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Multidisciplinary Sciences
Sara Al Mahrouqi, Amal Gadalla, Saleh Al Azri, Salama Al-Hamidhi, Amina Al-Jardani, Abdullah Balkhair, Amira Al-fahdi, Laila Al Balushi, Samiya Al Zadjali, Asmahan Mohammed Nasser Al Marhoubi, Hamza A. Babiker
Summary: The study found diverse drug-resistant strains of Mycobacterium tuberculosis in Oman, with drug resistance-conferring mutations widespread in multiple spoligo-lineages, indicative of a large resistance reservoir. The overall resistance rates among Omanis and expatriates were similar, but multi-drug resistance and Pyrazinamide resistance were significantly higher among Omanis, while Isoniazid resistance was greater among expatriates.
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Microbiology
Lindiwe M. Faye, Mojisola C. Hosu, Sandeep Vasaikar, Anzaan Dippenaar, Selien Oostvogels, Rob M. Warren, Teke Apalata
Summary: This study examined the distribution of Mtb mutations and spoligotypes in rural Eastern Cape Province, South Africa. The rpoB gene had the highest number of mutations, and the Beijing spoligotype was the most prevalent. Spatial analysis and mapping provided a better understanding of the distribution of these genetic variations and spoligotypes.
Article
Microbiology
Sara Al-Mahrouqi, Reham Ahmed, Saleh Al-Azri, Salama Al-Hamidhi, Abdullah A. Balkhair, Amina Al-Jardani, Amira Al-Fahdi, Laila Al-Balushi, Samia Al-Zadjali, Chamila Adikaram, Asmhan Al-Marhoubi, Amal Gadalla, Hamza A. Babiker
Summary: Effective tuberculosis control measures in Oman have significantly reduced the annual incidence of tuberculosis cases, but the current incidence remains above the target level. The study revealed diverse M. tuberculosis lineages among Omanis and foreigners, with no ongoing transmission detected.
Article
Infectious Diseases
Shufang Lin, Shuzhen Wei, Yong Zhao, Zhisong Dai, Jian Lin, Yu Pang
Summary: This study aimed to investigate the population structure of Mycobacterium tuberculosis (MTB) genotypes in Fujian and explore the risk factors associated with Beijing genotype infection. The study also examined the relationship between Beijing genotype and drug resistance. The results showed that the Beijing genotype is the predominant sublineage in Fujian and its prevalence decreases with advancing patient age. Furthermore, the emergence of novel spoligotypes of highly drug-resistant MTB isolates highlights the need for ongoing molecular genotyping surveillance in the province.
INFECTION AND DRUG RESISTANCE
(2022)
Article
Microbiology
Jessica Comin, Isabel Otal, Sofia Samper
Summary: The aim of this study was to investigate the genetic variability of the insertion sequence (IS) 6110 in the Mycobacterium tuberculosis complex (MTBC). The results showed a high mutation rate in IS6110, with low-copy-number strains having higher mutation rates than high-copy-number strains. Additionally, specific IS6110 variants were found in certain strains, and Haarlem and X family strains shared a common IS6110 copy in a specific location.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Infectious Diseases
David Couvin, Erick Stattner, Wilfried Segretier, Damien Cazenave, Nalin Rastogi
Summary: Data obtained from new sequencing technologies are rapidly evolving, leading to the development of specific tools and softwares in bioinformatics. This study aims to propose an analysis pipeline that simplifies the analysis of Mycobacterium tuberculosis complex (MTBC) data by providing different ways to interpret genomic or genotyping information using existing tools.
INFECTION GENETICS AND EVOLUTION
(2023)
Review
Immunology
Nathan P. Crilly, Samuel K. Ayeh, Petros C. Karakousis
Summary: Mycobacterium avium complex (MAC) is a significant cause of morbidity and mortality, with treatment requiring a combination of antibiotics over an extended period. Even after infection eradication, patients may still experience residual lung dysfunction. Recent focus has been on developing new therapies to accelerate pathogen clearance and reduce lung damage.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Biochemical Research Methods
Romain Derelle, John Lees, Jody Phelan, Ajit Lalvani, Nimalan Arinaminpathy, Leonid Chindelevitch
Summary: Fastlin is a bioinformatics tool designed for rapid MTBC lineage typing, utilizing an ultra-fast alignment-free approach. It demonstrates high accuracy and significantly faster running times compared to existing tools.
Review
Multidisciplinary Sciences
Moein Zangiabadian, Donya Malekshahian, Erfan Arabpour, Sahel Shafiee Dolat Abadi, Fartous Yazarlou, Narjess Bostanghadiri, Rosella Centis, AmirHossein Akbari Aghababa, Mohammad Farahbakhsh, Mohammad Javad Nasiri, Giovanni Sotgiu, Giovanni Battista Migliori
Summary: This systematic review evaluated the outcomes and adverse events of liposomal amikacin for inhalation (LAI) in Mycobacterium avium complex (MAC) pulmonary disease. The results showed that adding LAI to guideline-based therapies can increase the sputum culture conversion rate and achieve early sustained and durable negative sputum culture. However, further large-scale research is needed to confirm these findings.
Article
Multidisciplinary Sciences
Roger Vargas Jr, Michael J. Luna, Luca Freschi, Maximillian Marin, Ruby Froom, Kenan C. Murphy, Elizabeth A. Campbell, Thomas R. Ioerger, Christopher M. Sassetti, Maha Reda Farhat
Summary: This study investigates the role of insertions and deletions (INDELs) in genomic homopolymeric tracts (HT) in regulating gene expression in pathogenic bacteria, specifically within the Mycobacterium tuberculosis complex (MTBC). Through analysis of 31,428 clinical isolates, the researchers identified phase-variants of INDEL events that are under positive selection. Further experiments confirmed that a putatively adaptive phase-variant in the ESX-1 system alters the expression of the critical virulence mediator, espA.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Article
Microbiology
Margaretha de Vos, Lesley Scott, Anura David, Andre Trollip, Harald Hoffmann, Sophia Georghiou, Sergio Carmona, Morten Ruhwald, Wendy Stevens, Claudia M. Denkinger, Samuel G. Schumacher
Summary: This study compared four automated assays for the detection of TB and MDR-TB and found that assays targeting multicopy genes or targets (Abbott, BD, and Roche) showed increased analytical sensitivity compared to Xpert. All assays demonstrated accuracy comparable to that of Genotype MTBDRplus for rifampicin and isoniazid resistance detection.
JOURNAL OF CLINICAL MICROBIOLOGY
(2021)
Article
Multidisciplinary Sciences
Selassie Ameke, Prince Asare, Samuel Yaw Aboagye, Isaac Darko Otchere, Stephen Osei-Wusu, Dorothy Yeboah-Manu, Adwoa Asante-Poku
Summary: Recent molecular epidemiological data indicate significant genetic variation within different lineages of the Mycobacterium tuberculosis complex (MTBC), with specific adaptations to different human populations. This study in the Volta Region of Ghana revealed a diverse population structure of clinical MTBC isolates, dominated by M. tuberculosis sensu stricto (MTBss) and M. africanum (MAF) lineages. The presence of various spoligotype patterns and distinct Lineage 4 sub-lineages within the MTBC isolates further highlights the genetic diversity and localization of specific lineages in this region.
Article
Microbiology
Xinggui Yang, Junfei Huang, Yijiang Chen, Xia Ying, Qinqin Tan, Xu Chen, Xiaoyan Zeng, Shiguang Lei, Yi Wang, Shijun Li
Summary: Tuberculosis is a chronic infectious disease caused by Mycobacterium tuberculosis complex (MTC). Developing rapid, ultrasensitive, and highly specific detection techniques is crucial for controlling TB.
MICROBIOLOGY SPECTRUM
(2023)
Article
Biology
Tracy M. Smith, Madison A. Youngblom, John F. Kernien, Mohamed A. Mohamed, Sydney S. Fry, Lindsey L. Bohr, Tatum D. Mortimer, Mary B. O'Neill, Caitlin S. Pepperell
Summary: Tuberculosis is a leading cause of death due to infectious disease. Although not traditionally associated with biofilms, M. tb biofilms have been found to be linked with drug and immune tolerance. This study used M. tb experimental evolution to identify candidate loci controlling biofilm formation, adding to our understanding of the genetic architecture underlying M. tb biofilm development.
Article
Microbiology
A. Padane, Z. Harouna Hamidou, M. Drancourt, J. Saad
Summary: The whole-genome sequence comparison of the MTC genomic sequences identified a unique gene, CRISPR-csm4, which can be used directly on clinical samples to detect MTC and differentiate between MTC species, lineages, and sublineages. The PCR-based detection of MTC in clinical samples was confirmed by testing the CRISPR-csm4 gene on a collection of MTC and non-tuberculous mycobacteria isolates. The results showed that CRISPR-csm4 can accurately detect MTC isolates.
MICROBIOLOGY SPECTRUM
(2023)
Article
Oncology
Peter Zarzour, Lies Boelen, Fabio Luciani, Dominik Beck, Anuratha Sakthianandeswaren, Dmitri Mouradov, Oliver M. Sieber, Nicholas J. Hawkins, Luke B. Hesson, Robyn L. Ward, Jason W. H. Wong
GENES CHROMOSOMES & CANCER
(2015)
Article
Biology
Andrew R. Francis, Mike Steel
MATHEMATICAL BIOSCIENCES
(2015)
Article
Evolutionary Biology
Andrew R. Francis, Mike Steel
SYSTEMATIC BIOLOGY
(2015)
Article
Infectious Diseases
Sofia R. Bartlett, Brendan Jacka, Rowena A. Bull, Fabio Luciani, Gail V. Matthews, Francois M. J. Lamoury, Margaret E. Hellard, Behzad Hajarizadeh, Suzy Teutsch, Bethany White, Lisa Maher, Gregory J. Dore, Andrew R. Lloyd, Jason Grebely, Tanya L. Applegate
INFECTION GENETICS AND EVOLUTION
(2016)
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Immunology
A. T. Newall, J. F. Reyes, P. McIntyre, R. Menzies, P. Beutels, J. G. Wood
Article
Biology
Andrew Francis, Katharina T. Huber, Vincent Moulton, Taoyang Wu
JOURNAL OF MATHEMATICAL BIOLOGY
(2018)
Article
Physics, Multidisciplinary
Jeremy G. Sumner, Peter D. Jarvis, Andrew R. Francis
JOURNAL OF PHYSICS A-MATHEMATICAL AND THEORETICAL
(2017)
Article
Biology
Stuart Serdoz, Attila Egri-Nagy, Jeremy Sumner, Barbara R. Holland, Peter D. Jarvis, Mark M. Tanaka, Andrew R. Francis
JOURNAL OF THEORETICAL BIOLOGY
(2017)
Article
Evolutionary Biology
David Bryant, Andrew Francis, Mike Steel
SYSTEMATIC BIOLOGY
(2017)
Article
Mathematics, Applied
Andrew Francis, Charles Semple, Mike Steel
ADVANCES IN APPLIED MATHEMATICS
(2018)
Article
Biology
Andrew Francis, Vincent Moulton
JOURNAL OF THEORETICAL BIOLOGY
(2018)
Article
Biology
Sangeeta Bhatia, Attila Egri-Nagy, Andrew R. Francis
JOURNAL OF MATHEMATICAL BIOLOGY
(2015)
Article
Biology
Sangeeta Bhatia, Pedro Feijao, Andrew R. Francis
BULLETIN OF MATHEMATICAL BIOLOGY
(2018)
Article
Biology
A. Francis, K. T. Huber, V. Moulton
BULLETIN OF MATHEMATICAL BIOLOGY
(2018)
Article
Statistics & Probability
Andrew R. Francis, Milan Stehlik, Henry P. Wynn
