| Literature DB >> 27601518 |
Nazma Habib Khan1,2, Arfan Ul Bari3, Rizwan Hashim3, Inamullah Khan4, Akhtar Muneer5, Akram Shah1, Sobia Wahid1,2, Vanessa Yardley2, Brighid O'Neil2, Colin J Sutherland2.
Abstract
This study primarily aimed to identify the causative species of cutaneous leishmaniasis (CL) in the Khyber Pakhtunkhwa Province of Pakistan and to distinguish any species-specific variation in clinical manifestation of CL. Diagnostic performance of different techniques for identifying CL was assessed. Isolates of Leishmania spp. were detected by in vitro culture, polymerase chain reaction (PCR) on DNA extracted from dried filter papers and microscopic examination of direct lesion smears from patients visiting three major primary care hospitals in Peshawar. A total of 125 CL patients were evaluated. Many acquired the disease from Peshawar and the neighboring tribal area of Khyber Agency. Military personnel acquired CL while deployed in north and south Waziristan. Leishmania tropica was identified as the predominant infecting organism in this study (89.2%) followed by Leishmania major (6.8%) and, unexpectedly, Leishmania infantum (4.1%). These were the first reported cases of CL caused by L. infantum in Pakistan. PCR diagnosis targeting kinetoplast DNA was the most sensitive diagnostic method, identifying 86.5% of all samples found positive by any other method. Other methods were as follows: ribosomal DNA PCR (78.4%), internal transcribed spacer 2 region PCR (70.3%), culture (67.1%), and microscopy (60.5%). Clinical examination reported 14 atypical forms of CL. Atypical lesions were not significantly associated with the infecting Leishmania species, nor with "dry" or "wet" appearance of lesions. Findings from this study provide a platform for species typing of CL patients in Pakistan, utilizing a combination of in vitro culture and molecular diagnostics. Moreover, the clinical diversity described herein can benefit clinicians in devising differential diagnosis of the disease. © The American Society of Tropical Medicine and Hygiene.Entities:
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Year: 2016 PMID: 27601518 PMCID: PMC5094225 DOI: 10.4269/ajtmh.16-0343
Source DB: PubMed Journal: Am J Trop Med Hyg ISSN: 0002-9637 Impact factor: 2.345
Primers and reaction conditions used in diagnostic PCRs
| PCR | Forward (F) primer/reverse (R) primer (5′–3′) | PCR mixture | Cycling conditions |
|---|---|---|---|
| rDNA | Nest1 F: GCTGTAGGTGAACCTGCAGCAGCTGGATCATT | 50 μL reaction; 5 μL DNA from filter papers (or 5 μL N1), 25 μL QIAGEN HotStar Taq Master Mix (QIAGEN), 0.3 μM primers | 95°C, 15 minutes |
| Nest1 R: GCGGGTAGTCCTGCCAAACACTCAGGTCTG | 35–40 cycles | ||
| Nest2 F: GCAGCTGGATCATTTTCC | 94°C, 0.5 minutes | ||
| Nest2 R: AACACTCAGGTCTGTAAAC | 58°C, 0.5 minutes | ||
| 72°C, 1.5 minutes | |||
| 60°C, 1 minutes | |||
| 75°C, 10 minutes | |||
| ITS2 | F: GGGAGAAGCTCTATTGTG | 25 μL reaction; 1 μL N2 product from rDNA PCR, KCl buffer (15 mM MgCl2, Bioline, London, UK), 2 mM deoxynucleotide triphosphates, 0.4 μM primers, 1U Taq polymerase | 94°C, 2 minutes |
| R: ACACTCAGGTCTGTAAAC | 40 cycles | ||
| 94°C, 20 seconds | |||
| 53°C, 30 seconds | |||
| 72°C, 1 minutes | |||
| 72°C, 10 minutes | |||
| kDNA | Nest1 F: C/GA/GTA/GCAGAAAC/TCCCGTTCA | 50 μL reaction; 5 μL DNA from filter papers (OR 5 μL N1), 25 μL QIAGEN HotStar Taq Master Mix, 0.3 μM primers | 95°C, 15 minutes |
| Nest1 R: ATTTTTCG/CGA/TTTT/CGCAGAACG | 30 cycles at | ||
| Nest2 F: ACTGGGGGTTGGTGTAAAATAG | 94°C, 1 minutes | ||
| Nest2 R: TCGCAGAACGCCCCT | 55°C, 1 minutes | ||
| 72°C, 1.5 minutes | |||
| 60°C, 1 minutes | |||
| 75°C,10 minutes |
kinetoplast DNA = kDNA; PCR = polymerase chain reaction.
Figure 1.Geographical distribution of cutaneous leishmaniasis (CL) cases reported in the study. Map shows adjoining regions of Khyber Pakhtunkhwa Province. Areas shaded gray are agencies within the Federally Administrated Tribal Areas (FATA). Dot on the map represents the isolation site of one or more strains. Size of the dot is proportional to number of strains represented by it.
Comparative performance of diagnostic methods used to identify Leishmania infections among 125 patients
| Diagnostic method | No. of positives (% positivity) | Sensitivity (%) (95% CI) | Specificity (%) (95% CI) | PPV (%) | NPV (%) | |
|---|---|---|---|---|---|---|
| kDNA PCR( | 69 (62.2) | 86.5 (76.5–93.3) | 86.5 (71.2–95.5) | 92.8 | 76.2 | 0.197 |
| ITS2 PCR( | 52 (46.8) | 70.3 (58.5–80.3) | 100 | 100 | 62.7 | < 0.01 |
| rDNA PCR( | 79 (71.2) | 78.4 (67.3–87.1) | 43.2 (27.1–60.5) | 73.4 | 50 | 0.411 |
| Microscopy ( | 26 (42.6) | 60.5 (44.4–75) | 100 | 100 | 51.4 | < 0.01 |
| Culture ( | 51 (42.9) | 67.1 (55.4–77.5) | 100 | 100 | 63.2 | < 0.01 |
CI = confidence interval; ITS2 = internal transcribed spacer 2 region; kinetoplast DNA = kDNA; NPV= negative predictive value; PCR = polymerase chain reaction; PPV = positive predictive value; rDNA = ribosomal DNA.
For McNemar's test of marginal homogeneity.
Both the methods contributed to formulating the “consensus” standard as no gold standard method exists.
For culture, sensitivity figure is equivalent to isolation rate.
Types and number of lesions in relation to Leishmania species identified in the region
| Dry/wet | ||||
|---|---|---|---|---|
| Dry | 24 (40.7) | 2 (50.0) | 1 (33.3) | 0.171 |
| Mixed | 28 (47.5) | 0 | 1 (33.3) | |
| Wet | 7 (11.9) | 2 (50.0) | 1 (33.3) | |
| No. of lesions (%) | ||||
| Single | 38 (57.6) | 2 (40.0) | 3 (100) | 0.241 |
| Multiple | 28 (42.4) | 3 (60.0) | 0 |
Includes only those samples for which clinical description was available.
Calculated for Pearson χ2 test.
Patient information and clinical data from lesions
| Study center | ||||
|---|---|---|---|---|
| All ( | CMH ( | KTH + KWH ( | ||
| Median age of patients (interquartile range) | 24 (17–32) | 26 (22–32) | 16 (7–30) | – |
| Sex of patients | ||||
| Male (%) | 84.8 | 97.2 | 68.5 | – |
| Female (%) | 15.2 | 2.8 | 31.5 | – |
| No. of lesions per patient | ||||
| Mean | 2.2 (95% CI 1.4–2.9) | 2.6 (95% CI 1.2–3.9) | 1.6 (95% CI 1.3–2.0) | – |
| Range | 1–47 | 1–7 | 1–47 | – |
| Singular lesion (%) | 59.7 | 48.6 | 74.1 | 0.004 |
| Multiple lesion (%) | 40.3 | 51.4 | 25.9 | |
| Duration of disease at presentation (months) | ||||
| Mean | 3.5 (95% CI 3.1–4.0) | 3.4 (95% CI 3.0–3.9) | 3.7 (95% CI 2.8–4.6) | 0.362 |
| Range | 0.36–12 | 0.75–10 | 0.36–12 | |
| Size of lesion at presentation (cm) | ||||
| Mean ( | 2.0 (95% CI 1.8–2.2) | 2.1 (95% CI 1.8–2.4) | 2.0 (95% CI 1.7–2.3) | 0.392 |
| Range | 0.5–6 | 0.5–6 | 0.5–6 | |
| Site (%) | ||||
| Upper extremity | 41.6 | 47.9 | 33.3 | 0.102 |
| Lower extremity | 24.8 | 21.1 | 29.6 | 0.276 |
| Lesions on both extremities | 10.4 | 15.5 | 3.7 | 0.032 |
| Lesions on and above neck | 29.6 | 23.9 | 37.4 | 0.112 |
CI = confidence interval; CMH = Combined Military Hospital; KTH = Kuwait Teaching Hospital; KWH = Khyber Teaching Hospital.
Calculated for Pearson χ2 test except for lesion duration and lesion size where the P values are for Wilcoxon–Mann–Whitney test.
Earliest appearing lesion was considered in case of multiple lesions.
Size of lesion that was selected for sampling. The analysis excludes lesions that could not be measured due to absence of clearly defined lesion boundaries (N = 17).
Percentages will not add up to 100% because of patients with multiple lesions at multiple sites (e.g., on upper extremities and face).
Figure 2.Atypical forms of cutaneous leishmaniasis (CL) lesions reported. (A) Psoraisiform, (i and ii) dry type, (iii) mixed type; (B) ecthymatous, mixed-type; (C) (i and ii) cellulitis like, mixed type. (D) (i and ii) Verruciform, dry type; (E) mycetomatous, mixed type; (F) lupoid, (i) mixed type and (ii) dry type; (G) keloidal, dry type; (H) squamous cell carcinoma like, wet type; (I) discoid lupus erythematosus like, dry type; (J) paronychial, dry type; (K) chanciform, wet type; (L) basal cell carcinoma like, mixed type; (M) erysipeloid, dry type; (N) typical (i and ii) wet type; and (O) typical (i and ii) mixed-type. LT = Leishmania tropica; LM = Leishmania major; LF = Leishmania infantum; L = Leishmania spp.; NA = no spp. identified.