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Cis/Transgene Optimization

Systematic Discovery of Novel Gene Expression Elements Using Bioinformatics and Computational Biology Approaches

  • Saeid Kadkhodaei
  • Farahnaz Sadat Golestan Hashemi
  • Morvarid Akhavan Rezaei
  • Sahar Abbasiliasi
  • Joo Shun Tan
  • Hamid Rajabi Memari
  • Faruku Bande
  • Ali Baradaran
  • Mahdi Moradpour
  • Arbakariya B, Ariff

Part of the SpringerBriefs in Systems Biology book series (BRIEFSBIOSYS)

Table of contents

  1. Front Matter
    Pages i-xix
  2. Saeid Kadkhodaei, Farahnaz Sadat Golestan Hashemi, Morvarid Akhavan Rezaei, Sahar Abbasiliasi, Joo Shun Tan, Hamid Rajabi Memari et al.
    Pages 1-7
  3. Saeid Kadkhodaei, Farahnaz Sadat Golestan Hashemi, Morvarid Akhavan Rezaei, Sahar Abbasiliasi, Joo Shun Tan, Hamid Rajabi Memari et al.
    Pages 9-18
  4. Saeid Kadkhodaei, Farahnaz Sadat Golestan Hashemi, Morvarid Akhavan Rezaei, Sahar Abbasiliasi, Joo Shun Tan, Hamid Rajabi Memari et al.
    Pages 19-32
  5. Saeid Kadkhodaei, Farahnaz Sadat Golestan Hashemi, Morvarid Akhavan Rezaei, Sahar Abbasiliasi, Joo Shun Tan, Hamid Rajabi Memari et al.
    Pages 33-45
  6. Saeid Kadkhodaei, Farahnaz Sadat Golestan Hashemi, Morvarid Akhavan Rezaei, Sahar Abbasiliasi, Joo Shun Tan, Hamid Rajabi Memari et al.
    Pages E1-E1
  7. Back Matter
    Pages 47-120

About this book

Introduction

This book is a practical review which focuses on computational analysis and on in silicoapproaches towards the systematic discovery of various key functional gene expression elements in microalgae as a model. So far, in this regard very little information is available. Efficient stepwise procedures for analysing the matrix attachment regions (MARs) are outlined, as well as for translation initiation sites (TIS), signal peptide (SP) sequences, gene optimization and transformation systems. These outlines can be efficiently deployed as practical models for the systematic discovery of key expression elements and for the optimization of cis/transgenes in other micro/organisms. 

The first chapter is an introduction on the key gene expression elements analysed in this book, including scaffold/matrix attachment regions, translation initiation sites, signal peptides as well as gene optimization. Chapter 2 focuses on systematic strategies and computational approaches toward in silico analysis of each factor. The analyses outcomes is assessed individually in chapter 3 followed by developing the specific conceptual models for each element in Chapter 4. The concluding remarks are discussed in Chapter 5. 

This work is of interest to computational and experimental biologists interested in transcriptional regulation analysis as well as to researchers and scientists who wish to consider the use of bioinformatics and computational biology in design, analysis, or regulatory reviews of key gene expression elements for the production of recombinant proteins experiments.

Keywords

Cis/transgenes Microalgae MARs Translation initiation sites TIS Signal peptide sequences SP sequences Computational analysis Micro/organism Computational biology Gene optimization Matrix attachment regions S/MARs Recombinant protein production

Authors and affiliations

  • Saeid Kadkhodaei
    • 1
  • Farahnaz Sadat Golestan Hashemi
    • 2
  • Morvarid Akhavan Rezaei
    • 3
  • Sahar Abbasiliasi
    • 4
  • Joo Shun Tan
    • 5
  • Hamid Rajabi Memari
    • 6
  • Faruku Bande
    • 7
  • Ali Baradaran
    • 8
  • Mahdi Moradpour
    • 9
  • Arbakariya B, Ariff
    • 10
  1. 1.Research Institute for Biotechnology and BioengineeringIsfahan University of TechnologyIsfahanIran
  2. 2.Plant Genetics, AgroBioChem Department, Gembloux Agro-Bio TechUniversity of LiègeLiègeBelgium
  3. 3.Tropical Infectious Diseases Research and Education Centre (TIDREC), Faculty of MedicineUniversity of MalayaKuala LumpurMalaysia
  4. 4.Halal Products Research InstituteUniversiti Putra MalaysiaSeri KembanganMalaysia
  5. 5.Bioprocess Technology, School of Industrial TechnologyUniversiti Sains MalaysiaGeorge Town, PenangMalaysia
  6. 6.SynHiTechThornhillCanada
  7. 7.Department of Veterinary Services, Ministry of Animal Health and Fisheries DevelopmentUsman Faruk Secretariat, SokotoSokotoNigeria
  8. 8.Mater ResearchTranslational Research InstituteWoolloongabbaAustralia
  9. 9.Institute of Plantation StudiesUniversiti Putra MalaysiaSeri KembanganMalaysia
  10. 10.Faculty of Biotechnology and Biomolecular SciencesUniversiti Putra MalaysiaSeri KembanganMalaysia

Bibliographic information

  • DOI https://doi.org/10.1007/978-3-319-90391-0
  • Copyright Information The Author(s) 2018
  • Publisher Name Springer, Cham
  • eBook Packages Biomedical and Life Sciences
  • Print ISBN 978-3-319-90390-3
  • Online ISBN 978-3-319-90391-0
  • Series Print ISSN 2193-4746
  • Series Online ISSN 2193-4754
  • Buy this book on publisher's site