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Infrared Beamline Emira Progress and Development

Electro-Magnetic Infrared RAdiation. Infrared Beamline Emira Progress and Development . Ibraheem YOUSEF SESAME Synchrotron ibraheem.yousef@sesame.org.jo. Summary of Recommendations SAC 2012 . Incorporate the complete drawings of the beamline into the general drawing.

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Infrared Beamline Emira Progress and Development

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  1. Electro-Magnetic Infrared RAdiation Infrared BeamlineEmiraProgress and Development Ibraheem YOUSEF SESAME Synchrotron ibraheem.yousef@sesame.org.jo

  2. Summary of Recommendations SAC 2012 • Incorporate the complete drawings of the beamline into the general drawing. • Validation of extraction and implementation by technical director. • Ordering of microscope before end of 2012. • Preparation of the IR laboratory. • Completion of the TDR before June 2013. • Initiate studies in various scientific disciplines. • Organized a specialized workshop, with on hands experiments and data analysis. • Collaborations with local medical institutions.

  3. Outline • Preparation of the Infrared Laboratory • FTIR microscope: installation and commissioning. • Call for proposals. • Collaborative projects and research studies. • Collaborations with local medical institutions. • Organize a specialized workshop • IR Workshop – 11th SESAME Users Meeting (summary and users recommendations) • Scientific research visits • BESSY II, Berlin – Germany. • UVSOR, Okazaki – Japan. • Invited talks and presentations. • Infrared Beamline • Incorporate the complete drawings of the beamline into the general drawing. • Completion of the Technical design review (TDR). • 2D Plan and drawings. • Tender of beamline components. • Plan 2014

  4. Preparation of the Infrared Laboratory • FTIR microscope: installation and commissioning. • Call for proposals. • Collaborative projects and research studies. • Collaborations with local medical institutions. • Organize a specialized workshop • IR Workshop – 11th SESAME Users Meeting (summary and users recommendations) • Scientific research visits • BESSY II, Berlin – Germany. • UVSOR, Okazaki – Japan. • Invited talks and presentations. • Infrared Beamline • Incorporate the complete drawings of the beamline into the general drawing. • Completion of the Technical design review (TDR). • 2D Plan and drawings. • Tender of beamline components. • Plan 2014

  5. FTIR Microscope

  6. Delay on the microscope commissioning 3 months of Delay due to the following reasons : Thermo Technician Lab preparation Lake of equipments

  7. Final position…

  8. Viewofthe IR labsoon… FTIR microscope location

  9. FTIR Setup: Main Characteristics • The spectral range 11000 – 50 cm-1 • Resolution 0.1 cm-1 • Speed scanning at a resolution of 16 cm-1, 90 scan/s • - Two sources operating without water cooling system: for near / mid-infrared (wavelength range 20 000 - 2000 cm-1) and for the middle / far-infrared (wavelength range 9600 - 20 cm-1), including a system to automatically switch detectors team of software

  10. Detectors: • TE Cooled DLaTGS Detector with KBr Window (12,500-350 cm-1) 2. DLaTGS Detector with Polyethylene Window (700-50 cm-1) 3. Room Temperature InGaAs Detector for NIR (12,000-3,800 cm-1) 4. 50um MCT-A Detector (11,400-700 cm-1) 5. MCT-B Detector (11,700-450 cm-1)

  11. Commissioning of the Microscope The calibration and Performance tests:

  12. The calibration and Performance tests:

  13. Performing FT-IR spectroscopy at SESAME… FT-IR Microscope is now available for users Continuum Microscope 8700 FT-IR Spectrometer The Tabletop Optical Module (TOM) Thermo Scientific Nicolet FT-IR Microscope

  14. Call for proposals Published online on 15 March 2013 Deadline was 15th of June 2013

  15. Evaluation committee Lisa Miller: Brookhaven National Laboratory, USA Ulrich Schade: BESSY II, Germany Lisa Vaccari: ELETTRA, Italy

  16. Evaluationcriteria

  17. 11 Proposals have been accepted France 9% Iraq 9% Iran 9% Jordan 45% Egypt 9% Pakistan 18% Fundfor external proposalsshould be discussed!

  18. Research fields of the proposals Pharmacy 9% Environment 9% Material Science 18% Biology 9% Marine 9%

  19. Current Studies and Collaborations Fatemeh Elmi, assistant professor , University of Mazandaran, North Iran Randa Mansour, PhD student at the faculty of Pharmacy, University of Jordan.

  20. Breast Cancer Investigation Healthy region FTIR analysis of breast cancer from Iranian patients: collaboration with University of Mazandaran, Iran. Amide I Amide II Red- Cancerous Breast tissue Purple- Normal Breast tissue Lipids (CH2 & CH3) as CH3 s CH3 as PO2- Ester C=O s PO2- Cancerous region Proteins Carbohydrates Lipids 2. Chemical Maps are showing the distribution of some biochemical components inside the Breast Tissue.

  21. Study effects of pharmaceutical products on different skin layers with the asses of infrared microspectroscopy: collaboration the university of Jordan, Jordan. Stratum corneum Amide I Amide II Lipids (CH2 & CH3) Dermis Sugar Epidermis Lipids Sugar Proteins

  22. Collaborations with local medical institutions Cryomicrotrome at the hospital of the university of Jordan Used to cut the skin samples Very useful for sample preparation in the FTIR measurements Disadvantage: Restricted access

  23. Collaborative projects with scientists from the Middle East: • FTIR analysis of breast cancer from Iranian patients: collaboration from Tehran University, Iran. • FTIR analysis of bacterial and marine micronutrients: Collaboration from the University of Pakistan • Study effects of pharmaceutical products on different skin layers with the asses of infrared microspectroscopy: collaboration the university of Jordan, Jordan. • Effect of environmental pollution on the edible, medicinal and aromatic plants grown in Jordan: faculty of pharmacy, university of Jordan, Jordan. • Investigation on diamond like carbon deposited on Si wafer using the FTIR microscope equipped with a grazing angle objective: collaboration with Ministry of Science & Technology. Baghdad, Iraq. • FTIR analysis on organic samples, which have promising pharmaceutical applications, combinatory analysis using powder diffraction: collaboration with Physics Division, National Research Center Cairo, Egypt.

  24. Proposal for Research Project exploiting the new offline FTIR microscope at SESAME Participants : 1- From SESAME Synchrotron, Jordan. • Dr. Ibraheem Yousef: Infrared Beamline Emira. • Dr. Hafeez Hoorani: Scientific Director. • 2- From CEA, France. • Dr. ImmaculadaMartínez-Rovira: Service HospitalierFrédéric Joliot, Commissariat à l’énergieatomique • et aux énergies alternatives. • 3- From CNRS, France. Dr. Yolanda Prezado:Imagerie et Modélisation en Neurobiologie et Cancérologie, Centre National de la RecherceScientifique. Dr. Olivier Seksek:Imagerie et Modélisation en Neurobiologie et Cancérologie, Centre National de la RecherceScientifique. 4- From Keele University, UK. Dr. JosepSulé-Suso: Institute for Science and Technology in Medicine, Guy Hilton Research Centre. • 5- From UniversitatAutònoma de Barcelona, Spain. • Dr. Silvia Gil: Department of Biology. • Dr. ManelSabés, Department of Biology. • PROPOSAL SUBMITTED TO THE ESRF Title: Fourier-transform infrared microspectroscopy as a tool to understand the biological response after minibeam radiation therapy (MBRT) irradiations in combination with chemotherapy drugs and contrast agents: an in vitro study

  25. Scientific Scope of the Project… Exploit the new offline FTIR microscope to understand the biological effects occurring in extremely aggressive cancerous cells (glioma rat cells F98). The idea is to evaluate by means of FTIR analysis, cells irradiated with minibeam radiation therapy (MBRT) in combination with drugs and contrast agents and compare its effect with respect to the absence of these elements. In addition, this project will strength the scientific collaboration between SESAME and the ESRF facilities and indeed will promote the science program at SESAME. This will definitely help to develop more and enhance the collaboration and connections between the scientists of different countries and societies. Open the door to the further understanding of the biological effects occurring when combining several innovative cancer treatment approaches (minibeams, chemotherapy drugs and contrast agents)

  26. Work Plan, including proposed methods or techniques 1) MBRT measurements (at the ESRF): • Proposal has been already submitted • This experiment will be performed at the MRT station at ID17 Biomedical Beamline. 2) FTIR microspectroscopic measurements at SESAME: • A new FTIR microscope will be installed on April of 2013 at Emira. The microscope will be operating using the internal source (conventional blackbody thermal source) until the coupling with the synchrotron light in 2016.

  27. Estimated Budget a) Equipment b) Miscellaneous (including transport)

  28. CNRS Funded the Project Experiment allocated on the 5th of December 2013 Nanoparticles Glioma Cells Chemo-drugs FTIR transmission windows

  29. Preparation of the Infrared Laboratory • FTIR microscope: installation and commissioning. • Call for proposals. • Collaborative projects and research studies. • Collaborations with local medical institutions. • Organize a specialized workshop • IR Workshop – 11th SESAME Users Meeting (summary and users recommendations) • Scientific research visits • BESSY II, Berlin – Germany. • UVSOR, Okazaki – Japan. • Invited talks and presentations. • Infrared Beamline • Incorporate the complete drawings of the beamline into the general drawing. • Completion of the Technical design review (TDR). • 2D Plan and drawings. • Tender of beamline components. • Plan 2014

  30. Expected total number of participants: 25 persons: 12 from the member countries and 13 from Jordan Duration of the workshop (in actual working days): Three days Two choices of preferred dates: • 13-15 August 2013 • 26-28 August 2013 • Place • SESAME Synchrotron Infrared Microspectroscopy Workshop Applications and Data analysis

  31. Description of the topics to be covered and reasons for their special interest: • Introduction to synchrotron radiation • Synchrotron-based infrared microspectroscopy • Sample preparation and the successful IR microspectroscopy experiment. • Applications: • Biological and Biomedical fields • Cultural heritage • Environmental science • Material and surface science • Data analysis : Univariate and multivariate analytical approaches.

  32. Preparation of the Infrared Laboratory • FTIR microscope: installation and commissioning. • Call for proposals. • Collaborative projects and research studies. • Collaborations with local medical institutions. • Organize a specialized workshop • IR Workshop – 11th SESAME Users Meeting (summary and users recommendations) • Scientific research visits • BESSY II, Berlin – Germany. • UVSOR, Okazaki – Japan. • Invited talks and presentations. • Infrared Beamline • Incorporate the complete drawings of the beamline into the general drawing. • Completion of the Technical design review (TDR). • 2D Plan and drawings. • Tender of beamline components. • Plan 2014

  33. IR workshop Program

  34. Round Table Discussion... • Number of participants: around 25. • Scientist attending the IR workshop show a lot of interest on performing experiments with the IR microscope. • Need of training for users not familiar with the microscope. Several options proposed: • Lectures at Jordan (and country member) universities. • Organization of training course at SESAME with a hands on part. • Online courses (link to several IR resources, for instance from the University of Manchester, as proposed by Prof. Peter Gardner). • Need for a sample preparation lab at SESAME, specially for users travelling long distances. • Accessories that users requested: • Optical microscope. • Cryomicrotome. • Tools to manipulate small samples. • Electron microscope. • Need for help on writing proposals.

  35. Someofthe IR workshopparticipants

  36. Preparation of the Infrared Laboratory • FTIR microscope: installation and commissioning. • Call for proposals. • Collaborative projects and research studies. • Collaborations with local medical institutions. • Organize a specialized workshop • IR Workshop – 11th SESAME Users Meeting (summary and users recommendations) • Scientific research visits • BESSY II, Berlin – Germany. • UVSOR, Okazaki – Japan. • Invited talks and presentations. • Infrared Beamline • Incorporate the complete drawings of the beamline into the general drawing. • Completion of the Technical design review (TDR). • 2D Plan and drawings. • Tender of beamline components. • Plan 2014

  37. IAEA Fellowship at BESSY IIIRIS Beamline • The Mid-IR and far-IR spectra (2-5000 cm-1) of hydrate Nafion membranes of various Cation forms. • Contribute at the beamline activities, mainly a Local Contact. • THz Microspectroscopy with coherent synchrotron radiation, micro-cell ellipsometry and imaging, the infrared beamline IRIS of the Helmholtz-Zentrum Berlin in Germany, Fellowship, Sep-Dec 2012. Aim: join and collaborate in the research activities at the infrared beamline IRIS, learning and acquiring more knowledge in “physics-oriented” experiments and application using the synchrotron infrared radiation.

  38. Pre-treatment of the membranes using special procedure of chemical solutions in order to prepare the samples and record the complete infrared spectra (2-5000 cm-1) of Nafion and PFIA membranes and its alki salts. • The spectral features of PFIA that correlate with the corresponding cation in the terahertz region will be reported in our study for the first time.

  39. Pistacia atlantica Rosmarinus officinalis Laurus nobilis Eriobotrya japonica Japan scientific program school (JSPS)

  40. Invited talks and seminars • Conceptual design of the Infrared beamline EMIRA and the currant status at SESAME. I. Yousef, Institute of Methods and Instrumentation for Synchrotron Radiation Research, BESSY II Synchrotron, Berlin (Germany), 2nd October (2012) • An Infrared Synchrotron Radiation beamline Emira at the third generation light source SESAME. I. Yousef, Spring-8 Synchrotron, Hyogo (Japan), 1st February (2013) • Infrared Microspectroscopy and Beamline development Plans at SESAME. I. Yousef, UVSOR Facility, Okazaki (Japan), 5th February (2013) • Synchrotron Infrared Microspectroscopy in Environmental Science: Bioremediation. I. Yousef, the Abdus Salam International Centre for Theoretical Physics (ICTP), Trieste (Italy), 25th April (2013) • Applications of synchrotron infrared microspectroscopy. I. Yousef, The Cyprus Institute, Nicosia (Cyprus), 14th May (2013) • An Infrared Synchrotron Radiation beamlineEmira at the third generation light source SESAME. I. Yousef, WIRMS Melbourne (Australia), 9th-14th November (2013)

  41. Preparation of the Infrared Laboratory • FTIR microscope: installation and commissioning. • Call for proposals. • Collaborative projects and research studies. • Collaborations with local medical institutions. • Organize a specialized workshop • IR Workshop – 11th SESAME Users Meeting (summary and users recommendations) • Scientific research visits • BESSY II, Berlin – Germany. • UVSOR, Okazaki – Japan. • Invited talks and presentations. • Infrared Beamline • Incorporate the complete drawings of the beamline into the general drawing. • Completion of the Technical design review (TDR). • 2D Plan and drawings. • Tender of beamline components. • Plan 2014

  42. M1 chamber (M2-M3) chamber Diamond window Dipole chamber Cylindrical mirrors Chamber Branch 2 Experimental station Branch 1 Protection wall Integrate the Beamline 3D drawings with SESAME general drawing

  43. Technical Design Review (TDR)

  44. Valve willbereplacedwith VAT seriese 10 to fit with the space. Circular flange design (hits the magnet coils at the two edges) Rectangular flange design (fits inside the colis 3mm far from the edges) New valve VAT seriese 10 (smaller in width)

  45. SRW Simulation for the new M1 position (in progress) Absorber position not fitting with new updates. Absorber length to be reduced to 70 mm Port for diagnostics to be relocated at M1 exit port or removed.

  46. 2D plan of the whole beamline are being currently produced… The 2D plan of each individual component of the beamline is currently being created by Akrum Homoud

  47. M1 chamber (M2-M3) chamber Diamond window Dipole chamber Cylindrical mirrors Chamber Branch 2 Experimental station Branch 1 Protection wall Simulation and Design of an Infrared Beamline for SESAME

  48. Technical specification of the beamline components for Tender… • Is being currently prepared in collaboration with: • Eng. Firas Makahleh, the head of Vacuum and cooling group. • Eng. Maher Shehab, the head of mechanical engineering group. • Detailed specification and Diagnostic for: • - Ion bumps • - Bumps • - Valves • - bellows • Chamber materials • Mechanical support of the chambers

  49. Preparation of the Infrared Laboratory • FTIR microscope: installation and commissioning. • Call for proposals. • Collaborative projects and research studies. • Collaborations with local medical institutions. • Organize a specialized workshop • IR Workshop – 11th SESAME Users Meeting (summary and users recommendations) • Scientific research visits • BESSY II, Berlin – Germany. • UVSOR, Okazaki – Japan. • Invited talks and presentations. • Infrared Beamline • Incorporate the complete drawings of the beamline into the general drawing. • Completion of the Technical design review (TDR). • 2D Plan and drawings. • Tender of beamline components. • Plan 2014

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