Giardia lamblia Transcriptome Analysis Using TSS-Seq and RNA-Seq

Mohammed E M Tolba, Seiki Kobayashi, Mihoko Imada, Yutaka Suzuki, Sumio Sugano

Research output: Contribution to journalArticle

7 Citations (Scopus)

Abstract

Giardia lamblia is a protozoan parasite that is found worldwide and has both medical and veterinary importance. We applied the transcription start sequence (TSS-seq) and RNA sequence (RNA-seq) techniques to study the transcriptome of the assemblage A WB strain trophozoite. We identified 8000 transcription regions (TR) with significant transcription. Of these regions, 1881 TRs were more than 500 nucleotides upstream of an annotated ORF. Combining both techniques helped us to identify 24 ORFs that should be re-annotated and 60 new ORFs. From the 8000 TRs, we were able to identify an AT-rich consensus that includes the transcription initiation site. It is possible that transcription that was previously thought to be bidirectional is actually unidirectional.

Original languageEnglish
Article numbere76184
JournalPLoS One
Volume8
Issue number10
DOIs
Publication statusPublished - 2013 Oct 7

Fingerprint

Giardia lamblia
Gene Expression Profiling
Transcription
transcriptomics
Open Reading Frames
transcription (genetics)
RNA
open reading frames
Trophozoites
Transcription Initiation Site
Transcriptome
Parasites
Nucleotides
trophozoites
transcriptome
Protozoa
nucleotides
nucleotide sequences
parasites
methodology

ASJC Scopus subject areas

  • Agricultural and Biological Sciences(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Medicine(all)

Cite this

Tolba, M. E. M., Kobayashi, S., Imada, M., Suzuki, Y., & Sugano, S. (2013). Giardia lamblia Transcriptome Analysis Using TSS-Seq and RNA-Seq. PLoS One, 8(10), [e76184]. https://doi.org/10.1371/journal.pone.0076184

Giardia lamblia Transcriptome Analysis Using TSS-Seq and RNA-Seq. / Tolba, Mohammed E M; Kobayashi, Seiki; Imada, Mihoko; Suzuki, Yutaka; Sugano, Sumio.

In: PLoS One, Vol. 8, No. 10, e76184, 07.10.2013.

Research output: Contribution to journalArticle

Tolba, MEM, Kobayashi, S, Imada, M, Suzuki, Y & Sugano, S 2013, 'Giardia lamblia Transcriptome Analysis Using TSS-Seq and RNA-Seq', PLoS One, vol. 8, no. 10, e76184. https://doi.org/10.1371/journal.pone.0076184
Tolba MEM, Kobayashi S, Imada M, Suzuki Y, Sugano S. Giardia lamblia Transcriptome Analysis Using TSS-Seq and RNA-Seq. PLoS One. 2013 Oct 7;8(10). e76184. https://doi.org/10.1371/journal.pone.0076184
Tolba, Mohammed E M ; Kobayashi, Seiki ; Imada, Mihoko ; Suzuki, Yutaka ; Sugano, Sumio. / Giardia lamblia Transcriptome Analysis Using TSS-Seq and RNA-Seq. In: PLoS One. 2013 ; Vol. 8, No. 10.
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