Advertisement

Borrelia burgdorferi Microarray Analysis

  • Radha Iyer
  • Ira Schwartz
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1690)

Abstract

Microarray studies have contributed significantly to the current understanding of Borrelia burgdorferi genome content and transcriptional regulation. Here, we describe the use of microarray technology for several aspects of B. burgdorferi genomic analysis.

Key words

Microarray Borrelia burgdorferi Lyme borreliosis Comparative genomics Transcriptome 

Notes

Acknowledgment

This work was supported by grant AI45801 from the National Institutes of Health.

References

  1. 1.
    Fraser CM, Casjens S, Huang WM, Sutton GG, Clayton R, Lathigra R, White O, Ketchum KA, Dodson R, Hickey EK, Gwinn M, Dougherty B, Tomb JF, Fleischmann RD, Richardson D, Peterson J, Kerlavage AR, Quackenbush J, Salzberg S, Hanson M, van Vugt R, Palmer N, Adams MD, Gocayne J, Weidman J, Utterback T, Watthey L, McDonald L, Artiach P, Bowman C, Garland S, Fuji C, Cotton MD, Horst K, Roberts K, Hatch B, Smith HO, Venter JC (1997) Genomic sequence of a Lyme disease spirochaete, Borrelia burgdorferi. Nature 390(6660):580–586CrossRefPubMedGoogle Scholar
  2. 2.
    Casjens S, Palmer N, van Vugt R, Huang WM, Stevenson B, Rosa P, Lathigra R, Sutton G, Peterson J, Dodson RJ, Haft D, Hickey E, Gwinn M, White O, Fraser CM (2000) A bacterial genome in flux: the twelve linear and nine circular extrachromosomal DNAs in an infectious isolate of the Lyme disease spirochete Borrelia burgdorferi. Mol Microbiol 35(3):490–516CrossRefPubMedGoogle Scholar
  3. 3.
    Ojaimi C, Brooks C, Akins D, Casjens S, Rosa P, Elias A, Barbour A, Jasinskas A, Benach J, Katonah L, Radolf J, Caimano M, Skare J, Swingle K, Sims S, Schwartz I (2002) Borrelia burgdorferi gene expression profiling with membrane-based arrays. Methods Enzymol 358:165–177CrossRefPubMedGoogle Scholar
  4. 4.
    Ojaimi C, Brooks C, Casjens S, Rosa P, Elias A, Barbour A, Jasinskas A, Benach J, Katona L, Radolf J, Caimano M, Skare J, Swingle K, Akins D, Schwartz I (2003) Profiling of temperature-induced changes in Borrelia burgdorferi gene expression by using whole genome arrays. Infect Immun 71(4):1689–1705CrossRefPubMedPubMedCentralGoogle Scholar
  5. 5.
    Terekhova D, Iyer R, Wormser GP, Schwartz I (2006) Comparative genome hybridization reveals substantial variation among clinical isolates of Borrelia burgdorferi sensu stricto with different pathogenic properties. J Bacteriol 188(17):6124–6134. doi: 10.1128/JB.00459-06 CrossRefPubMedPubMedCentralGoogle Scholar
  6. 6.
    Iyer R, Schwartz I (2016) Microarray-based comparative genomic and transcriptome analysis of Borrelia burgdorferi. Microarrays (Basel) 5(2):E9. doi: 10.3390/microarrays5020009 CrossRefGoogle Scholar
  7. 7.
    Schwartz I, Wormser GP, Schwartz JJ, Cooper D, Weissensee P, Gazumyan A, Zimmermann E, Goldberg NS, Bittker S, Campbell GL, Pavia CS (1992) Diagnosis of early Lyme disease by polymerase chain reaction amplification and culture of skin biopsies from erythema migrans lesions. J Clin Microbiol 30(12):3082–3088PubMedPubMedCentralGoogle Scholar
  8. 8.
    Kim CC, Joyce EA, Chan K, Falkow S (2002) Improved analytical methods for microarray-based genome-composition analysis. Genome Biol 3(11):RESEARCH0065CrossRefPubMedPubMedCentralGoogle Scholar
  9. 9.
    Iyer R, Caimano MJ, Luthra A, Axline D Jr, Corona A, Iacobas DA, Radolf JD, Schwartz I (2015) Stage- specific global alterations in the transcriptomes of Lyme disease spirochetes during tick feeding and following mammalian host adaptation. Mol Microbiol 95(3):509–538. doi: 10.1111/mmi.12882 CrossRefPubMedGoogle Scholar
  10. 10.
    Van Gelder RN, von Zastrow ME, Yool A, Dement WC, Barchas JD, Eberwine JH (1990) Amplified RNA synthesized from limited quantities of heterogeneous cDNA. Proc Natl Acad Sci U S A 87(5):1663–1667CrossRefPubMedPubMedCentralGoogle Scholar

Copyright information

© Springer Science+Business Media LLC 2018

Authors and Affiliations

  1. 1.Department of Microbiology and Immunology, School of MedicineNew York Medical CollegeValhallaUSA

Personalised recommendations