Transcriptomics,Genomics

Dataset Information

0

Mycobacterium tuberculosis transcriptional response to Bedaquiline


ABSTRACT: The ability of Mycobacterium tuberculosis (Mtb) to adopt heterogeneous physiological states, underlies it’s success in evading the immune system and tolerating antibiotic killing. Drug tolerant phenotypes are a major reason why the tuberculosis (TB) mortality rate is so high, with over 1.8 million deaths annually. To develop new TB therapeutics that better treat the infection (faster and more completely), a systems-level approach is needed to reveal the complexity of network-based adaptations of Mtb. Here, we report the transcriptional response of Mtb to the drug Bedaquiline. We performed transcriptomic sequencing (RNA-seq) on Mtb bacilli at 4, 24, 72 h following exposure to the drug. Overall design: Cultures of Mycobacterium tuberculosis were grown in 7H9 media supplemented with ADC, 0.2% glycerol and 0.05% tyloxapol in a 37 degrees C incubator with shaking until mid log phase. Frozen 1 mL stocks of Mtb cells were added to 7H9-rich media and grown until the culture reached an OD600 of ~0.4-0.8. The cells were then diluted to OD600 of 0.05 and added to 7H9-rich media containing Bedaquiline at the predetermined amounts (0, 5.75, 11.5 μg/mL, as indicated in each sample title). Samples were collected at 4 h, 24 h, and 72 h from three biological replicates. The sequence reads that passed quality filters were aligned with Bowtie2 and processed using the R package DuffyNGS.

INSTRUMENT(S): Illumina NextSeq 500 (Mycobacterium tuberculosis)

ORGANISM(S): Mycobacterium tuberculosis  

SUBMITTER: Eliza Peterson 

PROVIDER: GSE166546 | GEO | 2021-12-15

REPOSITORIES: GEO

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Publications

Quantitative prediction of conditional vulnerabilities in regulatory and metabolic networks using PRIME.

Immanuel Selva Rupa Christinal SRC   Arrieta-Ortiz Mario L ML   Ruiz Rene A RA   Pan Min M   Lopez Garcia de Lomana Adrian A   Peterson Eliza J R EJR   Baliga Nitin S NS  

NPJ systems biology and applications 20211206 1


The ability of Mycobacterium tuberculosis (Mtb) to adopt heterogeneous physiological states underlies its success in evading the immune system and tolerating antibiotic killing. Drug tolerant phenotypes are a major reason why the tuberculosis (TB) mortality rate is so high, with over 1.8 million deaths annually. To develop new TB therapeutics that better treat the infection (faster and more completely), a systems-level approach is needed to reveal the complexity of network-based adaptations of M  ...[more]

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