Spoligotyping Kit – TB – References from 2013, 2014 and 2016 – updated September 2016

spoligotyping

This is a continuation of the previous references list on the spoligotyping kit for TB

2016 References

Role of gyrB Mutations in Pre-extensively and Extensively Drug-Resistant Tuberculosis in Thai Clinical Isolates

A Disratthakit, T Prammananan… – Antimicrobial agents …, 2016 – Am Soc Microbiol
Spoligotyping.Spoligotyping was performed as a part of our prior study (27) using
a spoligotypingkit (Ocimum Biosolution, Hyderabad, India) (28). Gyrase mutation
data and spoligotyping information were analyzed together

[HTML]Genetic diversity of Mycobacterium tuberculosis isolates from central India

P Desikan, DS Chauhan, P Sharma… – The Indian Journal of …, 2016 – ncbi.nlm.nih.gov
Spoligotyping was carried out by using a commercial kit (Ocimum Biosolutions, Hyderabad) at
SITVIT2 database of Institute Pasteur de Guadeloupe 5 to locate families of spoligotypes. of
comparison, the database consisted of a total of 7105 spoligotype patterns (corresponding

[HTML]Analysis of Mycobacterium tuberculosis Genotypic Lineage Distribution in Chile and Neighboring Countries

J Lagos, D Couvin, L Arata, J Tognarelli, C Aguayo… – PloS one, 2016 – journals.plos.org
The Fig 1B shows the spoligotyping-based MST; it is evident that LAM and T lineages LAM9 cluster
was the largest node evolved from SIT53/T1 and multiple spoligotypes were observed to be rising
from it, eg, SIT33/LAM3, while the second largest spoligotype pattern SIT50/H3

[HTML]Genetic diversity of Mycobacterium tuberculosis complex strains isolated from patients with pulmonary tuberculosis in Anambra State, Nigeria

GN Uzoewulu, L Lawson, IS Nnanna, N Rastogi… – International journal of …, 2016 – Elsevier
The identified spoligotypes and five-loci ETR patterns were analyzed using the BioNumerics result
of the comparison of spoligotyping versus VNTRs demonstrated that spoligotyping analysis alone
with five-loci ETRs; for example, isolates with identical spoligotype pattern SIT61

[HTML]A Novel Molecular Strategy for Surveillance of Multidrug Resistant Tuberculosis in High Burden Settings

HM Said, N Kushner, SV Omar, AW Dreyer… – PloS one, 2016 – journals.plos.org
Genotyping. Spoligotyping was done using a commercial kit (Ocimum Biosolutions, India)
according to the manufacturer’s instructions [20]; spoligotypes were uploaded as binary codes
in the SpolDB4 database for SIT (Spoligotype International Type) assignment.

Molecular characterization of Mycobacterium tuberculosis complex in Gambella region, Southwest Ethiopia

G Asebe, A Worku, A Zewude… – African Journal of …, 2016 – academicjournals.org
Figure 3. Spoligotype patterns of isolates obtained from Gambella. Page 7. 1092 Afr. J. Microbiol.
Res. Table 3. Proportion of spoligotyping pattern of the strains with different variables. Table
4. Distribution of spoligotypes and their report status from Ethiopia.

[HTML]Association between human leukocyte antigen class II and pulmonary tuberculosis due to mycobacterium tuberculosis in Uganda

D Wamala, HK Buteme… – BMC infectious …, 2016 – bmcinfectdis.biomedcentral.com
using the One lambda Micro SSP DNA Typing kit according to the kit manufacturer’s instructions.
All Mtb complex strains were analyzed by spoligotyping using standard protocols [26] (reagents
from Ocimum Biosolution) and assigned specific spoligotype nomenclature (SIT

Jolly Musoke

A Michel – 2016 – repository.up.ac.za
85 5.3.5.2 Polymerase Chain Reaction (PCR) …. 86 5.3.5.3 Spoligotyping ….. 86 5.3.5.4
Mycobacterial interspersed repetitive-unit-variable number tandem ….. 87

Latin-American-Mediterranean lineage of Mycobacterium tuberculosis: Human traces across pathogen’s phylogeography

I Mokrousov, A Vyazovaya, T Iwamoto, Y Skiba… – Molecular phylogenetics …, 2016 – Elsevier
One minor sublineage (spoligotype SIT388) appears endemic in Japan. NGS/WGS) dataset of
M. tuberculosis linked SNPs to RD and spoligotypes for different Spoligotyping was performed
with in-house made membranes or using commercial kits (Ocimum Biosolutions, India

[PDF]Blood neutrophil count, sputum mycobacterial load and mycobacterial lineages in HIV positive individuals suspected with pulmonary tuberculosis, Addis Ababa, …

D Negeri – 2016 – etd.aau.edu.et
identification ….. 33 3.4.2. Spoligotyping result ….. 34 3.5. 34 Figure 3.4.2: Spoligotype pattern
of clustered M. tuberculosis strains……………35 Figure 3.5. Box

[HTML]Whole-Genome Sequencing Analysis of Serially Isolated Multi-Drug and Extensively Drug Resistant Mycobacterium tuberculosis from Thai Patients

K Faksri, JH Tan, A Disratthakit, E Xia… – PloS one, 2016 – journals.plos.org
Spoligotyping was performed according to the manufacturer’s instructions (Ocimum Biosolutions,
India) as previously described [19]. Genomic libraries were prepared according to the
recommendations of the TrueSeq DNA sample preparation kit (Illumina, San Diego, CA).

[HTML]Molecular analysis of genetic mutations among cross-resistant second-line injectable drugs reveals a new resistant mutation in Mycobacterium tuberculosis

L Malinga, J Brand, S Olorunju, A Stoltz… – … and Infectious Disease, 2016 – Elsevier
Mutations causing mono and cross-resistance among amikacin, kanamycin and capreomycin
of second-line injectable drugs (SLIDs) namely are not well understood. We.

[BOOK]Clinical and pathological characteristics of the Uganda genotype of Mycobacterium Tuberculosis

D Wamala – 2016 – openarchive.ki.se
A study of the evolutionary relationships and worldwide distribution of the spoligotypes of Mtb
isolates from Ugandan patients with tuberculous lymphadenitis indicated an ongoing evolution
of the Uganda genotype, with Uganda at the center of this evolution (Paper II).

Molecular Epidemiology and Comparison of Diagnostic Methods of Tuberculous Lymphadenitis, Addis Ababa, Ethiopia

Z Olifan – 2016 – etd.aau.edu.et
Figure 8. Autoradiograph of some of the spoligotypes in Addis Ababa, Ethiopia, February- October,
2013 isolates to strain level by spoligotyping, 57 isolates were classified into one of the 26 different
spoligotype patterns which had not been reported to the SpolDB4.0.The most

Genotipos de Mycobacterium tuberculosis prevalentes en Argentina y su relación con mutaciones de resistencia a isoniacida

J Monteserin – 2016 – ridaa.unq.edu.ar
La genotipificación se realizó mediante spoligotyping, y en casos selectos, por
MIRU-VNTR24. El análisis de clustering se realizó mediante RFLP IS6110. como
spoligotyping y MIRUs-VNTR (Mycobacterial interspersed repetitive units-variable

2015 References

The impact of nutritional state on the duration of sputum positivity of Mycobacterium tuberculosis

K Hatsuda, M Takeuchi, K Ogata… – … of Tuberculosis and …, 2015 – ingentaconnect.com
Sputum cultures of M. tuberculosis were confirmed using polymerase chain reaction
(SpoligotypingKit, Ocimum Biosolutions, Hyderabad, India), immuno- chromatography
(Capilia TB-Neo, Tauns Laborato- ries Inc, Shizuoka, Japan) or both.

[CITATION]Determination of genotypic varieties and genotyping of multiple drug-resistant tuberculosis by RFLP and Spoligotyping methods

T KARSLIGİL, A BAYRAM, F EKŞİ – online.journals.tubitak.gov.tr
and indefinite. The spoligotype patterns were encoded in triplet codes, and the types
were identified (Figure 1). The obtained results were compared with the international
spoligotyping database, and the spoligotypes were detected (15).

Spacer-based macroarrays for CRISPR genotyping

I Mokrousov, N Rastogi – CRISPR: Methods and Protocols, 2015 – Springer
of M. tuberculosis [4]. The global database of M. tuberculosis spoligotypes created by The following
kinds of analysis may be performed with spoligotyping binary data: 1. In case of M. tuberculosis,
it may be compared with international spoligotype database SITVITWEB (Institut

… Mycobacterium tuberculosis of the Latin American Mediterranean Lineage, Wrongly Identified as Mycobacterium pinnipedii (Spoligotype International Type 863 [ …

ER Dalla Costa, SEG Vasconcelos… – Journal of clinical …, 2015 – Am Soc Microbiol
These spoligotypes are observed in genotype databases at a modest frequency, highlighting
Spoligotyping was performed using the commercially available kit from Ocimum Biosolutions
(Hyderabad The spoligotype and 24-locus MIRU-VNTR profiles were also compared with

Bovine tuberculosis in domestic pigs: Genotyping and distribution of isolates in Argentina

S Barandiaran, MM Vivot, AM Pérez, AA Cataldi… – Research in veterinary …, 2015 – Elsevier
Moreover, SB0140 was the most frequent spoligotype detected in the three performed samplings
Kamerbeek et al., 1997) was carried out by using the spoligotypingkit (Isogen Biosolutions The
patterns were compared with the M. bovis spoligotypes stored at the database of the

Genetic Diversity of Mycobacterium tuberculosis Complex Isolated from Tuberculosis Patients in Bahir Dar City and Its Surroundings, Northwest Ethiopia

A Nuru, G Mamo, A Worku, A Admasu… – BioMed research …, 2015 – hindawi.com
A total of 168 MTBC isolates were spoligotyped, and 89 (53%) different spoligotype Detailed
spoligotyping results and their corresponding SITs/orphan strains and lineages are summarized
in Table 2: Spoligotype patterns of 44 shared types and their corresponding lineages

Ultrastructural morphologic changes in mycobacterial biofilm in different extreme condition

V Kumar, TK Sachan, P Sharma… – Ultrastructural …, 2015 – Taylor & Francis
M. fortuitum and M. tuberculosis (Figure 1). Additionally, M. tuberculosis H37Rv was confirmed
by spoligotyping which was done with the help of a commercially available kit (Ocimum
Biosolutions, Hyderabad, Telangana, India) and as described previously by Kamerbeek et al.

[HTML]Comparative whole-genome analysis of clinical isolates reveals characteristic architecture of Mycobacterium tuberculosis pangenome

V Periwal, A Patowary, SK Vellarikkal, A Gupta… – PloS one, 2015 – journals.plos.org
Detailed studies of spoligotypes and associations with drug resistance phenotypes have been
extensively The spoligotyping results on the 8 Indian strains suggested that three of them of Mtb
clinical isolates from Northern India, while two had novel spoligotype patterns (S1 Fig).

[PDF]Asian Pacific Journal of Tropical Disease

G Gebrezgabiher, G Romha, G Ameni – population – researchgate.net
3.3. Spoligotyping A total of 31 samples that showed a signal with RD9 deletion typing were
spoligotyped. A total of 23 different spoligotype patterns were identified (Figure 2). The
dominant strain was SIT53 consisting of 22.6% of the 31 isolates.

Rapid whole-genome sequencing of Mycobacterium tuberculosis isolates directly from clinical samples

AC Brown, JM Bryant, K Einer-Jensen… – Journal of clinical …, 2015 – Am Soc Microbiol
numbers in the sputum samples were determined using an Artus M. tuberculosis RG PCR kit
(Qiagen), per Spoligotyping.Spoligotyping was carried out as described previously using
membranes with immobilized oligonucleotide probes (Ocimum Biosolutions) (15).

[HTML]Multidrug-Resistant Tuberculosis Outbreak in Gaming Centers, Singapore, 2012

CBE Chee, SH Gan, RT Ong, LH Sng… – Emerging infectious …, 2015 – ncbi.nlm.nih.gov
Results of spoligotyping (Ocimum Biosolutions, Hyderabad, India) and 24-loci mycobacterial
interspersed repetitive units (MIRU) typing and variable number tandem repeats (VNTR) analysis
(MIRU-VNTR Typing kit; GenoScreen, Lille, France) were identical for all 5 isolates

[HTML] Molecular Characterization of Mycobacterium tuberculosis Complex in Gambella Region, South west Ethiopia

GA Gulich, KT Tulu, A Worku, A Zewude… – Journal of Medical …, 2015 – omicsgroup.org
The laboratory result of spoligotype was fed to web based international database of M. tuberculosis
SITVITWEB Diriba B, Berkessa T, Mamo G, Tedla Y, Ameni G (2013) Spoligotyping of
multidrug-resistant (2002) Global Distribution of Mycobacterium tuberculosis Spoligotypes.

[HTML] Molecular Typing of Mycobacterium Tuberculosis Complex by 24-Locus Based MIRU-VNTR Typing in Conjunction with Spoligotyping to Assess Genetic …

N Bouklata, P Supply, S Jaouhari, R Charof… – PloS one, 2015 – journals.plos.org
the 75 isolates, the MIRU- based clustering rate corresponded 14.66% versus 76% for
spoligotyping. the five 24-locus MIRU-VNTR-based clusters showed identical spoligotype profiles,
except in cases, including a generic ST53/T1 and a ST42/LAM9 spoligotypes, and perhaps

[PDF] CIRCULATING STRAINS Mycobacterium tuberculosis ISOLATED FROM EXTRA-PULMONARY TUBERCULOSIS PATIENTS IN KELANTAN, MALAYSIA

NIF Ayub, MF Ismail, SSM Noor – sajms.com
the insertion sequence IS6110 (Figure 1) were analyzed for further characterization by
spoligotyping. Genetic association and possible mutation of spoligotypes of M. tuberculosis
obtained in the Each node in the spoligoforest represents a spoligotype and was colored based

[HTML] … , India: Dominance of Beijing Family and Discovery of Two New Clades Related to CAS1_Delhi and EAI Family Based on Spoligotyping and MIRU-VNTR …

KR Devi, R Bhutia, S Bhowmick, K Mukherjee… – PloS one, 2015 – journals.plos.org
Spoligotypes were compared with other reference strains present in the above mentioned
databases Spoligotyping data from MTBC isolates from Assam along with similar data from Kanpur
Spoligotype data from other regions used in the above analysis were obtained from

Genotypic diversity of multidrug-, quinolone-and extensively drug-resistant Mycobacterium tuberculosis isolates in Thailand

A Disratthakit, S Meada, T Prammananan… – Infection, Genetics and …, 2015 – Elsevier
Using spoligotyping, 174 isolates formed nine clusters, while the remaining 18 isolates had The
remaining one did not match any existing spoligotype in the database. Spoligotypes of
multidrug-resistant (MDR), quinolone-resistant (QR) and extensively drug-resistant (XDR

A Preliminary Study on Molecular Characterization of Mycobacterium tuberculosis in Benishangul Gumuz Region, Western Ethiopia

H Disassa, K Tafess, A Worku… – British Microbiology …, 2015 – search.proquest.com
Spoligotyping was performed as previously described by [7] and as per the spoligotpye kit
suppliers instructions (Ocimum Biosolutions The spoligotyping results were prepared in octal
and binary formats into Microsoft Excel spreadsheets; spoligotype patterns were

[PDF] Díaz Rodríguez, Raúl Herrera Ávila, Yoslany Fonseca Gómez, Carlos Manuel; Gozá Valdés, Roxana; Martínez Andreu, Ileana; Lemus Molina, Dihadenys et al. …

MTEN CUBA – actasdecongreso.sld.cu
Se empleó el sistema Spoligotyping Kit IM9701 (Ocimum Biosolutions Ltd, Hyderabad, India),
de number of tandem DNA repeats and comparison with a Spoligotyping database for tuberculosis
ecology in Venezuela: epidemiologic correlates of common spoligotypes and a

[HTML] Tipificación con oligonucleótidos espaciadores de Mycobacterium tuberculosis en Cuba

YM Herrera Avila, CM Fonseca Gómez… – Revista Cubana de …, 2015 – scielo.sld.cu
12. Se empleó el sistema Spoligotyping Kit IM9701 (Ocimum Biosolutions Ltd, Hyderabad, India),
de number of tandem DNA repeats and comparison with a Spoligotyping database for tuberculosis
ecology in Venezuela: epidemiologic correlates of common spoligotypes and a

[HTML] Molecular profiling of drug resistant isolates of Mycobacterium tuberculosis in the state of Santa Catarina, southern Brazil

RI Prim, MA Schörner, SG Senna… – Memórias do Instituto …, 2015 – SciELO Brasil
SpoligotypingSpoligotyping was carried out as described by Kamerbeek et al. Binary formats
of spoligotypes were compared to those stored in the SITVITWEB database Within the SITVITWEB
database, spoligotype international type (SIT) designates patterns shared by two or

Caracterización genotípica de aislamientos de Mycobacterium tuberculosis multidrogorresistentes

E López León – 2015 – scriptorium.uh.cu
En este trabajo, para conocer la diversidad genética se caracteriza- ron por tipificación con
oligonucleótidos espaciadores (Spoligotyping, en inglés) aislamientos de Spoligotyping:
Tipificación con oligonucleótidos espaciadores (Kamerbeek et al., 1997).

[HTML] Multidrug-resistant tuberculosis outbreak in gaming centers, Singapore, 2012

CBE Chee, SH Gan, RT Ong, LH Sng… – Emerging infectious …, 2015 – ncbi.nlm.nih.gov
Results of spoligotyping (Ocimum Biosolutions, Hyderabad, India) and 24-loci mycobacterial
interspersed repetitive units (MIRU) typing and variable number tandem repeats (VNTR) analysis
(MIRU-VNTR Typing kit; GenoScreen, Lille, France) were identical for all 5 isolates

[PDF] RENATA LYRIO PERES NÓBREGA

ADETE DA DINÂMICA, DE MODIFICAÇÃO… – portais4.ufes.br
A genotipagem dos isolados de Mtb foi realizada com base nos métodos de RFLP IS 6110,
Spoligotyping e na análise de deleção RDRio. Foram were assessed. Mtb isolates were genotyped
by the IS6110 RFLP, Spoligotyping and in the analysis of RDRio deletion.

[PDF] Detection and Characterization of Mycobacterium tuberculosis in Stool of HIV Sero-positive Patients with Suspected Pulmonary Tuberculosis

E Gizaw – 2015 – etd.aau.edu.et
reliability (Kamerbeek et al., 1997). Spoligotyping is useful for classifying M. tuberculosis strains
into spoligotype families and subfamilies according to the presence or absence of spacer
regions (Brosch et al., 2002). 1.2.3. Natural Course of Tuberculosis

USE OF URINE AS AN ADJUNCT SPECIMEN FOR THE DIAGNOSIS OF PULMONARY TUBERCULOSIS IN PEOPLE LIVING WITH HIV IN ADDIS ABABA

C Alemu – 2015 – etd.aau.edu.et
at Aklilu Lemma TB department for their astonishing and unrestricted help specially, Adane during
molecular technique running (PCR and Spoligotyping). Figure 4.7.2: Spoligotype patterns of
M.tuberculosis strains, family and lineage assignment of PTB from clinical isolates

Mechanisms of resistance to new generation anti-TB drugs

H Visser – 2015 – scholar.sun.ac.za
24 3.2.3. Strain Verification Using Spoligotyping 24 3.2.4. Minimum Inhibitory Concentration
Determination in Liquid Media 25 36 4.2.3. Strain Verification Using Spoligotyping 37 4.2.4.
Minimum Inhibitory Concentration Determination in Liquid Media 38

Epidemiologia molecular de estirpes de Mycobacterium tuberculosis circulantes em unidades do sistema prisional do Estado de Santa Catarina

TF Medeiros – 2015 – repositorio.ufsc.br
Nas análises realizadas pelo método de Spoligotyping, observou-se que a família LAM (46,3%)
foi a mais frequente, seguida da família T (20,0%), da S (11,6%), da Haarlem (2,1%) e da X
(1,1%). A LAM5 (15,8%), a LAM9 (14,8%), a T1 (12,6%) e a S (11,6%) foram as

2014 References

HTML]Molecular Confirmation of Bacillus Calmette Guerin Vaccine Related Adverse Events among Saudi Arabian Children

S Al-Hajoj, Z Memish, N Abuljadayel, R AlHakeem… – PloS one, 2014 – dx.plos.org
Spoligotyping (Ocimum Biosolutions, Hyderabad, India) and 24 loci based MIRU-VNTR typing
combined immunodeficiency (SCID) were noticed (Table 1). Analysis of spoligotyping data showed
identified based on isolates sharing identical MIRU-VNTR types and spoligotypes.
SEG Vasconcellos, CC Acosta, LL Gomes… – PloS one, 2014 – dx.plos.org
In addition, spoligotypes were compared with those in SITVIT2 (proprietary database of the “Institut
Pasteur de la Guadeloupe”, which is an updated in This comparison led to the characterization
of families and lineages by spoligotyping and Spoligotype International Types

[HTML]Clonal Diversity and Drug Resistance in Mycobacterium tuberculosis Isolated from Extra-pulmonary Samples in Central India-a Pilot Study

P Desikan, DS Chauhan, P Sharma… – Indian journal of …, 2014 – Medknow
We carried out a pilot study to identify predominant spoligotypes and drug-resistance The
amplicons were subjected to spoligotyping by using a commercial kit (Ocimum Biosolutions per
the manufacturer’s procedural directives in order to identify Spoligotype International types

[HTML]A First Insight on the Population Structure of Mycobacterium tuberculosis Complex as Studied by Spoligotyping and MIRU-VNTRs in Santiago, Chile.

ME Balcells, P García, P Meza, C Peña, M Cifuentes… – PloS one, 2014 – dx.plos.org
In this database, Spoligotype International Type (SIT) and MIRU International Type (MIT)
designates lineage, country together with copy numbers of 24 MIRU loci, spoligotyping patterns,
regions Maths, Sint-Martens-Latem, Belgium) was used to compare spoligotypes and MIRU

Prevalence of Extensively Drug Resistant Tuberculosis among Archived Multidrug Resistant Tuberculosis Isolates in Zimbabwe

T Sagonda, L Mupfumi, R Manzou… – Tuberculosis research …, 2014 – hindawi.com
at Scopus; EM Streicher, TC Victor, G. van der Spuy et al., “Spoligotype signatures in the Genetic
diversity of Mycobacterium tuberculosis isolates from Beijing, China assessed by Spoligotyping,
LSPs and mutations in katG, rpoB, rps L and rrs genes with spoligotypes of multidrug

[HTML]Deciphering the sequential events during in vivo acquisition of drug resistance in Mycobacterium tuberculosis

A Singh, K Gopinath, N Singh, S Singh – International Journal of …, 2014 – Elsevier
and subjected to spoligotyping using a commercial kit (Ocimum Biosolutions, IndiaSpoligotyping
of Mycobacterium tuberculosis isolates from patients with pulmonary tuberculosisSpoligotype
database of Mycobacterium tuberculosis: biogeographical distribution of shared types

Clinico-pathological features of tuberculosis due to Mycobacterium tuberculosis Uganda genotype in patients with tuberculous lymphadenitis: a cross sectional study

D Wamala, B Asiimwe, E Kigozi, G Mboowa… – BMC clinical …, 2014 – biomedcentral.com
Spoligotyping revealed 54 distinct spoligotype patterns, of which 33 (61%) patterns were
Spoligotypes representing the Euro American lineage (to which the Uganda genotype belongs)
were predominant (62%), followed by the Central Asian Strain (CAS) lineage (18%).

[HTML]Strain diversity of Mycobacterium tuberculosis isolates from pulmonary tuberculosis patients in afar pastoral region of Ethiopia

M Belay, G Ameni, G Bjune, D Couvin… – BioMed research …, 2014 – hindawi.com
fig2. Figure 2: Spoligoforest trees were drawn using the spoligotyping data ( isolates) and the
and the Hierarchical Layout (b). Note that the trees illustrate each spoligotype pattern from by
directed edges between nodes, with the arrowheads pointing to descendant spoligotypes.

Evidence of increasing intra and inter-species transmission of Mycobacterium bovis in South Africa: Are we losing the battle?

TM Hlokwe, P van Helden, AL Michel – Preventive veterinary medicine, 2014 – Elsevier
1). The geographic distribution of the different spoligotypes as determined in this study is livestock
(ie SB0131, SB0134, SB0267 and SB02199) and a single spoligotype (SB1474) wasSpoligotyping
results showed that the majority of the epidemiologically related outbreaks (90

Diversity of Mycobacterium tuberculosis and drug resistance in different provinces of Papua New Guinea

SD Ley, P Harino, K Vanuga, R Kamus… – BMC …, 2014 – biomedcentral.com
Figure 3 Spoligotypes for the observed lineages (n = 145). SIT = shared international
type. One of the Lineage 1 strains from Goroka exhibits a special spoligotyping pattern
with only spacers 40–43 being present (sample No.

[HTML]Study of Mycobacterium tuberculosis Complex Genotypic Diversity in Malaysia Reveals a Predominance of Ancestral East-African-Indian Lineage with a …

F Ismail, D Couvin, I Farakhin, ZA Rahman, N Rastogi… – PloS one, 2014 – dx.plos.org
Spoligotyping was carried out according to the protocol previously described by Kamerbeek et
In this database, Spoligotype International Type (SIT) designates an identical pattern shared
lineage, LAM7-TUR as the Turkey lineage, and some spoligotypes previously classified

Occurrence of Diverse Mutations in Isoniazid-and Rifampicin-Resistant Mycobacterium tuberculosis Isolates from Autochthonous and Immigrant Populations of Saudi …

B Varghese, M Shoukri, Z Memish… – Microbial Drug …, 2014 – online.liebertpub.com
spoligotyping. Spoligotyping was performed with a commercial kit (Ocimum
Biosolutions). Multilocus VNTR typing was carried out by using the commercial kit
(Genoscreen) according to the manufacturer’s recommendations.

Ultrastructural Morphologic Changes in Mycobacterial Biofilm in Different Extreme Condition

V Kumar, TK Sachan, P Sharma… – Ultrastructural …, 2014 – informahealthcare.com
M. fortuitum and M. tuberculosis (Figure 1). Additionally, M. tuberculosis H37Rv was confirmed
by spoligotyping which was done with the help of a commercially available kit (Ocimum
Biosolutions, Hyderabad, Telangana, India) and as described previously by Kamerbeek et al.

[PDF]Strain Classification of Mycobacterium tuberculosis Isolates in Brazil Based

SEG Vasconcellos, CC Acosta, LL Gomes… – 2014 – researchgate.net
In addition, spoligotypes were compared with those in SITVIT2 (proprietary database of the ”Institut
Pasteur de la Guadeloupe”, which is an updated in This comparison led to the characterization
of families and lineages by spoligotyping and Spoligotype Interna- tional Types

Tuberculosis recurrence in a high incidence setting for HIV and tuberculosis in Brazil

G Unis, AW Ribeiro, LS Esteves, FS Spies… – BMC infectious …, 2014 – biomedcentral.com
[18]. Genotyping analysis Spoligotyping was performed as described by Kamerbeek et al. with
a commercial kit (Ocimum Biosolutions BV, India) and the results were compared to a public
database available at: http://www.pasteur-guadeloupe.fr:8081/SITVIT_ONLINE [19,20].

Molecular Epidemiology and Transmission patterns of Mycobacterium tuberculosis complex in Afar Pastoral Communities and their livestock in Ethiopia

GM Kassa – 2014 – duo.uio.no
70 4.4.2. Identification of strains of M. tuberculosis and M. bovis using spoligotyping ….. I would
like to thank The Norwegian Institute of Public Health for laboratory support and providing me
the necessary training on spoligotype, MIRU-VNTR and HAIN Genotyping

Bacteriological diagnosis and molecular strain typing of Mycobacterium bovis and Mycobacterium caprae

E Gormley, LAL Corner, E Costello… – Research in veterinary …, 2014 – Elsevier
The primary isolation of a Mycobacterium sp. of the Mycobacterium tuberculosis complex
from an infected animal provides a definitive diagnosis of tuberculosis.

[HTML]Presencia del genotipo Beijing entre cepas del complejo Mycobacterium tuberculosis en dos centros de salud de la Región Metropolitana-Chile

P Meza, ME Balcells, C Miranda… – Revista chilena de …, 2014 – SciELO Chile
Se realizó con el kit comercial Ocimum Biosolutions BV ® , India, de acuerdo a The use of
microbead-based spoligotyping for Mycobacterium tuberculosis complex to evaluate the
Spoligotypes of Mycobacterium tuberculosis complex isolates from patients residents of 11 states

Caracterização molecular de estirpes de Mycobacterium tuberculosis resistentes à isoniazida e/ou rifampicina isoladas de amostras clínicas do estado de Santa …

RI Prim – 2014 – repositorio.ufsc.br
Os isolados foram caracterizados pelo spoligotyping e MIRU e a detecção da resistência
molecular foi avaliada pelo sequenciamento parcial dos genes associados à resistência
para isoniazida (katG, inhA e ahpC) e à rifampicina (rpoB).

2013 References

Efficacy and safety of thrice weekly DOTS in tuberculosis patients with and without HIV co-infection: an observational studyR Vashishtha, K Mohan, B Singh… – BMC infectious, 2013 – biomedcentral.com Mycobacterium tuberculosis genotyping was performed with a spoligotyping commercial kit
(Ocimum Biosolutions Ltd., Hyderabad, India) according to a previously described method, on
relapse samples and corresponding baseline samples, to differentiate exogenous reRelated articlesAll 8 versionsCiteSave

Prevalence study on bovine tuberculosis and molecular characterization of its causative agents in cattle slaughtered at Addis Ababa municipal abattoir, Central

A Mekibeb, TT Fulasa, R Firdessa, E Hailu – Tropical animal health and, 2013 – Springer
Spoligotyping was carried out using the commercially avail- able kit from Ocimum Biosolutions,
India The spoligotype patterns observed included a diverse set with two strain types similar to
Fig. 2 Schematic representation of the spoligotyping patterns of isolates of M. bovis from

In vitro Anti-mycobacterial activity of selected medicinal plants against Mycobacterium tuberculosis and Mycobacterium bovis Strains

A Gemechu, M Giday, G Ameni… – BMC complementary and, 2013 – biomedcentral.com
 Ob = Ocimum basilicum, Ca = Calpurnia aurea, Cm = Croton macrostachyus, Aa = Artemisia
abyssinica, Ec = Eucalyptus camaldulensis, RIF = Rifampicin OADC, Oleic acid, Albumin, Dextrose,
and Catalase; REMA, Resazurin microtiter assay; SIT, Spoligotype International Type

Current trends of< i> Mycobacterium tuberculosis</i> molecular epidemiology in Saudi Arabia and associated demographical factors

S Al-Hajoj, B Varghese, F Al-Habobe… – Infection, Genetics and …, 2013 – Elsevier
 manufacturer’s protocol. The spoligotyping was performed by using commercially
available membranes [Ocimum Biosolutions, Hyderabad, India] according to the
protocol described previously (Kamerbeek et al., 1997). The

2013-12-13 Gene expression and cytokine pattern of pulmonary tuberculosis patients and their contacts in Ethiopia

AM Bekele – 2013 – scholar.sun.ac.za
 Figure 5-1 Spoligotype pattern of clustered M. tuberculosis strains…..121 Figure 5-2 Spoligotype
pattern of orphan M. tuberculosis strains from HIV positive and HIV Figure 5-3 Spoligotype
pattern of M. tuberculosis strains from HIV positive subjects. ….124 

< i> Mycobacterium tuberculosis</i> DNA fingerprint clusters and its relationship with RD< sup> Rio</sup> genotype in BrazilSA Vinhas, M Palaci, HS Marques, PP Lobo de Aguiar… – Tuberculosis, 2013 – Elsevier Guadeloupe (http//:http://www.pasteur-guadeloupe.fr: 8081/SITVIT_ONLINE) that provides information
on the Mtb spoligotypes worldwide.  the algorithm, SPOTCLUST, 17 to identify the probability of
a strain to belong to spoligotype families, based on their spoligotyping patternsCited by 2Related articlesAll 5 versionsCiteSave

[HTML] Extrapulmonary Tuberculosis: Mycobacterium tuberculosis Strains and Host Risk Factors in a Large Urban Setting in Brazil

T Gomes, SA Vinhas, B Reis-Santos, M Palaci… – PloS one, 2013 – dx.plos.org
 All MTB isolates were spoligotypedby a commercial kit (Ocimum Biosolutions Ltd., Hyderabad
The spoligotyping patterns were compared with an updated SpolDB4database – SITVIT WEB
of Pasteur contrast to other families, since this is the most common spoligotype family in

[HTML] Immunogenic Mycobacterium africanum Strains Associated with Ongoing Transmission in The Gambia

F Gehre, M Antonio, JK Otu, N Sallah… – Emerging infectious …, 2013 – ncbi.nlm.nih.gov
 ammonium bromide and chloroform method, as described (8). Spoligotyping was performed
by Biolsolutions, Hyderabad, India), according to standardized protocols (9). Spoligotype patterns
with the samples collected in The Gambia, we reanalyzedspoligotypes from published

[PDF] Abattoir-based study on the epidemiology of caprine tuberculosis in Ethiopia using conventional and molecular tools

B Deresa, FJ Conraths, G Ameni – Acta Vet. Scand, 2013 – biomedcentral.com
 of the three M. tuberculosis isolates by spoligotyping identified them as type SIT53 and two new
spoligotypes cabinet. SpoligotypingSpoligotyping was performed at ALIPB; following the
procedure described earlier [28] and according to the spoligotype kit supplier’s

Molecular characterization of< i> Mycobacterium tuberculosis</i> isolates from North Indian patients with extrapulmonary tuberculosis

MM Sankar, J Singh, SC Angelin Diana, S Singh – Tuberculosis, 2013 – Elsevier
 earlier. 21 and 22. 2.5. Data analysis. Spoligotypes were analysed as character
types. The obtained spoligotyping patterns were compared with those available
in the international spoligotype database (SpolDB4). 23 

Prevalence of tuberculosis in pigs slaughtered at two abattoirs in Ethiopia and molecular characterization of Mycobacterium tuberculosis isolated from tuberculous-like

SM Arega, FJ Conraths, G Ameni – BMC veterinary research, 2013 – Springer
 Characterization of the M. tuberculosis isolates was carried by spoligotyping. Three spoligotypes,
two clusters with two isolates each one (one of them is new) and the Figure 3 Diagrammatic
representation of spoligotype patterns of three clusters of five isolates of M. tuberculosis

[HTML] Molecular Epidemiology of Mycobacterium tuberculosis Complex in Singapore, 2006-2012

LKY Lim, LH Sng, W Win, CBE Chee, LY Hsu, E Mak… – PloS one, 2013 – dx.plos.org
 was performed using commercial kits following the manufacturer’s instructions (Ocimum
Biosolutions, India of patient demographics, susceptibility testing results and major spoligotypes
according to 1 Isolates were clustered based on identical spoligotyping and MIRU-VNTR

[HTML] Tuberculosis Transmission among Immigrants and Autochthonous Populations of the Eastern Province of Saudi Arabia

B Varghese, P Supply, M Shoukri, C Allix-Beguec… – PloS one, 2013 – dx.plos.org
spoligotyping was carried out by using the commercially available membranes [Ocimum
Biosolutions, Hyderabad Molecular cluster analysis based on MIRU-VNTR allele types and
spoligotypes identified 356 On the other hand spoligotyping alone obtained 63 types, of which

Evaluation of the discriminatory power of variable number of tandem repeat typing of Mycobacterium bovis isolates from southern Africa

TM Hlokwe, P Helden, A Michel – Transboundary and emerging, 2013 – Wiley Online Library
 All isolates not spoligotyped before (n = 116) were subjected to spoligotyping for additional
comparative patterns were compared to those stored in the M. bovisspoligotype database (www
typing or a combination of IS6110 RFLP typing, PGRS typing, spoligotyping or traditional

Global Study of IS6110 in a Successful Mycobacterium tuberculosis Strain: Clues for Deciphering Its Behavior and for Its Rapid Detection

MI Millán-Lou, AI López-Calleja… – Journal of clinical, 2013 – Am Soc Microbiol
 with a commercially available kit, according to the manufacturer’s instructions (Ocimum
Biosolutions Ltd Currently, spoligotyping and IS6110 RFLP assays are performed routinely for
all M. tuberculosis strain is being monitored, which allows us to verify that spoligotype SIT-773

[HTML] MDR TB Transmission, SingaporeCBE Chee, LY Hsu, LH Sng, YS Leo… – Emerging infectious, 2013 – ncbi.nlm.nih.gov DNA genotyping by spoligotyping (Ocimum Biosolutions, Hyderabad, India) (4) showed that the
isolates from all 3 patients belonged to type 467 Figure Figure. Spoligotype and 24-loci
MIRU-VNTR typing results for Mycobacterium tuberculosis complex isolates recovered from 3Cited by 1Related articlesAll 5 versionsCiteSave

[HTML] Admixed phylogenetic distribution of drug resistant Mycobacterium tuberculosis in Saudi Arabia

B Varghese, P Supply, C Allix-Béguec, M Shoukri… – PloS one, 2013 – dx.plos.org
 monophyletic grouping of the isolates with a typical Beijing spoligotype) (Figure S1  identified
based on isolates sharing identical MIRU-VNTR types and spoligotypes loci based MIRU-VNTR
typing (Genoscreen, Lille, France) and Spoligotyping (Ocimum Biosolutions, Hyderabad 

Spoligotyping of multidrug-resistant Mycobacterium tuberculosis isolates in Ethiopia

B Diriba, T Berkessa, G Mamo, Y Tedla… – … International Journal of …, 2013 – ingentaconnect.com
 14.2%) clinical isolates were represented by a unique (non-clustered) spoligotype pattern.  patterns,
which are already recorded in the fourth international spoligotyping database (SpolDB4  Among
these new spoligotypes, 18 were represented by unique patterns, each consisting 

Endogenous reactivation followed by exogenous re-infection with drug resistant strains, a new challenge for tuberculosis control in Saudi Arabia

B Varghese, R Al-Omari, C Grimshaw, S Al-Hajoj – Tuberculosis, 2013 – Elsevier
 All of the available isolates from patients were subjected to spoligotyping (Ocimum Biosolutions,
Hyderabad, India) and 24 loci based MIRU-VNTR typing (Genoscreen, Lille, France) by using
the commercially available kits and methods described previously. 

Understanding the relationship between< i> Mycobacterium bovis</ispoligotypes from cattle in Latin American Countries

MJ Zumárraga, C Arriaga, S Barandiaran… – Research in veterinary, 2013 – Elsevier
 A complete list of isolates and the epidemiological information collected with data about the
spoligopattern, the spoligotype internal number  Spoligotyping assays and analysis. A total of
1684 isolates were spoligotyped by all participating laboratories, following Kamerbeek et al. 

[HTML] Primary Drug-Resistant Tuberculosis in Hanoi, Viet Nam: Present Status and Risk Factors

NT Le Hang, S Maeda, LT Lien, PH Thuong… – PloS one, 2013 – dx.plos.org
 Among 467 MTB isolates spoligotyped, the Beijing genotype was most frequently observed [272 
genotypes but closely resembled EAI4 or 5, according to the spoligotyping database (Table  Gender,
age, Residential area, HIV, DR pattern, MTB spoligotype, VNTR pattern, Clustered 

Modern lineages of Mycobacterium tuberculosis in Addis Ababa, Ethiopia: implications for the tuberculosis control programe

A Mihret, Y Bekele, M Aytenew, M Abebe, L Wassie… – African health …, 2013 – ajol.info
 studies had shown that one of the M. tuberculosis spoligotypes, Beijing, was  the spoligotyping
results with already existing designations in the international spoligotyping database, SpolDB4 
In this database, two or more patient isolates sharing identical spoligotype patterns are 

Deciphering the sequential events during< i> in vivo</i> acquisition of drug resistance in< i> Mycobacterium tuberculosis</i>

A SinghK GopinathN Singh, S Singh – International Journal of, 2013 – Elsevier
 and subjected to spoligotyping using a commercial kit (Ocimum Biosolutions, India  Spoligotyping
of Mycobacterium tuberculosis isolates from patients with pulmonary tuberculosis  Spoligotype
database of Mycobacterium tuberculosis: biogeographical distribution of shared types 

Molecular typing of mycobacteria isolated from extrapulmonary tuberculosis patients at Debre Birhan Referral Hospital, central Ethiopia

L Garedew, A Mihret, T Abebe… – Scandinavian journal of, 2013 – informahealthcare.com
 All of the isolates that showed a signal with RD9 deletion typing were further characterized using
spoligotyping; 52 spoligotypes  The remaining 16 spoligotypes were from 16 samples. Most of
the spoligotype patterns were of very good quality and a few were of good quality, as 

[PDF] Revision of tuberculous lesions in the Bácsalmás-Óalmás series-preliminary morphological and biomolecular studies

A Pósa, F Maixner, G Lovász, E Molnár… – Anthropologischer …, 2013 – researchgate.net
 TB positive cases were further analyzed by spoligotyping. The method was performed
with the Spoligotyping Kit (Ocimum Biosolutions) as described by Kamerbeek et al.
(1997) with minor modifications. Results and discussion 

 

Occurence of bovine tuberculosis in slaughtered cattle and risk factors to humans along the Lyantonde-Mbarara highway, Uganda

J Nasaka – 2014 – dspace.mak.ac.ug
Page 1. i OCCURENCE OF BOVINE TUBERCULOSIS IN SLAUGHTERED CATTLE
AND RISK FACTORS TO HUMANS ALONG THE LYANTONDE- MBARARA
HIGHWAY, UGANDA JOELIA NASAKA (BSC.WHM, MAK) MSC

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