Jason Limberis, PhD

Assistant Researcher
Medicine
[email protected]
+1 628 206-8101

My research focusses on the causative agent of tuberculosis, Mycobacterium tuberculosis: I apply a combination of wet work and bioinformatics to investigate genomic and transcriptional associates of drug resistance, clinical outcomes, and patient infectiousness. See www.SemiQuant.com for more information.

Publications: 

spotPCR: A Rapid and Efficient Approach for Indexing Individual Template Molecules using Unique Molecular Identifiers.

bioRxiv : the preprint server for biology

Limberis JD, Nagel RJ, Chakravorty S, Block D, Dewell S, Nalyvayko A, Metcalfe JZ

stilPCR increases the effective sequencing length of Illumina targeted next-generation sequencing.

PloS one

Limberis JD, Nagel RJ, Chakravorty S, Block D, Dewell S, Nalyvayko A, Howard Z, Theron G, Venter R, Metcalfe JZ

Mycobacterium tuberculosis resides in lysosome-poor monocyte-derived lung cells during chronic infection.

PLoS pathogens

Zheng W, Chang IC, Limberis J, Budzik JM, Zha BS, Howard Z, Chen L, Ernst JD

Bedaquiline resistance in patients with drug-resistant tuberculosis in Cape Town, South Africa: a retrospective longitudinal cohort study.

The Lancet. Microbe

Derendinger B, Dippenaar A, de Vos M, Huo S, Alberts R, Tadokera R, Limberis J, Sirgel F, Dolby T, Spies C, Reuter A, Folkerts M, Allender C, Lemmer D, Van Rie A, Gagneux S, Rigouts L, Te Riele J, Dheda K, Engelthaler DM, Warren R, Metcalfe J, Cox H, Theron G

A simple, single-tube overlapping amplicon-targeted Illumina sequencing assay.

PloS one

Limberis JD, Nalyvayko A, Ernst JD, Metcalfe JZ

Mycobacterium tuberculosis resides in lysosome-poor monocyte-derived lung cells during chronic infection.

Research square

Zheng W, Chang IC, Limberis J, Budzik J, Zha BS, Howard Z, Chen L, Ernst J

Mycobacterium tuberculosis resides in lysosome-poor monocyte-derived lung cells during persistent infection.

bioRxiv : the preprint server for biology

Zheng W, Chang IC, Limberis J, Budzik JM, Zha BS, Howard Z, Ernst JD

Circularization of rv0678 for Genotypic Bedaquiline Resistance Testing of Mycobacterium tuberculosis.

Microbiology spectrum

Limberis JD, Nalyvayko A, Ernst JD, Metcalfe JZ

Comparative Performance of Genomic Methods for the Detection of Pyrazinamide Resistance and Heteroresistance in Mycobacterium tuberculosis.

Journal of clinical microbiology

Whitfield MG, Engelthaler DM, Allender C, Folkerts M, Heupink TH, Limberis J, Warren RM, Van Rie A, Metcalfe JZ

Anaerobe-enriched gut microbiota predicts pro-inflammatory responses in pulmonary tuberculosis.

EBioMedicine

Naidoo CC, Nyawo GR, Sulaiman I, Wu BG, Turner CT, Bu K, Palmer Z, Li Y, Reeve BWP, Moodley S, Jackson JG, Limberis J, Diacon AH, van Helden PD, Clemente JC, Warren RM, Noursadeghi M, Segal LN, Theron G

Bacterial and host determinants of cough aerosol culture positivity in patients with drug-resistant versus drug-susceptible tuberculosis.

Nature medicine

Theron G, Limberis J, Venter R, Smith L, Pietersen E, Esmail A, Calligaro G, Te Riele J, de Kock M, van Helden P, Gumbo T, Clark TG, Fennelly K, Warren R, Dheda K

A Human Lung Challenge Model to Evaluate the Safety and Immunogenicity of PPD and Live Bacillus Calmette-Guérin.

American journal of respiratory and critical care medicine

Davids M, Pooran A, Hermann C, Mottay L, Thompson F, Cardenas J, Gu J, Koeuth T, Meldau R, Limberis J, Gina P, Srivastava S, Calder B, Esmail A, Tomasicchio M, Blackburn J, Gumbo T, Dheda K

Differential RD-1-specific IFN-γ host responses to diverse Mycobacterium tuberculosis strains in HIV-uninfected persons may be explained by genotypic variation in the ESX-1 region.

International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases

Tomasicchio M, Limberis J, van der Merwe R, Jacobson R, Meldau R, Theron G, Nicol M, Warren R, Dheda K

A landscape of genomic alterations at the root of a near-untreatable tuberculosis epidemic.

BMC medicine

Klopper M, Heupink TH, Hill-Cawthorne G, Streicher EM, Dippenaar A, de Vos M, Abdallah AM, Limberis J, Merker M, Burns S, Niemann S, Dheda K, Posey J, Pain A, Warren RM

Same-Day Tools, Including Xpert Ultra and IRISA-TB, for Rapid Diagnosis of Pleural Tuberculosis: a Prospective Observational Study.

Journal of clinical microbiology

Meldau R, Randall P, Pooran A, Limberis J, Makambwa E, Dhansay M, Esmail A, Dheda K

Linezolid interruption in patients with fluoroquinolone-resistant tuberculosis receiving a bedaquiline-based treatment regimen.

International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases

Olayanju O, Esmail A, Limberis J, Gina P, Dheda K

Long-term bedaquiline-related treatment outcomes in patients with extensively drug-resistant tuberculosis from South Africa.

The European respiratory journal

Olayanju O, Limberis J, Esmail A, Oelofse S, Gina P, Pietersen E, Fadul M, Warren R, Dheda K

Outcomes, infectiousness, and transmission dynamics of patients with extensively drug-resistant tuberculosis and home-discharged patients with programmatically incurable tuberculosis: a prospective cohort study.

The Lancet. Respiratory medicine

Dheda K, Limberis JD, Pietersen E, Phelan J, Esmail A, Lesosky M, Fennelly KP, Te Riele J, Mastrapa B, Streicher EM, Dolby T, Abdallah AM, Ben-Rached F, Simpson J, Smith L, Gumbo T, van Helden P, Sirgel FA, McNerney R, Theron G, Pain A, Clark TG, Warren RM

Selected questions and controversies about bedaquiline: a view from the field.

The international journal of tuberculosis and lung disease : the official journal of the International Union against Tuberculosis and Lung Disease

Dheda K, Esmail A, Limberis J, Maartens G

Xpert MTB/RIF Results in Patients With Previous Tuberculosis: Can We Distinguish True From False Positive Results?

Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

Theron G, Venter R, Calligaro G, Smith L, Limberis J, Meldau R, Chanda D, Esmail A, Peter J, Dheda K