Biochemistry and Molecular Biology Department

About Department


  • Biochemistry and Molecular Biology Department has a long history in the field of molecular biology since 1981, when Prof. Dr. Mohamed Ali Saber started to establish molecular biology trends and facilities in the biochemistry lab.

Mission


The mission of our department is to maximize the benefits of bioscience and biotechnology to our institute, environment and nation by being an excellent quality, comprehensive, multidisciplinary research, training and services center, that coordinates, disseminates and advances biotechnology and its applications for the benefit of society and human health. This will be through continuous learning to enhance the knowledge and skills that are of value to our staff.

 

Vision


Attain significant research heights and recognition as leader Molecular biology, genetic engineering, biotechnology and Nanobiotechnology research center. Shaping this research into innovative applicable tools for generation of knowledge, processes and products for benefit of the society and nation.

 

Research Fields


Gene isolation, cloning and characterization:
Including isolation of genetic materials, PCR, DNA sequencing, DNA labeling and modification, Northern blot and Southern blot, In situ hybridization, construction of genomic and cDNA expression libraries, ESTs development and gene Cloning.

Recombinant protein expression:
 in different E. coli systems, shake flask culture and fermentation, protein folding, one and 2 D protein electrophoresis, protein purification using chromatography and quantification, HPLC analysis, preparative isoelectric focusing and activity assays.

Immunological characterization:
Development of specific polyvalent antibodies, sera treatment, IgG purification, expression libraries immuno-screening, Western blot, dot blot, ELISA, immunohistochemistry and immuno-affinity chromatography.

In-vitro and In-vivo culturing of hepatocytes:
-Hepatocytes culture, immuno-modulation and transplantation (in spleen and peritoneum).
-MDBK and VERO Cells, and vesicular stomatitis virus (VSV) for antiviral assays.

Bioinformatics:
Retrieve and analysis of DNA and protein sequences, data bases search, primer design, notification of unknown sequences, design of gene models for recombinant protein expression in different host cells.

Molecular diagnosis:
– PCR and real time PCR for detection and quantification of infectious agents (see routine services).
– In situ hybridization, reverse hybridization, array hybridization.

Designing of nano- and micro-carrier systems for Cargo delivery:
Synthesis and characterization of nano and micro capsules for controlled delivery of therapeutic drugs and genetic materials into targeted cells (synthesis of capsules, coating, functionalization, cargo loading, encapsulation efficiency, cargo release, cellular uptake, Investigation of the cytotoxic effects the capsules on cells, plasma stability, etc ).

Utilization of nanoparticles to develop novel diagnostic tests: 
For detection of biomarkers of diseases and pathogens ( Metallic NPs synthesis, characterization and Functionalization, NPs conjugation with oligonucleotide probes).


Techniques


    Gene isolation, cloning and characterization:
    Including isolation of genetic materials, PCR, DNA sequencing, DNA labeling and modification, Northern blot and Southern blot, In situ hybridization, construction of genomic and cDNA expression libraries, ESTs development and gene Cloning.

    Recombinant protein expression:
     in different E. coli systems, shake flask culture and fermentation, protein folding, one and 2 D protein electrophoresis, protein purification using chromatography and quantification, HPLC analysis, preparative isoelectric focusing and activity assays.

    Immunological characterization:
    Development of specific polyvalent antibodies, sera treatment, IgG purification, expression libraries immuno-screening, Western blot, dot blot, ELISA, immunohistochemistry and immuno-affinity chromatography.

    In-vitro and In-vivo culturing of hepatocytes:
    -Hepatocytes culture, immuno-modulation and transplantation (in spleen and peritoneum).
    -MDBK and VERO Cells, and vesicular stomatitis virus (VSV) for antiviral assays.

    Bioinformatics:
    Retrieve and analysis of DNA and protein sequences, data bases search, primer design, notification of unknown sequences, design of gene models for recombinant protein expression in different host cells.

    Molecular diagnosis:
    – PCR and real time PCR for detection and quantification of infectious agents (see routine services).
    – In situ hybridization, reverse hybridization, array hybridization.

    Designing of nano- and micro-carrier systems for Cargo delivery:
    Synthesis and characterization of nano and micro capsules for controlled delivery of therapeutic drugs and genetic materials into targeted cells (synthesis of capsules, coating, functionalization, cargo loading, encapsulation efficiency, cargo release, cellular uptake, Investigation of the cytotoxic effects the capsules on cells, plasma stability, etc ).

    Utilization of nanoparticles to develop novel diagnostic tests: 
    For detection of biomarkers of diseases and pathogens (Metallic NPs synthesis, characterization and Functionalization, NPs conjugation with oligonucleotide probes).


Services


For more than 20 years, Biochemistry and Molecular Biology Department has introduced wide scope of services for society, scientific community and organizations. Three major services have been carried out:

  1. Molecular diagnosis of diseases and Pathogens for in and out patients (see Routine out & in patients services),
  2. Workshops and training (see Training facilities).
  3. scientific services
      • Isolation of genetic material.
      •   Design of PCR primers and PCR amplification.
      •   DNA and protein electrophoresis.
      •   Gene isolation, cloning, protein expression and protein purification.
      • Guiding graduation projects students in the field of nano-biotechnology
      •   Investigation of the cytotoxicity of nanoparticles, drugs and compounds
    • The Molecular Diagnostic Unit in Biochemistry and molecular Biology Department serve the molecular diagnosis of hepatitis viruses and other viruses, in addition to pathogenic bacteria, using polymerase chain Reaction (PCR), real time PCR, reverse hybridization and other techniques for qualitative and quantitative assay for in and out patients. The following assays are available.

      1-  HCV-RNA (Quantitative)
      2-  HCV-RNA (Qualitative)
      3-  HCV-RNAtriple test
      4-  IL28 gene variants.
      5-   IL4 variants.
      6-   HCV-Genotyping.
      7-   HBV-DNA by PCR (Quantitative)
      8-   HBV-DNA by PCR (Qualitative)
      9-   HGV-RNA by PCR (Qualitaive)
      10-  CMV-DNA by PCR (Qualitative)
      11- TB-DNA by PCR (Qualitative)
      12- H. pylori by PCR
      13- Cystic Fibrosis by PCR
      14- Philadelphia Chromosome by PCR (Qualitative) .
      15- HPV & Genotyping by qRT-PCR

Training


Biochemistry and Molecular biology Department at TBRI had kept steady record for holding local, national and international training workshops (hands on) in different aspects of molecular biology, biotechnology and Nanobiotecnology as follows:

  1.  Biochemistry and Molecular Biology Department is considered by WHO as reference training center for African and Arabian countries concerning molecular diagnosis of infectious diseases
  2.  Training courses in principles of molecular biology.
  3.  Organizing workshops on molecular forensic diagnosis.
  4.   Workshops on real time PCR.
  5.   Workshops on Nanotechniques.
  6.   Workshops in recombinant protein expression in E. Coli systems.
  7.   In collaboration with universites, selected graduation research projects have been conducted at Biochemistry and Molecular biology Dept., TBRI.

Customized training workshops can be organized in many other different fields for groups.

Instruments


In addition to the highly experienced staff, Biochemistry and Molecular Biology Department at Theodor Bilharz Research Institute has a well equipped molecular biology and genetic engineering laboratory with well established domains and equipment for different specific fields such as, genetic material isolation, PCR, cloning, cell culturing, protein expression, protein purification, immuno-characterization (ELISA, Western, etc.) and bioinformatics. In 2005 we have established “Biotechnology and Genetic Engineering Unit” for the purpose of R & D in pilot scale production of important proteins especially biopharmaceuticals. This unit has fermentation facilities, protein purification and refolding facilities and tissue culture facilities for biological evaluation of activity of the produced recombinant proteins.NanoBiotechnology unit has been established in 2016 in to promote and support the development of new systems for diagnostics and disease treatment through the research in one of the most promising fields within the new technological advances: the nanoscience.

Major instruments are:

  1.  Fermentor (BioFlo110, New Brunswick, USA). For bacterial cells and mammalian cells.
  2.  French Pressure haemogenizer (Nero).
  3.  Liquid chromatographic system (AKTA Purifier, GE Health Care).
  4.  Ultra speed and cooling centrifuges.
  5.  DNA extraction system and speed vacuum.
  6. Real time PCR and conventional PCR instruments (gradient, in situ).
  7.  Nano Drop spectrophotometer instrument.
  8. CO2 incubators.
  9. Laminar flow cabinets.
  10. Agarose gel and PAGE electrophoresis systemsG
  11. Gel documentation systems
  12. One dimension and 2 dimension protein electrophoresis and transfer systems.
  13. Isoelectric focusing systems.
  14.  FPLC chromatographic systems.
  15. Inverted phase and fluorescence and optical microscopes.
  16.  Spectrophotometers.
  17. Deep freezers (-20 and -70) and autoclaving systems.
  18. Environmental shaker.
  19.  ELISA reader.

Research Projects


Internal projects:

    1. TBRI: ID 80 ش Development of real time PCR assay for detection of hepatitis B virus. PI: Professor Dr Mohamed Abbas Shemis

    2. TBRI ID 16ك: The role of microRNA as a diagnostic biomarker in bladder cancer Egyptian patients.(2016) PI: Dr. Samah Mamdouh.

    3. TBRI: Microsatellite instability in hepatocellular carcinoma associated with hepatitis C virus infection in Egyptian patients.(2015) PI: Dr. Samah Mamdouh.

    4. TBRI ID 16ك (2014): Biochemical studies on purified recombinant interferon gamma produced in E. coli

    5. TBRI: ID 1 (innovative research). (2008-2012) Optimization of expression and activity of interferon alfa-2b produced in E. coli. PI: Professor Dr Ehab El-Dabaa

External projects:

    1. Academy of Scientific Research and Technology (2020): Development and Validation of a National Diagnostic Assay for Rapid Detection of COVID19. PI: Professor Dr Mohamed Abbas Shemis.

    2. Academy of Scientific Research and Technology (2018-2020): “Scaling-up, Production & commercialization of Real Time-PCR kit for HBV diagnosis”. . PI: Professor Dr Mohamed Abbas Shemis.

    3. STDF, ID: 25901 (2018): “Long Non-Coding RNA: An Innovative Therapeutic Tool for Hepatocellular Carcinoma in vitro and in vivo”. PI: Prof. Dr. Eman El Ahwany.

    4. STDF, ID: 27797 (2018): “Polymer Nanoparticle Mediated Delivery of MicroRNA: A Novel Potential Therapeutic Tool for Hepatocellular Carcinoma in an Experimental Model”. PI: Professor Dr Eman El Ahwany.

    5. STDF – DAAD (2017): “Assessment of potential synergistic or antagonistic toxicity mechanisms during co-exposition of in vitro models towards cerium dioxide nanoparticles and environmental chemicals/pharmaceuticals. PI: Professor Dr Mohamed Abbas Shemis.

    6. AECID, Spain: Development of Gold Nanoparticle-Based Colorimetric Assay for the Direct Detection of liver Cancerous Cells and biomarkers”. PI: Professor Dr Mohamed Abbas Shemis.

    7. Ministry of Scientific Research `Egypt` & National Research Foundation `South Africa,` ID17-2-12: ’Nanotechnology-based drug delivery for treatment of multi-drug-resistant tuberculosis. PI: Professor Dr Mohamed Abbas Shemis.

    8. STDF-DAAD: Multilayer Polyelectrolyte Microcapsules: a Novel Tool for Controlled Delivery of Interferon-alpha in Chronic HCV Infected Patients. PI: Professor Dr Mohamed Abbas Shemis.

    9. ASRT Strategy ID (2014-2017). Scalling up of production of recombinant human interferon Gamma in prokaryotic system. PI: Professor Dr Mohamed Ali Saber

    10. ASRT (2014-2016): Development of a Novel Assay for Direct Quantification of Unamplified Hepatitis C Virus RNA Using Gold Nanoparticles and Catalytic Signal Amplification’’. PI: Professor Dr Mohamed Abbas Shemis

    11. STDF – STF ID 6080. (2013-2016) ”Biochemical and Biophysical studies on recombinant human growth hormone expressed in a prokaryotic system”. Assistant Researcher Sami Mohamed Nasr

    12. Ministry of scientific research &NRF `South Africa: ID17 (2012-) :”Nanotechnology-based drug delivery for treatment of multi-drug-resistant tuberculosis’’. PI: Professor Dr Mohamed Abbas Shemis

    13. STDF ID 1454. Development of production and pegylation of interferon alph Principle investigator: Professor Dr Ehab El-Dabaa. 2010 -2014.

    14. STDF Egypt ID 1763 (2010-2014) Impact of interferon alpha-2 alleles and anti-interferon alpha-2 antibodies in HCV infected patients as predictive factors for response to interferon therapy. PI: Professor Dr Mohamed Ali Saber.

Publications

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  • Lorem Ipsum is simply dummy text of the printing and typesetting industry. Lorem Ipsum has been the industry's standard dummy text ever since the 1500s,
  • Lorem Ipsum is simply dummy text of the printing and typesetting industry. Lorem Ipsum has been the industry's standard dummy text ever since the 1500s,
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Projects

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  • Lorem Ipsum is simply dummy text of the printing and typesetting industry. Lorem Ipsum has been the industry's standard dummy text ever since the 1500s,
  • Lorem Ipsum is simply dummy text of the printing and typesetting industry. Lorem Ipsum has been the industry's standard dummy text ever since the 1500s,
  • Lorem Ipsum is simply dummy text of the printing and typesetting industry. Lorem Ipsum has been the industry's standard dummy text ever since the 1500s,
  • Lorem Ipsum is simply dummy text of the printing and typesetting industry. Lorem Ipsum has been the industry's standard dummy text ever since the 1500s,
  • Lorem Ipsum is simply dummy text of the printing and typesetting industry. Lorem Ipsum has been the industry's standard dummy text ever since the 1500s,