Borrelia burgdorferi, the agent of Lyme disease, differentially expresses numerous genes and proteins as it cycles between mammalian hosts and tick vectors. Insights on regulatory mechanisms have been provided by earlier studies that examined B. burgdorferi gene expression patterns during cultivation. However, prior studies examined bacteria at only a single time point of cultivation, providing only a snapshot of what is likely a dynamic transcriptional program driving B. burgdorferi adaptations to changes during culture growth phases. To address that concern, we performed RNA sequencing (RNA-Seq) analysis of B. burgdorferi cultures at early-exponential, mid-exponential, and early-stationary phases of growth. We found that expression of nearly 18% of annotated B. burgdorferi genes changed significantly during culture maturation. Moreover, genome-wide mapping of the B. burgdorferi transcriptome in different growth phases enabled insight on transcript boundaries, operon structures, and identified numerous putative non-coding RNAs. These RNA-Seq data are discussed and presented as a resource for the community of researchers seeking to better understand B. burgdorferi biology and pathogenesis.
Digital Object Identifier (DOI)
This work was supported by National Institutes of Health grants R03-AI113648 to B. Stevenson, J. Seshu, and J. Livny, and R21-AI120602 to B. Stevenson.
Arnold, William K.; Savage, Christina R.; Brissette, Catherine A.; Seshu, Janakiram; Livny, Jonathan; and Stevenson, Brian, "RNA-Seq of Borrelia burgdorferi in Multiple Phases of Growth Reveals Insights into the Dynamics of Gene Expression, Transcriptome Architecture, and Noncoding RNAs" (2016). Microbiology, Immunology, and Molecular Genetics Faculty Publications. 90.
S1 Fig. Correlation between replicates.
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S1 Table. PCR oligonucleotide primers used in these studies.
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S2 Table. Relative gene expression of annotated genes.
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S3 Table. Annotated ORFs that were not readily transcribed in any culture.
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S4 Table. Transcripts with significantly different abundance in mid-exponential compared to early-exponential.
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S5 Table. Transcripts with significantly different abundance in stationary phase compared to mid-exponential.
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S6 Table. Transcripts with significantly differen abundance in stationary phase compared to early-exponential.
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S7 Table. Putative transcript 5’ ends.
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S8 Table. Bioinformatically predicted intrinsic termination sites.
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S9 Table. Identified non-coding RNAs.