Bilde av Bastakoti, Srijana
Photo: Jan Fredrik Frantzen
Bilde av Bastakoti, Srijana
Department of Medical Biology srijana.bastakoti@uit.no +4777645357

Srijana Bastakoti


PhD Student

Job description

PhD research entitled "Identification of key determinants for Staphylococcus aureus throat colonization -: a transcriptomic approach"

  • This Ph.D. project is all about “ Exploring Bacterial Transcriptomics ” in order to assess host-microbe interaction and present lead candidates for the targeted intervention of Staphylococcus aureus throat colonization and thereby prevent infection. 
  • Approach includes  in vitro, ex vivo and bacterial co-culture establishment of the tonsillar cell line, and transcriptomics methodology including RNA sequencing (RNA-Seq) and qRT-PCR.
  • Investigating transcriptomics responses of Staphylococcus aureus during exposure to human Thp-1 macrophages and host factors
  • Metatranscriptomics will be performed directly on tonsillar tissue to investigate the in vivo expression system
  • The transcriptome reflects the genes that are actively expressed at any given moment. This would enable us to identify bacterial determinants for S. aureus throat colonization in vitro and in vivo.
  • Eventually, gaining an understanding of S. aureus adaptation and response to the host during colonization and infection.

  • Srijana Bastakoti, Maiju Pesonen, Clément Ajayi, Kjersti Julin, Jukka Corander, Mona Susan Johannessen et al.:
    Co-culturing with Streptococcus anginosus alters Staphylococcus aureus transcriptome when exposed to tonsillar cells
    Frontiers in Cellular and Infection Microbiology 2024 ARKIV / DOI
  • Srijana Bastakoti, Clement Ajayi, Kjersti Julin, Mona Johannessen, Anne Merethe Hanssen :
    Exploring differentially expressed genes of Staphylococcus aureus exposed to human tonsillar cells using RNA sequencing
    BMC Microbiology 2023 ARKIV / DOI
  • Alaka Lamsal, Kristin Skarsfjord Edgar, Andrew Jenkins, Hans Renssen, Lene Jung Kjær, Kristian Alfsnes et al.:
    Prevalence of tick-borne encephalitis virus in questing Ixodes ricinus nymphs in southern Scandinavia and the possible influence of meteorological factors
    Zoonoses and Public Health 2023 ARKIV / DOI
  • Katrine Mørk Paulsen, Alaka Lamsal, Srijana Bastakoti, John Pettersson, Benedikte Pedersen, Karin Stiasny et al.:
    High-throughput sequencing of two European strains of tick-borne encephalitis virus (TBEV), Hochosterwitz and 1993/783
    Ticks and Tick-borne Diseases 2020 ARKIV / DOI
  • Srijana Bastakoti, Shiva Belbase, Shrinkhala Manandhar, Charu Arjyal :
    Trichoderma species as Biocontrol Agent against Soil Borne Fungal Pathogens
    Nepal Journal of Biotechnology (NJB) 31. December 2017 DOI
  • Srijana Bastakoti :
    Denne bakterien er den snikende - og noen ganger farlige - leieboeren i halsen din
    2024
  • Srijana Bastakoti :
    Winner of 3-Minute Thesis Presentation- PhD WORK
    2024
  • Srijana Bastakoti :
    Coculturing with Streptococcus anginosus alters Staphylococcus aureus transcriptome when exposed to tonsillar cells
    2024
  • Srijana Bastakoti :
    MRSA bacteria: The Sneaky and Sometimes Dangerous Tenant in Your Throat
    2024
  • Srijana Bastakoti, Maiju Pesonen, Clément Ajayi, Kjersti Julin, Jukka Corander, Mona Susan Johannessen et al.:
    Co-culturing with Streptococcus anginosus alters Staphylococcus aureus transcriptome when exposed to tonsillar cells
    2023
  • Srijana Bastakoti, Maiju Pesonen, Clément Ajayi, Kjersti Julin, Jukka Corander, Mona Susan Johannessen et al.:
    Co-culturing with Streptococcus anginosus alters Staphylococcus aureus transcriptome when exposed to tonsillar cells
    2023
  • Srijana Bastakoti, maiju Pesonen, Clément Ajayi, Kjersti Julin, Mona Susan Johannessen, Jukka Corander et al.:
    Co-culturing with Streptococcus anginosus alters Staphylococcus aureus transcriptome when exposed to tonsillar cells
    2023
  • Srijana Bastakoti :
    Staphylococcus aureus Omics study
    2023
  • Srijana Bastakoti, Clément Ajayi, Kjersti Julin, Mona Susan Johannessen, Anne-Merethe Christiansen Hanssen :
    Exploring differentially expressed genes of Staphylococcus aureus exposed to human tonsillar cells using RNA sequencing
    2022
  • Srijana Bastakoti, Anne-Merethe Christiansen Hanssen :
    Staphylococcus aureus in the throat
    2022
  • Srijana Bastakoti, Clement Ajayi, Mona Johannessen, Anne Merethe Hanssen :
    Identification of key determinants for S. aureus throat colonization: A transcriptomic approach
    2020

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    Publications outside Cristin

    • Co-Author of Text book "Microbiology A Refresher" TU Solution Book For BSc First Year Tribhuvan University By Dynamic Publisher 
    • 2nd author paper: High-throughput sequencing of two European strains of tick-borne encephalitis virus (TBEV), Hochosterwitz and 1993 / 783- published in oct 2020 by Elsevier
    • 1st author paper: Trichoderma species as Biocontrol Agent against Soil Borne Fungal Pathogens- published in dec 2017


    Research interests

    • Host-microbe interaction study
    • Bacterial and viral genome, coding, and non-coding RNA, 
    • Exploring omics science
    • Whole-genome sequencing (Illumina), RNA-seq, DNA-seq
    • Bioinformatics, and data analysis
    • Specialized in transcriptomics and the use of RNA sequencing technology in prokaryotic cells
    • Exploring cutting-edge techniques, and how these can be deployed and exploited.

    Teaching

    • 2021 spring semester- MBI-1002- Biology

    Carbohydrate and protein 

    cell signaling 

    lab teaching 

    • 2022 spring semester- MBI-1002

     


    Member of research group