4.1. Study area, design and period
A community-based cross-sectional study was conducted in towns in the Wolaita Zone, South Ethiopia from May 1 to July 30, 2023. According to the Wolaita Zone Health Department's 2019 information, the estimated population of Wolaita Zone is 2,020,386, with 983,991 males and 1,030,396 females. This study was conducted in three selected towns: Sodo, Areka, and Bodeti. The city administration and Sodo city female and youth offices estimated the number of homeless people in Sodo Town to be 1,450, in Areka Town to be 550, and in Bodeti to be 500 in 2022 [27, 28].
Sample size determination and sample techniques
The sample size for this study was calculated by considering two assumptions: determining prevalence and associated factors. For the prevalence component, the sample size was determined using a single population proportion formula with the assumption of a 5% margin of error, 95% confidence interval, and 50% proportion, as there was no previous study in the area. The sample size correction formula was also considered, as the population is less than 10,000. with the inclusion of a 10% non-respondent rate. For associated factors, the sample size was calculated using EPI info 3.2 and odds ratios from previous studies. The largest sample size calculated was 366, which was chosen as the sample size for this study. The sample size was proportionally allocated to three selected towns based on homeless population size. Accordingly, 212 of the samples were allocated to Sodo town, 81 to Areka town, and 73 to Bodeti town. For each town, homeless people were screened according to WHO criteria for PTB suspects [29, 30] about 1,400 homeless individuals were screened during the study period. Out of the total screened, 366 homeless individuals were screened if they had coughed for more than two weeks duration was included in to the study. Homeless people who were seriously ill, duration of being homeless less than one month and unable to produce sputum at the time of data collection were excluded from the study. In this study only bacteriological confirmed cases were used to calculate the prevalence.
Data Collection
A face- to- face interview using a pre tested structured questionnaire by trained data collectors. The questionnaire had four parts: socio demographic characteristics, environmental factor, behavioral characteristics, clinical presentation and status of the study participants’ data. The standardized questionnaire was adapted from different literatures, the questionnaire was prepared in English and Amharic languages, and was translated to local languages; Wolaitagna language for appropriateness and clarityso, the participants were interviewed with their mother languages, and finally translated to English by another language expert to check its consistency.
Laboratory Methods
Sample collection and processing: The participants were properly advised by trained laboratory technologists on how to produce a good sputum sample. Two (Falcon tubes) sputum samples were collected using coded, clean, leak-proof, disposable containers from each participant. One of the samples was used for diagnosis directly by using the GeneXpert MTB/RIF assay at Wolaita Sodo Comprehensive Specialized Hospital (WSUCSH) microbiology unit, Gene Xpert Laboratory, according to standard operating procedures (SOPs), while the second sample was processed for mycobacterial isolation, refrigerated (2–8oC) to inhibit the growth of unwanted microorganisms, and transported to the Ethiopian Public Health Laboratory Hawassa branch TB laboratory for the gold standard test (LJ culture) to be conducted. Samples were transported in a cold ice box for a maximum of 2–8 weeks for culture.
Anthropometric measurements
Mid upper arm circumference measurements (MUAC): - using a flexible non-stretch tape laid at the midpoint between the acromion and olecranon processes on the shoulder blade and the ulna, were recorded to the nearest 0.1 cm, respectively. It used to classify research children participant’s nutritional status as severe acute malnutrition (MUAC=less than 11.5cm), moderate acute malnutrition (MUAC=less than 12.5cm), and normal (MUAC = over 13.5cm) [31].
BMI measurements:-Using a digital scale, the participant's height and body weight were recorded to the nearest 0.1 cm and 0.1 kg, respectively. The BMI is calculated by dividing the individual's weight in kilograms by their height in meters squared. It is used to classify research participants' nutritional status as malnutrition (BMI = less than 18.5 kg/m2), normal (BMI = 18.5-24.9 kg/m2), or overweight (BMI = 25.0 – 29.9 kg/m2) [32].
Rapid HIV test: Study participants' HIV status was determined by means of pre-test counseling performed by qualified healthcare providers. To put it briefly, a finger prick was used to get a whole blood sample. HIV antibody colloidal gold (1 + 2) quick diagnostic kits (one step) were used to screen for the existence of antibodies against HIV-1 and HIV-2. When the one step result was reactive, HIV½ first response (Chembio Diagnostics, USA) was used to confirm the presence of antibodies. A third test, Unigold TM HIV (Trinity Biotech, Ireland), was also employed as a tiebreaker to establish the test result in accordance with the manufacturer's instructions when the first response result was inconsistent with one step. Finally, rapid post-test counseling is provided by the respective health center and communicates the ART [33–35].
GeneXpert MTB/RIF Assay: The GeneXpert MTB-RIF assay was performed on a sputum sample according to the manufacturer’s specifications (Cepheid, CA, USA). The GeneXpert assay sputum samples were treated with sample reagent (SR) containing NaOH and isopropanol, the SR was added using a 2 to 1 ratio of the sputum sample tube to kill mycobacteria and liquefy the sputum sample. Mixed well, vigorously shaken and allowed to for 10 minutes, then again shaken, and allowed to for another 5 minutes of incubation time at room temperature. Finally, two ml of the treated sample is transferred to a GeneXpert cartridge using a Pasteur pipette, and inserted into the GeneXpert instrument for PCR testing. By starting the test on the system software, the GeneXpert automates all the subsequent steps, including sample work-up (sample processing), nucleic acid amplification, detection of the target sequence and result interpretation. The results were reported within 2 hours. After 2 hours, the comprehensive test result was read on computer screen as MTB/RIF detected or not detected, RIF sensitive or resistance and bacterial load low medium or high [36-39].
Mycobacterium culture: The LJ culture procedure was carried out on all samples that tested positive with GeneXpert, as well as an equal number of samples that tested negative with GeneXpert as follows: A portion of each sputum sample was decontaminated using the modified Petroff method, which involves N-acetyl L-cysteine-sodium hydroxide (NALC-NaOH) for decontamination and hydrochloric acid (HCL) for neutralization. This method is routinely used at SNNPRPHIL, Ethiopia [40]. Briefly, an equal volume of sputum was added to NALC-NaOH. The mixture was vortexes for 1 minute until well mixed, then left to stand for 15 minutes at room temperature. Finally, it was neutralized using sterile phosphate-buffered saline (PBS with a pH of +4) and centrifuged at 3,000 rpm for 20 minutes. The supernatant was decanted, and the sediment in each tube was suspended again in sterile PBS to reach a volume of 2 ml and mixed well. 100μl was inoculated into LJ slant tubes. The cultures were then incubated at 35-37°C for 8 weeks and inspected for the first time after 48 hours and then on a weekly basis [44]. Bacterial growth was checked for contamination and fast growers in the first week. Contaminated cultures were recorded as contaminated if the LJ media demonstrated contamination, and contaminated samples were re-inoculated with stored samples (sediment) for one more time. Positive isolates were confirmed by a combination of colony morphology and microscopic observation of AFB using ZN staining in a culture smear and SD Bioline TB Ag MPT64 Rapid test.
Data quality assurance: A pre-test was done in Hunbo town on 20 (5%) homeless people to check the clarity and consistency of the questionnaires and acceptability of laboratory procedure. The data collectors, who can speak the local language, were oriented for two day on data collection procedures and the art of interviewing for this study to attain standardization and maximize interview reliability. Senior microbiologists and main investigators verified the data collection, use of standard laboratory test technique, and test results. Following consistency and completeness checks, the completed questionnaire and the results of the laboratory test were gathered. The GeneXpert machine was tested by sample processing control (SPC) and probe check control (PCC) for its performance. All steps for preparation of LJ media and reading of the reference test results were done in the Bio safety class II cabinet (BSC-2), with the operator wearing N-95 mask, and it was carried out atP-3 TB conventional laboratory equipped with negative pressure room [41]. Reference strains of M. tuberculosis, H37Rv (susceptible) (Quality of LJ medium were assured by sterility checking and inoculating of known isolate). Pre-analytical, analytical and post-analytical stages of quality assurance that are incorporated in SOPs of the microbiology laboratory were strictly followed.
Data analysis: Data was entered to Epi data version 3.02 and exported to SPSS version 26 for analysis. Both descriptive and analytical statistical procedures were utilized. Descriptive statistics such as, proportion, frequencies and percentages were used for presentation of data and prevalence of PTB and RR-TB. Tables were also used for data presentation. With the Hosmer and Lemeshow goodness of fit test, the model's fitness was evaluated. All variables of the study were initially tested for association with PTB by using binary logistic regression model. Those variables which have p-value less than 0.25 by binary logistic regression were put in the multivariable analysis model to control the possible effect of confounders. Finally, all variable which has independent association with PTB was identified on the basis of odd ratio (OR) with 95% confidence interval (CI) and considered as having a statistically significant association at P-value less than 0.05.