1
|
Abbes S, Baldi S, Sellami H, Amedei A, Keskes L. Molecular methods for colorectal cancer screening: Progress with next-generation sequencing evolution. World J Gastrointest Oncol 2023; 15:425-442. [PMID: 37009313 PMCID: PMC10052664 DOI: 10.4251/wjgo.v15.i3.425] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 11/30/2022] [Revised: 01/02/2023] [Accepted: 02/15/2023] [Indexed: 03/14/2023] Open
Abstract
Currently, colorectal cancer (CRC) represents the third most common malignancy and the second most deadly cancer worldwide, with a higher incidence in developed countries. Like other solid tumors, CRC is a heterogeneous genomic disease in which various alterations, such as point mutations, genomic rearrangements, gene fusions or chromosomal copy number alterations, can contribute to the disease development. However, because of its orderly natural history, easily accessible onset location and high lifetime incidence, CRC is ideally suited for preventive intervention, but the many screening efforts of the last decades have been compromised by performance limitations and low penetrance of the standard screening tools. The advent of next-generation sequencing (NGS) has both facilitated the identification of previously unrecognized CRC features such as its relationship with gut microbial pathogens and revolutionized the speed and throughput of cataloguing CRC-related genomic alterations. Hence, in this review, we summarized the several diagnostic tools used for CRC screening in the past and the present, focusing on recent NGS approaches and their revolutionary role in the identification of novel genomic CRC characteristics, the advancement of understanding the CRC carcinogenesis and the screening of clinically actionable targets for personalized medicine.
Collapse
Affiliation(s)
- Salma Abbes
- Laboratory of Parasitic and Fungal Molecular Biology, University of Sfax, Sfax 3029, Tunisia
| | - Simone Baldi
- Department of Experimental and Clinical Medicine, University of Florence, Florence 50134, Italy
| | - Hayet Sellami
- Drosophila Research Unit-Parasitology and Mycologie Laboratory, University of Sfax, Sfax 3029, Tunisia
| | - Amedeo Amedei
- Department of Experimental and Clinical Medicine, University of Florence, Florence 50134, Italy
- SOD of Interdisciplinary Internal Medicine, Careggi University Hospital, Florence 50134, Italy
| | - Leila Keskes
- Laboratory of Human Molecular Genetic, University of Sfax, Sfax 3029, Tunisia
| |
Collapse
|
2
|
Hadrich I, Khemakhem N, Ilahi A, Trabelsi H, Sellami H, Makni F, Neji S, Ayadi A. Genotypic Analysis of the Population Structure in Malassezia globosa and Malassezia restricta. J Fungi (Basel) 2023; 9:jof9020263. [PMID: 36836377 PMCID: PMC9963534 DOI: 10.3390/jof9020263] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2022] [Revised: 12/22/2022] [Accepted: 12/23/2022] [Indexed: 02/18/2023] Open
Abstract
The molecular characterization of Malassezia spp. isolates from animals and humans has not been thoroughly studied. Although a range of molecular methods has been developed for diagnosing Malassezia species, they have several drawbacks, such as inefficiency in differentiating all the species, high cost and questionable reproducibility. The present study aimed to develop VNTR markers for genotyping Malassezia isolated from clinical and animal samples. A total of 44 M. globosa and 24 M. restricta isolates were analyzed. Twelve VNTR markers were selected on seven different chromosomes (I, II, III, IV, V, VII and IX), six for each Malassezia species. The highest discriminatory power for a single locus was obtained with the STR-MG1 marker (0.829) and STR-MR2 marker (0.818) for M. globosa and M. restricta, respectively. After the analysis of multiple loci, 24 genotypes were noted among 44 isolates in M. globosa, with a discrimination index D of 0.943 and 15 genotypes were noted among 24 isolates in M. restricta, with a discrimination index D of 0.967. An endogenous infection was detected in two patients. Different genotypes of M. globosa strains colonized one patient. Interestingly, VNTR markers analysis revealed a carriage between a breeder and his dog in three cases for M. globosa and two for M. restricta. The FST (0.018 to 0.057) values indicate a low differentiation between the three populations of M. globosa. These results suggest a dominant clonal mode of reproduction in M. globosa. The typing of M. restricta showed a genotypic diversity of the strains, which can cause various skin pathologies. However, patient five was colonized with strains having the same genotype collected from different body parts (back, shoulder). VNTR analysis was capable of identifying species with high accuracy and reliability. More importantly, the method would facilitate monitoring Malassezia colonization in domestic animals and humans. It was shown that the patterns are stable and the method is discriminant, making it a powerful tool for epidemiological purposes.
Collapse
Affiliation(s)
- Ines Hadrich
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax 3029, Tunisia
- Faculty of Science, University of Gabes, Gabes 6029, Tunisia
- Correspondence: ; Tel./Fax: +216-74-247-130
| | - Nahed Khemakhem
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax 3029, Tunisia
- Laboratory of Parasitology—Mycology, UH Habib Bourguiba, Sfax 3029, Tunisia
| | - Amin Ilahi
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax 3029, Tunisia
| | - Houaida Trabelsi
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax 3029, Tunisia
- Laboratory of Parasitology—Mycology, UH Habib Bourguiba, Sfax 3029, Tunisia
| | - Hayet Sellami
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax 3029, Tunisia
- Laboratory of Parasitology—Mycology, UH Habib Bourguiba, Sfax 3029, Tunisia
| | - Fattouma Makni
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax 3029, Tunisia
- Laboratory of Parasitology—Mycology, UH Habib Bourguiba, Sfax 3029, Tunisia
| | - Sourour Neji
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax 3029, Tunisia
- Laboratory of Parasitology—Mycology, UH Habib Bourguiba, Sfax 3029, Tunisia
| | - Ali Ayadi
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax 3029, Tunisia
- Laboratory of Parasitology—Mycology, UH Habib Bourguiba, Sfax 3029, Tunisia
| |
Collapse
|
3
|
Hadrich I, Khemekhem N, Neji S, Trablesi H, Ilahi A, Sellami H, Makni F, Ayadi A. Production and Quantification of Virulence Factors in Malassezia Species. Pol J Microbiol 2022; 71:529-538. [PMID: 36473111 PMCID: PMC9944974 DOI: 10.33073/pjm-2022-047] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2022] [Accepted: 09/20/2022] [Indexed: 12/12/2022] Open
Abstract
Seventy-seven strains of Malassezia were included in this study. Biofilm and hydrolytic enzyme production were studied by using specific solid media. The Real-Time reverse transcriptase qPCR method was applied to determine the overexpression of genes encoding the extracellular enzymes. All included Malassezia species produced biofilms. No statistically significant difference was observed between Malassezia species in biofilm formation (p = 0.567). All Malassezia species produced lipase, and 95% of Malassezia globosa showed a strong enzymatic activity (Pz = 0.55 ± 0.02). A statistically significant difference was observed between the mean keratinase indices of Malassezia slooffiae and the other Malassezia species (p = 0.005). The overexpression of one or more genes was observed in 100% of strains isolated from patients with folliculitis, 87.5% - with pityriasis versicolor, and 57.14% of the control group isolates. A statistically significant difference in the lipase gene expression (p = 0.042) was between the strains from patients with folliculitis and the control group. This investigation provides more information about the frequency of the production of the major enzymes considered virulence factors of Malassezia species. Interestingly, the overexpression of one or more genes was observed in strains isolated from patients with Malassezia disorders.
Collapse
Affiliation(s)
- Inès Hadrich
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia,Laboratory of Parasitology – Mycology, UH Habib Bourguiba, Sfax, Tunisia,Faculty of Science, University of Gabes, Gabes, Tunisia, Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia; Laboratory of Parasitology – Mycology, UH Habib Bourguiba, Sfax, Tunisia; Faculty of Science, University of Gabes, Gabes, Tunisia
| | - Nahed Khemekhem
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia,Laboratory of Parasitology – Mycology, UH Habib Bourguiba, Sfax, Tunisia
| | - Sourour Neji
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia,Laboratory of Parasitology – Mycology, UH Habib Bourguiba, Sfax, Tunisia
| | - Houaida Trablesi
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia,Laboratory of Parasitology – Mycology, UH Habib Bourguiba, Sfax, Tunisia
| | - Amin Ilahi
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia,Laboratory of Parasitology – Mycology, UH Habib Bourguiba, Sfax, Tunisia
| | - Hayet Sellami
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia,Laboratory of Parasitology – Mycology, UH Habib Bourguiba, Sfax, Tunisia
| | - Fattouma Makni
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia,Laboratory of Parasitology – Mycology, UH Habib Bourguiba, Sfax, Tunisia
| | - Ali Ayadi
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia,Laboratory of Parasitology – Mycology, UH Habib Bourguiba, Sfax, Tunisia
| |
Collapse
|
4
|
Abbes S, Sellami H, Neji S, Trabelsi H, Makni F, Ayadi A. Implication of efflux pumps and ERG11 genes in resistance of clinical Trichosporon asahii isolates to fluconazole. J Med Microbiol 2021; 70. [PMID: 33688802 DOI: 10.1099/jmm.0.001236] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Abstract
Introduction. Trichosporon asahii has been recognized as an opportunistic agent having a limited sensitivity to antifungal treatment.Hypothesis/Gap Statement. Molecular mechanisms of azole resistance have been rarely reported for Trichosproron asahii. Similar to other fungi, we hypothesized that both ERG11 gene mutation and efflux pumps genes hyper-expression were implicated.Aim. The current work aimed to study the sensitivity of clinical T. asahii isolates to different antifungal agents and to explore their resistance mechanisms by molecular methods including real-time PCR and gene sequencing.Methods. The sensitivity of T. asahii isolates to fluconazole, amphotericin B and voriconazole was estimated by the Etest method. Real-time PCR was used to measure the relative expression of Pdr11, Mdr and ERG11 genes via the ACT1 housekeeping gene. Three pairs of primers were also chosen to sequence the ERG11 gene. This exploration was followed by statistical study including the receiver operating characteristic (ROC) curve analysis to identify a relationship between gene mean expression and the sensitivity of isolates.Results. In 31 clinical isolates, the resistance frequencies were 87, 16.1 and 3.2 %, respectively, for amphotericin B, fluconazole and voriconazole. Quantitative real-time PCR demonstrated that only Mdr over-expression was significantly associated with FCZ resistance confirmed by univariate statistical study and the ROC curve analysis (P <0.05). The ERG11 sequencing revealed two mutations H380G and S381A in TN325U11 (MIC FCZ=8 µg ml-1) and H437R in TN114U09 (MIC FCZ=256 µg ml-1) in highly conserved regions (close to the haem-binding domain) but their involvement in the resistance mechanism has not yet been assigned.Conclusion. T. asahii FCZ resistance mechanisms are proven to be much more complex and gene alteration sequence and/or expression can be involved. Only Mdr gene over-expression was significantly associated with FCZ resistance and no good correlation was observed between FCZ and VCZ MIC values and relative gene expression. ERG11 sequence alteration seems to play a major role in T. asahii FCZ resistance mechanism but their involvement needs further confirmation.
Collapse
Affiliation(s)
- S Abbes
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - H Sellami
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - S Neji
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - H Trabelsi
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - F Makni
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - A Ayadi
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| |
Collapse
|
5
|
Trabelsi H, Neji S, Hadrich I, Sellami M, Khemakhem N, Sellami H, Makni F, Hammami B, Ayadi A. Unusual case of otomycosis caused by Saksenaea vasiformis. Med Mycol Case Rep 2020; 27:68-71. [PMID: 32082981 PMCID: PMC7019119 DOI: 10.1016/j.mmcr.2020.02.001] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2019] [Revised: 01/18/2020] [Accepted: 02/05/2020] [Indexed: 11/29/2022] Open
Abstract
Saksenaea vasiformis is a species of the order Mucorales rarely reported as a cause of human mucormycosis. We report an unusual case of S. vasiformis otitis occurring in a diabetic woman after penetration of an insect in the right ear. Direct microscopic examination of the clinical sample showed hyaline and non septate hyphae belonging to the order Mucorales. Fungal identification was performed by sequencing the ITS region of the rDNA. To our knowledge, this is the first report of S. vasiformis infection in Tunisia.
Collapse
Affiliation(s)
- H Trabelsi
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia
| | - S Neji
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia
| | - I Hadrich
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia
| | - M Sellami
- ENT Department, Habib Bourguiba Hospital, Sfax, Tunisia
| | - N Khemakhem
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia
| | - H Sellami
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia
| | - F Makni
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia
| | - B Hammami
- ENT Department, Habib Bourguiba Hospital, Sfax, Tunisia
| | - A Ayadi
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia
| |
Collapse
|
6
|
Trabelsi H, Hadrich I, Neji S, Khemakhem N, Hammami B, Makni F, Sellami H, Ayadi A. Microsatellite analysis of the population structure in Rhizopus arrhizus. J Appl Microbiol 2020; 128:1793-1801. [PMID: 31965685 DOI: 10.1111/jam.14583] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2019] [Revised: 01/06/2020] [Accepted: 01/15/2020] [Indexed: 11/27/2022]
Abstract
OBJECTIVES Rhizopus arrhizus is recognized as an emergent agent of superficial and invasive mucormycosis. Despite an increasing number of these infections, the molecular epidemiology of Rhizopus species has not been well studied. MATERIALS AND METHODS In this study, 43 R. arrhizus strains (25 environmental and 18 clinical isolates) were genotyped using six novel panels of microsatellite markers. RESULTS Upon the analysis of 43 isolates, 4-8 distinct alleles were detected for each marker. The discriminatory power for the individual markers ranged from 0·522 to 0·830. The combination of all six markers yielded 33 different haplotypes with a high degree of discrimination (0·989 D value). A four-marker combination were selected as the most parsimonious panel achieving D > 0·95. One clinical isolate and one environmental isolate shared the same genotype suggesting the possible nosocomial outbreak of mucormycosis in hospitalized patients. We have noted that the strains isolated from cutaneous mucormycosis were different from the strains isolated from rhino-orbito-cerebral mucormycosis. Then, the hypothesis of particular tropism of infectious strains for a given site is not excluded. The standardized indices of association IA and rBarD were significantly different from zero (P < 0·01), suggesting a prevailing clonal reproduction. The environmental population was significantly differentiated from clinical populations (Fst = 0·2249). CONCLUSIONS Microsatellite typing method described in our study showed an excellent degree of discriminatory power. It is a promising tool for illuminating the molecular epidemiology of R. arrhizus species, including strain relatedness and transmission pathways.
Collapse
Affiliation(s)
- H Trabelsi
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia.,Fungi and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - I Hadrich
- Fungi and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - S Neji
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia.,Fungi and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - N Khemakhem
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia.,Fungi and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - B Hammami
- ENT Department, Habib Bourguiba Hospital, Sfax, Tunisia
| | - F Makni
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia.,Fungi and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - H Sellami
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia.,Fungi and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - A Ayadi
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia.,Fungi and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| |
Collapse
|
7
|
Ghorbel D, Hadrich I, Neji S, Trabelsi H, Belaaj H, Sellami H, Cheikhrouhou F, Makni F, Ayadi A. Detection of virulence factors and antifungal susceptibility of human and avian Aspergillusflavus isolates. J Mycol Med 2019; 29:292-302. [PMID: 31570304 DOI: 10.1016/j.mycmed.2019.100900] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2019] [Revised: 08/07/2019] [Accepted: 09/08/2019] [Indexed: 10/26/2022]
Abstract
Aspergillusflavus is the second leading cause of invasive and non-invasive aspergillosis. Secretion of hydrolytic enzymes is considered as a virulence factor in this species. Our work aimed to study in vitro production of some virulence factors, to evaluate the biofilm production against human and avian A. flavus isolates and to investigate the antifungal susceptibility agents. Hydrolytic enzymes, biofilm production and molecular typing were studied for 62 human and 36 avian A. flavus isolates by specific solid media and six microsatellite markers. The susceptibility to antifungal agents was evaluated for 37 human isolates. All human and avian A. flavus isolates showed positive activities of extracellular hydrolase: phospholipase, protease and hemolysin. A positive elastase activity was seen in 64.51% of human A. flavus isolates and 86.1% of avian A. flavus isolates. All A. flavus in these two populations formed biofilms. Statistical significant difference was observed for the mean phospholipase activities (P=0.025) and biofilm quantification (P=0.0001) between human and avian A. flavus isolates. The in vitro susceptibility results showed a resistance in 83.7%, 81.08% and 16.21% of A. flavus isolates respectively to amphotericin B, itraconazole and posaconazole. No association was noted between all virulence factors and the genotypes of human and avian isolates. Our study allowed us to show that human strains have a higher production of extracellular hydrolases and biofilm then avian strains. These virulence factors appear to act synergistically to contribute to the virulence of A. flavus strains. Moreover, significant correlation between virulence patterns and antifungal susceptibility profiles was observed.
Collapse
Affiliation(s)
- D Ghorbel
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, university of Sfax, Tunisia.
| | - I Hadrich
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, university of Sfax, Tunisia.
| | - S Neji
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, university of Sfax, Tunisia.
| | - H Trabelsi
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, university of Sfax, Tunisia.
| | - H Belaaj
- Hematology department, UH Hedi Chaker, Sfax, Tunisia.
| | - H Sellami
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, university of Sfax, Tunisia.
| | - F Cheikhrouhou
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, university of Sfax, Tunisia.
| | - F Makni
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, university of Sfax, Tunisia.
| | - A Ayadi
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, university of Sfax, Tunisia.
| |
Collapse
|
8
|
Trabelsi H, Neji S, Hadrich I, Khemakhem N, Sellami H, Makni F, Ayadi A. Contribution of the internal transcribed spacer regions to the detection and identification of human fungal pathogens. Curr Res Transl Med 2019; 67:100-106. [PMID: 30975553 DOI: 10.1016/j.retram.2019.04.001] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2019] [Revised: 03/25/2019] [Accepted: 04/02/2019] [Indexed: 11/17/2022]
Abstract
Fungi are morphologically and phylogenetically diverse. There identification is largely based on phenotypic methods. Thus, related species, phenotypic variants and rare species may be unidentified. So, molecular methods have been introduced for identification of pathogenic molds to overcome these problems. In this study, we report the contribution of molecular tools (PCR sequencing) to identify fungal pathogens in both clinical and environmental samples. A total of 82 mold isolates were used (50 clinical samples and 32 environmental samples). PCR and direct sequencing, targeting the internal transcribed spacer (ITS) regions, were performed. We employed comparative sequence analysis to identify molds by using the GenBank database. 89% of isolates were identified by phenotypic methods. PCR- sequencing allowed the fungal identification in all cases. The concordance between molecular and morphological identification was obtained for 33 cases (40.2%). In 36 cases (43.9%), the molecular study gave the exact species identification. PCR sequencing allowed as revising mycological identification for 13 fungi strains (15.9%). The concordance of identification at species level by phenotypic method and by sequence analysis was obtained for 28% of clinical samples and for 59% of environmental samples. The phylogenetic tree for the ITS sequences showed six different clusters that are composed of isolates belonging to the same genus or species. PCR sequencing has been shown to be useful for the detection of the presence of fungal DNA in both environmental and clinical samples. It is rapid and more sensitive for the identification of medically important fungi.
Collapse
Affiliation(s)
- H Trabelsi
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia
| | - S Neji
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia
| | - I Hadrich
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia
| | - N Khemakhem
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia
| | - H Sellami
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia
| | - F Makni
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia
| | - A Ayadi
- Laboratory of Parasitology-Mycology, Habib Bourguiba Hospital, Sfax, Tunisia.
| |
Collapse
|
9
|
Dendana F, Trabelsi H, Neji S, Sellami H, Kammoun S, Makni F, Feki J, Cheikhrouhou F, Ayadi A. Prevalence of free living amoeba in the domestic waters reservoirs in Sfax, Tunisia. Exp Parasitol 2018; 193:1-4. [PMID: 30026115 DOI: 10.1016/j.exppara.2018.07.007] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2017] [Revised: 05/30/2018] [Accepted: 07/15/2018] [Indexed: 11/19/2022]
Abstract
Free living amoebas (FLA) are opportunistic pathogen found in different water sources in the environment. The aim of this study was to investigate the prevalence of free living amoeba in different samples of domestic water reserves (DWR) in Sfax region from Tunisia. It was a prospective study dealing with 486 water samples collected from different DWR. After filtration through a cellulose acetate membrane samples were cultured on non-nutrient agar and the FLA were detected and strained with Giesma, Trichrome and red nuclear stain for morphological and morphotypic studies. FLA were found in 62% of samples. The Acanthopodial morphotype was detected in 43%, Polytactic (38%), Monotactic (28%), Fan-shaped (17%), Rugose (11%), Dactilopodial (10%) and Eruptive (9%). These results demonstrate that domestic water reserves are a significant source of the FLA and maintenance of DWR is recommended.
Collapse
Affiliation(s)
- F Dendana
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine Sfax, Sfax University, Sfax, Tunisia.
| | - H Trabelsi
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine Sfax, Sfax University, Sfax, Tunisia; Laboratory of Parasitology-Mycology, Habib Bourguiba University Sfax Hospital, Sfax, Tunisia
| | - S Neji
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine Sfax, Sfax University, Sfax, Tunisia; Laboratory of Parasitology-Mycology, Habib Bourguiba University Sfax Hospital, Sfax, Tunisia
| | - H Sellami
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine Sfax, Sfax University, Sfax, Tunisia; Laboratory of Parasitology-Mycology, Habib Bourguiba University Sfax Hospital, Sfax, Tunisia
| | - S Kammoun
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine Sfax, Sfax University, Sfax, Tunisia; Ophthalmology Service, Habib Bourguiba University Sfax Hospital, Sfax, Tunisia
| | - F Makni
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine Sfax, Sfax University, Sfax, Tunisia; Laboratory of Parasitology-Mycology, Habib Bourguiba University Sfax Hospital, Sfax, Tunisia
| | - J Feki
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine Sfax, Sfax University, Sfax, Tunisia; Ophthalmology Service, Habib Bourguiba University Sfax Hospital, Sfax, Tunisia
| | - F Cheikhrouhou
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine Sfax, Sfax University, Sfax, Tunisia; Laboratory of Parasitology-Mycology, Habib Bourguiba University Sfax Hospital, Sfax, Tunisia
| | - A Ayadi
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine Sfax, Sfax University, Sfax, Tunisia; Laboratory of Parasitology-Mycology, Habib Bourguiba University Sfax Hospital, Sfax, Tunisia
| |
Collapse
|
10
|
Neji S, Hadrich I, Ilahi A, Trabelsi H, Chelly H, Mahfoudh N, Cheikhrouhou F, Sellami H, Makni F, Ayadi A. Molecular Genotyping of Candida parapsilosis Species Complex. Mycopathologia 2018; 183:765-775. [DOI: 10.1007/s11046-018-0278-1] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2017] [Accepted: 10/10/2017] [Indexed: 11/30/2022]
|
11
|
Dendana F, Trabelsi H, Neiji S, Sellami H, Kammoun S, Makni F, Feki J, Cheikhrouhou F, Ayadi A. Isolation and molecular identification of Acanthamoeba spp from oasis water in Tunisia. Exp Parasitol 2018; 187:37-41. [DOI: 10.1016/j.exppara.2018.02.009] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2017] [Revised: 02/09/2018] [Accepted: 02/28/2018] [Indexed: 01/12/2023]
|
12
|
Neji S, Hadrich I, Trabelsi H, Abbes S, Cheikhrouhou F, Sellami H, Makni F, Ayadi A. Virulence factors, antifungal susceptibility and molecular mechanisms of azole resistance among Candida parapsilosis complex isolates recovered from clinical specimens. J Biomed Sci 2017; 24:67. [PMID: 28870262 PMCID: PMC5582387 DOI: 10.1186/s12929-017-0376-2] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2017] [Accepted: 08/30/2017] [Indexed: 01/12/2023] Open
Abstract
Background The aim of this study was to determine the biofilm formation, the extracellular enzymatic activities of 182 clinical isolates of the Candida parapsilosis complex. Methods Molecular identification of the C. parapsilosis species complex was performed using PCR RFLP of SADH gene and PCR sequencing of ITS region. The susceptibility of ours isolates to antifungal agents and molecular mechanisms underlying azole resistance were evaluated. Results 63.5% of C. parapsilosis were phospholipase positive with moderate activity for the majority of strains. None of the C. metapsilosis or C. orthopsilosis isolates was able to produce phospholipase. Higher caseinase activities were detected in C. parapsilosis (Pz = 0.5 ± 0.18) and C. orthopsilosis (Pz = 0.49 ± 0.07) than in C. metapsilosis isolates (Pz = 0.72 ± 0.1). 96.5% of C. parapsilosis strains and all isolates of C. metapsilosis and C. orthopsilosis produced gelatinase. All the strains possessed the ability to show haemolysis on blood agar. C. metapsilosis exhibited the low haemolysin production with statistical significant differences compared to C. parapsilosis and C. orthopsilosis. The biofilm forming ability of C. parapsilosis was highly strain dependent with important heterogeneity, which was less evident with both C. orthopsilosis and C. metapsilosis. Some C. parapsilosis isolates met the criterion for susceptible dose dependent to fluconazole (10.91%), itraconazole (16.36%) and voriconazole (7.27%). Moreover, 5.45% and 1.82% of C. parapsilosis isolates were respectively resistant to fluconazole and voriconazole. All strains of C. metapsilosis and C. orthopsilosis were susceptible to azoles; and isolates of all three species exhibited 100% of susceptibility to caspofungin, amphotericin B and 5-flucytosine. Conclusions A combination of molecular mechanisms, including the overexpression of ERG11, and genes encoding efflux pumps (CDR1, MDR1, and MRR1) were involved in azole resistance in C. parapsilosis.
Collapse
Affiliation(s)
- Sourour Neji
- Laboratory of Parasitology - Mycology, UH Habib Bourguiba, Sfax, Tunisia.,Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia
| | - Ines Hadrich
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia.
| | - Houaida Trabelsi
- Laboratory of Parasitology - Mycology, UH Habib Bourguiba, Sfax, Tunisia.,Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia
| | - Salma Abbes
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia
| | - Fatma Cheikhrouhou
- Laboratory of Parasitology - Mycology, UH Habib Bourguiba, Sfax, Tunisia.,Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia
| | - Hayet Sellami
- Laboratory of Parasitology - Mycology, UH Habib Bourguiba, Sfax, Tunisia.,Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia
| | - Fattouma Makni
- Laboratory of Parasitology - Mycology, UH Habib Bourguiba, Sfax, Tunisia.,Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia
| | - Ali Ayadi
- Laboratory of Parasitology - Mycology, UH Habib Bourguiba, Sfax, Tunisia.,Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Sfax, Tunisia
| |
Collapse
|
13
|
Sellami H, Abbes S. Activity assessment of Tunisian olive leaf extracts against survival and virulence in vitro of Candida glabrata. J Mycol Med 2017. [DOI: 10.1016/j.mycmed.2017.04.102] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
|
14
|
Sellami H. Génotypage des souches de Trichosporon asahii. J Mycol Med 2017. [DOI: 10.1016/j.mycmed.2017.04.078] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
|
15
|
Sellami H, Trabelsi H, Neji S, Amouri I, Cheikhrouhou F, Makni F, Ayadi A. First genotype identification of Trichosporon asahii in Sfax, Tunisia. J Med Microbiol 2017; 66:397-401. [DOI: 10.1099/jmm.0.000442] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Hayet Sellami
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - Houaida Trabelsi
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - Sourour Neji
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - Imen Amouri
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - Fatma Cheikhrouhou
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - Fattouma Makni
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| | - Ali Ayadi
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia
| |
Collapse
|
16
|
Cheikhrouhou F, Guidara R, Masmoudi A, Trabelsi H, Neji S, Sellami H, Makni F, Ayadi A. Molecular Identification of Malassezia Species in Patients with Malassezia folliculitis in Sfax, Tunisia. Mycopathologia 2017; 182:583-589. [DOI: 10.1007/s11046-017-0113-0] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2016] [Accepted: 01/10/2017] [Indexed: 10/20/2022]
|
17
|
Neji S, Trabelsi H, Hadrich I, Cheikhrouhou F, Sellami H, Makni F, Ayadi A. Molecular study of the Candida parapsilosis complex in Sfax, Tunisia. Med Mycol 2016; 55:137-144. [PMID: 27555560 DOI: 10.1093/mmy/myw063] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2016] [Revised: 03/04/2016] [Accepted: 06/25/2016] [Indexed: 11/14/2022] Open
Abstract
Candida parapsilosis, which was previously considered to be a complex of three genetically distinct groups, has emerged as a significant agent of nosocomial infections. Recently, this complex was separated into three species: C. parapsilosis sensu stricto, C. orthopsilosis, and C. metapsilosis In Tunisia, data pertaining to these fungi are limited. Thus, the purpose of our study was to determine by BanI PCR-RFLP and ITS sequencing, the occurrence of Candida parapsilosis complex among 182 isolates identified as C. parapsilosis by phenotypical methods. C. parapsilosis sensu stricto represented 94.5% of all isolates, while C. metapsilosis and. C. orthopsilosis were identified in 3.3% and 2.2%, respectively. Sequence analysis of internal transcribed spacer region confirmed and revealed only one genotype among the C. parapsilosis sensu stricto strains, three genotypes among six C. metapsilosis strains and two genotypes among four C. orthopsilosis strains.
Collapse
Affiliation(s)
- Sourour Neji
- Laboratory of Parasitology-Mycology, Habib Bourguiba, University Hospital, Sfax, Tunisia.,Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Tunisia
| | - Houaida Trabelsi
- Laboratory of Parasitology-Mycology, Habib Bourguiba, University Hospital, Sfax, Tunisia.,Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Tunisia
| | - Ines Hadrich
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Tunisia
| | - Fatma Cheikhrouhou
- Laboratory of Parasitology-Mycology, Habib Bourguiba, University Hospital, Sfax, Tunisia.,Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Tunisia
| | - Hayet Sellami
- Laboratory of Parasitology-Mycology, Habib Bourguiba, University Hospital, Sfax, Tunisia.,Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Tunisia
| | - Fattouma Makni
- Laboratory of Parasitology-Mycology, Habib Bourguiba, University Hospital, Sfax, Tunisia.,Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Tunisia
| | - Ali Ayadi
- Laboratory of Parasitology-Mycology, Habib Bourguiba, University Hospital, Sfax, Tunisia .,Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine, University of Sfax, Tunisia
| |
Collapse
|
18
|
Abbes S, Amouri I, Trabelsi H, Neji S, Sellami H, Rahmouni F, Makni F, Rebai T, Ayadi A. Analysis of virulence factors andin vivobiofilm-forming capacity ofYarrowia lipolyticaisolated from patients with fungemia. Med Mycol 2016; 55:193-202. [DOI: 10.1093/mmy/myw028] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2016] [Revised: 01/04/2016] [Accepted: 03/23/2016] [Indexed: 12/16/2022] Open
|
19
|
Neji S, Trabelsi H, Hadrich I, Cheikhrouhou F, Sellami H, Makni F, Ayadi A. Molecular characterization of strains of theTrichophyton verrucosumcomplex from Tunisia. Med Mycol 2016; 54:787-93. [DOI: 10.1093/mmy/myw036] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2016] [Accepted: 03/10/2016] [Indexed: 11/13/2022] Open
|
20
|
Guidara R, Trabelsi H, Neji S, Cheikhrouhou F, Sellami H, Makni F, Ayadi A. Rhodotorula fungemia : Report of two cases in Sfax (Tunisia). J Mycol Med 2016; 26:178-181. [DOI: 10.1016/j.mycmed.2016.02.020] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2015] [Revised: 02/17/2016] [Accepted: 02/21/2016] [Indexed: 11/29/2022]
|
21
|
La Jeunesse I, Cirelli C, Aubin D, Larrue C, Sellami H, Afifi S, Bellin A, Benabdallah S, Bird DN, Deidda R, Dettori M, Engin G, Herrmann F, Ludwig R, Mabrouk B, Majone B, Paniconi C, Soddu A. Is climate change a threat for water uses in the Mediterranean region? Results from a survey at local scale. Sci Total Environ 2016; 543:981-996. [PMID: 25956206 DOI: 10.1016/j.scitotenv.2015.04.062] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/09/2015] [Revised: 04/09/2015] [Accepted: 04/15/2015] [Indexed: 06/04/2023]
Abstract
Water scarcity and water security are linked, not only through the direct effects of water shortages on each water users' access to water, but also because of water conflicts generated. Climate change is predicted to raise temperatures in the Mediterranean region and reduce rainfall, leading to a reduction in water yield and possibly worsening the situation of water resource shortages that Mediterranean regions are already experiencing. In its dissemination strategy, the EU FP7 CLIMB project addressed water security threats through an analysis of water uses and water use rivalries within a few target catchments distributed over the Mediterranean region. The present work explores whether climate change is locally perceived by stakeholders (water users and managers) as a key issue for their water uses and water security. Individual interviews, meetings, and compilation of questionnaires were conducted at five sites located in the Mediterranean region. The methodology permitted an analysis of water use and its evolution in the water management context, an identification of the state of awareness of local stakeholders and of the pressures on water use and water use rivalries, and a prioritization of water uses. Currently, the main response to increasing water demand in the Mediterranean region, while not yet considering climate change as a driving force, is a progressive externalization of water resources, with limits represented by national borders and technological possibilities. Overall, 'climate change' was not mentioned by stakeholders during both interviews and in answers to the questionnaires. Even the prospect of decreasing precipitation was not considered a relevant or threatening issue in the coming 20years. This confirms the need to continue all efforts to disseminate the state of knowledge on climate change impacts in the Mediterranean region, such as water scarcity, especially to local water managers, as initiated by various research programs of the European Commission.
Collapse
Affiliation(s)
- I La Jeunesse
- University François Rabelais of Tours, UMR CNRS 7324 Citeres, 33, allée Ferdinand de Lesseps, B.P. 60449, 37204 Tours cedex 3, France; University of Angers, UMR CNRS 6554 LETG-Angers, 2 bd Lavoisier, 49045 Angers, France.
| | - C Cirelli
- University François Rabelais of Tours, UMR CNRS 7324 Citeres, 33, allée Ferdinand de Lesseps, B.P. 60449, 37204 Tours cedex 3, France
| | - D Aubin
- Université catholique de Louvain, Institut de sciences politiques Louvain-Europe, Place Montesquieu 1, b(te) L2.08.07, B-1348 Louvain-la-Neuve, Belgium
| | - C Larrue
- Université Paris-Est-Créteil-Val-de-Marne, Institut d'Urbanisme de Paris, 61, avenue du Général de Gaulle, 94010 Créteil cedex, France
| | - H Sellami
- Université catholique de Louvain, Earth and Life Institute, Croix du sud 2, bte 1, B-1348 Louvain-la-Neuve, Belgium
| | - S Afifi
- Islamic University of Gaza, Environmental & Earth Sciences Department, P.O. Box 108, Gaza, Palestine
| | - A Bellin
- University of Trento, Department of Civil, Environmental and Mechanical Engineering, Via Mesiano, 77 I-38123 Trento, Italy
| | - S Benabdallah
- Centre de Recherches et des Technologies des Eaux, Technopole Borj Cedria, BP 273, Soliman 8020, Tunisia
| | - D N Bird
- Joanneum Research Forschungsgesellschaft mbH, Leonhardstraße 59, A-8010 Graz, Austria
| | - R Deidda
- University of Cagliari, Faculty of Engineering, Piazza d'Armi, 09123 Cagliari, Italy; CINFAI, Consorzio Interuniversitario Nazionale per la Fisica delle Atmosfere e delle Idrosfere, Tolentino, Italy
| | - M Dettori
- Agricultural Research Agency of Sardinia (AGRIS-DIRVE), Sardinia, Viale Trieste 111, 09123 Cagliari, Italy
| | - G Engin
- Yildiz Technical University, Faculty of Civil Engineering, Department of Environmental Engineering, Davutpasa, Esenler, 34220 Istanbul, Turkey
| | - F Herrmann
- Forschungszentrum Jülich GmbH, Institut für Bio- und Geowissenschaften, Agrosphäre (IBG-3), Jülich, Germany
| | - R Ludwig
- Ludwig-Maximilians-Universität München (LMU), Department of Geography, Munich, Germany
| | - B Mabrouk
- University of Zagazig, Zagazig, Egypt
| | - B Majone
- University of Trento, Department of Civil, Environmental and Mechanical Engineering, Via Mesiano, 77 I-38123 Trento, Italy
| | - C Paniconi
- INRS, Centre Eau Terre Environnement, 490 rue de la Couronne, Quebec City G1K 9A9, Canada
| | - A Soddu
- Agricultural Research Agency of Sardinia (AGRIS-DIRVE), Sardinia, Viale Trieste 111, 09123 Cagliari, Italy
| |
Collapse
|
22
|
Neji S, Trabelsi H, Cheikhrouhou F, Chaabane H, Sellami H, Boudaya S, Makni F, Turki H, Ayadi A. Les dermatomycoses à Trichophyton verrucosum : étude clinique, épidémiologiques et moléculaire. Ann Dermatol Venereol 2015. [DOI: 10.1016/j.annder.2015.10.411] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
|
23
|
Drira I, Neji S, Hadrich I, Sellami H, Makni F, Ayadi A. Tinea manuum due to Trichophyton erinacei from Tunisia. J Mycol Med 2015; 25:200-3. [PMID: 26091573 DOI: 10.1016/j.mycmed.2015.05.001] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2014] [Revised: 04/20/2015] [Accepted: 05/07/2015] [Indexed: 11/17/2022]
Abstract
Trichophyton erinacei is a zoonotic fungus affecting hedgehogs. Although several human infections with this organism have been documented in the literature, it has rarely been isolated as a human pathogen. This paper reports on an erythematous lesion spotted on the hand of a 10-year-old girl. Based on the culture of the patient's skin scrapings, the pathogen was mycologically identified as T. erinacei, which was further confirmed by sequencing the internal transcribed spacers of the fungal nuclear ribosomal DNA using universal primer ITS1-ITS4. This is the first case of T. erinacei in a Tunisian patient. A survey was carried out on the environment of our patient, and the results revealed the presence of hedgehogs with suspect scaly lesions. The same fungus was isolated from the hair and scales of the hedgehog, which was confirmed by PCR sequencing. The frequency of T. erinacei has often been underestimated, which is attributed not only to the gaps of knowledge still existing in the current understanding of the dermatophyte but also to differential diagnosis problems. Molecular study offers a simple and rapid tool to identify the source of infection and, hence, avoid the risk of recurrence.
Collapse
Affiliation(s)
- I Drira
- Laboratory of fungal and parasitic molecular biology, school of medicine, university of Sfax, Magida-Boulila street, 3029 Sfax, Tunisia
| | - S Neji
- Laboratory of parasitology-mycology, UH Habib Bourguiba, 3000 Sfax, Tunisia
| | - I Hadrich
- Laboratory of fungal and parasitic molecular biology, school of medicine, university of Sfax, Magida-Boulila street, 3029 Sfax, Tunisia
| | - H Sellami
- Laboratory of fungal and parasitic molecular biology, school of medicine, university of Sfax, Magida-Boulila street, 3029 Sfax, Tunisia
| | - F Makni
- Laboratory of parasitology-mycology, UH Habib Bourguiba, 3000 Sfax, Tunisia
| | - A Ayadi
- Laboratory of fungal and parasitic molecular biology, school of medicine, university of Sfax, Magida-Boulila street, 3029 Sfax, Tunisia; Laboratory of parasitology-mycology, UH Habib Bourguiba, 3000 Sfax, Tunisia.
| |
Collapse
|
24
|
Trabelsi H, Néji S, Gargouri L, Sellami H, Guidara R, Cheikhrouhou F, Bellaaj H, Makni F, Elloumi M, Ayadi A. Geotrichum capitatum Septicemia: Case Report and Review of the Literature. Mycopathologia 2015; 179:465-9. [DOI: 10.1007/s11046-015-9869-2] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2014] [Accepted: 02/03/2015] [Indexed: 10/24/2022]
|
25
|
Cheikhrouhou F, Makni F, Neji S, Trigui A, Sellami H, Trabelsi H, Guidara R, Fki J, Ayadi A. Epidemiological profile of fungal keratitis in Sfax (Tunisia). J Mycol Med 2014; 24:308-12. [PMID: 25442924 DOI: 10.1016/j.mycmed.2014.06.047] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2013] [Revised: 06/06/2014] [Accepted: 06/30/2014] [Indexed: 11/28/2022]
Abstract
UNLABELLED Fungal keratitis is responsible for a significant burden of blinding disease in the developing world. OBJECTIVE The aim of this study was to determine the etiological agents, predisposing factors and therapy of keratomycosis in our region. METHODS Retrospective study of 60 patients with clinically and cultured confirmed fungi keratitis, who were attended at department of mycology in Sfax (1995 to 2012). RESULTS The mean age of patients was 47.2 years (sex ratio: 1.58). At least, one presumed predisposing factor was identified in 83.3% of cases. Corneal traumatism was established as the most common predisposing factor (61.6%) with vegetative matter (42.4%). Patients had corneal ulcer in 40% or abscess in 47.6%. All cases were positive on direct microscopy and 93% of cultures were positive. Filamentous fungi form the major etiologic agents (83%): Fusarium species (49% with F. solani [66%]), Aspergillus sp. (22%), Alternaria (5%), Scedosporium sp. (2%); and non-identified mold in (5%). Yeast were identified in 17% of cases. Topical agents were used in 97% of cases: ketoconazole 2%, amphotericin B (0.5%). Fluconazole per os was administrated for 11% of cases, itraconazole (2 cases) and voriconazole (one case). Keratoplasty was indicated for 27% of cases. The outcome was favorable in 16% of patients. Among the patients, 71% had persistent corneal deposit sequelae. Four patients lost the eyeball. CONCLUSION Corneal traumatism was the principal risk factor for fungal keratitis in young and middle-aged farmers. Fusarium solani is the predominant cause in Sfax. Early diagnosis, coupled with appropriate treatment, is crucial for increasing the chance of complete recovery.
Collapse
Affiliation(s)
- F Cheikhrouhou
- Laboratory of parasitology and mycology, UH Habib Bourguiba, Sfax, Tunisia.
| | - F Makni
- Laboratory of parasitology and mycology, UH Habib Bourguiba, Sfax, Tunisia
| | - S Neji
- Laboratory of parasitology and mycology, UH Habib Bourguiba, Sfax, Tunisia
| | - A Trigui
- Ophthalmology service, UH Habib Bourguiba, Sfax, Tunisia
| | - H Sellami
- Laboratory of parasitology and mycology, UH Habib Bourguiba, Sfax, Tunisia
| | - H Trabelsi
- Laboratory of parasitology and mycology, UH Habib Bourguiba, Sfax, Tunisia
| | - R Guidara
- Laboratory of parasitology and mycology, UH Habib Bourguiba, Sfax, Tunisia
| | - J Fki
- Ophthalmology service, UH Habib Bourguiba, Sfax, Tunisia
| | - A Ayadi
- Laboratory of parasitology and mycology, UH Habib Bourguiba, Sfax, Tunisia
| |
Collapse
|
26
|
Abbes S, Amouri I, Sellami H, Neji S, Trabelsi H, Cheikhrouhou F, Makni F, Ranque S, Ayadi A. Changes in genotype and fluconazole susceptibility of isolates from patients with Candida glabrata in Tunisia. Therapie 2014; 69:449-55. [PMID: 25285365 DOI: 10.2515/therapie/2014059] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2013] [Accepted: 04/01/2014] [Indexed: 11/20/2022]
Abstract
UNLABELLED Candida glabrata has emerged as an opportunistic pathogen of considerable importance in invasive and superficial infections. AIMS To analyze the development of fluconazole resistance in patients under treatment through epidemiological survey in our hospital. PATIENTS AND METHODS Twenty two patients (89 clinical strains) were collected. Molecular typing of isolates was performed by polymorphic markers. Analysis of gene expression was realized by reverse transcriptase-real time polymerase chain reactions (RT-qPCR). RESULTS Genetic analysis showed that 63% persists with apparently unchanged strains (n=14). Among them, four showed fluconazole resistance development. A strain replacement was observed in 6 patients and two patients selected more resistant isolates during the course of treatment. An analysis of Candida glabrata cerebellar degeneration-related protein 1 (CgCDR1), Candida glabrata cerebellar degeneration-related protein 2 (CgCDR2) and Candida glabrata sterol 14 alpha-demetylase Erg 11 (CgERG11) expression revealed an over-expression in 10 resistant isolates. CONCLUSION This study demonstrated that C. glabrata strain undergo frequent changes in vivo. The increase in CgCDR1 and CgCDR2 expression was the most mechanism associated with fluconazole resistance.
Collapse
Affiliation(s)
- Salma Abbes
- Laboratoire de biologie moléculaire, parasitaire et fongique, Faculté de médecine, Université de Sfax, Tunisie
| | - Imen Amouri
- Laboratoire de biologie moléculaire, parasitaire et fongique, Faculté de médecine, Université de Sfax, Tunisie
| | - Hayet Sellami
- Laboratoire de biologie moléculaire, parasitaire et fongique, Faculté de médecine, Université de Sfax, Tunisie
| | - Sourour Neji
- Laboratoire de biologie moléculaire, parasitaire et fongique, Faculté de médecine, Université de Sfax, Tunisie
| | - Houaida Trabelsi
- Laboratoire de biologie moléculaire, parasitaire et fongique, Faculté de médecine, Université de Sfax, Tunisie
| | - Fatma Cheikhrouhou
- Laboratoire de biologie moléculaire, parasitaire et fongique, Faculté de médecine, Université de Sfax, Tunisie
| | - Fattouma Makni
- Laboratoire de biologie moléculaire, parasitaire et fongique, Faculté de médecine, Université de Sfax, Tunisie
| | - Stéphane Ranque
- Laboratoire de parasitologie-mycologie, Aix-Marseille Université, AP-HM, CHU Timone, Marseille, France
| | - Ali Ayadi
- Laboratoire de biologie moléculaire, parasitaire et fongique, Faculté de médecine, Université de Sfax, Tunisie
| |
Collapse
|
27
|
Khemakhem N, Trabelsi H, Neji S, Cheikhrouhou F, Sellami H, Guidara R, Borcheni S, Chrouda A, Chelly H, Makni F, Bouaziz M, Ayadi A. Septicémies à Yarrowia Lipolytica : à propos de 28 cas dans le service de réanimation. J Mycol Med 2014. [DOI: 10.1016/j.mycmed.2014.01.090] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
|
28
|
Gargouri L, Trabelsi H, Neji S, Guidara R, Cheikhrouhou F, Sellami H, Hadj Said F, Bellaj H, Jmal K, Masmoudi M, Makni F, Elloumi M, Ayadi A. Les géotrichoses et les trichosporinoses invasives dans la région de Sfax. J Mycol Med 2014. [DOI: 10.1016/j.mycmed.2014.01.092] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
|
29
|
Neji S, Trabelsi H, Cheikhrouhou F, Guidara R, Sellami H, Boujelbene S, Yaich S, Hammami Z, Makni F, Hachicha J, Ayadi A. Étude de la flore fongique aérienne dans l’unité de greffe rénale. J Mycol Med 2014. [DOI: 10.1016/j.mycmed.2014.01.093] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
|
30
|
Trabelsi H, Néji S, Cheikhrouhou F, Sellami H, Guidara R, Mhiri W, Makni F, Ayadi A. Toxocarose oculaire : à propos d’un cas. J Fr Ophtalmol 2014; 37:e81-2. [DOI: 10.1016/j.jfo.2013.10.005] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2013] [Revised: 09/23/2013] [Accepted: 10/21/2013] [Indexed: 10/25/2022]
|
31
|
Drira I, Neji S, Hadrich I, Trabelsi H, Sellami H, Cheikhrouhou F, Guidara R, Makni F, Ayadi A. Polymorphisms in the ITS rDNA regions for differentiating strains of theTrichophyton mentagrophytescomplex in Sfax-Tunisia. Mycoses 2014; 57:453-9. [DOI: 10.1111/myc.12181] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2013] [Revised: 01/25/2014] [Accepted: 02/04/2014] [Indexed: 11/30/2022]
Affiliation(s)
- I. Drira
- Fungal and Parasitic Molecular Biology Laboratory; Faculty of Medicine; University of Sfax; Sfax Tunisia
| | - S. Neji
- Parasitology-Mycology Laboratory; Habib Bourguiba University Hospital; Sfax Tunisia
| | - I. Hadrich
- Fungal and Parasitic Molecular Biology Laboratory; Faculty of Medicine; University of Sfax; Sfax Tunisia
| | - H. Trabelsi
- Parasitology-Mycology Laboratory; Habib Bourguiba University Hospital; Sfax Tunisia
| | - H. Sellami
- Parasitology-Mycology Laboratory; Habib Bourguiba University Hospital; Sfax Tunisia
| | - F. Cheikhrouhou
- Parasitology-Mycology Laboratory; Habib Bourguiba University Hospital; Sfax Tunisia
| | - R. Guidara
- Parasitology-Mycology Laboratory; Habib Bourguiba University Hospital; Sfax Tunisia
| | - F. Makni
- Parasitology-Mycology Laboratory; Habib Bourguiba University Hospital; Sfax Tunisia
| | - A. Ayadi
- Fungal and Parasitic Molecular Biology Laboratory; Faculty of Medicine; University of Sfax; Sfax Tunisia
- Parasitology-Mycology Laboratory; Habib Bourguiba University Hospital; Sfax Tunisia
| |
Collapse
|
32
|
Guidara R, Cheikhrouhou F, Neji S, Boudaya S, Trabelsi H, Sellami H, Marrekchi S, Masmoudi A, Turki H, Makni F, Ayadi A. Les folliculites à Malassezia : étude clinique et typage moléculaire des souches. Ann Dermatol Venereol 2013. [DOI: 10.1016/j.annder.2013.09.251] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
|
33
|
Trabelsi H, Néji S, Sellami H, Yaich S, Cheikhrouhou F, Guidara R, Charffedine K, Makni F, Hachicha J, Ayadi A. Invasive fungal infections in renal transplant recipients: About 11 cases. J Mycol Med 2013; 23:255-60. [DOI: 10.1016/j.mycmed.2013.07.052] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2013] [Revised: 07/06/2013] [Accepted: 07/06/2013] [Indexed: 11/16/2022]
|
34
|
Abbes S, Mary C, Sellami H, Michel-Nguyen A, Ayadi A, Ranque S. Interactions between copy number and expression level of genes involved in fluconazole resistance in Candida glabrata. Front Cell Infect Microbiol 2013; 3:74. [PMID: 24273749 PMCID: PMC3822285 DOI: 10.3389/fcimb.2013.00074] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2013] [Accepted: 10/18/2013] [Indexed: 11/25/2022] Open
Abstract
Objectives: This study aimed to elucidate the relative involvement of drug resistance gene copy number and overexpression in fluconazole resistance in clinical C. glabrata isolates using a population-based approach. Methods: Fluconazole resistance levels were quantified using the minimal inhibitory concentration (MIC) via Etest method. Both gene expression levels and gene copy number of CgCDR1, CgPDH1, CgERG11, and CgSNQ2 were assessed via quantitative real-time PCR. The influence of the main effects and first-level interactions of both the expression level and copy number of these genes on fluconazole resistance levels were analyzed using a multivariate statistical model. Results: Forty-three C. glabrata isolates were collected from 30 patients during in a hospital survey. In the multivariate analysis, C. glabrata fluconazole MICs were independently increased by CgSNQ2 overexpression (p < 10−4) and the interaction between CgPDH1 gene copy number and CgPDH1 expression level (p = 0.038). In contrast, both CgPDH1 overexpression (p = 0.049) and the interaction between CgSNQ2 and CgERG11 expression (p = 0.003) led to a significant decrease in fluconazole MICs. Conclusion: Fluconazole resistance in C. glabrata involves complex interactions between drug resistance gene expression and/or copy number. The population-based multivariate analysis highlighted the involvement of the CgSNQ2 gene in fluconazole resistance and the complex effect of the other genes such as PDH1 for which overexpression was associated with reduced fluconazole resistance levels, while the interaction between PDH1 overexpression and copy number was associated with increased resistance levels.
Collapse
Affiliation(s)
- Salma Abbes
- Laboratoire de Biologie Moléculaire Parasitaire et Fongique, Faculté de médecine, University of Sfax Sfax, Tunisie
| | | | | | | | | | | |
Collapse
|
35
|
Jarboui MA, Mseddi F, Sellami H, Sellami A, Makni F, Ayadi A. [Pneumocystis: epidemiology and molecular approaches]. ACTA ACUST UNITED AC 2013; 61:239-44. [PMID: 23849772 DOI: 10.1016/j.patbio.2013.05.001] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2013] [Accepted: 05/17/2013] [Indexed: 10/26/2022]
Abstract
Pneumocystosis is a common opportunistic infection in immunocompromised patients, especially in AIDS patients. The diagnosis of this pneumonia has presented several difficulties due to the low sensitivity of conventional staining methods and the absence of culture system for Pneumocystis. The molecular biology techniques, especially the PCR, have improved the detection of DNA of this fungus in invasive and noninvasive samples, and in the environment which highlighted human transmission and the existence of environmental source of Pneumocystis. In addition, various molecular biology techniques were used for typing of Pneumocystis strains, especially P. jirovecii, which is characterized by a significant genetic biodiversity. Finally, the widespread use of cotrimoxazole for the treatment and prophylaxis of pneumocystosis has raised questions about possible resistance to sulfa drugs in P. jirovecii.
Collapse
Affiliation(s)
- M A Jarboui
- Laboratoire de biologie moléculaire parasitaire et fongique, faculté de médecine, université de Sfax, rue de Magida Boulila, 3029 Sfax, Tunisie.
| | | | | | | | | | | |
Collapse
|
36
|
Drira I, Neji S, Trabelsi H, Sellami H, Cheikhrouhou F, Guidara R, Makni F, Ayadi A. Trichophyton mentagrophytes : identification et typage moléculaire par PCR-sequençage et PCR-RFLP des souches isolées dans la région de Sfax-Tunisie. J Mycol Med 2013. [DOI: 10.1016/j.mycmed.2012.12.025] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
|
37
|
Jarboui MA, Mseddi F, Sellami H, Sellami A, Mahfoudh N, Makni F, Makni H, Ayadi A. A comparison of capillary electrophoresis and direct sequencing in upstream conserved sequence region analysis of Pneumocystis jirovecii strains. J Med Microbiol 2013; 62:560-564. [PMID: 23329318 DOI: 10.1099/jmm.0.045336-0] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
The major surface glycoprotein (MSG) of Pneumocystis jirovecii is the most abundant surface protein and appears to play a critical role in the pathogenesis of pneumocystosis. The expressed MSG gene is located immediately downstream of a region called the upstream conserved sequence (UCS). The UCS contains a region of tandem repeats that vary in number and sequence. In the present study, we have used capillary electrophoresis and direct sequencing to detect the variability in the repeat units of UCS. By direct sequencing the PCR products from samples of 13 patients, we have identified three types of repeat units which consisted of 10 nt and three different patterns in the UCS region with three and four repeats: 1, 2, 3 (84.6 %); 1, 2, 3, 3 (8.2 %); and a new genotype 2, 2, 3, 3 (8.2 %). The same samples were analysed by capillary electrophoresis. Three samples (23 %) contained a mixture of two or three different patterns of UCS repeats. In conclusion, quantifying the number of repeat units in the UCS by capillary electrophoresis provides a potential new method for the rapid typing of P. jirovecii and the detection of mixed infection.
Collapse
Affiliation(s)
- M A Jarboui
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Magida Boulila Street, 3029 Sfax, Tunisia
| | - F Mseddi
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Magida Boulila Street, 3029 Sfax, Tunisia
| | - H Sellami
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Magida Boulila Street, 3029 Sfax, Tunisia
| | - A Sellami
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Magida Boulila Street, 3029 Sfax, Tunisia
| | - N Mahfoudh
- Laboratory of Immunology, Hedi Chaker hospital, Sfax, Tunisia
| | - F Makni
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Magida Boulila Street, 3029 Sfax, Tunisia
| | - H Makni
- Laboratory of Immunology, Hedi Chaker hospital, Sfax, Tunisia
| | - A Ayadi
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Magida Boulila Street, 3029 Sfax, Tunisia
| |
Collapse
|
38
|
Jarboui MA, Mseddi F, Sellami H, Sellami A, Makni F, Ayadi A. Genetic diversity of Pneumocystis jirovecii strains based on sequence variation of different DNA region. Med Mycol 2012; 51:561-7. [PMID: 23210680 DOI: 10.3109/13693786.2012.744879] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Pneumocystis jirovecii is an important opportunistic pathogen that causes severe pneumonia in immunocompromised patients. The aim of the present study was to investigate the genetic diversity of P. jirovecii strains by direct sequencing and analysis of the Upstream Conserved Sequence (UCS) region, mitochondrial large-subunit (mtLSU) rRNA and dihydrofolate reductase (DHFR) genes. We identified the polymorphisms in P. jirovecii strains of 15 immunocompromised patients, as well as detecting a new tandem repeat of 5 nucleotides in UCS region. The following three different types of repeat unit were found: type a GCCCA; type b GCCCT; and type c GCCTT. In addition, we identified the repeat unit which consisted of 10 nucleotides and three different patterns of UCS repeats with 3 and 4 repeats, i.e., 1, 2, 3 (86.7%), 1, 2, 3, 3 (6.6%) and a new genotype 2, 2, 3, 3 (6.6%). The polymorphism in the mtLSUrRNA gene was seen primarily at position 85 where we detected three different genotypes. Genotype 3 and genotype 2 were the most abundant with frequencies of 53.3% and 40%, respectively. With regard to the DHFR gene, only two (20%) patients had nucleotide substitution in position 312. In conclusion, the multilocus analysis facilitated the typing of P. jirovecii strains and proved the important genetic biodiversity of this fungus.
Collapse
Affiliation(s)
- Mohamed Ali Jarboui
- Fungal and Parasitic Molecular Biology Laboratory, School of Medicine, University of Sfax, Sfax, Tunisia.
| | | | | | | | | | | |
Collapse
|
39
|
Trabelsi H, Dendana F, Sellami A, Sellami H, Cheikhrouhou F, Neji S, Makni F, Ayadi A. Pathogenic free-living amoebae: Epidemiology and clinical review. ACTA ACUST UNITED AC 2012; 60:399-405. [DOI: 10.1016/j.patbio.2012.03.002] [Citation(s) in RCA: 128] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2011] [Accepted: 03/02/2012] [Indexed: 10/28/2022]
|
40
|
Cheikhrouhou F, Neji S, Sellami H, Trabelsi H, Guidara R, Boudaya S, Makni F, Turki H, Ayadi A. Les atteintes dermatologiques provoquées par Fusarium. Ann Dermatol Venereol 2012. [DOI: 10.1016/j.annder.2012.10.085] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
|
41
|
Neji S, Cheikhrouhou F, Trabelsi H, Sellami H, Boudaya S, Sellami D, Makni F, Fki J, Turki H, Ayadi A. Les démodécidoses : à propos de 719 cas. Ann Dermatol Venereol 2012. [DOI: 10.1016/j.annder.2012.10.417] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
|
42
|
Dendana F, Sellami H, Trabelsi H, Neji S, Cheikhrouhou F, Makni F, Ayadi A. Acanthamoeba T4 genotype associated with keratitis infections in Tunisia. Parasitol Res 2012; 112:401-5. [PMID: 23052779 DOI: 10.1007/s00436-012-3149-6] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2012] [Accepted: 09/26/2012] [Indexed: 11/27/2022]
Abstract
Acanthamoeba keratitis (AK) is a sight-threatening infection. We report five cases of AK diagnosed from 2005 to 2009 in the Laboratory of Parasitology-Mycology at Habib Bourguiba Sfax Hospital, Tunisia. All were associated with improper care of contact lenses (rinsing of contact lenses with tap water and inappropriate cleaning) and lens storage. The patients displayed different clinical presentations: corneal inflammation, corneal ulceration, and corneal abscess. The diagnosis was made after direct examination, culture, and polymerase chain reaction amplification with specific primers. The genotype classification was based on the highly variable DF3 region in the 18S rRNA gene. This is the first study characterizing Acanthamoeba genotype in Tunisia and North Africa. All Acanthamoeba isolates were associated to the T4 genotype. Three different DF3 sequence types were related to AK infections T4/10, T4/15, and T4/16.
Collapse
Affiliation(s)
- F Dendana
- Laboratory of Fungal and Parasitic Molecular Biology, School of Medicine Sfax, Sfax University, Sfax, Tunisia
| | | | | | | | | | | | | |
Collapse
|
43
|
Gharsallah H, Frikha-Gargouri O, Besbes F, Sellami H, Znazen A, Hammami A. Development and application of an in-house reverse hybridization method for Chlamydia trachomatis genotyping. J Appl Microbiol 2012; 113:846-55. [PMID: 22738848 DOI: 10.1111/j.1365-2672.2012.05375.x] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2012] [Revised: 05/30/2012] [Accepted: 06/17/2012] [Indexed: 11/28/2022]
Abstract
AIM To develop and evaluate an in-house reverse hybridization technique for Chlamydia trachomatis genotype identification. METHODS AND RESULTS The evaluation of the developed and optimized reverse hybridization method on reference strains showed the specific detection of all genotypes. This technique showed its ability to type one inclusion-forming unit of C. trachomatis genotype E and equivalent sensitivity to the Cobas TaqMan assay. It was also able to detect mixed infections in vitro. Application of the reverse hybridization method on 38 isolated C. trachomatis strains and their respective swabs allowed the detection of six urogenital genotypes D, E, F, G, H and K and one trachoma genotype B. Genotype E was the most prevalent, detected in 73% of the swab samples. Mixed infections were detected in 26% of swab cases. CONCLUSION The reverse hybridization technique is simple and does not require specialized instruments. It is powerful in the diagnosis of mixed infections and is suitable for use in epidemiological studies. SIGNIFICANCE AND IMPACT OF THE STUDY This technique allowed rapid C. trachomatis genotype identification.
Collapse
Affiliation(s)
- H Gharsallah
- Department of Microbiology and research laboratory Microorganismes et Pathologie Humaine, Habib Bourguiba university hospital, Medical school of Sfax, University of Sfax, Sfax, Tunisia
| | | | | | | | | | | |
Collapse
|
44
|
Amouri I, Sellami H, Abbes S, Hadrich I, Mahfoudh N, Makni H, Ayadi A. Microsatellite analysis of Candida isolates from recurrent vulvovaginal candidiasis. J Med Microbiol 2012; 61:1091-1096. [PMID: 22538998 DOI: 10.1099/jmm.0.043992-0] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Candida albicans and Candida glabrata are the most common causative agents of both vulvovaginal candidiasis (VVC) and recurrent vulvovaginal candidiasis (RVVC). Studying the population structure and genotype differentiation of Candida species that cause RVVC may lead to a significant improvement in clinical management. A total of 106 isolates were collected from 55 patients who were subdivided into three groups. Group I comprised 15 patients with RVVC (n=50 isolates); group II comprised 16 patients, who had a history of at least two episodes of VVC in the last year (n=32 isolates, two from each patient); and group III comprised 24 patients (n=24 isolates) who had experienced a single episode of VVC in the previous 1 year period. C. albicans microsatellite markers CAI, CAIII and CAIV and C. glabrata RPM2, MTI and ERG3 microsatellites were amplified in a multiplex PCR. All isolates were subjected to population genetic analysis, which provided evidence that there is a predominantly clonal population structure of C. albicans in each group. However, recombination was detected to some degree in C. albicans isolates in group III. A genetic homogeneity between the different C. albicans groups was observed. Although, C. glabrata isolates showed an important genetic differentiation between group I and group III (F(ST)=0.207). Genotype analysis revealed that the dominant genotypes of C. glabrata and C. albicans strains were more prevalent in patients with RVVC. The frequent scenario for cases of recurrent infection in our study was strain replacement (53.3%). In conclusion, the identification of recurrence-associated genotypes and a specific C. glabrata population structure in the RVVC group could be a significant marker for further investigations of virulence factors and RVVC management.
Collapse
Affiliation(s)
- Imen Amouri
- Laboratory of Parasitic and Fungal Molecular Biology, Medicine School, Sfax University, Sfax, Tunisia
| | - Hayet Sellami
- Laboratory of Parasitic and Fungal Molecular Biology, Medicine School, Sfax University, Sfax, Tunisia
| | - Salma Abbes
- Laboratory of Parasitic and Fungal Molecular Biology, Medicine School, Sfax University, Sfax, Tunisia
| | - Ines Hadrich
- Laboratory of Parasitic and Fungal Molecular Biology, Medicine School, Sfax University, Sfax, Tunisia
| | - Nadia Mahfoudh
- Laboratory of Immunology, Hedi Chaker Hospital, Sfax, Tunisia
| | - Hafedh Makni
- Laboratory of Immunology, Hedi Chaker Hospital, Sfax, Tunisia
| | - Ali Ayadi
- Laboratory of Parasitic and Fungal Molecular Biology, Medicine School, Sfax University, Sfax, Tunisia
| |
Collapse
|
45
|
Abbes S, Sellami H, Sellami A, Amouri I, Neji S, Makni F, Makni H, Ranque S, Ayadi A. Bases de la résistance au fluconazole des souches de Candida glabrata isolées au CHU de Sfax, Tunisie. J Mycol Med 2012. [DOI: 10.1016/j.mycmed.2011.12.060] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
|
46
|
Aloulou M, Makni F, Neji S, Cheikhrouhou F, Trabelsi H, Sellami H, Masmoudi A, Marrakchi S, Mziou J, Ayadi A. Les folliculites à Malassezia. J Mycol Med 2012. [DOI: 10.1016/j.mycmed.2011.12.042] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
|
47
|
Trabelsi H, Makni F, Neji S, Cheikhrouhou F, Sellami H, Ayadi A. Mycoses invasives chez les greffés rénaux : à propos de huit cas. J Mycol Med 2012. [DOI: 10.1016/j.mycmed.2011.12.043] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
|
48
|
Jarboui M, Mseddi F, Sellami H, Makni F, Ayadi A. Génotypage des souches de Pneumocystis jirovecii par l’étude moléculaire de la région UCS. J Mycol Med 2012. [DOI: 10.1016/j.mycmed.2011.12.071] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
|
49
|
Abbes S, Sellami H, Hadrich I, Amouri I, Mahfoudh N, Neji S, Makni F, Makni H, Ayadi A. Génotypage de C. glabrata par de nouveaux marqueurs microsatellites. J Mycol Med 2012. [DOI: 10.1016/j.mycmed.2011.12.061] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
|
50
|
Neji S, Makni F, Trabelsi H, Cheikhrouhou F, Sellami H, Ayadi A. Les fusarioses dans la région de Sfax (Tunisie). J Mycol Med 2012. [DOI: 10.1016/j.mycmed.2011.12.051] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
|