-Liis, Ilmoja; Maie, Jürisson; Siiri, Kõljalg; Paul, Naaber; Epp, Sepp (2011). Application of quantitative Real-time PCR for investigation on intestinal microbiota in pre-and full-term infants. 2nd ASMET-The ASM Emerging Technologies Conference: ASMET Conferences; San Juan, Pueto Rico; March 8-11, 2011. , 45−46.
5.2.
2011
Naaber, Paul; Jelena , Stsepetova; Imbi, Smidt; Elena, Shkut; Merele, Rätsep; Siiri, Kõljalg; krista, Lõivukene; Reet, Mändar; Iren, Löhr; Olav, Natas; Epp, Sepp (2011). Application of molecular methods for invetigation og intestinallactoflora and Clostridium difficile in antibiotic-associated diarrhea patients. 2nd ASMET-The ASM Emerging Technologies Conference: ASMET Conferences; San Juan, Pueto Rico; March 8-11, 2011. USA, 41−42.
5.2.
2011
Kõljalg, S.; Stsepetova, J.; Smidt, I., Löhr, I; Truusalu, K.; Naaber, P.; Sepp, E. (2011). Antibiotic susceptibility, class I integrons and sporulation activity of Clostridium difficile strains from antibiotic-associated diarrhoea patients in two different years in Estonia and Norway. 21th ECCMID Milano, Italy 7-10 May 2011.
5.2.
2011
Naaber, P.; Smidt, I.; Rätsep, M.; Kõljalg, S.; Shkut, E.; Sepp, E. (2011). Strain-specific susceptibility of Clostridium difficile to inhibitory activity of Lactobacillus plantarum in vitro. 7th International Conference on the Molecular Biology and Pathogenesis of the Clostridia, 2011 Ames, Iowa USA.
5.2.
2011
Kõljalg, S.; Rätsep, M.; Stsepetova, J.; Smidt, I.; Shkut, E.; Naaber, P.; Sepp, E. (2011). Sporulation level of Clostridium difficile integron positive and negative strains in the presence of lactobacilli. 7th International Conference on the Molecular Biology and Pathogenesis of the Clostridia, 2011 Ames, Iowa USA.
5.2.
2011
Songisepp, Epp; Hütt, Pirje; Rätsep, Merle; Shkut, Elena; Zilmer, Mihkel; Kõljalg, Siiri; Truusalu, Kai; Smidt, Imbi; i Kolk, Helg; Zagura, Maksim; Mikelsaar, Marika (2011). Safety of a probiotic cheese comprising L. plantarum TENSIA according variety of health indices in different age groups. 6th Probiotics Prebiotics New Foods. , 48.
1.3.
2010
Lõivukene, Krista; Adamson, Vivika; Mitt, Piret; Kõljalg, Siiri; Sepp, Epp; Ivanova, Marina; Jürna-Ellam, Marika; Kirs, Kaisa; Nurk, Allan; Rõõm, Aino; Truusalu, Kai; Naaber, Paul (2010). Metitsilliiniresistentse Staphylococcus aureus’e osakaal, esmasavaldumus ja antibiootikumiresistentsus Eestis. Eesti Arst, 89 (10), 630−636.
5.1.
2010
Naaber, Paul; Stsepetova, Jelena; Smidt, Imbi; Shkut, Elena; Rätsep, Merele; Kõljalg, Siiri; Lõivukene, Krista; Mänadar, Reet; Löhr, Irene; Natas, Borg; Sepp, Epp (2010). Intestinal Lactroflora in Patients with Antibiotic Associated Diarrhea (AAD). XXXIII Inernational Congress on Microbial Ecology and Diseases, Greece 6-10 September 2010. Greece, 22.
5.2.
2010
Smidt, I.; Sepp, E.; Rätsep, M.; Kõljalg, S.; Lõivukene, K.; Löhr, I.; Natas, O.; Mändar, R.; Naaber, P. (2010). Quantitative evaluation of Clostridium difficile and intestinal lactobacilli in patients with associated diarrhoea. Clinical Microbiology and Infection, 16: 20th European Congress of Clinical Microbiology and Infectious Diseases, Vienna, Austria 10-13 april 2010. , S575. (2).
5.2.
2010
Naaber, P.; Truusalu, K.; Smidt, I.; Kõljalg, S.; Sepp, E.; Hütt, P.; Mändar, R.; Mikelsaar, M. (2010). Protective effect of xylitol and lactobacilli against Clostridium difficile infection in hamster model. Clinical Microbiology and Infection, 16 : 20th ECCMID, Vienna, Austria 10-13 April 2010. (2).
5.2.
2010
Arbo, Triin; Arbonen, Anne; Sepp, Epp; Stsepetova, Jelena; Kõljalg, Siiri; Lõivukene, Krista (2010). Eestist isoleeritud metitsilliinresistentse Staphylococcus aureus'e feno-ja genotüübilise diagnostika võrdlus. Eest Arst, 9: TÜ Arstiteaduskonna aastapäev 2010. , 605.
5.2.
2010
Naaber, Paul; Stsepetova, Jelena; Smidt, Imbi; Shkut, Elena; Rätsep, Merle; Kõljalg, Siiri; Lõivukene, Krista; Mändar, Reet; Löhr, Irene; Natas, Borg; Sepp, Epp (2010). Intestinal Lactroflora in Patients with Antibiotic Associated Diarrhea (AAD). XXXIII International Congress of the Society for Microbial Ecology in Health and Disease; Greece; September 6-10, 2010. , 22.
1.1.
2009
Sepp, E.; Stsepetova, J.; Lõivukene, K.; Truusalu, K.; Kõljalg, S.; Naaber, P.; Mikelsaar, M. (2009). The occurrence of antimicrobial resistance and class 1 integrons among commensal Escherichia coli isolates from infants and elderly persons. Annals of Clinical Microbiology and Antimicrobials, 8 (34), 1−6.
1.1.
2009
Kõljalg, S.; Truusalu, K.; Vainumäe, I.; Štšepetova, J.; Sepp, E.; Mikelsaar, M. (2009). Persistence of Escherichia coli clones and phenotypic and genotypic antibiotic resistance in recurrent tract infections in childhood. Journal of Clinical Microbiology, 47 (1), 99−105. DOI: 10.1128/JCM.01419-08.
3.4.
2009
Songisepp, E.; Zilmer, M.; Hütt, P., Rätsep, M.; Utt, M.; Üksti, J.; Kõljalg, S.; Zilmer, K.; Mikelsaar, M. (2009). Lactobacillus plantarum TENSIA™ (DSM 21380) as a novel probiotic. Гастроэнтерология Санкт-Петербурга, 4. , A25.
5.2.
2009
Lõivukene, K; Adamson, V; Ivanova, M; Jürna-Ellam, M; Kirs, K; Kõljalg, S; Mitt, P; Nurk, A; Rõõm, A; Sepp, E;i Truusalu, K; Naaber, P. (2009). Incidence and antimicrobial susceptibility pattern of methicillin-resistant Staphylococcus aureus isolates in Estonia.
5.2.
2009
Sepp, E.; Kõjalg, S.; Stsepetova, J., Smidt, I.; Rätsep, M.; Jaanimäe, L.; Naaber, P. (2009). Quantitative evaluation of lactobacilli and Clostridium difficile in faeces of patients with antibiotic associated diarrhoea and antibiotic resistance isolated strains. Fostering Cross-disciplinary Applied Research in Microbiology and Microbial Biotechnology: III International Conference on Environmental, Industrial and Applied Microbiology, BioMicroWorld 2009; Lisboa, Portugal; 2.-4.12.2009. , 543.
5.2.
2009
Löhr, I.; Jaanimäe, L.; Kindingstad, L.; Kõljalg, S.; Natas, O.; Sepp, E.; Smidt, I.; Štšepetova, J.; Wornaes, J.; Naaber, P. (2009). Clostridium difficile resistance and ribitypes in Norway and Estonia. Clostridia: The Impact of Genomics on Disease Control: 6th ClostPath International Conference; Rome, Italy; 19.-23.10.2009. , 75.
5.2.
2009
Jaanimäe, L.; Sepp, E.; Štšepetova, J.; Kõljalg, S.; Mikelsaar, M. (2009). Eesti nosokomiaalse Clostridium difficile tundlikkus antibiootikumidele. Eesti Arst, 9. , 583.
5.2.
2009
Arbonen, A.; Arbo, T.; Sepp, E.; Kõljalg, S.; Štšepetova, J. (2009). Eestist isoleeritud metitsilliiniresistentse Staphylococcus aureus'e tundlikkus dekolonisatsiooniks kasutatavate preparaatide suhtes. Eesti Arst, 9. , 603.
6.7.
2009
Songisepp, E.; Mikelsaar, M.; Rätsep, M.; Zilmer, M.; Zilmer , K.; Üksti, J.; Kõljalg, S. (2009). Isoleeritud mikroorganismi tüvi Lactobacillus plantarum Tensia DSM 21380 kui antimikroobne ja antihüpertensiivne probiotik, toiduprodukt ja Komposition mis sisaldab vastavat mikroorganismi ja selle mikroorganismi kasutus antihüpertensiivse ravimi valmistamiseks ja meetod patogeenide ja mitte-starter laktobatsillide allasurumiseks toiduproduktis. Espacenet, x−x.
1.3.
2008
Lõivukene, K.; Pähkla, E-R.; Koppel, T.; Kõljalg, S.; Kermes, K.; Allik, M.; Juhani, A.; Saag, M.; Adamson, V.; Mitt, P.; Sepp, E.; Truusalu, K.; Naaber, P. (2008). TÜ Kliinikumi ühendlaboris isoleeritud anaeroobide spekter ja ravimitundlikkus. Eesti Arst, 87 (11), 834−840.
5.2.
2008
Lõivukene, Krista; Kõljalg, Siiri; Kermes, Kadri; Allik, Merle; Juhani, Anneli; Adamson, Vivika; Telling, Kaidi; Ivanova, Marina; Naaber, Paul (2008). Fenotüübiliselt samastamiselt genotüübilisele: Mycobacterium fortuitum´i juhtum. Eesti Arst, 87: Arstiteaduskonna Teaduskonverents, Tartu 09.10 - 10.10.2008. OÜ Celsius Healthcare, 678. (9).
5.2.
2008
Truusalu, K.; Kõljalg, S.; Stsepetova, J.; Drell, T.; Vainumäe, I.; Sepp, E.; Mikelsaar, M. (2008). Persistence of Escherichia coli clones and resistance genes in recurrent urinary tract infections in children. 18th ECCMID; Barcelona; 20-24.04.2008. Hispaania, Barcelona.
5.2.
2008
Songisepp, E.; Mikelsaar, M.; Zilmer, M.; Hütt, P.; Smidt, I.; Stsepetova, J.; Truusalu, K.; Rätsep, M.; Kilk, K.; Utt, M.; Üksti, J.; Kõljalg, S., Zilmer, K. (2008). Lactobacillus plantarum TENSIA (DSM 21380) and L. plantarum INDUCIA (DSM 21379) as novel probiotics. FIL-IDF World Dairy Summit, Mecixo City, Mexico, 11-14 November 2008. Mexico City.
5.2.
2008
Truusalu, K.; Kõljalg, S.; Parm, Ü.; Sepp, E.; Metsvaht, T.; Naaber, P.; Lõivukene, K.; Lutsar, I. (2008). Staphylococcal Infection and Colonization of Pediatric Intensive Care Unit Patients: MRSA versus MRSE. Abstract book: Emerging Technologies of Medical Importance for the Diagnosis of Infectious Diseases and the Detection of Pathogenic Microbes. 1 st Intenational ASM Conference in Bejing, April 6-10, 2008. , 44.
5.2.
2008
Mitt, P.; Adamson, V.; Truusalu, K.; Parm, Ü.; Kõljalg, S.; Sepp, E.; Lõivukene, K.; Lutsar, I.; Maimets, M. (2008). An outbreak of meticillin-resistant Staphylococcus aureus (spa type t008) in the paediatric intensive care unit of a university hospital, Tartu. Clinical Microbiology and Infection, 14: 18th European Congress of Clinical Microbiology and Infectious Diseases. , Abstract number: P1439. (S7).
5.2.
2008
Stsepetova, J.; Kõljalg, S.; Sepp, E.; Lõivukene, K.; Songisepp, E.; Rätsep, M.; Mikelsaar, M. (2008). Antibiotic susceptibility pattern and tetracycline resistance of Lactobacillus strains of different origin. Clinical Microbiology and Infection, 14: 18th European Congress of Clinical Microbiology and Infectious Diseases. , Abstract number: P1210. (S7).
1.1.
2007
Tamm, E.; Naaber, P.; Maimets, M.; Oona, M.; Kõljalg, S.; Lutsar, I. (2007). Antimicrobial susceptibility and serogroup/serotype distribution of nasopharyngeal isolates of Streptococcus pneumoniae in healthy Estonian children in 1999-2003. Clinical Microbiology and Infection, 13 (8), 824−826. DOI: 10.1111/j.1469-0691.2007.01743.x.
5.2.
2007
Mitt, P.; Kõljalg, S.; Lõivukene, K.; Sepp, E.; Lutsar, I.; Maimets, M. (2007). Laboratory markers to determine clinical significance of coagulase-negative staphylococci in blood cultures. Sepsis 2007: An International Symposium; Institut Pasteur, Paris; September 27 - 29, 2007. , 46−47.
1.3.
2003
Sepp, E.; Kõljalg, S.; Truusalu, K.; Štšepetova, L.; Metsvaht, T.; Sau, L.; Jürna, M.; Mägi, H.; Allik, M.; Mikelsaaar, M. (2003). Staphylococcus epidermidis ja Klebsiella pneumoniae - võimalikud hospitaalinfektsioonide tekitajad Eesti lasteintensiivravi osakondades. Eesti Arst, 82 (4), 239−248.
1.3.
2003
Tamm, E.; Kõljalg, S.; Lutsar, I.; Maimets, M.; Naaber, P. (2003). Pneumokokkinfektsioon lapseeas. Eesti Arst, 82 (7), 464−471.
1.1.
2002
Koljalg, S.; Naaber, P.; Mikelsaar, M. (2002). Antibiotic resistance as an indicator of bacterial chlorhexidine susceptibility. Journal of Hospital Infection, 51 (2), 106−113.
1.1.
2002
Olsson-Liljequist, B.; Koljalg, S.; Kronvall, G. (2002). Calibration of fusidic acid disk diffusion susceptibility testing of Staphylococcus aureus. APMIS, 110 (10), 690−696.
1.2.
2001
Kõljalg, S.; Naaber, P.; Mikelsaar, R.; Mikelsaar, M. (2001). Biocidal effect of protamine and melittin in combination with chlorhexidine. Clinical Microbiology and Infection, 7 (1), 32−34.
5.2.
2001
Järv, H.; Kõljalg, S.; Adamson, V.; Naaber, P.; Maimets, M. (2001). Oportunistlike seenpatogeenide esinemine intensiivhematoloogia ja luuüdi siirdamise osakonnas. Eesti Arst, 80 (9), 399.
5.2.
2001
Ruubas, I.; Järv, H.; Kõljalg, S.; Adamson, V.; Maimets, M.; Naaber, P. (2001). Vaginaalse kandidoosi raviks kasutatavate antifungaalsete preparaatide tundlikkuse määramine diskdifusiooni meetodiga. Eesti Arst, 80 (9), 416.
1.1.
2000
Naaber, P.; Koljalg, S.; Maimets, M. (2000). Antibiotic usage and resistance - trends in Estonian University Hospitals. International Journal of Antimicrobial Agents, 16 (3), 309−315.
1.1.
2000
Naaber, P.; Tamm, E.; Putsepp, A.; Koljalg, S.; Maimets, M. (2000). Nasopharyngeal carriage and antibacterial susceptibility of Streptococcus pneumoniae, Haemophilus influenzae and Moraxella catarrhalis in Estonian children. Clinical Microbiology and Infection, 6 (12), 675−677.
1.3.
2000
Kõljalg, S.; Karki, T.; Olsson-Liljequist, B. (2000). Metsitsilliin-resistentse Staphylococcus aureus'e esinemissagedus Eestis. Eesti Arst, 79 (8), 466−470.
1.1.
1999
Koljalc, S.; Sults, I.; Raukas, E.; Truu, J.; Ustav, M.; Mikelsaar, M. (1999). Distribution of Acinetobacter baumannii in a neurointensive care unit. Scandinavian Journal of Infectious Diseases, 31 (2), 145−150.
2.3.
1999
Kõljalg, Siiri (1999). Acinetobacter - an important nosocomial pathogen. (Doktoritöö). Tartu Ülikooli Kirjastus.
5.2.
1999
Sepp, Epp; Naaber, Paul; Lõivukene, Krista; Kõljalg, Siiri; Voor, Tiia; Björkstén, Bengt; Mikelsaar, Marika (1999). Eesti laste sooletrakti mikrofloora kujunemine esimesel eluaastal. Arstiteaduskonna aastakonverents, 7. oktoober 1999 : teesid, 110−111.
1.1.
1997
Turi, M.; Turi, E.; Koljalg, S.; Mikelsaar, M. (1997). Influence of aqueous extracts of medicinal plants on surface hydrophobicity of Escherichia coli strains of different origin. APMIS, 105 (12), 956−962.
1.3.
1997
Sepp, E.; Lõivukene, K.; Naaber, P.; Kermes, K.; Kõljalg, S.; Julge, K.; Vasar, M.; Björksten, B.; Mikelsaar, M. (1997). Tervete ja allergiliste laste mikrofloora erinevused. Eesti Rohuteadlane, Lisa, 62−63.
1.1.
1996
Koljalg, S.; VuopioVarkila, J.; Lyytikainen, O.; Mikelsaar, M.; Wadstrom, T. (1996). Cell surface properties of Acinetobacter baumannii. APMIS, 104 (9), 659−665.
1.3.
1996
Kõljalg, S.; Kermes, K.; Lõivukene, K.; Naaber, P.; Mikelsaar, M. (1996). Kirurgilisi infektsioone tekitavad mikroorganismid ja nende antibiootikumtundlikkus. Eesti Arst, lisa, 39−40.

Tööstusomand

24.05.2022

Siiri Kõljalg

https://www.etis.ee/CV/Siiri_Kõljalg/eng
737 4178
siiri.koljalg@ut.ee

Career

Institutions and positions
01.12.2017–30.04.2022   
University of Tartu, Faculty of Medicine, Institute of Biomedicine and Translational Medicine, Research Fellow in Medical Microbiology (0,50)

Qualifications

Academic degrees
Siiri Kõljalg, Doctor's Degree, 1999, (sup) Marika Mikelsaar, Acinetobacter - an important nosocomial pathogen, University of Tartu, Faculty of Medicine, Department of Microbiology.
 
 
Fields of research
ETIS RESEARCH FIELD: 3. Health; 3.11. Biochemistry, Genetics, Microbiology, Biotechnology, Molecular Biology, Cell Biology, Biophysics and Bioinformatics relating to Health Studies
 
 
Additional information
Doctor of Medical Sciences
University of Tartu 1999

Completed projects

Supervised dissertations

Publications

Category
Year
Publication
 
1.1.
2022
Sepp, Epp; Smidt, Imbi; Rööp, Tiiu; Štšepetova, Jelena; Kõljalg, Siiri; Mikelsaar, Marika; Soidla, Indrek; Ainsaar, Mare; Kolk, Helgi; Vallas, Mirjam; Jaagura, Madis; Mändar, Reet. (2022). Comparative analysis of gut microbiota in centenarians and young people: impact of eating habits and childhood living environment. Frontiers in Cellular and Infection Microbiology, x.
1.1.
2022
Nguyen, Anh Thi Chau; Le Nguyen, Na Thi; Hoang, Thu Thi Anh; Nguyen, Tuyen Thi; Tran, Trang Thi Quynh; Tran, Dan Nu Tam; Nguyen, Anh Thi Kim; Tran, Linh Manh; Nguyen, Duc Huu Chau; Le, Tam Minh; Ho, Binh Duy; Rööp, Tiiu; Kõljalg, Siiri; Štšepetova, Jelena; Van Le, An; Salumets, Andres; Mändar, Reet (2022). Aerobic vaginitis in the third trimester and its impact on pregnancy outcomes. BMC Pregnancy and Childbirth, 22 (1), 432. DOI: 10.1186/s12884-022-04761-5.
2.4.
2022
Merits, Andres; Abroi, Aare; Kurg, Reet; Žusinaite, Eva; Truve, Erkki; Sarmiento, Cecilia; Sõmera, Merike; Saar, Tiiu; Viltrop, Arvo; Lutsar, Irja; Avi, Radko; Karki, Tõnis; Huik, Kristi; Kõljalg, Siiri; Brilene, Tatjana; Roots, Irja;Inno, Heleri (2022). Üldine ja Meditsiiniline viroloogia. Tartu: Tartu Ülikooli kirjastus [forthcoming].
1.1.
2021
Kõljalg, S.; Vaikjärv, R.; Smidt, I.; Rööp, T.; Chakrabarti, A.; Kasenõmm, P.; Mändar, R. (2021). Effect of erythritol and xylitol on Streptococcus pyogenes causing peritonsillar abscesses. Scientific Reports, 11 (1). DOI: 10.1038/s41598-021-95367-y.
1.1.
2021
Cook, Aislinn; Sharland, Mike; Yau, Yasmine; Bielicki, Julia, PediBSI Group: Keith Grimwood, Jack Cross, Kaman Cheung, Deena Parbhoo, Cristiane Henriques Teixeira, Eitan Naaman Berezin, Cely Barreto da Silva, Izabel Ales Leal, Cristina Vieira Souza, Cristina Gardonyi Carvalheiro, Cleonice Barbosa Sandoval de Souza, Paul Turner, Thyl Miliya, Lijuan Wu, Ping Jin, Jikui Deng, Hongmei Wang, Jinxing Feng, Yunsheng Chen, Marika Jürna, Irja Lutsar, Siiri Kõljalg, Vesa Kirjavainen, Satu Kekomäki, Saffiatou Darboe, Uduak Adiakot Okomo, André Ricardo Araujo da Silva, Johannes Hübner, Martin Christner, Ulf Schulze-Sturm, Markus Hufnagel, Benjamin Bluemel, Dimitra Dimopoulou, Vassiliki Papaevangelou, Despoina Gkentzi, Fevronia Kolonitsiou, Sofia Maraki, Eleni Vergadi, Sanjeev Singh, Anu George, Dhanya Dharmapalan, Rajesh Rai, Keertana Shetty, Vijay Yewale, Ranganathan N Iyer, Gerardo Alvarez-Uria, Dasaratha R Jinka, Liat Ashkenazi- Hoffnung, Haim Ben-Zvi, Maia de Luca, Paola Bernaschi, Paola Pansa, Sonia Bianchini, Susanna Esposito, Yuho Horikoshi, Hiroshi Higuchi, Maria del Carmen Castellanos-Cruz, Lilia Pichardo-Villalon, Ewelina Gowin, Regina Pirumova, Si Min Chan, Kean Lee Chew, Trusha Nana, Rose Bandini, Angela Dramowski, Andrew Whitelaw, Angela Manzanares, María Ángela Orellana, Federico Martinon-Torres, Ana Isabel Dacosta Urbieta, Linus Olson, Mattias Larsson, Kanchana Preedisripipat, Tim R. Cressey, Suvaporn Anugulruengkitt, Tanittha Chatsuwan, Sorasak Lochindarat, Sutawan Mutitanon, Willy Ssengooba, Hannington B Tasimwa, Philippa Musoke, Fiona Shaw, Andrew Riordan, Katy Fidler, William Schilling, James Hatcher, Alasdair Bamford, Paddy McMaster, Christian Harkensee, Jonathan Moore, Lynne Speirs, Paul Moriarty, Emily Chesshyre, Cressida Auckland, Avni Hindocha, Philip Ashcroft, Sarah Thompson, Sanjay Patel, Dave Browning, Dien Tran Minh, Ngoc Hoang Thi Bich (2021). Improving empiric antibiotic prescribing in pediatric bloodstream infections: a potential application of weighted-incidence syndromic combination antibiograms (WISCA). Expert Review of Anti-infective Therapy, 1−12. DOI: 10.1080/14787210.2021.1967145.
1.3.
2021
Krista Lõivukene, Siiri Kõljalg, Kadri Kermes, Epp Sepp, Paul Naaber (2021). Anaeroobsete bakterite spekter ja antibiootikumitundlikkus 2016. ja 2020. aastal TÜ Kliinikumi ühendlabori kliinilise mikrobioloogia osakonna andmetel. Eesti Arst, 100 (11), 605−614.
1.1.
2020
Kõljalg, Siiri; Smidt, Imbi; Chakrabarti, Anirikh; Bosscher, Douwina; Mändar, Reet (2020). Exploration of singular and synergistic effect of xylitol and erythritol on causative agents of dental caries. Scientific Reports, 10 (1), 6297. DOI: 10.1038/s41598-020-63153-x.
1.3.
2020
Ainsaar, M.; Soidla, I.; Sepp, E.; Kõljalg, S.; Štšepetova,J.; Rööp, T.; Smidt, I.; Mikelsaar, M.; Mändar, R. (2020). Kelle poole pöördub abi saamiseks Eesti 100-aastane? [To whom 100-year-olds will turn for help in Estonia?]. Sotsiaaltöö, 3.
1.1.
2019
Bilozor, Anastasia; Balode, Arta; Chakhunashvili, Giorgi; Chumachenko, Tetyana; Egorova, Svetlana; Ivanova, Marina; Kaftyreva, Liidia; Kõljalg, Siiri; Kõressaar, Triinu; Lysenko, Olga; Miciuleviciene, Jolanta; Mändar, Reet; Lis, Danuta O.; Wesolowska, Monika Pomorska; Ratnik, Kaspar; Remm, Maido; Rudzko, Jelena; Rööp, Tiiu; Saule, Mara; Sepp, Epp ... Naaber, Paul (2019). Application of Molecular Methods for Carbapenemase Detection. Frontiers in Microbiology, 10, ARTN 1755. DOI: 10.3389/fmicb.2019.01755.
1.1.
2019
Sepp, Epp; Andreson, Reidar; Balode, Arta; Bilozor, Anastasia; Brauer, Age; Egorova, Svetlana; Huik, Kristi; Ivanova, Marina; Kaftyreva, Lidia; Kõljalg, Siiri; Koressaar, Triinu; Makarova, Maria; Miciuleviciene, Jolanta; Pai, Kristiine; Remm, Maido; Rööp, Tiiu; Naaber, Paul (2019). Phenotypic and Molecular Epidemiology of ESBL-, AmpC-, and Carbapenemase-Producing Escherichia coli in Northern and Eastern Europe. Frontiers in Microbiology, 10, ARTN 2465. DOI: 10.3389/fmicb.2019.02465.
5.2.
2018
Naaber, Paul; Rudzko, Jelena; Pavelkovich, Anastasia; Ivanova, Marina; Sepp, Epp; Ratnik, Kaspar; Kõljalg, Siiri; Rööp, Tiiu; Remm, Maido; Kaftyreva, Liidia; Egorova, Svetlana; Miciuleviciene, Jolanta; Balode, Arta; Saule, Marta; Tsereteli, David; Chakhunashvili, Giorgi; Titiv, Leonid; Shyshporonok, Julia; Lysenko, Olga; Chumachenko, Tatyana ... Wesolowska, Monika (2018). Comparison of Coris rapid test with other methods for carbapenemases detectiotion in Klebsiella pneumoniae. In: (60). 35h annual meeting NSCMID, Reykjavik 19-22 august. Reykjavik, Island.
5.2.
2018
Sepp, Epp; Smidt, Imbi; Štšepetova, Jelena; Mändar, Reet;Kõljalg, Siiri; Truusalu, Kai; Rööp, Tiiu; Mikelsaar, Marika (2018). Laboratoorne teadustöö probiootikute ja sünbiootikute loomiseks. Eesti Arst (68−68). Eesti Arst. (2).
1.1.
2017
Ahonen, M.; Kahru, A.; Ivask, A.; Kasemets, K.; Kõljalg,S.; Mantecca, P.; Vinković Vrček, I.; Keinänen-Toivola, M.; Crijns, F. (2017). Proactive Approach for Safe Use of Antimicrobial Coatings in Healthcare Settings: Opinion of the COST Action Network AMiCI. International Journal of Environmental Research and Public Health, 14 (4), 366. DOI: 10.3390/ijerph14040366.
1.1.
2017
Roosaare, Märt; Vaher, Mihkel; Kaplinski, Lauris; Möls, Märt; Andreson, Reidar; Lepamets, Maarja; Kõressaar, Triinu; Naaber, Paul; Kõljalg, Siiri; Remm, Maido (2017). StrainSeeker: fast identification of bacterial strains from raw sequencing reads using user-provided guide trees. PeerJ, 5, ARTN e3353−e3353. DOI: 10.7717/peerj.3353.
1.1.
2017
Rätsep M.; Kõljalg S.; Sepp E.; Smidt I.; Truusalu K.; Songisepp E.; Stsepetova J.; Naaber P.; Mikelsaar R.H.; Mikelsaar M. (2017). A combination of the probiotic and prebiotic product can prevent the germination of Clostridium difficile spores and infection. Anaerobe, 47, 94−103. DOI: 10.1016/j.anaerobe.2017.03.019.
1.1.
2017
Kõljalg, Siiri; Mändar, Rando; Sõber, Tiina; Rööp, Tiiu; Mändar, Reet (2017). High level bacterial contamination of secondary school students' mobile phones. GERMS, 7, 73−77. DOI: 10.18683/germs.2017.1111.
2.4.
2017
Lutsar, Irja; Mändar, Reet; Mikelsaar, Marika; Karki, Tõnis; Brilene, Tatjana; Kõljalg, Siiri; Meriste, Sirli; Sepp, Epp; Avi, Radko; Truusalu, Kai; Parm, Ülle (2017). Meditsiiniline Mikrobioloogia. Üldmikrobioloogia [Medical Microbiology]. Tartu: TÜ kirjastus.
1.1.
2016
Mändar, Karsten; Sõber, Tiina; Kõljalg, Siiri; Rööp, Tiiu; Mändar, Reet; Sepp, Epp. (2016). Microbiological contamination of the euro currency in Estonia. Infectious Diseases, 48 (10), 772−774. DOI: 10.1080/23744235.2016.1201725.
1.1.
2016
Bielicki, J.A., Sharland, M., Johnson, A.P., Henderson, K.L., Cromwell, D.A. , Berger, C., Esposito, S., Danieli, E., Tenconi, R., Folgori, L., Bernaschi, P., Santiago, B., Saavedra, J., Cercenado, E., Brett, A., Rodrigues, F., Cizman, M., Jazbec, J., Babnik, J., Pavčnik, M., Pirš, M., Mueller Premrov, M., Lindner, M., Borte, M., Lippmann, N., Schuster, V., Thürmer, A., Lander, F., Elias, J., Liese, J., Durst, A., Weichert, S., Schneider, C., Hufnagel, M., Rack, A., Hübner, J., Dubos, F., Lagree, M., Dessein, R., Tissieres, P., Cuzon, G., Gajdos, V., Doucet-Populaire, F., Usonis, V., Gurksniene, V., Bernatoniene, G., Tsolia, M., Spyridis, N., Lebessi, E., Doudoulakakis, A., Lutsar, I., Kõljalg, S., Schülin, T., Warris, A. (2016). Selecting appropriate empirical antibiotic regimens for paediatric bloodstream infections: Application of a Bayesian decision model to local and pooled antimicroabial resistance surveillance data. Journal of Antimicrobial Chemotherapy, 71 (3), 794−802. DOI: 10.1093/jac/dkv397.
5.2.
2016
Pavelkovich, A.; Ivanova, M.; Kõljalg, S.; Naaber, P.; Pai, K.; Sepp, E.; BEEp research team (2016). Epidemiology of AB resistant gram-negative bacteria in the Baltic Sea region. Eesti Arst, 95 (Supplement1): XIII Baltic Congress in Laboratory Medicine; Tartu, Estonia; May 12-14 2016. OÜ Celsius Healthcare, 39.
1.1.
2015
Koljalg, Siiri; Telling, Kaidi; Huik, Kristi; Murruste, Marko; Saarevet, Virve; Pauskar, Merit; Lutsar, Irja (2015). First report of Wohlfahrtiimonas chitiniclastica from soft tissue and bone infection at an unusually high northern latitude. Folia Microbiologica, 60 (2), 155−158. DOI: 10.1007/s12223-014-0355-x.
5.2.
2015
Naaber, Paul; Balode, Arta; Egorova, Svetlana; Huik, Kristi; Ivanova, Marina; Kaftyreva, Lidia; Kõljalg, Siiri; Kõressaar, Triinu; Lillo, Jana; Löhr, Iren; Miciuleviciene, Jolanta; Pai, Kristiine; Pavelkovich, Anastassia; Remm, Maido; Sepp, Epp (2015). The epidemiology of CTX-M group genes among clinical Escherichia coli strains in Estonia, Latvia, Lithuania, Norway and Russia.
5.2.
2015
Truusalu, Kai; Vainumäe, Inga; Stsepetova, Jelena; Smidt, Imbi; Sepp, Epp; Mikelsaar, Marika; Kõljalg, Siiri (2015). The impact of the initial antibiotic treatment to subsequent recurrences in childhood urinary tract infection caused by Escherichia coli: beta-lactams vs gentamicin. In: . ECCMID 2015 Copenhagen, Denmark, 25-28 April 2015. ECCMID 2015 Copenhagen, Denmark, 25-28 April 2015.
1.1.
2014
Lillo, Jana; Pai, Kristiine; Bolde, Arta; Makarova, Mariia; Huik, Kristi; Kõljalg, Siiri; Ivanova, Marina; Kaftyreva, Lidia; Miciuleviciene, Jolanata; Naaber, Paul; Parv, Kristel; Pavelkovich, Anastasia; Rööp, Tiiu; Toompere, Karolin; Suzhaeva, Ludmila; Sepp, Epp (2014). Differences in extended-spectrum beta-lactamase producing Escherichia coli virulence factor genes in the Baltic Sea region. BioMed Research International, 427254, 1−7. DOI: 10.1155/2014/427254.
1.1.
2014
Pavelkovich, Anastasia; Balode, Arta; Edquist, Petra; Egorova, Svetlana; Ivanova, Marina; Kaftyreva, Lidia; Konovalenko, Irina; Kõljalg, Siiri; Lillo, Jana; Lipskaya, Lidia; Miciuleviciene, Jolanta; Pai, Kristiine; Parv, Kristel; Pärna, Katri; Rööp, Tiiu; Sepp, Epp; Štšepetova, Jelena; Naaber, Paul (2014). Detection of Carbapenemase-Producing Enterobacteriaceae in the Baltic Countries and St. Petersburg Area. BioMed Research International, 2014, Article 548960. DOI: 10.1155/2014/548960.
1.1.
2014
Kõljalg, Siiri; Truusalu, Kai; Štšepetova, Jelena; Pai, Kristiine; Vainumäe, Inga; Sepp, Epp; Mikelsaar, Marika (2014). The Escherichia coli phylogenetic group B2 with integrons prevails in childhood recurrent urinary tract infections. APMIS, 122 (5), 452−458. DOI: 10.1111/apm.12167.
1.2.
2014
Rätsep, Merle; Naaber, Paul; Kõljalg, Siiri; Shkut, Elena; Sepp, Epp (2014). Effect of Lactobacillus Strain on Clinical Isoletes of Clostridium difficile in vitro. Journal of Probiotics and Health, 2, 1−5. DOI: 10.4172/2329-8901.1000119.
5.1.
2014
Truusalu, K; Smidt, I; Hütt, P; Stsepetova, J; Vainumäe, I; Sepp, E; Mikelsaar, M; Kõljalg, S. (2014). Comparison of phylogenetic groups, antibacterial resistance and integron containment of Escherichia coli from initial episode of childhood urinary tract infections with different outcomes. 24th European Congress of Clinical Microbiology and Infectious Diseases in Barcelona, Spain, 10 – 13 May 2014.. x, x.
5.2.
2014
Pärna, K.; Balode, A.; Edquist, A.; Egorova, P.; Kaftyreva, S.; Miciuleviciene, L.; Ivanova, M.; Kõljalg, S.; Pai, K.; Pavelkovich, A.; Rööp, T.; Sepp, E.; Naaber, P.; Stsepetova, J. (2014). Detection of class 1, 2 and 3 integrons among extended-spectrum beta-lactamase-producing Klebsiella pneumoniae isolated from Baltic sea region. European Congress of Cilinical Microbiology and Infestious Diseases, Barcelona, Spain, 10-13 May 2014. x, x.
5.2.
2014
Pai, K.; Huik, K.; Ivanova, M.; Kõljalg, S.; Pavelkovich, K.; Parv, K.; Rööp, T.; Sepp, E.; Naaber, P. (2014). Detection and molecular characterisation of extended-spectrum beta-lactamase-producing Escherichia coli sequence type ST131 from the Baltic region. European Congress of Clinical Microbiology and Infectious Diseases, Barcelona, Spain, 10-13 May 2014.
1.1.
2013
Brilene, T.; Soeorg, H.; Kiis, M.; Sepp, E.; Kõljalg, S.; Lõivukene, K.; Jürna-Ellam, M.; Kalinina, J.; Stšepetova, J.; Metsvaht, T.; Lutsar, I. (2013). In vitro synergy of oxacillin and gentamicin against coagulase-negative staphylococci from blood cultures of neonates with late-onset sepsis. APMIS, 121 (9), 859−864. DOI: 10.1111/apm.12048.
1.3.
2013
Егорова, СА; Кафтыреща, ЛА; Липская, ЛВ; Коноваленко, ИБ; Пясетская, МФ; Курчикова, ТС; Ведерникова, НБ; Морозова, ОТ; Смирнова, МБ; Попенко, ЛН; Любушкина, МИ; Савочкина, ЮА; Макарова, МА; Сужаева, ЛВ; Останкова, ЮВ; Иванова, МН; Павелкович, АМ; Наабер, П; Сепп, Э; Кыльялг, С ... Балоде, А. (2013). Штаммы энтеробактерий, продуцирующие бета-лактамазы пасширенного спектра и металло-В-лактамазу НДМ-1, выделенные в стационарах в странах Балтийского региона. Инфекция и иммунитет, 3 (1), 29−36.
5.2.
2013
Lillo, J; Balode, A; Egorova, S; Huik, K; Ivanova, M; Kaftyreva, L; Makarova, M; Miciuleviciene, J; Naaber, P; Pai, K; Parv, K; Pavelkovich, A; Rööp, T; Sepp, E. (2013). Differences in virulence factors of Escherichia coli isolated from the Baltic Sea region. 23 nd European Congress ofClinical Microbiology and Infectious Diseases; Berlin; 27-30 April 2013.
5.2.
2013
Naaber, P; Balode, A; Djundika, T; Egorova, S; Huik, K; Kaftyreva, L; Kamõnina, N; Kirs, K; Kõljalg, S; Konovalenko, I; Kurchikova, T; Lillo, J; Lipskaya, L; Lõivukene, L; Makarova, M; Makstutis, G; Miciuleviciene, J; Morozova, O; Pai, K; Parv, K ... Ivanova, M (2013). Epidemiology of extended-spectrum beta-lactamases-producing Escherichia coli and Klebsiella pneumoniae in the Baltic Sea region. 23 nd European Congress ofClinical Microbiology and Infectious Diseases; Berlin; 27-30 April 2013.
5.2.
2013
Pai, K; Balode, B; Egorova, S; Huik, K; Ivanova, M; Kaftyreva, L; Kõljalg, S; Lillo, J; Miciuleviciene, J; Naaber, P; Parv, K; Pavelkovich, A; Rööp, T; Sepp, E. (2013). The molecular epidemiology of extended-spectrum beta-lactamases-producing Escherichia coli and Klebsiella pneumoniae in the Baltic Sea region. 23 nd European Congress ofClinical Microbiology and Infectious Diseases; Berlin; 27-30 April 2013.
5.2.
2013
Rätsep, Merle; Naaber, Paul; Kõljalg, Siiri; Smidt, Imbi; Shkut, Leena; Sepp, Epp (2013). Antagonistic activity of culture supernatant of lactobacilli against the growth of Clostridium difficile in vitro. ClostPath 2013 Meeting; Palm Cove, Australia; 22.-26. October 2013.
5.2.
2013
Pavelkovich, A; Balode, A; Edquist, P; Egorova, S; Ivanova, M; Kaftyreva, L; Kõljalg, S; Lillo, J; Lipskaya, L; Miciuleviciene, J; Pai, K; Sepp, E; Sparbier, K; Naaber, P (2013). Detection of carbapenem-non-susceptible Escherichia coli and Klebsiella pneumoniae in the Baltic Sea region. 23nd European Congress ofClinical Microbiology and Infectious Diseases; Berlin; 27-30 April 2013..
1.1.
2012
Songisepp, E.; Hütt, P.; Rätsep, M.; Shkut, E.; Kõljalg, S.; Truusalu, K.; Stsepetova, J.; Smidt, I.; Kolk, H.; Zagura, M.; Mikelsaar, M. (2012). Safety of probiotic cheese containing Lactobacillus plantarum Tensia according to a variety of health indices in different age groups. Journal of Dairy Science, 95 (10), 5495−5509. DOI: 10.3168/jds.2011-4756.
5.2.
2012
Kõljalg, S.; Truusalu, K.; Stsepetova, J.; Pai, K.; Vainumäe, I.; Hütt, P.; Smidt, I.; Mändar, R.; Sepp, E.; Mikelsaar, M. (2012). The role of phylogenetic groups of Escherichia coli in childhood recurrent urinary tract infections. 22nd European Congress ofClinical Microbiology and Infectious Diseases, London, United Kingdom, 31 March – 3 April 2012.
5.2.
2012
Naaber, P.; Sepp, E.; Pai, K.; LilĮo, J.; Pavelkovich, A.; Stsepetova, J .; Ivanova, M.; Lõįvukene, K.; Kõljalg, S. (2012). Molecular Epidemiology of Extended Spectrum Beta-Lactamases (ESBLs) in Estonia. BIT's 2nd Annual World Congress of Microbes-2012(WCM-2012), Guangzhou, China, July 30-August 1, 2012.
5.2.
2012
Kõljalg, S.; Naaber, P.; Rätsep, M.; Smidt, I.; Shkut, J.; Jaanimäe, L.; Löhr, L.H; ,Stsepetova, J.; Mändar, R.; Sepp, E. (2012). Population dynamics and sporulation of quinolone resistant and sensitive Clostridium difficile strains in different environmental conditions. 4th International Clostridium difficile Symposium; Bled, Slovenia, September 20-22, 2012.
1.1.
2011
Sepp, Epp; Stšepetova, Jelena; Smidt, Imbi; Rätsep, Merle; Kõljalg, Siiri; Lõivukene, Krista; Mändar, Reet; Jaanimäe, Liis; Löhr, IH; Natås, OB; Naaber, Paul (2011). Intestinal lactoflora in Estonian and Norwegian patients with antibiotic associated diarrhea. Anaerobe, 17, 407−409.
1.1.
2011
Naaber, Paul; Stsepetova, Jelena; Smidt, Imbi; Rätsep, Merle; Kõljalg, Siiri; Lõivukene, Krista; Jaanimäe, Liis; Löhr, Iren; Natås, Olav; Truusalu, Kai; Sepp, Epp (2011). Quantification of Clostridium difficile in Antibiotic-Associated Diarrhea Patients. Journal of Clinical Microbiology, 49 (10), 3656−3658. DOI: 10.1128/JCM.05115-11.
5.2.
2011
Tiina, Drell; Jelena, Stsepetova; Irja, Lutsar; Tuuli, Metsvaht; Ülle, Parm; Kaja, Julge; Mari-Liis, Ilmoja; Maie, Jürisson; Siiri, Kõljalg; Paul, Naaber; Epp, Sepp (2011). Application of quantitative Real-time PCR for investigation on intestinal microbiota in pre-and full-term infants. 2nd ASMET-The ASM Emerging Technologies Conference: ASMET Conferences; San Juan, Pueto Rico; March 8-11, 2011. , 45−46.
5.2.
2011
Naaber, Paul; Jelena , Stsepetova; Imbi, Smidt; Elena, Shkut; Merele, Rätsep; Siiri, Kõljalg; krista, Lõivukene; Reet, Mändar; Iren, Löhr; Olav, Natas; Epp, Sepp (2011). Application of molecular methods for invetigation og intestinallactoflora and Clostridium difficile in antibiotic-associated diarrhea patients. 2nd ASMET-The ASM Emerging Technologies Conference: ASMET Conferences; San Juan, Pueto Rico; March 8-11, 2011. USA, 41−42.
5.2.
2011
Kõljalg, S.; Stsepetova, J.; Smidt, I., Löhr, I; Truusalu, K.; Naaber, P.; Sepp, E. (2011). Antibiotic susceptibility, class I integrons and sporulation activity of Clostridium difficile strains from antibiotic-associated diarrhoea patients in two different years in Estonia and Norway. 21th ECCMID Milano, Italy 7-10 May 2011.
5.2.
2011
Naaber, P.; Smidt, I.; Rätsep, M.; Kõljalg, S.; Shkut, E.; Sepp, E. (2011). Strain-specific susceptibility of Clostridium difficile to inhibitory activity of Lactobacillus plantarum in vitro. 7th International Conference on the Molecular Biology and Pathogenesis of the Clostridia, 2011 Ames, Iowa USA.
5.2.
2011
Kõljalg, S.; Rätsep, M.; Stsepetova, J.; Smidt, I.; Shkut, E.; Naaber, P.; Sepp, E. (2011). Sporulation level of Clostridium difficile integron positive and negative strains in the presence of lactobacilli. 7th International Conference on the Molecular Biology and Pathogenesis of the Clostridia, 2011 Ames, Iowa USA.
5.2.
2011
Songisepp, Epp; Hütt, Pirje; Rätsep, Merle; Shkut, Elena; Zilmer, Mihkel; Kõljalg, Siiri; Truusalu, Kai; Smidt, Imbi; i Kolk, Helg; Zagura, Maksim; Mikelsaar, Marika (2011). Safety of a probiotic cheese comprising L. plantarum TENSIA according variety of health indices in different age groups. 6th Probiotics Prebiotics New Foods. , 48.
1.3.
2010
Lõivukene, Krista; Adamson, Vivika; Mitt, Piret; Kõljalg, Siiri; Sepp, Epp; Ivanova, Marina; Jürna-Ellam, Marika; Kirs, Kaisa; Nurk, Allan; Rõõm, Aino; Truusalu, Kai; Naaber, Paul (2010). Metitsilliiniresistentse Staphylococcus aureus’e osakaal, esmasavaldumus ja antibiootikumiresistentsus Eestis. Eesti Arst, 89 (10), 630−636.
5.1.
2010
Naaber, Paul; Stsepetova, Jelena; Smidt, Imbi; Shkut, Elena; Rätsep, Merele; Kõljalg, Siiri; Lõivukene, Krista; Mänadar, Reet; Löhr, Irene; Natas, Borg; Sepp, Epp (2010). Intestinal Lactroflora in Patients with Antibiotic Associated Diarrhea (AAD). XXXIII Inernational Congress on Microbial Ecology and Diseases, Greece 6-10 September 2010. Greece, 22.
5.2.
2010
Smidt, I.; Sepp, E.; Rätsep, M.; Kõljalg, S.; Lõivukene, K.; Löhr, I.; Natas, O.; Mändar, R.; Naaber, P. (2010). Quantitative evaluation of Clostridium difficile and intestinal lactobacilli in patients with associated diarrhoea. Clinical Microbiology and Infection, 16: 20th European Congress of Clinical Microbiology and Infectious Diseases, Vienna, Austria 10-13 april 2010. , S575. (2).
5.2.
2010
Naaber, P.; Truusalu, K.; Smidt, I.; Kõljalg, S.; Sepp, E.; Hütt, P.; Mändar, R.; Mikelsaar, M. (2010). Protective effect of xylitol and lactobacilli against Clostridium difficile infection in hamster model. Clinical Microbiology and Infection, 16 : 20th ECCMID, Vienna, Austria 10-13 April 2010. (2).
5.2.
2010
Arbo, Triin; Arbonen, Anne; Sepp, Epp; Stsepetova, Jelena; Kõljalg, Siiri; Lõivukene, Krista (2010). Eestist isoleeritud metitsilliinresistentse Staphylococcus aureus'e feno-ja genotüübilise diagnostika võrdlus. Eest Arst, 9: TÜ Arstiteaduskonna aastapäev 2010. , 605.
5.2.
2010
Naaber, Paul; Stsepetova, Jelena; Smidt, Imbi; Shkut, Elena; Rätsep, Merle; Kõljalg, Siiri; Lõivukene, Krista; Mändar, Reet; Löhr, Irene; Natas, Borg; Sepp, Epp (2010). Intestinal Lactroflora in Patients with Antibiotic Associated Diarrhea (AAD). XXXIII International Congress of the Society for Microbial Ecology in Health and Disease; Greece; September 6-10, 2010. , 22.
1.1.
2009
Sepp, E.; Stsepetova, J.; Lõivukene, K.; Truusalu, K.; Kõljalg, S.; Naaber, P.; Mikelsaar, M. (2009). The occurrence of antimicrobial resistance and class 1 integrons among commensal Escherichia coli isolates from infants and elderly persons. Annals of Clinical Microbiology and Antimicrobials, 8 (34), 1−6.
1.1.
2009
Kõljalg, S.; Truusalu, K.; Vainumäe, I.; Štšepetova, J.; Sepp, E.; Mikelsaar, M. (2009). Persistence of Escherichia coli clones and phenotypic and genotypic antibiotic resistance in recurrent tract infections in childhood. Journal of Clinical Microbiology, 47 (1), 99−105. DOI: 10.1128/JCM.01419-08.
3.4.
2009
Songisepp, E.; Zilmer, M.; Hütt, P., Rätsep, M.; Utt, M.; Üksti, J.; Kõljalg, S.; Zilmer, K.; Mikelsaar, M. (2009). Lactobacillus plantarum TENSIA™ (DSM 21380) as a novel probiotic. Гастроэнтерология Санкт-Петербурга, 4. , A25.
5.2.
2009
Lõivukene, K; Adamson, V; Ivanova, M; Jürna-Ellam, M; Kirs, K; Kõljalg, S; Mitt, P; Nurk, A; Rõõm, A; Sepp, E;i Truusalu, K; Naaber, P. (2009). Incidence and antimicrobial susceptibility pattern of methicillin-resistant Staphylococcus aureus isolates in Estonia.
5.2.
2009
Sepp, E.; Kõjalg, S.; Stsepetova, J., Smidt, I.; Rätsep, M.; Jaanimäe, L.; Naaber, P. (2009). Quantitative evaluation of lactobacilli and Clostridium difficile in faeces of patients with antibiotic associated diarrhoea and antibiotic resistance isolated strains. Fostering Cross-disciplinary Applied Research in Microbiology and Microbial Biotechnology: III International Conference on Environmental, Industrial and Applied Microbiology, BioMicroWorld 2009; Lisboa, Portugal; 2.-4.12.2009. , 543.
5.2.
2009
Löhr, I.; Jaanimäe, L.; Kindingstad, L.; Kõljalg, S.; Natas, O.; Sepp, E.; Smidt, I.; Štšepetova, J.; Wornaes, J.; Naaber, P. (2009). Clostridium difficile resistance and ribitypes in Norway and Estonia. Clostridia: The Impact of Genomics on Disease Control: 6th ClostPath International Conference; Rome, Italy; 19.-23.10.2009. , 75.
5.2.
2009
Jaanimäe, L.; Sepp, E.; Štšepetova, J.; Kõljalg, S.; Mikelsaar, M. (2009). Eesti nosokomiaalse Clostridium difficile tundlikkus antibiootikumidele. Eesti Arst, 9. , 583.
5.2.
2009
Arbonen, A.; Arbo, T.; Sepp, E.; Kõljalg, S.; Štšepetova, J. (2009). Eestist isoleeritud metitsilliiniresistentse Staphylococcus aureus'e tundlikkus dekolonisatsiooniks kasutatavate preparaatide suhtes. Eesti Arst, 9. , 603.
6.7.
2009
Songisepp, E.; Mikelsaar, M.; Rätsep, M.; Zilmer, M.; Zilmer , K.; Üksti, J.; Kõljalg, S. (2009). Isoleeritud mikroorganismi tüvi Lactobacillus plantarum Tensia DSM 21380 kui antimikroobne ja antihüpertensiivne probiotik, toiduprodukt ja Komposition mis sisaldab vastavat mikroorganismi ja selle mikroorganismi kasutus antihüpertensiivse ravimi valmistamiseks ja meetod patogeenide ja mitte-starter laktobatsillide allasurumiseks toiduproduktis. Espacenet, x−x.
1.3.
2008
Lõivukene, K.; Pähkla, E-R.; Koppel, T.; Kõljalg, S.; Kermes, K.; Allik, M.; Juhani, A.; Saag, M.; Adamson, V.; Mitt, P.; Sepp, E.; Truusalu, K.; Naaber, P. (2008). TÜ Kliinikumi ühendlaboris isoleeritud anaeroobide spekter ja ravimitundlikkus [The spectrum and antibiotic susceptibility of anaerobic bacteria isolated in Tartu University Hospital]. Eesti Arst, 87 (11), 834−840.
5.2.
2008
Lõivukene, Krista; Kõljalg, Siiri; Kermes, Kadri; Allik, Merle; Juhani, Anneli; Adamson, Vivika; Telling, Kaidi; Ivanova, Marina; Naaber, Paul (2008). Fenotüübiliselt samastamiselt genotüübilisele: Mycobacterium fortuitum´i juhtum. Eesti Arst, 87: Arstiteaduskonna Teaduskonverents, Tartu 09.10 - 10.10.2008. OÜ Celsius Healthcare, 678. (9).
5.2.
2008
Truusalu, K.; Kõljalg, S.; Stsepetova, J.; Drell, T.; Vainumäe, I.; Sepp, E.; Mikelsaar, M. (2008). Persistence of Escherichia coli clones and resistance genes in recurrent urinary tract infections in children. 18th ECCMID; Barcelona; 20-24.04.2008. Hispaania, Barcelona.
5.2.
2008
Songisepp, E.; Mikelsaar, M.; Zilmer, M.; Hütt, P.; Smidt, I.; Stsepetova, J.; Truusalu, K.; Rätsep, M.; Kilk, K.; Utt, M.; Üksti, J.; Kõljalg, S., Zilmer, K. (2008). Lactobacillus plantarum TENSIA (DSM 21380) and L. plantarum INDUCIA (DSM 21379) as novel probiotics. FIL-IDF World Dairy Summit, Mecixo City, Mexico, 11-14 November 2008. Mexico City.
5.2.
2008
Truusalu, K.; Kõljalg, S.; Parm, Ü.; Sepp, E.; Metsvaht, T.; Naaber, P.; Lõivukene, K.; Lutsar, I. (2008). Staphylococcal Infection and Colonization of Pediatric Intensive Care Unit Patients: MRSA versus MRSE. Abstract book: Emerging Technologies of Medical Importance for the Diagnosis of Infectious Diseases and the Detection of Pathogenic Microbes. 1 st Intenational ASM Conference in Bejing, April 6-10, 2008. , 44.
5.2.
2008
Mitt, P.; Adamson, V.; Truusalu, K.; Parm, Ü.; Kõljalg, S.; Sepp, E.; Lõivukene, K.; Lutsar, I.; Maimets, M. (2008). An outbreak of meticillin-resistant Staphylococcus aureus (spa type t008) in the paediatric intensive care unit of a university hospital, Tartu. Clinical Microbiology and Infection, 14: 18th European Congress of Clinical Microbiology and Infectious Diseases. , Abstract number: P1439. (S7).
5.2.
2008
Stsepetova, J.; Kõljalg, S.; Sepp, E.; Lõivukene, K.; Songisepp, E.; Rätsep, M.; Mikelsaar, M. (2008). Antibiotic susceptibility pattern and tetracycline resistance of Lactobacillus strains of different origin. Clinical Microbiology and Infection, 14: 18th European Congress of Clinical Microbiology and Infectious Diseases. , Abstract number: P1210. (S7).
1.1.
2007
Tamm, E.; Naaber, P.; Maimets, M.; Oona, M.; Kõljalg, S.; Lutsar, I. (2007). Antimicrobial susceptibility and serogroup/serotype distribution of nasopharyngeal isolates of Streptococcus pneumoniae in healthy Estonian children in 1999-2003. Clinical Microbiology and Infection, 13 (8), 824−826. DOI: 10.1111/j.1469-0691.2007.01743.x.
5.2.
2007
Mitt, P.; Kõljalg, S.; Lõivukene, K.; Sepp, E.; Lutsar, I.; Maimets, M. (2007). Laboratory markers to determine clinical significance of coagulase-negative staphylococci in blood cultures. Sepsis 2007: An International Symposium; Institut Pasteur, Paris; September 27 - 29, 2007. , 46−47.
1.3.
2003
Sepp, E.; Kõljalg, S.; Truusalu, K.; Štšepetova, L.; Metsvaht, T.; Sau, L.; Jürna, M.; Mägi, H.; Allik, M.; Mikelsaaar, M. (2003). Staphylococcus epidermidis ja Klebsiella pneumoniae - võimalikud hospitaalinfektsioonide tekitajad Eesti lasteintensiivravi osakondades. Eesti Arst, 82 (4), 239−248.
1.3.
2003
Tamm, E.; Kõljalg, S.; Lutsar, I.; Maimets, M.; Naaber, P. (2003). Pneumokokkinfektsioon lapseeas. Eesti Arst, 82 (7), 464−471.
1.1.
2002
Koljalg, S.; Naaber, P.; Mikelsaar, M. (2002). Antibiotic resistance as an indicator of bacterial chlorhexidine susceptibility. Journal of Hospital Infection, 51 (2), 106−113.
1.1.
2002
Olsson-Liljequist, B.; Koljalg, S.; Kronvall, G. (2002). Calibration of fusidic acid disk diffusion susceptibility testing of Staphylococcus aureus. APMIS, 110 (10), 690−696.
1.2.
2001
Kõljalg, S.; Naaber, P.; Mikelsaar, R.; Mikelsaar, M. (2001). Biocidal effect of protamine and melittin in combination with chlorhexidine. Clinical Microbiology and Infection, 7 (1), 32−34.
5.2.
2001
Järv, H.; Kõljalg, S.; Adamson, V.; Naaber, P.; Maimets, M. (2001). Oportunistlike seenpatogeenide esinemine intensiivhematoloogia ja luuüdi siirdamise osakonnas. Eesti Arst, 80 (9), 399.
5.2.
2001
Ruubas, I.; Järv, H.; Kõljalg, S.; Adamson, V.; Maimets, M.; Naaber, P. (2001). Vaginaalse kandidoosi raviks kasutatavate antifungaalsete preparaatide tundlikkuse määramine diskdifusiooni meetodiga. Eesti Arst, 80 (9), 416.
1.1.
2000
Naaber, P.; Koljalg, S.; Maimets, M. (2000). Antibiotic usage and resistance - trends in Estonian University Hospitals. International Journal of Antimicrobial Agents, 16 (3), 309−315.
1.1.
2000
Naaber, P.; Tamm, E.; Putsepp, A.; Koljalg, S.; Maimets, M. (2000). Nasopharyngeal carriage and antibacterial susceptibility of Streptococcus pneumoniae, Haemophilus influenzae and Moraxella catarrhalis in Estonian children. Clinical Microbiology and Infection, 6 (12), 675−677.
1.3.
2000
Kõljalg, S.; Karki, T.; Olsson-Liljequist, B. (2000). Metsitsilliin-resistentse Staphylococcus aureus'e esinemissagedus Eestis. Eesti Arst, 79 (8), 466−470.
1.1.
1999
Koljalc, S.; Sults, I.; Raukas, E.; Truu, J.; Ustav, M.; Mikelsaar, M. (1999). Distribution of Acinetobacter baumannii in a neurointensive care unit. Scandinavian Journal of Infectious Diseases, 31 (2), 145−150.
2.3.
1999
Kõljalg, Siiri (1999). Acinetobacter - an important nosocomial pathogen. (Doktoritöö). Tartu Ülikooli Kirjastus.
5.2.
1999
Sepp, Epp; Naaber, Paul; Lõivukene, Krista; Kõljalg, Siiri; Voor, Tiia; Björkstén, Bengt; Mikelsaar, Marika (1999). Eesti laste sooletrakti mikrofloora kujunemine esimesel eluaastal. Arstiteaduskonna aastakonverents, 7. oktoober 1999 : teesid, 110−111.
1.1.
1997
Turi, M.; Turi, E.; Koljalg, S.; Mikelsaar, M. (1997). Influence of aqueous extracts of medicinal plants on surface hydrophobicity of Escherichia coli strains of different origin. APMIS, 105 (12), 956−962.
1.3.
1997
Sepp, E.; Lõivukene, K.; Naaber, P.; Kermes, K.; Kõljalg, S.; Julge, K.; Vasar, M.; Björksten, B.; Mikelsaar, M. (1997). Tervete ja allergiliste laste mikrofloora erinevused [Differences of intestinal microflora of healthy and allergic children ]. Eesti Rohuteadlane, Lisa, 62−63.
1.1.
1996
Koljalg, S.; VuopioVarkila, J.; Lyytikainen, O.; Mikelsaar, M.; Wadstrom, T. (1996). Cell surface properties of Acinetobacter baumannii. APMIS, 104 (9), 659−665.
1.3.
1996
Kõljalg, S.; Kermes, K.; Lõivukene, K.; Naaber, P.; Mikelsaar, M. (1996). Kirurgilisi infektsioone tekitavad mikroorganismid ja nende antibiootikumtundlikkus [Microbes causing surgical infections]. Eesti Arst, lisa, 39−40.

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24.05.2022