TY  - DATA
AU  - Kabić, Jovana
AU  - Novović, Katarina
AU  - Kekić, Dušan
AU  - Trudić, Anika
AU  - Opavski, Nataša
AU  - Dimkić, Ivica
AU  - Jovčić, Branko
AU  - Gajić, Ina
PY  - 2023
UR  - https://imagine.imgge.bg.ac.rs/handle/123456789/1785
T2  - Computational and Structural Biotechnology Journal
T2  - Computational and Structural Biotechnology JournalComputational and Structural Biotechnology Journal
T1  - Supplementary information for the article: Kabic, J., Novovic, K., Kekic, D., Trudic, A., Opavski, N., Dimkic, I., Jovcic, B., & Gajic, I. (2023). Comparative genomics and molecular epidemiology of colistin-resistant Acinetobacter baumannii. Computational and Structural Biotechnology Journal, 21, 574–585. https://doi.org/10.1016/j.csbj.2022.12.045
UR  - https://hdl.handle.net/21.15107/rcub_imagine_1785
ER  - 

@misc{
author = "Kabić, Jovana and Novović, Katarina and Kekić, Dušan and Trudić, Anika and Opavski, Nataša and Dimkić, Ivica and Jovčić, Branko and Gajić, Ina",
year = "2023",
journal = "Computational and Structural Biotechnology Journal, Computational and Structural Biotechnology JournalComputational and Structural Biotechnology Journal",
title = "Supplementary information for the article: Kabic, J., Novovic, K., Kekic, D., Trudic, A., Opavski, N., Dimkic, I., Jovcic, B., & Gajic, I. (2023). Comparative genomics and molecular epidemiology of colistin-resistant Acinetobacter baumannii. Computational and Structural Biotechnology Journal, 21, 574–585. https://doi.org/10.1016/j.csbj.2022.12.045",
url = "https://hdl.handle.net/21.15107/rcub_imagine_1785"
}

Kabić, J., Novović, K., Kekić, D., Trudić, A., Opavski, N., Dimkić, I., Jovčić, B.,& Gajić, I.. (2023). Supplementary information for the article: Kabic, J., Novovic, K., Kekic, D., Trudic, A., Opavski, N., Dimkic, I., Jovcic, B., & Gajic, I. (2023). Comparative genomics and molecular epidemiology of colistin-resistant Acinetobacter baumannii. Computational and Structural Biotechnology Journal, 21, 574–585. https://doi.org/10.1016/j.csbj.2022.12.045. in Computational and Structural Biotechnology Journal.
https://hdl.handle.net/21.15107/rcub_imagine_1785

Kabić J, Novović K, Kekić D, Trudić A, Opavski N, Dimkić I, Jovčić B, Gajić I. Supplementary information for the article: Kabic, J., Novovic, K., Kekic, D., Trudic, A., Opavski, N., Dimkic, I., Jovcic, B., & Gajic, I. (2023). Comparative genomics and molecular epidemiology of colistin-resistant Acinetobacter baumannii. Computational and Structural Biotechnology Journal, 21, 574–585. https://doi.org/10.1016/j.csbj.2022.12.045. in Computational and Structural Biotechnology Journal. 2023;.
https://hdl.handle.net/21.15107/rcub_imagine_1785 .

Kabić, Jovana, Novović, Katarina, Kekić, Dušan, Trudić, Anika, Opavski, Nataša, Dimkić, Ivica, Jovčić, Branko, Gajić, Ina, "Supplementary information for the article: Kabic, J., Novovic, K., Kekic, D., Trudic, A., Opavski, N., Dimkic, I., Jovcic, B., & Gajic, I. (2023). Comparative genomics and molecular epidemiology of colistin-resistant Acinetobacter baumannii. Computational and Structural Biotechnology Journal, 21, 574–585. https://doi.org/10.1016/j.csbj.2022.12.045" in Computational and Structural Biotechnology Journal (2023),
https://hdl.handle.net/21.15107/rcub_imagine_1785 .

TY  - JOUR
AU  - Kabić, Jovana
AU  - Novović, Katarina
AU  - Kekić, Dušan
AU  - Trudić, Anika
AU  - Opavski, Nataša
AU  - Dimkić, Ivica
AU  - Jovčić, Branko
AU  - Gajić, Ina
PY  - 2023
UR  - https://www.sciencedirect.com/science/article/pii/S200103702200602X
UR  - https://imagine.imgge.bg.ac.rs/handle/123456789/1784
AB  - This study aimed to investigate the prevalence and resistance mechanisms of colistin-resistant Acinetobacter baumannii (ColRAB) isolates in Serbia, assess their genetic relatedness to other circulating A. baumannii isolates in the neighbouring European countries, and analyse the global genomic epidemiology of ColRAB isolates. A total of 784 isolates of A. baumannii were recovered from hospitalised patients in Serbia between 2018 and 2021. The antimicrobial susceptibility testing was performed using disk diffusion and broth microdilution. All ColRAB isolates were subjected to DNA isolation and whole-genome sequencing (WGS). Overall, 3.94 % (n = 30) isolates were confirmed as ColRAB. Results of mutational and transcriptional analysis of genes associated with colistin resistance indicate the central role of the two-component regulating system, PmrAB, and increased expression of the pmrC gene in ColRAB. Most of the isolates (n = 29, 96.6 %) belonged to international clone II, with the most common sequence type being STPas2 (n = 23, 76.6 %). Based on the WGS analysis, ColRAB isolates belonging to the same ST isolated in various countries were grouped into the same clusters, indicating the global dissemination of several high-risk clonal lineages. Phylogenomic analysis of ColRAB isolates, together with all previously published A. baumannii genomes from South-Eastern European countries, showed that colistin resistance arose independently in several clonal lineages. Comparative genomic analysis revealed multiple genes with various roles (transcriptional regulation, transmembrane transport, outer membrane assembly, etc.), which might be associated with colistin resistance in A. baumannii. The obtained findings serve as the basis for further studies, contributing to a better understanding of colistin resistance mechanisms in A. baumannii.
T2  - Computational and Structural Biotechnology Journal
T2  - Computational and Structural Biotechnology JournalComputational and Structural Biotechnology Journal
T1  - Comparative genomics and molecular epidemiology of colistin-resistant Acinetobacter baumannii
EP  - 585
SP  - 574
VL  - 21
DO  - 10.1016/j.csbj.2022.12.045
DO  - 10.1016/j.csbj.2022.12.045
ER  - 

@article{
author = "Kabić, Jovana and Novović, Katarina and Kekić, Dušan and Trudić, Anika and Opavski, Nataša and Dimkić, Ivica and Jovčić, Branko and Gajić, Ina",
year = "2023",
abstract = "This study aimed to investigate the prevalence and resistance mechanisms of colistin-resistant Acinetobacter baumannii (ColRAB) isolates in Serbia, assess their genetic relatedness to other circulating A. baumannii isolates in the neighbouring European countries, and analyse the global genomic epidemiology of ColRAB isolates. A total of 784 isolates of A. baumannii were recovered from hospitalised patients in Serbia between 2018 and 2021. The antimicrobial susceptibility testing was performed using disk diffusion and broth microdilution. All ColRAB isolates were subjected to DNA isolation and whole-genome sequencing (WGS). Overall, 3.94 % (n = 30) isolates were confirmed as ColRAB. Results of mutational and transcriptional analysis of genes associated with colistin resistance indicate the central role of the two-component regulating system, PmrAB, and increased expression of the pmrC gene in ColRAB. Most of the isolates (n = 29, 96.6 %) belonged to international clone II, with the most common sequence type being STPas2 (n = 23, 76.6 %). Based on the WGS analysis, ColRAB isolates belonging to the same ST isolated in various countries were grouped into the same clusters, indicating the global dissemination of several high-risk clonal lineages. Phylogenomic analysis of ColRAB isolates, together with all previously published A. baumannii genomes from South-Eastern European countries, showed that colistin resistance arose independently in several clonal lineages. Comparative genomic analysis revealed multiple genes with various roles (transcriptional regulation, transmembrane transport, outer membrane assembly, etc.), which might be associated with colistin resistance in A. baumannii. The obtained findings serve as the basis for further studies, contributing to a better understanding of colistin resistance mechanisms in A. baumannii.",
journal = "Computational and Structural Biotechnology Journal, Computational and Structural Biotechnology JournalComputational and Structural Biotechnology Journal",
title = "Comparative genomics and molecular epidemiology of colistin-resistant Acinetobacter baumannii",
pages = "585-574",
volume = "21",
doi = "10.1016/j.csbj.2022.12.045, 10.1016/j.csbj.2022.12.045"
}

Kabić, J., Novović, K., Kekić, D., Trudić, A., Opavski, N., Dimkić, I., Jovčić, B.,& Gajić, I.. (2023). Comparative genomics and molecular epidemiology of colistin-resistant Acinetobacter baumannii. in Computational and Structural Biotechnology Journal, 21, 574-585.
https://doi.org/10.1016/j.csbj.2022.12.045

Kabić J, Novović K, Kekić D, Trudić A, Opavski N, Dimkić I, Jovčić B, Gajić I. Comparative genomics and molecular epidemiology of colistin-resistant Acinetobacter baumannii. in Computational and Structural Biotechnology Journal. 2023;21:574-585.
doi:10.1016/j.csbj.2022.12.045 .

Kabić, Jovana, Novović, Katarina, Kekić, Dušan, Trudić, Anika, Opavski, Nataša, Dimkić, Ivica, Jovčić, Branko, Gajić, Ina, "Comparative genomics and molecular epidemiology of colistin-resistant Acinetobacter baumannii" in Computational and Structural Biotechnology Journal, 21 (2023):574-585,
https://doi.org/10.1016/j.csbj.2022.12.045 . .

TY  - CONF
AU  - Šaraba, Vladimir
AU  - Nikodinović-Runić, Jasmina
AU  - Obradović, Vesna
AU  - Dimkić, Ivica
AU  - Janakiev, Tamara
AU  - Ćirić, Milica
PY  - 2023
UR  - https://imagine.imgge.bg.ac.rs/handle/123456789/2104
AB  - Targeted physiological groups of bacteria were cultivated and identified in the brackish
groundwaters of Obrenovačka Banja (OB), Lomnički Kiseljak (LK) and Velika Vrbnica (VV) using biological
activity reaction tests (BARTs) to assess the biocorrosion, biofouling and health risks. The highest density of
iron-related, sulfate-reducing, slime-forming, facultatively anaerobic heterotrophic, denitrifying bacteria and
representatives of Pseudomonas spp. was recorded in the OB sample, while the lowest density of the same
physiological groups of bacteria was recorded in the LK sample. Facultatively anaerobic heterotrophic
bacteria were the most abundant in the OB and LK samples, while, in contrast, heterotrophic aerobic bacteria
were the most abundant in the VV sample. All tested samples were characterized by a high degree of
biochemical activity associated with iron-related, sulfate-reducing, slime-forming, heterotrophic aerobic and
facultatively anaerobic bacteria. Also, high biochemical activity of denitrifying bacteria was recorded in the
OB sample, and the same activity of Pseudomonas species was recorded in the OB and VV samples. For OB
and LK groundwaters, the highest degree of risk was estimated for biocorrosion process, while for the OB
and VV occurrences, the highest degree of risk was estimated for biofouling process. The health risk was
present for all examined groundwaters. Caution is warranted in further use of all investigated occurrences
due to the established public health risk and an immediate revitalization of the OB, LK and VV wells is
necessary.
PB  - Kragujevac : Institute for Information Technologies
C3  - 2nd International Conference on Chemo and Bioinformatics
T1  - Biocorrosion, biofouling and health risk: biological activity reaction tests of selected brackish groundwater occurrences in Serbia
EP  - 190
SP  - 186
DO  - 10.46793/ICCBI23.086S
ER  - 

@conference{
author = "Šaraba, Vladimir and Nikodinović-Runić, Jasmina and Obradović, Vesna and Dimkić, Ivica and Janakiev, Tamara and Ćirić, Milica",
year = "2023",
abstract = "Targeted physiological groups of bacteria were cultivated and identified in the brackish
groundwaters of Obrenovačka Banja (OB), Lomnički Kiseljak (LK) and Velika Vrbnica (VV) using biological
activity reaction tests (BARTs) to assess the biocorrosion, biofouling and health risks. The highest density of
iron-related, sulfate-reducing, slime-forming, facultatively anaerobic heterotrophic, denitrifying bacteria and
representatives of Pseudomonas spp. was recorded in the OB sample, while the lowest density of the same
physiological groups of bacteria was recorded in the LK sample. Facultatively anaerobic heterotrophic
bacteria were the most abundant in the OB and LK samples, while, in contrast, heterotrophic aerobic bacteria
were the most abundant in the VV sample. All tested samples were characterized by a high degree of
biochemical activity associated with iron-related, sulfate-reducing, slime-forming, heterotrophic aerobic and
facultatively anaerobic bacteria. Also, high biochemical activity of denitrifying bacteria was recorded in the
OB sample, and the same activity of Pseudomonas species was recorded in the OB and VV samples. For OB
and LK groundwaters, the highest degree of risk was estimated for biocorrosion process, while for the OB
and VV occurrences, the highest degree of risk was estimated for biofouling process. The health risk was
present for all examined groundwaters. Caution is warranted in further use of all investigated occurrences
due to the established public health risk and an immediate revitalization of the OB, LK and VV wells is
necessary.",
publisher = "Kragujevac : Institute for Information Technologies",
journal = "2nd International Conference on Chemo and Bioinformatics",
title = "Biocorrosion, biofouling and health risk: biological activity reaction tests of selected brackish groundwater occurrences in Serbia",
pages = "190-186",
doi = "10.46793/ICCBI23.086S"
}

Šaraba, V., Nikodinović-Runić, J., Obradović, V., Dimkić, I., Janakiev, T.,& Ćirić, M.. (2023). Biocorrosion, biofouling and health risk: biological activity reaction tests of selected brackish groundwater occurrences in Serbia. in 2nd International Conference on Chemo and Bioinformatics
Kragujevac : Institute for Information Technologies., 186-190.
https://doi.org/10.46793/ICCBI23.086S

Šaraba V, Nikodinović-Runić J, Obradović V, Dimkić I, Janakiev T, Ćirić M. Biocorrosion, biofouling and health risk: biological activity reaction tests of selected brackish groundwater occurrences in Serbia. in 2nd International Conference on Chemo and Bioinformatics. 2023;:186-190.
doi:10.46793/ICCBI23.086S .

Šaraba, Vladimir, Nikodinović-Runić, Jasmina, Obradović, Vesna, Dimkić, Ivica, Janakiev, Tamara, Ćirić, Milica, "Biocorrosion, biofouling and health risk: biological activity reaction tests of selected brackish groundwater occurrences in Serbia" in 2nd International Conference on Chemo and Bioinformatics (2023):186-190,
https://doi.org/10.46793/ICCBI23.086S . .

TY  - JOUR
AU  - Luković, Bojana
AU  - Gajić, Ina
AU  - Dimkić, Ivica
AU  - Kekić, Dusan
AU  - Zornić, Sanja
AU  - Pozder, Tatjana
AU  - Radisavljević, Svetlana
AU  - Opavski, Nataša
AU  - Kojić, Milan
AU  - Ranin, Lazar
PY  - 2020
UR  - https://imagine.imgge.bg.ac.rs/handle/123456789/1309
AB  - Background The worldwide emergence and clonal spread of carbapenem-resistantAcinetobacter baumannii(CRAB) is of great concern. The aim of this nationwide study was to investigate the prevalence of CRAB isolates in Serbia and to characterize underlying resistance mechanisms and their genetic relatedness. Methods Non-redundant clinical samples obtained from hospitalized patients throughout Serbia were included in the prospective, observational, multicenter study conducted from January to June 2018. Samples were initially screened for the presence ofAcinetobacter baumannii-calcoaceticus(Acb) complex using conventional bacteriological techniques. Acb complexes recovered from clinical samples obtained from inpatients with confirmed bacterial infections were further evaluated for the presence ofA. baumannii. Identification to the species level was done by the detection of thebla(OXA-51)gene andrpoBgene sequence analysis. Susceptibility testing was done by disk diffusion and broth microdilution method. CRAB isolates were tested for the presence of acquired carbapenemases(bla(OXA-24-like),bla(OXA-23-like,)bla(OXA-58-like),bla(OXA-143-like),bla(IMP),bla(VIM),bla(GIM),bla(SPM),bla(SIM),bla(NDM)) by PCR. Clonal relatedness was assessed by pulsed-field gel electrophoresis (PFGE) and multilocus sequence typing (MLST). Results Acb complex was isolated in 280 out of 2401 clinical samples (11.6%). Overall,A. baumanniiwas identified in 237 out of 280 Acb complex (84.6%). CRAB prevalence was found to be 93.7% (237/222). The MIC50/MIC(90)for imipenem and meropenem were 8/ gt  32 mu g/mL and 16/ gt  32 mu g/mL, respectively. Although susceptibility was high for colistin (95.7%;n = 227) and tigecycline (75.1%;n = 178), ten isolates (4.3%) were classified as pandrug-resistant. The following carbapenemases-encoding genes were found: 98 (44.2%)bla(OXA-24-like), 76 (34.5%)bla(OXA-23-like), and 7 (3.2%)bla(NDM-1). PFGE analysis revealed six different clusters. MLST analysis identified three STs: ST2 (n = 13), ST492 (n = 14), and ST636 (n = 10). Obtained results evaluated that circulating CRAB clones in Serbia were as follows:bla(OXA66)/bla(OXA23)/ST2 (32.4%),bla(OXA66)/bla(OXA23)/bla(OXA72)/ST2 (2.7%),bla(OXA66)/bla(OXA72)/ST492 (37.8%), andbla(OXA66)/bla(OXA72)/ST636 (27.1%). Conclusion This study revealed extremely high proportions of carbapenem resistance amongA. baumanniiclinical isolates due to the emergence ofbla(OXA-72),bla(OXA-23), andbla(NDM-1)genes among CRAB isolates in Serbia and their clonal propagation.
PB  - BMC, London
T2  - Antimicrobial Resistance and Infection Control
T1  - The first nationwide multicenter study ofAcinetobacter baumanniirecovered in Serbia: emergence of OXA-72, OXA-23 and NDM-1-producing isolates
IS  - 1
VL  - 9
DO  - 10.1186/s13756-020-00769-8
ER  - 

@article{
author = "Luković, Bojana and Gajić, Ina and Dimkić, Ivica and Kekić, Dusan and Zornić, Sanja and Pozder, Tatjana and Radisavljević, Svetlana and Opavski, Nataša and Kojić, Milan and Ranin, Lazar",
year = "2020",
abstract = "Background The worldwide emergence and clonal spread of carbapenem-resistantAcinetobacter baumannii(CRAB) is of great concern. The aim of this nationwide study was to investigate the prevalence of CRAB isolates in Serbia and to characterize underlying resistance mechanisms and their genetic relatedness. Methods Non-redundant clinical samples obtained from hospitalized patients throughout Serbia were included in the prospective, observational, multicenter study conducted from January to June 2018. Samples were initially screened for the presence ofAcinetobacter baumannii-calcoaceticus(Acb) complex using conventional bacteriological techniques. Acb complexes recovered from clinical samples obtained from inpatients with confirmed bacterial infections were further evaluated for the presence ofA. baumannii. Identification to the species level was done by the detection of thebla(OXA-51)gene andrpoBgene sequence analysis. Susceptibility testing was done by disk diffusion and broth microdilution method. CRAB isolates were tested for the presence of acquired carbapenemases(bla(OXA-24-like),bla(OXA-23-like,)bla(OXA-58-like),bla(OXA-143-like),bla(IMP),bla(VIM),bla(GIM),bla(SPM),bla(SIM),bla(NDM)) by PCR. Clonal relatedness was assessed by pulsed-field gel electrophoresis (PFGE) and multilocus sequence typing (MLST). Results Acb complex was isolated in 280 out of 2401 clinical samples (11.6%). Overall,A. baumanniiwas identified in 237 out of 280 Acb complex (84.6%). CRAB prevalence was found to be 93.7% (237/222). The MIC50/MIC(90)for imipenem and meropenem were 8/ gt  32 mu g/mL and 16/ gt  32 mu g/mL, respectively. Although susceptibility was high for colistin (95.7%;n = 227) and tigecycline (75.1%;n = 178), ten isolates (4.3%) were classified as pandrug-resistant. The following carbapenemases-encoding genes were found: 98 (44.2%)bla(OXA-24-like), 76 (34.5%)bla(OXA-23-like), and 7 (3.2%)bla(NDM-1). PFGE analysis revealed six different clusters. MLST analysis identified three STs: ST2 (n = 13), ST492 (n = 14), and ST636 (n = 10). Obtained results evaluated that circulating CRAB clones in Serbia were as follows:bla(OXA66)/bla(OXA23)/ST2 (32.4%),bla(OXA66)/bla(OXA23)/bla(OXA72)/ST2 (2.7%),bla(OXA66)/bla(OXA72)/ST492 (37.8%), andbla(OXA66)/bla(OXA72)/ST636 (27.1%). Conclusion This study revealed extremely high proportions of carbapenem resistance amongA. baumanniiclinical isolates due to the emergence ofbla(OXA-72),bla(OXA-23), andbla(NDM-1)genes among CRAB isolates in Serbia and their clonal propagation.",
publisher = "BMC, London",
journal = "Antimicrobial Resistance and Infection Control",
title = "The first nationwide multicenter study ofAcinetobacter baumanniirecovered in Serbia: emergence of OXA-72, OXA-23 and NDM-1-producing isolates",
number = "1",
volume = "9",
doi = "10.1186/s13756-020-00769-8"
}

Luković, B., Gajić, I., Dimkić, I., Kekić, D., Zornić, S., Pozder, T., Radisavljević, S., Opavski, N., Kojić, M.,& Ranin, L.. (2020). The first nationwide multicenter study ofAcinetobacter baumanniirecovered in Serbia: emergence of OXA-72, OXA-23 and NDM-1-producing isolates. in Antimicrobial Resistance and Infection Control
BMC, London., 9(1).
https://doi.org/10.1186/s13756-020-00769-8

Luković B, Gajić I, Dimkić I, Kekić D, Zornić S, Pozder T, Radisavljević S, Opavski N, Kojić M, Ranin L. The first nationwide multicenter study ofAcinetobacter baumanniirecovered in Serbia: emergence of OXA-72, OXA-23 and NDM-1-producing isolates. in Antimicrobial Resistance and Infection Control. 2020;9(1).
doi:10.1186/s13756-020-00769-8 .

Luković, Bojana, Gajić, Ina, Dimkić, Ivica, Kekić, Dusan, Zornić, Sanja, Pozder, Tatjana, Radisavljević, Svetlana, Opavski, Nataša, Kojić, Milan, Ranin, Lazar, "The first nationwide multicenter study ofAcinetobacter baumanniirecovered in Serbia: emergence of OXA-72, OXA-23 and NDM-1-producing isolates" in Antimicrobial Resistance and Infection Control, 9, no. 1 (2020),
https://doi.org/10.1186/s13756-020-00769-8 . .