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A peer-reviewed article of this preprint also exists.
This version is not peer-reviewed
Preprints on COVID-19 and SARS-CoV-2
Submitted:
16 August 2023
Posted:
17 August 2023
You are already at the latest version
Clinics | Unit | SARS CoV-2 (+) | SARS CoV-2 (-) | Not tested |
---|---|---|---|---|
Inpatient | Surgical | 24 | 96 | - |
Internal | 19 | 69 | 3 | |
Outpatient | Surgical | - | 26 | - |
Internal | 38 | 243 | 14 | |
Intensive Care Unit | Surgical | 5 | 43 | 1 |
Internal | 32 | 38 | 1 |
Microorganisms | TotalWYXWYX[n(%)] | SARS-CoV-2WYXWYXPositive [n (%)] | SARS-CoV-2WYXWYXNegative [n (%)] | SARS-CoV-2WYXWYXNon tested [n (%)] | Positive vs. Negative |
---|---|---|---|---|---|
All microorganisms | 671 (100) | 121 (18) | 531 (79.1) | 19 (2.8) | p value |
FermentativeGram-negative rods | 252 (37.5) | 34 (28) | 214 (40.3) | 4 (21) | 0.012 |
Escherichia coli | 131 (19.5) | 15 (12.4) | 113 (21.3) | 3 (15.8) | 0.026 |
Klebsiella pneumoniae1/ Carbapenem-resistant K. pneumoniae2 | 80/38 (11.9/5.6) | 15/9 (12.4/7.4) | 64 / 28 (12.05 /5.3) | 1/1 (5.3/5.3) | 0.9171WYXWYX0.3532 |
Klebsiella oxytoca | 5 (0.7) | 0 (0.0) | 5 (0.9) | - | 0.590 |
Enterobacter spp. | 7 (1.05) | 1 (0.8) | 6 (1.1) | - | 0.770 |
Serratia marcescens | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Serratia spp. | 2 (0.3) | 0 (0.0) | 2 (0.4) | - | 1.000 |
Citrobacter spp. | 3 (0.45) | 0 (0.0) | 3 (0.6) | - | 1.000 |
Citrobacter koseri | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Proteus mirabilis | 13 (1.9) | 1 (0.8) | 12 (2.3) | - | 0.309 |
Morganella morganii | 3 (0.45) | 0 (0.0) | 3 (0.6) | - | 1.000 |
Raoultella planticola | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Aeromonas spp. | 1 (0.15) | 0 (0.0) | 1 (0.2) | 1.000 | |
Salmonella Enteritidis | 4 (0.6) | 2 (1.65) | 2 (0.4) | - | 0.105 |
Non-FermentativeGram-negative rods | 66 (9.8) | 16 (13.2) | 48 ( 9 ) | 2 (10.5) | 0.163 |
Pseudomonas aeruginosa | 25 (3.7) | 2 (1.65) | 23 (4.3) | - | 0.166 |
Pseudomonas stutzeri | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Pseudomonas spp. | 5 (0.7) | 2 (1.65) | 3 (0.6) | - | 0.216 |
Acinetobacter baumannii | 14 (2.1) | 7 (5.8) | 6 (1.1) | 1 (5.3) | 0.001 |
Acinetobacter lwoffii | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Acinetobacter spp. | 4 (0.6) | 2 (1.65) | 2 (0.4) | - | 0.105 |
Rhizobium radiobacter | 2 (0.3) | 2 (1.65) | 0 (0.0) | - | 0.034 |
Achromobacter xylosoxidans | 1 (0.15) | - | - | 1 (5.3) | - |
Ochrobactrum anthropi | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Sphingomonas paucimobilis | 2 (0.3) | 0 (0.0) | 2 (0.4) | - | 1.000 |
Stenotrophomonas maltophilia | 7 (1.05) | 1 (0.8) | 6 (1.1) | - | 0.770 |
Burkholderia cepacia | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Pandoraea spp. | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Non-Fermentative Gram-negative rod | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Gram-positive cocci | 300 (44.7) | 59 (48.8) | 231 (40.1) | 10 (52.6) | 0.294 |
Methicillin resistant Staphylococcus aureus | 27 (4.0) | 3 (2.5) | 24 (4.5) | - | 0.309 |
Methicillin sensitive Staphylococcus aureus | 53 (7.9) | 7 (5.8) | 43 (8.1) | 3 (15.8) | 0.388 |
Methicillin resistant coagulase negative staphylococcus | 102 (15.2) | 26 (21.5) | 72 (13.5) | 4 (21.05) | 0.028 |
Methicillin sensitive coagulase negative staphylococcus | 49 (7.3) | 12 (9.9) | 35 (6.6) | 2 (10.5) | 0.202 |
Enterococcus faecalis | 12 (1.8) | 2 (1.65) | 10 (1.9) | - | 0.865 |
Enterococcus faecium | 12 (1.8) | 3 (2.5) | 9 (1.7) | - | 0.562 |
Enterococcus avium | 4 (0.6) | 0 (0.0) | 4 (0.75) | - | 1.000 |
Enterococcus gallinarum | 3 (0.45) | 1 (0.8) | 2 (0.4) | - | 0.509 |
Enterococcus spp. | 16 (2.4) | 2 (1.65) | 14 (2.6) | - | 0.528 |
Streptococcus pneumoniae | 4 (0.6) | 2 (1.65) | 2 (0.4) | - | 0.105 |
Streptococcus agalactiae | 3 (0.45) | 0 (0.0) | 3 (0.6) | - | 1.000 |
Streptococcus gallolyticus | 2 (0.3) | 0 (0.0) | 2 (0.4) | - | 1.000 |
Streptococcus equi | 1 (0.15) | 1 (0.8) | 0 (0.0) | - | 0.186 |
Leuconostoc pseudomesenteroides | 2 (0.3) | 0 (0.0) | 1 (0.2) | 1 (5.3) | 1.000 |
Alpha hemolytic streptococcus | 7 (1.05) | 0 (0.0) | 7 (1.3) | - | 0.359 |
Beta hemolytic streptococcus | 2 (0.3) | 0 (0.0) | 2 (0.4) | - | 1.000 |
Non-hemolytic streptococcus | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Gram-positive rods | 3 (0.45) | 1 (0.8) | 2 (0.4) | 0 (0) | 0.509 |
Corynebacterium jeikeium | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Corynebacterium striatum | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Lactobacillus casei | 1 (0.15) | 1 (0.8) | 0 (0.0) | - | 0.186 |
Other bacteria | 5 (0.7) | 2 (1.65) | 3 (0.6) | 0 (0) | 0.216 |
Listeria monocytogenes | 2 (0.3) | 1 (0.8) | 1 (0.2) | - | 0.251 |
Campylobacter coli | 1 (0.15) | 1 (0.8) | 0 (0.0) | - | 0.186 |
Campylobacter jejuni | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Moraxella nonliquefaciens | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Anaerobic bacteria | 7 (1.05) | 1 (0.8) | 6 (1.13) | 0 (0) | 0.770 |
Bacteroides fragilis | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Bacteroides spp. | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Prevotella spp. | 2 (0.3) | 0 (0.0) | 2 (0.4) | - | 1.000 |
Clostridium clostridioforme | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Fusobacterium nucleatum | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Anaerobic Gram-positive rod | 1 (0.15) | 1 (0.8) | 0 (0.0) | - | 0.186 |
Fungi | 38 (5.7) | 8 (6.6) | 27 (5.1) | 3 (15.8) | 0.501 |
Candida albicans | 15 (2.2) | 2 (1.65) | 11 (2.1) | 2 (10.5) | 0.766 |
Candida parapsilosis complex | 7 (1.05) | 1 (0.8) | 6 (1.1) | - | 0.770 |
Candida tropicalis | 6 (0.9) | 0 (0.0) | 5 (0.9) | 1 (5.3) | 0.590 |
Candida kefyr | 2 (0.3) | 1 (0.8) | 1 (0.2) | - | 0.252 |
Candida glabrata complex | 2 (0.3) | 2 (1.65) | 0 (0.0) | - | 0.034 |
Candida metapsilosis | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Candida krusei | 1 (0.15) | 1 (0.8) | 0 (0.0) | - | 0.186 |
Candida auris | 1 (0.15) | 1 (0.8) | 0 (0.0) | - | 0.186 |
Kodamaea ohmeri | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Cryptococcus neoformans | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Rhodotorula spp. | 1 (0.15) | 0 (0.0) | 1 (0.2) | - | 1.000 |
Fungi | Antifungal MIC, µg/ml | |||||||
---|---|---|---|---|---|---|---|---|
Species (tested/total n) | Strain No | Fluconazole | Posaconazole | Voriconazole | İtraconazole | Amphotericin B | Caspofungin | Anidulafungin |
Candida albicans(7/15) | 1 | 2 (S) | 0.064ᵃ (NWT) | 0.25 (I) | - | 0.5ᵃ (WT) | 0.016 (S) | 0.012 (S) |
2 | 2 (S) | 0.064ᵃ (NWT) | 0.047 (S) | - | - | - | - | |
3 | 0.75 (S) | - | - | - | - | 0.5 (I) | - | |
4 | 2 (S) | - | - | - | 0.25ᵃ (WT) | 0.5 (I) | 0.012 (S) | |
5 | 1,5 (S) | - | - | - | - | - | - | |
6 | - | 0.25ᵃ (NWT) | 1 (R) | - | - | 0.065 (S) | - | |
7 | 0.125 (S) | - | - | - | 0.047ᵃ (WT) | 0.096 (S) | 0.003 (S) | |
Candida parapsilosiscomplex (3/7) | 1 | 0.75 (S) | - | - | - | 0.25ᵃ (WT) | 0.75 (S) | - |
2 | >256 (R) | 0.19ᵃ (WT) | 0.5 (I) | 2c | 0.75ᵃ (WT) | 0.38 (S) | 0.75 (S) | |
3 | 24 (R) | 0.25ᵃ (WT) | 0.75 (S) | |||||
Candida tropicalis(2/6) | 1 | 0.5 (S) | - | 0.008 (S) | - | 0.25ᵃ (WT) | 0.094 (S) | 0.008 (S) |
2 | 0.5 (S) | - | - | - | 0.25ᵃ (WT) | - | 0.008 (S) | |
Candida glabratacomplex (1/2) | 1.5 (SDD) | - | 0.032ᵃ (WT) | - | - | 0.25 (I) | - | |
Candida auris(1/1)b | >256 (R) | 0.016c | 0.19c | 0,19 c | 3 (R) | 1 (S) | 0.094 (S) | |
Cryptococcus neoformans(1/1) | 8ᵃ (WT) | - | - | - | 0.5ᵃ (WT) | - | - |
Unit | Microorganism | ||
---|---|---|---|
SARS-CoV-2 (+) [n=8] | Inpatient (n=3) | Surgical (n=1) | Candida krusei, Kodamea ohmeri |
Internal (n=2) | Proteus mirabilis, Escherichia coli | ||
Klebsiella pneumoniae, Candida glabrata complex | |||
Outpatient (n=4) | Surgical (n=1) | Candida glabrata complex, Candida albicans | |
Internal (n=3) | Streptococcus pneumoniae, Escherichia coli | ||
Candida kefyr, Enterococcus gallinarum, Enterococcus faecium | |||
Escherichia coli, Enterobacter spp. | |||
Intensive Care Unit (n=1) | Surgical (n=0) | - | |
Internal (n=1) | Enterococcus spp., Candida albicans | ||
SARS-CoV-2 (-) [n=7] | Inpatient (n=1) | Surgical (n=2) | Candida albicans, Candida parapsilosis |
Escherichia coli, Candida parapsilosis | |||
Internal (n=1) | Pseudomonas aeruginosa, Acinetobacter spp. | ||
Outpatient (n=5) | Surgical (n=1) | Citrobacter spp., Klebsiella oxytoca | |
Internal (n=4) | Raoultella planticola, Escherichia coli | ||
Klebsiella pneumoniae, Enterococcus spp. | |||
Enterococcus spp., Escherichia coli, MSSA* | |||
Enterococcus spp., Escherichia coli | |||
Intensive Care Unit (n=1) | Surgical (n=0) | - | |
Internal (n=1) | Proteus mirabilis, Klebsiella pneumoniae |
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