Updated on 2022/05/22

写真a

 
SAMUEL, Ashok Zachariah
 
Affiliation
Research Council (Research Organization), Research Organization for Nano & Life Innovation
Job title
Junior Researcher(Assistant Professor)

Education

  • 2006.01
    -
    2012.07

    Indian Institute of Science  

Research Experience

  • 2017.11
    -
    Now

    Waseda University

  • 2014.04
    -
    2017.10

    National Chiao Tung University

  • 2013.01
    -
    2014.03

    Gakushuin University   Department of chemistry

Professional Memberships

  • 2019
    -
    2020

    International Marine Biotechnology Association

  • 2019
    -
     

    Chemical Society of Japan

  • 2014
    -
    2015

    Chemical Society of Japan

  • 2013.10
    -
    2014.10

    Society for Applied Spectroscopy (SAS)

 

Research Areas

  • Basic analysis

  • Molecular biology   Raman Imaging, Multivariate analysis

Research Interests

  • Developing analytical methods for general applications of Raman spectroscopy

  • Raman imaging of biological systems

  • Mid IR imaging

  • Fluorescence imaging

  • Raman instrumentation

  • PCA, MCR, SVD, Cluster analysis, 2D correlation analysis

  • Single cell imaging

  • Polymers

  • Biophotonics (Spectral Imaging)

  • Multivariate statistical analyses of spectral data

  • Raman spectroscopy

▼display all

Papers

  • Raman Microspectroscopy Imaging Analysis of Extracellular Vesicles Biogenesis by Filamentous Fungus Penicilium chrysogenum

    Ashok Zachariah Samuel, Shumpei Horii, Takuji Nakashima, Naoko Shibata, Masahiro Ando, Haruko Takeyama

    Advanced Biology     2101322 - 2101322  2022.03  [Refereed]

    Authorship:Lead author

    DOI DOI2

  • Deconstruction of Obscure Features in SVD-Decomposed Raman Images from P. chrysogenum Reveals Complex Mixing of Spectra from Five Cellular Constituents

    Ashok Zachariah Samuel, Shumpei Horii, Masahiro Ando, Haruko Takeyama

    Analytical Chemistry   93 ( 35 ) 12139 - 12146  2021.09

    Authorship:Lead author, Corresponding author

    DOI

  • Molecular profiling of lipid droplets inside HuH7 cells with Raman micro-spectroscopy

    Ashok Zachariah Samuel, Rimi Miyaoka, Masahiro Ando, Anne Gaebler, Christoph Thiele, Haruko Takeyama

    Communications Biology   3 ( 1 ) 372 - 372  2020.12  [Refereed]  [International journal]

    Authorship:Lead author

     View Summary

    Raman imaging has become an attractive technology in molecular biology because of its ability to detect multiple molecular components simultaneously without labeling. Two major limitations in accurately accounting for spectral features, viz., background removal and spectral unmixing, have been overcome by employing a modified and effective routine in multivariate curve resolution (MCR). With our improved strategy, we have spectrally isolated seven structurally specific biomolecules without any post-acquisition spectral treatments. Consequently, the isolated intensity profiles reflected concentrations of corresponding biomolecules with high statistical accuracy. Our study reveals the changes in the molecular composition of lipid droplets (LDs) inside HuH7 cells and its relation to the physiological state of the cell. Further, we show that the accurate separation of spectral components permits analysis of structural modification of molecules after cellular uptake. A detailed discussion is presented to highlight the potential of Raman spectroscopy with MCR in semi-quantitative molecular profiling of living cells.

    DOI PubMed

  • Detection of Penicillin G Produced by Penicillium chrysogenum KF 425 in Vivo with Raman Microspectroscopy and Multivariate Curve Resolution-Alternating Least Squares Methods

    Shumpei Horii, Masahiro Ando, Ashok Z. Samuel, Akira Take, Takuji Nakashima, Atsuko Matsumoto, Yōko Takahashi, Haruko Takeyama

    J. Nat. Prod.   Accepted  2020.03  [Refereed]

     View Summary

    <title>ABSTRACT</title>Raman microspectroscopy is a minimally invasive technique that can identify molecular structure without labeling. In this study, we demonstrate in vivo detection of the bioactive compound penicillin G inside <italic>Penicillium chrysogenum</italic> KF425 fungus cells. Highly overlapped spectroscopic signatures acquired using Raman microspectroscopic imaging are analyzed using a multivariate curve resolution-alternating least squares (MCR-ALS) method to extract the pure spectra of individual molecular constituents. In addition to detecting multiple constituents such as proteins and lipids, we observe the subcellular localization of penicillin G like granule particle inside the fungus body. To date, there have been no reports of direct visualization of intracellular localization of penicillin G. The methodology we present in this article is expected to be applied as a screening tool for the production of bioactive compounds by microorganisms.

    DOI

  • Direct estimation of polymer crystallinity with Raman spectroscopy using ratio of scattering cross-sections estimated from variable temperature measurements

    Ashok Zachariah Samuel

    Spectrochimica Acta Part A: Molecular and Biomolecular Spectroscopy   224   117431 - 117431  2020.01  [Refereed]

    Authorship:Lead author, Corresponding author

    DOI

  • Estimating Percent Crystallinity of Polyethylene as a Function of Temperature by Raman Spectroscopy Multivariate Curve Resolution by Alternating Least Squares

    Ashok Zachariah Samuel, Bo-Han Lai, Shih-Ting Lan, Masahiro Ando, Chien-Lung Wang, Hiro-o Hamaguchi

    Analytical Chemistry   89 ( 5 ) 3043 - 3050  2017.03  [Refereed]

    Authorship:Lead author

    DOI

  • Rapid microstructure characterization of polymer thin films with 2D-array multifocus Raman microspectroscopy

    Ashok Zachariah Samuel, Sohshi Yabumoto, Kenichi Kawamura, Koichi Iwata

    The Analyst   140 ( 6 ) 1847 - 1851  2015  [Refereed]

    Authorship:Lead author

     View Summary

    <p>Multifocus Raman imaging is one of the fast-imaging alternatives to the conventional single point mapping technique.</p>

    DOI

  • Energy funneling and macromolecular conformational dynamics: a 2D Raman correlation study of PEG melting

    Ashok Zachariah Samuel, Siva Umapathy

    Polymer Journal   46 ( 6 ) 330 - 336  2014.06  [Refereed]

    Authorship:Lead author

    DOI

  • Conformational Reorganization of Hyperbranched and Linear Polymers and Functionalized Porous Polymer Films

    Ashok Zachariah Samuel

       2014  [Refereed]

    Authorship:Lead author

  • Janus Hybramers: Self-Adapting Amphiphilic Hyperbranched Polymers

    Ashok Zachariah Samuel, S. Ramakrishnan

    Macromolecules   45 ( 5 ) 2348 - 2358  2012.03  [Refereed]

    Authorship:Lead author

    DOI

  • Functionalized and Postfunctionalizable Porous Polymeric Films through Evaporation-Induced Phase Separation Using Mixed Solvents

    Ashok Zachariah Samuel, S. Umapathy, S. Ramakrishnan

    ACS Applied Materials & Interfaces   3 ( 9 ) 3293 - 3299  2011.09  [Refereed]

    Authorship:Lead author

    DOI

  • On Selecting a Suitable Spectral Matching Method for Automated Analytical Applications of Raman Spectroscopy.

    Ashok Zachariah Samuel, Ryo Mukojima, Shumpei Horii, Masahiro Ando, Soshi Egashira, Takuji Nakashima, Masato Iwatsuki, Haruko Takeyama

    ACS omega   6 ( 3 ) 2060 - 2065  2021.01  [International journal]

    Authorship:Lead author, Corresponding author

     View Summary

    Raman spectra are molecular structure-specific and hence are employed in applications requiring chemical identification. The advent of efficient handheld and smartphone-based Raman instruments is promoting widespread applications of the technique, which often involve less trained end users. Software modules that enable spectral library searches based on spectral pattern matching is an essential part of such applications. The Raman spectrum recorded by end users will naturally have varying levels of signal to noise (SN), baseline fluctuations, etc., depending on the sample environment. Further, in biological, forensic, food, pharmaceuticals, etc., fields where a vast amount of Raman spectral data is generated, careful removal of background is often impossible. In other words, a 100% match between the library spectrum and user input cannot be often guaranteed or expected. Often, such influences are discounted upon developing mathematical methods for general applications. In this manuscript, we carefully examine how such effects would determine the results of spectral similarity-based library search. We show that several popular mathematical spectral matching approaches give incorrect results under the influence of small changes in the baseline and/or the noise. We also discuss the points to be carefully considered while generating a spectral library. We believe our results will be a guiding note for developing applications of Raman spectroscopy that uses a standard spectral library and mathematical spectral matching.

    DOI PubMed

  • High-Quality Draft Genome Sequence of a Rickettsiales Bacterium Found in Acropora tenuis Coral from Okinawa, Japan.

    Keigo Ide, Yohei Nishikawa, Masato Kogawa, Eisuke Iwamoto, Ashok Zachariah Samuel, Yoshikatsu Nakano, Haruko Takeyama

    Microbiology resource announcements   9 ( 48 )  2020.11  [International journal]

     View Summary

    Rickettsiales-like organisms are important for the survival and functioning of corals, prompting an investigation of their complete genomes. Earlier reports of the genomes of these organisms remain incomplete. Here, we report a novel draft genome of Rickettsiales bacterial strain SESOKO1, found in Acropora tenuis coral, using single-cell genome technology.

    DOI PubMed

  • Draft Genome Sequence of Okeania sp. Strain KiyG1, Assembled from Single-Amplified Genomes Collected from Cape Kiyan, Okinawa, Japan.

    Muhammad Wahyudin Lewaru, Yohei Nishikawa, Keigo Ide, Masato Kogawa, Masahito Hosokawa, Ashok Zachariah Samuel, Shinpei Sumimoto, Handung Nuryadi, Shoichiro Suda, Haruko Takeyama

    Microbiology resource announcements   9 ( 46 )  2020.11  [International journal]

     View Summary

    The genus Okeania is a globally distributed group of microorganisms that live in shallow seabed regions. These organisms play several environmentally important roles and are also known producers of several active secondary metabolites with potential human applications. Here, we present a draft genome of Okeania sp. strain KiyG1 (92.7% completeness) that was assembled from four single-amplified genomes.

    DOI PubMed

  • Rapid inspection method for investigating the heat processing conditions employed for chicken meat using Raman spectroscopy

    Rimi Miyaoka, Masahiro Ando, Rieko Harada, Hiroyuki Osaka, Ashok Zachariah Samuel, Masahito Hosokawa, Haruko Takeyama

    Journal of Bioscience and Bioengineering   129 ( 6 ) 700 - 705  2020.06  [Refereed]  [Domestic journal]

     View Summary

    In Japan, the imports of meat products have been increasing every year. Heat processing of meat is the current standard method for ensuring domestic animal health, particularly in case of meat products from areas where infectious diseases are known to have occurred in domestic animals. The Animal Quarantine Service needs to establish a method that detects the temperature at which the meat has been heat-processed (endpoint temperature) to ensure that the standard protocol is followed at the production location. Here, we developed a Raman spectroscopy and multivariate statistics (viz. multivariate curve resolution (MCR))-based simple and rapid method for accurately estimating the end point temperature. We showed that the temperature-dependent secondary structure modification of proteins can serve as an accurate indicator of the temperature of heat processing. This methodology can be easily automated for effective utilization by someone who is not an expert in spectroscopy. We envisage a wider application of this method in food analysis, although the present research investigated the application of this method in chicken meat heat processing analysis.

    DOI PubMed

  • A General Approach for Estimating Lamella-Thickness Distribution in Polymers with Low-Frequency Raman Spectroscopy: Application to Lamella Formation in Crystallizing Polyethylene

    Ashok Zachariah Samuel, Hiro-o Hamaguchi

    Chemistry - A European Journal   24 ( 37 ) 9333 - 9339  2018.07  [Refereed]

    Authorship:Lead author

    DOI

  • Cylindrical micelles of a POSS amphiphilic dendrimer as nano-reactors for polymerization

    Jing-Ting Weng, Tso-Fan Yeh, Ashok Zachariah Samuel, Yi-Fan Huang, Jyun-Hao Sie, Kuan-Yi Wu, Chi-How Peng, Hiro-o Hamaguchi, Chien-Lung Wang

    Nanoscale   10 ( 7 ) 3509 - 3517  2018  [Refereed]

     View Summary

    <p>A low-generation amphiphilic dendrimer is applied as a nano-reactor for polymerization for the first time.</p>

    DOI

  • Determination of Percent Crystallinity of Side-Chain Crystallized Alkylated-Dextran Derivatives with Raman Spectroscopy and Multivariate Curve Resolution

    Ashok Zachariah Samuel, Mengbo Zhou, Masahiro Ando, Robert Mueller, Tim Liebert, Thomas Heinze, Hiro-o Hamaguchi

    Analytical Chemistry   88 ( 9 ) 4644 - 4650  2016.05  [Refereed]

    Authorship:Lead author

    DOI

  • Raman and mid-infrared spectroscopic imaging: applications and advancements

    Gautam, R, Ashok Zachariah Samuel, Sil, S, Chaturvedi, D, Dutta, A, Ariese, F, Umapathy, S

      108   341  2015.02  [Refereed]

  • Stretching Single Polymer Chains of Donor–Acceptor Foldamers: Toward the Quantitative Study on the Extent of Folding

    Kai Liu, Xiaoyan Zheng, Ashok Z. Samuel, S. G. Ramkumar, Suhrit Ghosh, Xinxin Tan, Dong Wang, Zhigang Shuai, S. Ramakrishnan, Dongsheng Liu, Xi Zhang

    Langmuir   29 ( 47 ) 14438 - 14443  2013.11  [Refereed]

    DOI

  • Self-Adapting Peripherally Heterofunctionalized Hyperbranched Polymers: Formation of Janus and Tripodal Structures

    Ashok Zachariah Samuel, S. Ramakrishnan

    Langmuir   29 ( 4 ) 1245 - 1257  2013.01  [Refereed]

    Authorship:Lead author

    DOI

  • 2D Correlation Raman Spectroscopy of Hyperbranched Polymer

    Ashok Z Samuel, S Ramakrishnan, S Umapathy

    AIP Conference Proceedings    2010

    Authorship:Lead author

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Misc

  • Detection of Mangromicin analogs by using Raman microspectroscopy

    向島諒, 安藤正浩, 安藤正浩, ASHOK Samuel, 中島琢自, 高橋洋子, 松本厚子, 竹山春子, 竹山春子, 竹山春子, 竹山春子

    日本化学会春季年会講演予稿集(CD-ROM)   100th  2020

    J-GLOBAL

  • In situ Detection of Penicillin and Avermectin in Microbes by Raman Microspectroscopy and Multivariate Analysis

    堀井俊平, 堀井俊平, 安藤正弘, 安藤正弘, 中島琢自, 中島琢自, ASHOK Samuel, 松本厚子, 高橋洋子, 竹山春子, 竹山春子, 竹山春子, 竹山春子

    日本農芸化学会大会講演要旨集(Web)   2020  2020

    J-GLOBAL

  • 顕微ラマン多変量スペクトル分解法を用いた生理活性物質penicillin及びavermectinの菌体内検出

    堀井俊平, 安藤正浩, 安藤正浩, 武晃, 武晃, SAMUEL Ashok, 中島琢自, 松本厚子, 高橋洋子, 竹山春子, 竹山春子, 竹山春子

    日本化学会春季年会講演予稿集(CD-ROM)   99th  2019

    J-GLOBAL

  • 顕微ラマン分光法及び多変量スペクトル分解法を用いた生理活性物質penicillin及びavermectinの菌体内検出

    堀井俊平, 堀井俊平, 安藤正浩, 安藤正浩, 中島琢自, ASHOK Samuel, 松本厚子, 高橋洋子, 竹山春子, 竹山春子, 竹山春子, 竹山春子

    日本生物工学会大会講演要旨集   71st  2019

    J-GLOBAL

Works

  • Creations of illusion (https://www.blurb.com/b/7348092-creations-of-illusion)

    Ashok Zachariah Samuel  Artistic work 

    2016
    -
     

Awards

  • Dr. J C GHOSH MEDAL

    2014.03   Indian Institute of Science  

  • EARLY CAREER RESEARCHER AWARD

    2013.10   Society for Applied Spectroscopy, USA  

  • JUNIOR RESEARCH FELLOWSHIP

    2005.06  

  • University First Rank

    2003.05  

Presentations

  • INTRACELLULAR NUCLEIC ACIDS: SCALA NATURAE TO GENE EDITING, AND BEYOND

    Ashok Zachariah Samuel  [Invited]

    Webinar, Department of Forensic Science, Garden city University, INDIA 

    Presentation date: 2022.03

  • Extrusion of extracellular vesicles (EVs) containing a specific secondary metabolite by Penicillium chrysogenum

    Samuel, Ashok Zachariah

    15th Symposium on Biorelevant Chemistry 

    Presentation date: 2021.09

  • A brief journey through Raman Spectroscopy

    Samuel, Ashok Zachariah  [Invited]

    Analytical Tools in Chemistry 

    Presentation date: 2021.08

  • Extracellular Vesicles Mediate the Release of the Secondary Metabolite Produced by Penicillium chrysogenum

    Samuel, Ashok Zachariah

    World Microbe Forum 2021 

    Presentation date: 2021.06

  • Molecular profiling of lipid droplets inside HuH7 human liver cells with Raman micro-spectroscopy

    Ashok Zachariah Samuel

    5th Core-to-Core International Symposium, Okinawa Institute of Science and Technology, Okinawa, Japan 

    Presentation date: 2019

  • Critical analysis of quantitative molecular profiling of lipid droplets in HuH7cells with Raman micro-spectroscopy and multivariate curve resolution

    Ashok Zachariah Samuel

    10th International Conference on Advanced Vibrational Spectroscopy (ICAVS 10), Auckland, New Zealand 

    Presentation date: 2019

  • Low-frequency Longitudinal Acoustic Modes in Polyethylene Reveals Mechanistic Aspects of Polymer Lamella Formation

    Ashok Zachariah Samuel

    5th Taiwan International Symposium on Raman Spectroscopy (TISRS), Chiayi, Taiwan. 

    Presentation date: 2017

  • Quantitative Elucidation of Molecular Chain-Folding in Polymers with Low-frequency Raman Spectroscopy

    Ashok Zachariah Samuel

    The Asian Spectroscopy Conference, Taiwan 

    Presentation date: 2017

  • Molecular Structural Re-organization at Single Molecule Level and High-Speed Raman Imaging with 2D Array Multifocus Microscopy

    Ashok Zachariah Samuel  [Invited]

    MG University, CMS College, INDIA 

    Presentation date: 2017

  • Absolute Percent Crystallinity of Polyethylene with Raman Spectroscopy and Multivariate Curve Resolution by Alternating Least Squares (MCR-ALS)

    Ashok Zachariah Samuel

    4th Taiwan International Symposium on Raman Spectroscopy, Taipei, Taiwan 

    Presentation date: 2016

  • Determination of Absolute Values of Physical Properties of Polymers and Examining Interfacial Reactions in Molecular Gels with Raman microspectroscopy

    Ashok Zachariah Samuel  [Invited]

    Indian Institute of Technology, Kanpur (IIT Kanpur), INDIA 

    Presentation date: 2016

  • Absolute Percent Crystallinity Determination with Raman Spectroscopy

    Ashok Zachariah Samuel

    3rd Taiwan International Symposium on Raman Spectroscopy, Taiwan 

    Presentation date: 2015

  • Determination of Absolute Values of Physical Properties of Polymers and Examining Water Structure in Micelles

    Ashok Zachariah Samuel  [Invited]

    Hyderabad Central University (HCU), INDIA 

    Presentation date: 2015

  • Raman Spectroscopic Investigations of Surfactant Gelation Induced by Aromatic Carboxylic Acids and Their Salts: A Molecular Perspective

    Ashok Zachariah Samuel

    The Chemical Society of Japan 94th Spring Annual Meeting, Nagoya University, Japan 

    Presentation date: 2014

  • Microstructure Characterization of Porous PMMA Thin films with Multifocus Raman Microscopy

    Ashok Zachariah Samuel

    The Chemical;Society of Ja;Spring Annual Meeting;Nagoya University, Japan 

    Presentation date: 2014

  • Unusual Acid-Base Equilibrium of an Aromatic Carboxylic Acid at the Interface

    Ashok Zachariah Samuel  [Invited]

    The Second Taiwan International Symposium on Raman Spectroscopy, 2014, National Dong Hwa University, Hualien-Taiwan 

    Presentation date: 2014

  • Raman Spectroscopic Investigations of Surfactant Gels

    Ashok Zachariah Samuel

    33rd International Conference on Solution Chemistry (ICSC) post-symposium on Ionic Liquids from Science to Green Chemical Applications 

    Presentation date: 2013

  • Morphology of Porous Polymer Film Studied with Multifocus Raman Microspectroscopy

    Ashok Zachariah Samuel

    SCIX International Conference, Milwaukee USA 

    Presentation date: 2013

  • Intermolecular Interaction in Self-Assembled Soft Transparent-Gels Investigated with Low Wavenumber Raman Spectroscopy

    Ashok Zachariah Samuel

    7th International Conference on Advanced Vibrational Spectroscopy (ICAVS), Kobe, Japan 

    Presentation date: 2013

  • Gelation of Aqueous Surfactant Solutions Examined with Raman Spectroscopy

    Ashok Zachariah Samuel

    Annual Meeting of Japan Society for Molecular Science, Kyoto, Japan 

    Presentation date: 2013

  • Intermolecular Interaction in Transparent Surfactant Gels Examined Using a Low-wavenumber Raman Microspectrometer

    Ashok Zachariah Samuel

    SCIX International Conference, Milwaukee USA 

    Presentation date: 2013

  • Raman spectroscopic investigation of transparent surfactant gels: unexpected behavior of an aromatic carboxylic acid

    Ashok Zachariah Samuel  [Invited]

    Mejiro One-day Symposium on Advanced Spectroscopy -Structure and Dynamics, Gakushuin University, Japan 

    Presentation date: 2013

  • Unusual Behaviour of an Aromatic Carboxylic Acid in Surfactant Gels Studied with Multifocus Raman Microscopy - a “Super-Fast” Raman Imaging Alternative

    Ashok Zachariah Samuel  [Invited]

    Frontiers of Advanced Laser Spectroscopy, RIKEN, Japan 

    Presentation date: 2013

  • Cascading Configurations of Polymer Segments: A 2D Raman Correlation Study of Melting PEG

    Ashok Zachariah Samuel

    23rd International Conference on Raman Spectroscopy (ICORS), India 

    Presentation date: 2012

  • Janus Hybramers: A Simple Way to Janus Molecular Architectures Based on Self Adapting Amphiphilic Hyperbranched Polymers

    Ashok Zachariah Samuel

    Indo-US Bilateral Workshop On Nanoparticle Assembly 

    Presentation date: 2011

  • 2D Correlation Raman Spectroscopy of Hyperbranched Polymer

    Ashok Zachariah Samuel

    XXII International Conference On Raman Spectroscopy, Boston, USA 

    Presentation date: 2010

▼display all

 

Teaching Experience

  • Optical Raman spectroscopy: The dawn of molecularly sensitive single-cell biology

    Waseda University  

    2021.10
     
     
     

  • Analytical Tools in Chemistry: A brief journey through Raman Spectroscopy

    The Department of Chemistry, University of Calicut  

    2021.08
     
     
     

  • Raman spectroscopy (Fundamentals and applications)

    Waseda University  

    2019.03
    -
    2019.04
     

 

Academic Activities

  • Reviews articles for major journals (Chem. Comm, Sci. Rep., Sci. Adv., J. Raman. Spectrosc., Spectroscopy Acta etc.)

    Peer review