Population structure and transmission of Mycobacterium bovis in Ethiopia

An African origin for Mycobacterium bovis

(2020) Chloé Loiseau et al.   Evolution Medicine and Public Health

The complete genome sequence of Mycobacterium bovis Mb3601, a SB0120 spoligotype strain representative of a new clonal group

(2020) Maxime Branger et al.   INFECTION GENETICS AND EVOLUTION

Interactive Tree Of Life (iTOL) v4: recent updates and new developments

(2019) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Accurate Phylogenetic Relationships Among Mycobacterium bovis Strains Circulating in France Based on Whole Genome Sequencing and Single Nucleotide Polymorphism Analysis

(2019) Amandine Hauer et al.   Frontiers in Microbiology

Network analysis of dairy cattle movement and associations with bovine tuberculosis spread and control in emerging dairy belts of Ethiopia

(2019) Getnet Abie Mekonnen et al.   BMC Veterinary Research

High-resolution mapping of tuberculosis transmission: Whole genome sequencing and phylogenetic modelling of a cohort from Valencia Region, Spain

(2019) Yuanwei Xu et al.   PLOS MEDICINE

Epidemiology of Mycobacterium bovis and Mycobacterium tuberculosis in animals: Transmission dynamics and control challenges of zoonotic TB in Ethiopia

(2018) Gebremedhin Romha et al.   PREVENTIVE VETERINARY MEDICINE

Genetic profiling of Mycobacterium bovis strains from slaughtered cattle in Eritrea

(2018) Michael Kahsay Ghebremariam et al.   PLoS Neglected Tropical Diseases

Genetic diversity and potential routes of transmission of Mycobacterium bovis in Mozambique

(2018) Adelina Machado et al.   PLoS Neglected Tropical Diseases

Genomic infectious disease epidemiology in partially sampled and ongoing outbreaks

(2017) Xavier Didelot et al.   MOLECULAR BIOLOGY AND EVOLUTION

Bovine tuberculosis in Ethiopia: A systematic review and meta-analysis

(2017) Berhanu Sibhat et al.   PREVENTIVE VETERINARY MEDICINE

Vaccination of calves with Mycobacterium bovis Bacillus Calmette-Guerin reduces the frequency and severity of lesions of bovine tuberculosis under a natural transmission setting in Ethiopia

(2017) G. Ameni et al.   Transboundary and Emerging Diseases

In silico region of difference (RD) analysis of Mycobacterium tuberculosis complex from sequence reads using RD-Analyzer

(2016) Kiatichai Faksri et al.   BMC GENOMICS

Interpreting whole genome sequencing for investigating tuberculosis transmission: a systematic review

(2016) Hollie-Ann Hatherell et al.   BMC Medicine

tipdatingbeast : an r package to assist the implementation of phylogenetic tip-dating tests using beast

(2016) Adrien Rieux et al.   Molecular Ecology Resources

ggtree: anrpackage for visualization and annotation of phylogenetic trees with their covariates and other associated data

(2016) Guangchuang Yu et al.   Methods in Ecology and Evolution

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

(2016) Eryu Xia et al.   Genome Medicine

Status of bovine tuberculosis in Addis Ababa dairy farms

(2016) K. ELIAS et al.   REVUE SCIENTIFIQUE ET TECHNIQUE-OFFICE INTERNATIONAL DES EPIZOOTIES

Limitations of variable number of tandem repeat typing identified through whole genome sequencing of Mycobacterium avium subsp. paratuberculosis on a national and herd level

(2015) Christina Ahlstrom et al.   BMC GENOMICS

Mycobacterial DNA Extraction for Whole-Genome Sequencing from Early Positive Liquid (MGIT) Cultures

(2015) Antonina A. Votintseva et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Recurrence due to Relapse or Reinfection WithMycobacterium tuberculosis: A Whole-Genome Sequencing Approach in a Large, Population-Based Cohort With a High HIV Infection Prevalence and Active Follow-up

(2014) José Afonso Guerra-Assunção et al.   JOURNAL OF INFECTIOUS DISEASES

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Kraken: ultrafast metagenomic sequence classification using exact alignments

(2014) Derrick E Wood et al.   GENOME BIOLOGY

Zoonotic Transmission of Tuberculosis Between Pastoralists and Their Livestock in South-East Ethiopia

(2012) Balako Gumi et al.   EcoHealth

Detection of Mycobacterium bovis–Infected Dairy Herds Using PCR in Bulk Tank Milk Samples

(2012) Martín José Zumárraga et al.   Foodborne Pathogens and Disease

Whole-genome sequencing to delineate Mycobacterium tuberculosis outbreaks: a retrospective observational study

(2012) Timothy M Walker et al.   LANCET INFECTIOUS DISEASES

Bayesian Phylogenetics with BEAUti and the BEAST 1.7

(2012) Alexei J. Drummond et al.   MOLECULAR BIOLOGY AND EVOLUTION

High Prevalence of Bovine Tuberculosis in Dairy Cattle in Central Ethiopia: Implications for the Dairy Industry and Public Health

(2012) Rebuma Firdessa et al.   PLoS One

Low prevalence of bovine tuberculosis in Somali pastoral livestock, southeast Ethiopia

(2012) Balako Gumi et al.   TROPICAL ANIMAL HEALTH AND PRODUCTION

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

(2012) Abraham Mekibeb et al.   TROPICAL ANIMAL HEALTH AND PRODUCTION

Whole Genome Sequencing Reveals Local Transmission Patterns of Mycobacterium bovis in Sympatric Cattle and Badger Populations

(2012) Roman Biek et al.   PLoS Pathogens

European 1: A globally important clonal complex of Mycobacterium bovis

(2011) Noel H. Smith et al.   INFECTION GENETICS AND EVOLUTION

European 2 – A clonal complex of Mycobacterium bovis dominant in the Iberian Peninsula

(2011) Sabrina Rodriguez-Campos et al.   INFECTION GENETICS AND EVOLUTION

Limitations of Spoligotyping and Variable-Number Tandem-Repeat Typing for Molecular Tracing of Mycobacterium bovis in a High-Diversity Setting

(2011) Sabrina Rodriguez-Campos et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Comparison of decontamination methods for primary isolation of Mycobacterium bovis in paucibacillary bovine tissues

(2011) L. Medeiros et al.   LETTERS IN APPLIED MICROBIOLOGY

Pathology of Camel Tuberculosis and Molecular Characterization of Its Causative Agents in Pastoral Regions of Ethiopia

(2011) Gezahegne Mamo et al.   PLoS One

Molecular characterization of Mycobacterium bovis isolates from Ethiopian cattle

(2010) Demelash Biffa et al.   BMC Veterinary Research

African 2, a Clonal Complex of Mycobacterium bovis Epidemiologically Important in East Africa

(2010) S. Berg et al.   JOURNAL OF BACTERIOLOGY

Evolution of MRSA During Hospital Transmission and Intercontinental Spread

(2010) S. R. Harris et al.   SCIENCE

Molecular typing of Mycobacterium bovis isolated from tuberculosis lesions of cattle in north eastern Ethiopia

(2010) G. Ameni et al.   VETERINARY RECORD

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

African 1, an Epidemiologically Important Clonal Complex of Mycobacterium bovis Dominant in Mali, Nigeria, Cameroon, and Chad

(2009) B. Muller et al.   JOURNAL OF BACTERIOLOGY

The Burden of Mycobacterial Disease in Ethiopian Cattle: Implications for Public Health

(2009) Stefan Berg et al.   PLoS One