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Article: Whole Genome Sequence Analysis of Mycobacterium bovis Cattle Isolates, Algeria

Tazerart, Fatah / Saad, Jamal / Sahraoui, Naima / Yala, Djamel / Niar, Abdellatif / Drancourt, Michel

Pathogens. 2021 June 24, v. 10, no. 7

2021

Abstract: Mycobacterium bovis (M. bovis), a Mycobacterium tuberculosis complex species responsible for tuberculosis in cattle and zoonotic tuberculosis in humans, is present in Algeria. In Algeria however, the M. bovis population structure is unknown, limiting ... ...

Abstract	Mycobacterium bovis (M. bovis), a Mycobacterium tuberculosis complex species responsible for tuberculosis in cattle and zoonotic tuberculosis in humans, is present in Algeria. In Algeria however, the M. bovis population structure is unknown, limiting understanding of the sources and transmission of bovine tuberculosis. In this study, we identified the whole genome sequence (WGS) of 13 M. bovis strains isolated from animals exhibiting lesions compatible with tuberculosis, which were slaughtered and inspected in five slaughterhouses in Algeria. We found that six isolates were grouped together with reference clinical strains of M. bovis genotype-Unknown2. One isolate was related to M. bovis genotype-Unknown7, one isolate was related to M. bovis genotype-Unknown4, three isolates belonged to M. bovis genotype-Europe 2 and there was one new clone for two M. bovis isolates. Two isolates from Blida exhibited no pairwise differences in single nucleotide polymorphisms. None of these 13 isolates were closely related to four zoonotic M. bovis isolates previously characterized in Algeria. In Algeria, the epidemiology of bovine tuberculosis in cattle is partly driven by cross border movements of animals and animal products.
Keywords	Mycobacterium bovis ; bovine tuberculosis ; cattle ; epidemiology ; nucleotide sequences ; population structure ; sequence analysis ; Algeria
Language	English
Dates of publication	2021-0624
Publishing place	Multidisciplinary Digital Publishing Institute
Document type	Article
ZDB-ID	2695572-6
ISSN	2076-0817
ISSN	2076-0817
DOI	10.3390/pathogens10070802
Database	NAL-Catalogue (AGRICOLA)

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Article: Whole Genome Sequence Analysis of

Tazerart, Fatah / Saad, Jamal / Sahraoui, Naima / Yala, Djamel / Niar, Abdellatif / Drancourt, Michel

Pathogens (Basel, Switzerland)

2021 Volume 10, Issue 7

Abstract: Mycobacterium ... ...

Abstract	Mycobacterium bovis
Language	English
Publishing date	2021-06-24
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2695572-6
ISSN	2076-0817
ISSN	2076-0817
DOI	10.3390/pathogens10070802
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Article ; Online: First genetic characterisation of multidrug-resistant Mycobacterium tuberculosis isolates from Algeria.

Bouziane, Feriel / Allem, Rachida / Sebaihia, Mohammed / Kumanski, Sylvain / Mougari, Faiza / Sougakoff, Wladimir / Raskine, Laurent / Yala, Djamel / Cambau, Emmanuelle

Journal of global antimicrobial resistance

2019 Volume 19, Page(s) 301–307

Abstract: Objectives: To characterise the genotypes of multidrug-resistant (MDR) Mycobacterium tuberculosis (MTB) isolated in Algeria, where there is a low MDR-MTB incidence rate.: Methods: Ten MDR isolates and one resistant to isoniazid were investigated by ... ...

Abstract	Objectives: To characterise the genotypes of multidrug-resistant (MDR) Mycobacterium tuberculosis (MTB) isolated in Algeria, where there is a low MDR-MTB incidence rate. Methods: Ten MDR isolates and one resistant to isoniazid were investigated by PCR-Sanger sequencing for 10 loci involved in resistance. Amplicon-based next generation sequencing (NGS) of 15 loci was additionally performed on isolates harbouring novel mutations. Results: Sanger and amplicon-NGS provided the same results as with GenoType kits. Mutations known to be associated with resistance were described for most isolates: rpoB S531L in seven of 10 rifampicin-R MTB isolates, katG S315T in nine of 11 isoniazid-R, and promoter inhA c-15t in three of 11, embB M306V or M306I in two of two ethambutol-R, rpsL K43R in four of eight or rrs a514c associated with gidB L16R in streptomycin-R, gyrA A90V in the ofloxacin-R pre-XDR isolate. New and rare mutations were also described in rpoB (deletion 512-513-514), katG (S315R, M126I/ R496L), gidB (V124G, E92A, V139A, G37V), and gyrA (P8A). Mycobacterial interspersed repetitive-unit-variable-number tandem-repeat (MIRU-VNTR) profiles were similar for three isolates (lineage Cameroon), indicating a possible clonal diffusion in epidemiologically unrelated patients. Conclusions: Resistant MTB isolates in Algeria harbour resistance genotypes similar to other countries, but some rare patterns may result from selection and transmission processes inherent to the country.
MeSH term(s)	Adult ; Aged ; Aged, 80 and over ; Algeria ; Antitubercular Agents/pharmacology ; Bacterial Proteins/genetics ; Drug Resistance, Multiple, Bacterial/genetics ; Genotype ; High-Throughput Nucleotide Sequencing ; Humans ; Microbial Sensitivity Tests ; Middle Aged ; Mutation ; Mycobacterium tuberculosis/drug effects ; Mycobacterium tuberculosis/genetics ; Tuberculosis, Multidrug-Resistant/microbiology ; Tuberculosis, Pulmonary/microbiology ; Young Adult
Chemical Substances	Antitubercular Agents ; Bacterial Proteins
Language	English
Publishing date	2019-05-14
Publishing country	Netherlands
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2710046-7
ISSN	2213-7173 ; 2213-7165
ISSN (online)	2213-7173
ISSN	2213-7165
DOI	10.1016/j.jgar.2019.05.010
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Article ; Online: Genetic diversity of Mycobacterium tuberculosis strains isolated in Algeria: Results of spoligotyping.

Ifticene, Malika / Kaïdi, Saïd / Khechiba, Mesbah-Mounir / Yala, Djamel / Boulahbal, Fadila

International journal of mycobacteriology

2015 Volume 4, Issue 4, Page(s) 290–295

Abstract: Objective/background: Molecular typing tools, including spoligotyping, are currently widely used in the monitoring and study of the dynamics of tuberculosis epidemics.: Methods: A study of the molecular profile of a sample of 129 Myobacterium ... ...

Abstract	Objective/background: Molecular typing tools, including spoligotyping, are currently widely used in the monitoring and study of the dynamics of tuberculosis epidemics. Methods: A study of the molecular profile of a sample of 129 Myobacterium tuberculosis strains isolated during 2011 was carried out in the National Reference Laboratory for Tuberculosis and Mycobacteria at the Pasteur Institute of Algeria. This sample was selected at random from a set of 350 strains isolated from tuberculosis patients from central and eastern areas of the country. Results: Genotypic analysis helped to clarify the frequencies of the different genotypes in the current study population: H family, 29%; LAM family, 26%; T family, 25%; S family, 5%, and other genomic families, including orphan strains, 15%. Conclusion: The study of strains isolated between January and December 2011 has allowed insight into the frequency of different genomic families and the importance of existing clusters in the population of central and eastern Algeria.
MeSH term(s)	Adult ; Algeria ; Bacterial Typing Techniques ; Female ; Genetic Variation ; Genotype ; Humans ; Male ; Middle Aged ; Mycobacterium tuberculosis/classification ; Mycobacterium tuberculosis/genetics ; Mycobacterium tuberculosis/isolation & purification ; Phylogeny ; Tuberculosis/microbiology ; Young Adult
Language	English
Publishing date	2015-12
Publishing country	Netherlands
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	2212-554X
ISSN (online)	2212-554X
DOI	10.1016/j.ijmyco.2015.06.004
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Article: Mycobacterium tuberculosis genotype Beijing: About 15 strains and their part in MDR-TB outbreaks in Algeria.

Ifticene, Malika / Gacem, Fatma Zohra / Yala, Djamel / Boulahbal, Fadela

International journal of mycobacteriology

2012 Volume 1, Issue 4, Page(s) 196–200

Abstract: Within the framework of epidemiological surveillance by molecular typing tools conducted in the NRL on multi-resistant strains, the application of spoligotyping on a group of 390 strains consisting of 389 DR-MTB strains and 1 susceptible strain isolated ... ...

Abstract	Within the framework of epidemiological surveillance by molecular typing tools conducted in the NRL on multi-resistant strains, the application of spoligotyping on a group of 390 strains consisting of 389 DR-MTB strains and 1 susceptible strain isolated from patients made it possible to detect the presence of 15 strains belonging to the Beijing genotype. All 15 strains were genotyped by MTBDRplus. Among the 15 strains, 11 were typed by RFLP and 9 by MIRU-VNTR. After analysis of the profiles obtained by the software MIRU-VNTRplus, two spoligotypes (st No. 1 and st No. 265) and four RFLP profiles and a complete identity profile by MIRU-VNTR, information collected on patients allowed the research team to detect a family tie among patients of three different families, as well as one nosocomial TB transmission. The percentage of Beijing strains found among the patients in this study was 3.8%; this figure does not reflect the reality because it was calculated from an essay on MDR-TB. To get an idea of the prevalence of Beijing TB strains in this country, a more extensive study is currently being considered.
Language	English
Publishing date	2012-12
Publishing country	Netherlands
Document type	Journal Article
ISSN	2212-5531
ISSN	2212-5531
DOI	10.1016/j.ijmyco.2012.10.006
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Article ; Online: Molecular characterization of Mycobacterium bovis strains isolated from cattle slaughtered at two abattoirs in Algeria

Ouzrout Rachid / Yala Djamel / Boulahbal Fadéla / Guetarni Djamel / Müller Borna / Sahraoui Naima / Berg Stefan / Smith Noel H / Zinsstag Jakob

BMC Veterinary Research, Vol 5, Iss 1, p

2009 Volume 4

Abstract: Abstract Background Bovine Tuberculosis is prevalent in Algeria despite governmental attempts to control the disease. The objective of this study was to conduct, for the first time, molecular characterization of a population sample of Mycobacterium bovis ...

Abstract	Abstract Background Bovine Tuberculosis is prevalent in Algeria despite governmental attempts to control the disease. The objective of this study was to conduct, for the first time, molecular characterization of a population sample of Mycobacterium bovis strains isolated from slaughter cattle in Algeria. Between August and November 2007, 7250 animals were consecutively screened at the abattoirs of Algiers and Blida. In 260 animals, gross visible granulomatous lesions were detected and put into culture. Bacterial isolates were subsequently analysed by molecular methods. Results Altogether, 101 bacterial strains from 100 animals were subjected to molecular characterization. M. bovis was isolated from 88 animals. Other bacteria isolated included one strain of M. caprae , four Rhodococcus equi strains, three Non-tuberculous Mycobacteria (NTM) and five strains of other bacterial species. The M. bovis strains isolated showed 22 different spoligotype patterns; four of them had not been previously reported. The majority of M. bovis strains (89%) showed spoligotype patterns that were previously observed in strains from European cattle. Variable Number of Tandem Repeat (VNTR) typing supported a link between M. bovis strains from Algeria and France. One spoligotype pattern has also been shown to be frequent in M. bovis strains from Mali although the VNTR pattern of the Algerian strains differed from the Malian strains. Conclusion M. bovis infections account for a high amount of granulomatous lesions detected in Algerian slaughter cattle during standard meat inspection at Algiers and Blida abattoir. Molecular typing results suggested a link between Algerian and European strains of M. bovis .
Keywords	Veterinary medicine ; SF600-1100
Language	English
Publishing date	2009-01-01T00:00:00Z
Publisher	BMC
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: [Oral communications from the 3

Achir, Ismail / Amari, Houria / Arrache, Dalila / Baghdali, Feriel Yasmine / Bitam, Areski / Blanchecotte, François / Chabati, Omar / Chachou, Abdelhamid / Djenane, Ahmed / Djenane, Fazia / Djenouhat, Kamel / Djidjik, Reda / Ferahta, Imène / Gagi, Nadia / Gharnaout, Merzak / Ghaffour, Mohammed / Guettouche, Said / Gruson, Damien / Haddad, Christian /

Haddoum, Farid / Hasni, Meriem / Hedhili, Abderrezak / Kheloui, Yacine / Kraiba, Radia / Lacroix, Isabelle / Lamani, Akli / Laras, Hayat / Mekki, Yahia / Nechar, Maya / Nouchy, Marc / Raaf, Nabil / Rabhia, Medhi / Slim-Saidi, Leila / Souami, Ylhame Kahina / Taghit-Mahi, Samya / Yala, Djamel / Yargui, Lyece

Annales de biologie clinique

2020 Volume 77, Issue 6, Page(s) 701–711

Title translation	Communications orales présentées lors du 3
MeSH term(s)	Algeria ; Biology/organization & administration ; Clinical Laboratory Techniques/methods ; Clinical Laboratory Techniques/trends ; Communication ; Congresses as Topic ; France ; Humans ; International Cooperation ; Language ; Medical Laboratory Science/methods ; Medical Laboratory Science/organization & administration ; Medical Laboratory Science/trends ; Publications ; Societies, Scientific/organization & administration ; Societies, Scientific/trends ; Speech
Language	French
Publishing date	2020-01-03
Publishing country	France
Document type	Congress
ZDB-ID	418098-7
ISSN	1950-6112 ; 0003-3898
ISSN (online)	1950-6112
ISSN	0003-3898
DOI	10.1684/abc.2019.1505
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Article ; Online: Molecular characterization of Mycobacterium bovis strains isolated from cattle slaughtered at two abattoirs in Algeria.

Sahraoui, Naima / Müller, Borna / Guetarni, Djamel / Boulahbal, Fadéla / Yala, Djamel / Ouzrout, Rachid / Berg, Stefan / Smith, Noel H / Zinsstag, Jakob

BMC veterinary research

2009 Volume 5, Page(s) 4

Abstract: Background: Bovine Tuberculosis is prevalent in Algeria despite governmental attempts to control the disease. The objective of this study was to conduct, for the first time, molecular characterization of a population sample of Mycobacterium bovis ... ...

Abstract	Background: Bovine Tuberculosis is prevalent in Algeria despite governmental attempts to control the disease. The objective of this study was to conduct, for the first time, molecular characterization of a population sample of Mycobacterium bovis strains isolated from slaughter cattle in Algeria. Between August and November 2007, 7250 animals were consecutively screened at the abattoirs of Algiers and Blida. In 260 animals, gross visible granulomatous lesions were detected and put into culture. Bacterial isolates were subsequently analysed by molecular methods. Results: Altogether, 101 bacterial strains from 100 animals were subjected to molecular characterization. M. bovis was isolated from 88 animals. Other bacteria isolated included one strain of M. caprae, four Rhodococcus equi strains, three Non-tuberculous Mycobacteria (NTM) and five strains of other bacterial species. The M. bovis strains isolated showed 22 different spoligotype patterns; four of them had not been previously reported. The majority of M. bovis strains (89%) showed spoligotype patterns that were previously observed in strains from European cattle. Variable Number of Tandem Repeat (VNTR) typing supported a link between M. bovis strains from Algeria and France. One spoligotype pattern has also been shown to be frequent in M. bovis strains from Mali although the VNTR pattern of the Algerian strains differed from the Malian strains. Conclusion: M. bovis infections account for a high amount of granulomatous lesions detected in Algerian slaughter cattle during standard meat inspection at Algiers and Blida abattoir. Molecular typing results suggested a link between Algerian and European strains of M. bovis.
MeSH term(s)	Abattoirs ; Algeria ; Animals ; Cattle ; Mycobacterium bovis/classification ; Mycobacterium bovis/genetics ; Mycobacterium bovis/isolation & purification ; Tuberculosis, Bovine/microbiology
Language	English
Publishing date	2009-01-27
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	1746-6148
ISSN (online)	1746-6148
DOI	10.1186/1746-6148-5-4
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Article ; Online: Mycobacterium algericum sp. nov., a novel rapidly growing species related to the Mycobacterium terrae complex and associated with goat lung lesions.

Sahraoui, Naima / Ballif, Marie / Zelleg, Samir / Yousfi, Nadir / Ritter, Claudia / Friedel, Ute / Amstutz, Beat / Yala, Djamel / Boulahbal, Fadila / Guetarni, Djamel / Zinsstag, Jakob / Keller, Peter M

International journal of systematic and evolutionary microbiology

2010 Volume 61, Issue Pt 8, Page(s) 1870–1874

Abstract: A previously undescribed, rapid-growing, non-chromogenic Mycobacterium isolate from a goat lung lesion in Algeria is reported. Biochemical and molecular tools were used for its complete description and showed its affiliation to the Mycobacterium terrae ... ...

Abstract	A previously undescribed, rapid-growing, non-chromogenic Mycobacterium isolate from a goat lung lesion in Algeria is reported. Biochemical and molecular tools were used for its complete description and showed its affiliation to the Mycobacterium terrae complex. 16S rRNA, rpoB and hsp65 gene sequences were unique. Phylogenetic analyses showed a close relationship with M. terrae sensu stricto and Mycobacterium senuense. Culture and biochemical characteristics were generally similar to those of M. terrae and M. senuense. However, in contrast to M. terrae and M. senuense, the isolate was positive for urease production and had faster growth. The mycolic acid profile was distinct from those of M. terrae and M. senuense, thus further supporting the new taxonomic position of the isolate. We propose the name Mycobacterium algericum sp. nov. for this novel species. The type strain is TBE 500028/10(T) ( = Bejaia(T) = CIP 110121(T) = DSM 45454(T)).
MeSH term(s)	Animals ; Bacterial Proteins/genetics ; DNA, Bacterial/genetics ; DNA, Ribosomal/genetics ; Goat Diseases/microbiology ; Goats ; Lung/microbiology ; Molecular Sequence Data ; Mycobacterium/classification ; Mycobacterium/genetics ; Mycobacterium/growth & development ; Mycobacterium/isolation & purification ; Mycobacterium Infections/microbiology ; Mycobacterium Infections/veterinary ; Nontuberculous Mycobacteria/classification ; Nontuberculous Mycobacteria/genetics ; Nontuberculous Mycobacteria/isolation & purification ; Nontuberculous Mycobacteria/metabolism ; Phylogeny ; RNA, Ribosomal, 16S/genetics
Chemical Substances	Bacterial Proteins ; DNA, Bacterial ; DNA, Ribosomal ; RNA, Ribosomal, 16S
Language	English
Publishing date	2010-09-10
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2002336-4
ISSN	1466-5034 ; 1466-5026
ISSN (online)	1466-5034
ISSN	1466-5026
DOI	10.1099/ijs.0.024851-0
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Article: A Mal functional variant is associated with protection against invasive pneumococcal disease, bacteremia, malaria and tuberculosis.

Khor, Chiea C / Chapman, Stephen J / Vannberg, Fredrik O / Dunne, Aisling / Murphy, Caroline / Ling, Edmund Y / Frodsham, Angela J / Walley, Andrew J / Kyrieleis, Otto / Khan, Amir / Aucan, Christophe / Segal, Shelley / Moore, Catrin E / Knox, Kyle / Campbell, Sarah J / Lienhardt, Christian / Scott, Anthony / Aaby, Peter / Sow, Oumou Y /

Grignani, Robert T / Sillah, Jackson / Sirugo, Giorgio / Peshu, Nobert / Williams, Thomas N / Maitland, Kathryn / Davies, Robert J O / Kwiatkowski, Dominic P / Day, Nicholas P / Yala, Djamel / Crook, Derrick W / Marsh, Kevin / Berkley, James A / O'Neill, Luke A J / Hill, Adrian V S

Nature genetics

2007 Volume 39, Issue 4, Page(s) 523–528

Abstract: Toll-like receptors (TLRs) and members of their signaling pathway are important in the initiation of the innate immune response to a wide variety of pathogens. The adaptor protein Mal (also known as TIRAP), encoded by TIRAP (MIM 606252), mediates ... ...

Abstract	Toll-like receptors (TLRs) and members of their signaling pathway are important in the initiation of the innate immune response to a wide variety of pathogens. The adaptor protein Mal (also known as TIRAP), encoded by TIRAP (MIM 606252), mediates downstream signaling of TLR2 and TLR4 (refs. 4-6). We report a case-control study of 6,106 individuals from the UK, Vietnam and several African countries with invasive pneumococcal disease, bacteremia, malaria and tuberculosis. We genotyped 33 SNPs, including rs8177374, which encodes a leucine substitution at Ser180 of Mal. We found that heterozygous carriage of this variant associated independently with all four infectious diseases in the different study populations. Combining the study groups, we found substantial support for a protective effect of S180L heterozygosity against these infectious diseases (N = 6,106; overall P = 9.6 x 10(-8)). We found that the Mal S180L variant attenuated TLR2 signal transduction.
MeSH term(s)	Africa ; Bacteremia/genetics ; Case-Control Studies ; Genetic Predisposition to Disease ; Humans ; Linkage Disequilibrium ; Malaria/genetics ; Membrane Glycoproteins/genetics ; Membrane Transport Proteins/genetics ; Membrane Transport Proteins/physiology ; Models, Molecular ; Myelin Proteins/genetics ; Myelin Proteins/physiology ; Myelin and Lymphocyte-Associated Proteolipid Proteins ; Pneumococcal Infections/genetics ; Polymorphism, Single Nucleotide/physiology ; Proteolipids/genetics ; Proteolipids/physiology ; Receptors, Interleukin-1/genetics ; Toll-Like Receptor 2/metabolism ; Toll-Like Receptor 4/metabolism ; Tuberculosis/genetics ; United Kingdom ; Vietnam
Chemical Substances	MAL protein, human ; Membrane Glycoproteins ; Membrane Transport Proteins ; Myelin Proteins ; Myelin and Lymphocyte-Associated Proteolipid Proteins ; Proteolipids ; Receptors, Interleukin-1 ; TIRAP protein, human ; TLR2 protein, human ; TLR4 protein, human ; Toll-Like Receptor 2 ; Toll-Like Receptor 4
Language	English
Publishing date	2007-02-25
Publishing country	United States
Document type	Journal Article ; Multicenter Study ; Research Support, Non-U.S. Gov't
ZDB-ID	1108734-1
ISSN	1546-1718 ; 1061-4036
ISSN (online)	1546-1718
ISSN	1061-4036
DOI	10.1038/ng1976
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