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The Genome-Wide Identification of Promoter Regions in Toxoplasma gondii

  • Junya Yamagish
  • Yutaka SuzukiEmail author
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1201)

Abstract

Parasites change their transcriptional systems in different developmental stages and in response to environmental changes. To investigate the molecular mechanisms that underlie transcriptional regulation, it is essential to identify the exact positions of the transcriptional start sites (TSSs) and characterize the upstream promoter regions. However, it has been essentially impossible to obtain comprehensive information using conventional methods. Here, we introduce our TSS-seq method, which combines full-length technology, oligo-capping, and rapidly developing next-generation sequencing technology. TSS-seq has enabled identification of TSS positions and upstream promoter activities as digital TSS tag counts within a reasonable cost and time frame. In this chapter, we describe in detail the TSS-seq method for the identification and characterization of the promoters in Toxoplasma gondii.

Keywords

Transcriptional Start Site Toxoplasma Gondii Magnesium Acetate Short Read Sequence Tobacco Acid Pyrophosphatase 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

Notes

Acknowledgements

This work was supported by a Grant from the Asia-Africa S&T Strategic Cooperation Promotion Program by the Special Coordination Funds for Promoting Science & Technology from the MEXT Japan.

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Copyright information

© Springer Science+Business Media New York 2015

Authors and Affiliations

  1. 1.Tohoky Medical Megabank OrganizationTohoku UniversityAoba-kuJapan
  2. 2.Laboratory of Functional Genomics, Department of Medical Genome Sciences, Graduate School of Frontier SciencesUniversity of TokyoChibaJapan

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