Unexpected diversity of CRISPR unveils some evolutionary patterns of repeated sequences in Mycobacterium tuberculosis

A sister lineage of the Mycobacterium tuberculosis complex discovered in the African Great Lakes region

(2020) Jean Claude Semuto Ngabonziza et al.   Nature Communications

The role of IS6110 in micro- and macroevolution of Mycobacterium tuberculosis lineage 2

(2019) Egor Shitikov et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Genotyping of Mycobacterium tuberculosis spreading in Hanoi, Vietnam using conventional and whole genome sequencing methods

(2019) Shinji Maeda et al.   INFECTION GENETICS AND EVOLUTION

Dispersal of Mycobacterium tuberculosis Driven by Historical European Trade in the South Pacific

(2019) Claire V. Mulholland et al.   Frontiers in Microbiology

CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins

(2018) David Couvin et al.   NUCLEIC ACIDS RESEARCH

Epidemiological links between tuberculosis cases identified twice as efficiently by whole genome sequencing than conventional molecular typing: A population-based study

(2018) Rana Jajou et al.   PLoS One

New insights into the transposition mechanisms of IS6110 and its dynamic distribution between Mycobacterium tuberculosis Complex lineages

(2018) Jesús Gonzalo-Asensio et al.   PLoS Genetics

Prediction of Susceptibility to First-Line Tuberculosis Drugs by DNA Sequencing

(2018)   NEW ENGLAND JOURNAL OF MEDICINE

Evidence for Host-Bacterial Co-evolution via Genome Sequence Analysis of 480 Thai Mycobacterium tuberculosis Lineage 1 Isolates

(2018) Prasit Palittapongarnpim et al.   Scientific Reports

Macro-geographical specificities of the prevailing tuberculosis epidemic as seen through SITVIT2, an updated version of the Mycobacterium tuberculosis genotyping database

(2018) David Couvin et al.   INFECTION GENETICS AND EVOLUTION

The relationship between transmission time and clustering methods in Mycobacterium tuberculosis epidemiology

(2018) Conor J. Meehan et al.   EBioMedicine

Genomic history of the seventh pandemic of cholera in Africa

(2017) François-Xavier Weill et al.   SCIENCE

A cyclic oligonucleotide signaling pathway in type III CRISPR-Cas systems

(2017) Migle Kazlauskiene et al.   SCIENCE

Evolutionary pathway analysis and unified classification of East Asian lineage of Mycobacterium tuberculosis

(2017) Egor Shitikov et al.   Scientific Reports

Transposition mechanism, molecular characterization and evolution of IS6110, the specific evolutionary marker of Mycobacterium tuberculosis complex

(2016) Sarah Thabet et al.   MOLECULAR BIOLOGY REPORTS

Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages

(2016) David Stucki et al.   NATURE GENETICS

SpoTyping: fast and accurate in silico Mycobacterium spoligotyping from sequence reads

(2016) Eryu Xia et al.   Genome Medicine

Dormant non-culturable Mycobacterium tuberculosis retains stable low-abundant mRNA

(2015) Dmitriy V. Ignatov et al.   BMC GENOMICS

Co-transcriptional DNA and RNA Cleavage during Type III CRISPR-Cas Immunity

(2015) Poulami Samai et al.   CELL

An updated evolutionary classification of CRISPR–Cas systems

(2015) Kira S. Makarova et al.   NATURE REVIEWS MICROBIOLOGY

Analysis of IS6110 insertion sites provide a glimpse into genome evolution of Mycobacterium tuberculosis

(2015) Tanmoy Roychowdhury et al.   Scientific Reports

PolyTB: A genomic variation map for Mycobacterium tuberculosis

(2014) Francesc Coll et al.   TUBERCULOSIS

Global Adaptation to a Lipid Environment Triggers the Dormancy-Related Phenotype of Mycobacterium tuberculosis

(2014) J. G. Rodriguez et al.   mBio

A robust SNP barcode for typing Mycobacterium tuberculosis complex strains

(2014) Francesc Coll et al.   Nature Communications

Genomic analysis of smooth tubercle bacilli provides insights into ancestry and pathoadaptation of Mycobacterium tuberculosis

(2013) Philip Supply et al.   NATURE GENETICS

SpolPred: rapid and accurate prediction of Mycobacterium tuberculosis spoligotypes from short genomic sequences

(2012) Francesc Coll et al.   BIOINFORMATICS

Host-pathogen coevolution in human tuberculosis

(2012) S. Gagneux   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

CRISPR Typing and Subtyping for Improved Laboratory Surveillance of Salmonella Infections

(2012) Laëtitia Fabre et al.   PLoS One

Significance of the Identification in the Horn of Africa of an Exceptionally Deep Branching Mycobacterium tuberculosis Clade

(2012) Yann Blouin et al.   PLoS One

The use of microbead-based spoligotyping for Mycobacterium tuberculosis complex to evaluate the quality of the conventional method: Providing guidelines for Quality Assurance when working on membranes

(2011) Edgar Abadia et al.   BMC INFECTIOUS DISEASES

High-Resolution Typing by Integration of Genome Sequencing Data in a Large Tuberculosis Cluster

(2010) A. C. Schurch et al.   JOURNAL OF CLINICAL MICROBIOLOGY

The tempo and mode of molecular evolution of Mycobacterium tuberculosis at patient-to-patient scale

(2009) Anita C. Schürch et al.   INFECTION GENETICS AND EVOLUTION

Bacterial Genetic Signatures of Human Social Phenomena among M. tuberculosis from an Aboriginal Canadian Population

(2009) C. Pepperell et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genotyping of Genetically Monomorphic Bacteria: DNA Sequencing in Mycobacterium tuberculosis Highlights the Limitations of Current Methodologies

(2009) Iñaki Comas et al.   PLoS One

High Functional Diversity in Mycobacterium tuberculosis Driven by Genetic Drift and Human Demography

(2008) Ruth Hershberg et al.   PLOS BIOLOGY

On-line resources for bacterial micro-evolution studies using MLVA or CRISPR typing

(2007) Ibtissem Grissa et al.   BIOCHIMIE