https://doi.org/10.17037/DATA.00001997
Antimicrobial resistance surveillance data is lacking from many resource-limited settings mainly due to limited laboratory testing. Novel culture systems may address some of the limitations of conventional culture media and expand the availability of microbiology services. This data was collected for an evaluation of the performance of two novel culture media: InTray COLOREX Screen/ESBL and Compact Dry for the detection of uropathogens and of extended-spectrum beta-lactamase (ESBL) producing organisms from urine samples.
Basic demographic data was collected during interviews with study participants who provided written informed consent prior to enrollment into the study. The dataset focuses on the results of laboratory testing. Urine cultures were performed using a reference media and the performance of two novel culture media was evaluated and compared to the reference. Culture result data was captured using case report forms.
CFU: colony forming units
| Variable name | Variable description | Variable type | Answer code | Answer label |
| Number | Non-linked participant ID number | integer | 1 to 431 | |
| Age_group | Age bands of 5 years (excepting 18-24 years) | categorical | ||
| 18-24 | ||||
| 25-29 | ||||
| 30-34 | ||||
| 35-39 | ||||
| 40-44 | ||||
| 45-49 | ||||
| 50-54 | ||||
| 55-59 | ||||
| 60-64 | ||||
| 65-69 | ||||
| 70-74 | ||||
| 75-79 | ||||
| 80-84 | ||||
| 85-89 | ||||
| 90-95 | ||||
| sex | Sex | categorical | ||
| 1 | Male | |||
| 2 | Female | |||
| HIV status | Reported HIV status | categorical | ||
| 0 | Negative | |||
| 1 | Positive | |||
| 9 | unknown/ not answered | |||
| Culture result | Culture result on the reference media | categorical | ||
| No growth | ||||
| Contamination | ||||
| 103-104 CFU/ml | ||||
| 104-105 CFU/ml | ||||
| 105 CFU/ml | ||||
| Organism | Organism isolated from culture (positive cultures only: culture result =1) | categorical | ||
| E. coli | ||||
| Coliforms | ||||
| Morganella group | ||||
| Enterococcus spp | ||||
| S. aureus | ||||
| Missing | not applicable if culture negative/ contaminated | |||
| cefpodoxime | Antibiotic susceptibility test for cefpodoxime (for Enterobacteriaceae only = E. coli, Coliforms or Proteus, Providencia and Morganella group) | Categorical | ||
| 0 | sensitive | |||
| 1 | resistant | |||
| Missing | not done if culture negative/ contaminated/ organism Enterococcus spp or Staphylococcus spp | |||
| ESBL | Presence of extended-spectrum beta-lactamases IF organism is Enterobacteriaceae (E. coli, Coliforms or Proteus, Providencia and Morganella group) AND cefpodoxime =1 (resistant) | Categorical | ||
| Present | ||||
| Absent | ||||
| Missing | not done if organism is not Enterobacteriaceae and cefpodoxime is sensitive | |||
| Intray taken out | Number of times the InTray was taken out of the refrigerator to be sent to the field | Integer | ||
| Number | ||||
| Missing | missing value | |||
| Intray result | Culture result using the InTray screen | categorical | ||
| 0 | No growth | |||
| 1 | Positive culture with a pathogen | |||
| 2 | Some growth of non-pathogenic bacteria or insignificant growth of a pathogen (<5 CFU) | |||
| 3 | Growth of a non-pathogenic bacteria (more than at #2) | |||
| Intray organism | Organism identified using the InTray (only for positive cultures with pathogenic bacteria: InTray result = “1”) | categorical | ||
| E. coli | ||||
| Coliforms | ||||
| Proteus (includes Proteus, Providencia, Morganella) | ||||
| Enterococcus spp. | ||||
| S. aureus | ||||
| Missing | culture negative on InTray/ contamination/ growth of non-pathogenic organisms | |||
| Intray growth (enterobacteria) | Growth on InTray (classification applicable to enterobacteria) | categorical | ||
| 0 | negative/ insignificant growth | |||
| 1 | 5-49 CFU/ plate | |||
| 2 | 50-100 CFU/ plate | |||
| 3 | confluent growth (CFUs cannot be counted) | |||
| Missing | Culture is contaminated on Brilliance UTI agar | |||
| CD 103 | Number of colonies on Compact Dry at 1: 103 dilution | integer | ||
| Numeric value | Number of colonies on Compact Dry at 1: 103 dilution | |||
| 999 | semi-confluent growth | |||
| 9999 | confluent growth | |||
| CD 106 | Number of colonies on Compact Dry at 1: 106 dilution | integer | ||
| Numeric value | Number of colonies on Compact Dry at 1: 106 dilution | |||
| 999 | semi-confluent growth | |||
| 9999 | confluent growth | |||
| CD category 103 | Growth on Compact Dry at dilution 103 (this is a variable derived from CD 103) | categorical | ||
| 0 | Negative/ insignificant growth | |||
| 5 | 5-49 CFU/ml | |||
| 50 | 50-250 CFU/ml | |||
| 250 | >250 colonies/ semi-confluent growth | |||
| 9998 | Confluent growth | |||
| CD category 106 | Growth on Compact Dry at dilution 106 (this is a variable derived from CD 106) | categorical | ||
| 0 | Negative/ insignificant growth | |||
| 5 | 5-49 CFU/ml | |||
| 50 | 50-250 CFU/ml | |||
| 250 | >250 colonies/ semi-confluent growth | |||
| 9998 | Confluent growth | |||
| CD positive | Growth on Compact Dry | categorical | ||
| 0 | No growth | |||
| 1 | Growth (significant) |