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Comprehensive analysis of small RNA profile by massive parallel sequencing in HTLV-1 asymptomatic subjects with monoclonal and polyclonal rearrangement of the T-cell antigen receptor γ-chain

Daniela Raguer Valadão de Souza, Rodrigo Pessôa, Youko Nukui, Juliana Pereira, Jorge Casseb, Augusto César Penalva de Oliveira, Patricia Bianca Clissa, View ORCID ProfileSabri Saeed Sanabani
doi: https://doi.org/10.1101/277871
Daniela Raguer Valadão de Souza
1Laboratory of Dermatology and Immunodeficiency, São Paulo University Medical School, Sao Paulo, SP, Brazil.
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Rodrigo Pessôa
1Laboratory of Dermatology and Immunodeficiency, São Paulo University Medical School, Sao Paulo, SP, Brazil.
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Youko Nukui
2Departments of Hematology, Faculty of Medicine, University of São Paulo, São Paulo, Brazil.
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Juliana Pereira
2Departments of Hematology, Faculty of Medicine, University of São Paulo, São Paulo, Brazil.
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Jorge Casseb
1Laboratory of Dermatology and Immunodeficiency, São Paulo University Medical School, Sao Paulo, SP, Brazil.
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Augusto César Penalva de Oliveira
3Institute of Infectious Diseases “Emilio Ribas” (IIER), São Paulo, São Paulo, Brazil.
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Patricia Bianca Clissa
4Immunopathology Laboratory, Butantan Institute, Sao Paulo-SP, Brazil
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Sabri Saeed Sanabani
1Laboratory of Dermatology and Immunodeficiency, São Paulo University Medical School, Sao Paulo, SP, Brazil.
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  • ORCID record for Sabri Saeed Sanabani
  • For correspondence: sabyem_63@yahoo.com
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Abstract

Introduction In this study, we used a massive parallel sequencing technology to investigate the cellular small RNA (sRNA) operating in peripheral blood mononuclear cells (PBMCs) of the Human T-lymphotropic virus type I (HTLV-I) infected asymptomatic subjects with a monoclonal and polyclonal rearrangement of the T-cell antigen receptor γ-chain.

Materials and Methods Blood samples from 15 HTLV-1 asymptomatic carriers who were tested for clonal TCR-γ gene (seven and eight subjects presented monoclonal and polyclonal expansion of HTLV-1 infected cells, respectively), and were submitted to Illumina for small RNA library construction. sRNA libraries were prepared from cryoperserved PBMCs using TrueSeq Small RNA Library Preparation Kit (Illumina). The sRNA-Seq reads were aligned, annotated, and profiled by different bioinformatics tools.

Results Through bioinformatics analysis, we identified a total of 494 known sRNAs and 120 putative novel sRNAs. Twenty-two known and 15 novel sRNA showed a different expression (>2-fold) between the asymptomatic monoclonal (ASM) and asymptomatic polyclonal carriers (ASP). The hsa-mir-196a-5p was the most abundantly upregulated micro RNA (miRNA) and the hsa-mir-133a followed by hsa-mir-509-3p were significantly downregulated miRNAs with more than a three-fold difference in the ASM than ASP group. The target genes predicted to be regulated by the differentially expressed miRNAs play essential roles in diverse biological processes including cell proliferation, differentiation, and/or apoptosis.

Discussion Our results provide an opportunity for a further understanding of sRNA regulation and function in HTLV-1 infected subjects with monoclonality evidence.

Footnotes

  • Abbreviations
    sRNA
    small RNA
    miRNA
    microRNA
    ncRNA
    non-coding RNA
    tRNA
    transfer RNA
    rRNA
    ribosomal RNA
    snRNA
    small nuclear RNA
    snoRNA
    small nucleolar RNA
    scRNA
    small cytoplasmic RNA
    PBMC
    peripheral blood mononuclear cell
    HTLV-I
    Human T-lymphotropic virus type I
    ASM
    asymptomatic monoclonal
    ASP
    asymptomatic polyclonal
    ATLL
    adult T-cell leukemia/lymphoma

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Posted March 07, 2018.
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Comprehensive analysis of small RNA profile by massive parallel sequencing in HTLV-1 asymptomatic subjects with monoclonal and polyclonal rearrangement of the T-cell antigen receptor γ-chain
Daniela Raguer Valadão de Souza, Rodrigo Pessôa, Youko Nukui, Juliana Pereira, Jorge Casseb, Augusto César Penalva de Oliveira, Patricia Bianca Clissa, Sabri Saeed Sanabani
bioRxiv 277871; doi: https://doi.org/10.1101/277871
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Comprehensive analysis of small RNA profile by massive parallel sequencing in HTLV-1 asymptomatic subjects with monoclonal and polyclonal rearrangement of the T-cell antigen receptor γ-chain
Daniela Raguer Valadão de Souza, Rodrigo Pessôa, Youko Nukui, Juliana Pereira, Jorge Casseb, Augusto César Penalva de Oliveira, Patricia Bianca Clissa, Sabri Saeed Sanabani
bioRxiv 277871; doi: https://doi.org/10.1101/277871

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