FIMM

P.O. Box 20
FI-00014
University of Helsinki
Finland

Contacts

2012 © Institute for Molecular Medicine Finland FIMM

Vidya Velagapudi, Ph.D, Adjunct Professor

Vidya.jpg

Head of the Metabolomics Unit,

FIMM Technology Centre,

Institute for Molecular Medicine FIMM,

Helsinki-00014, Finland

e.mail: vidya.velagapudi@fimm.fi

Mobile: +358 (0) 405825754

 

Research Line

My main research line is to understand the molecular mechanisms of obesity, diabetes and metabolic syndromes and also other complex human diseases at systems level and translate the acquired knowledge to prevent the diseases by developing novel therapeutics in order to provide personalized health care.

 

Research Interests

  • Systems Medicine (Obesity & Metabolic Syndromes)
  • Metabolomics and Lipidomics
  • Human Genetics and Genomics
  • Fluxomics and Metabolic Network Analysis
  • Bioinformatics

 

Professional Activities

  • Editorial board member in Journal of Metabonomics and Metabolites
  • Editorial board member in Metabolomics: Open Access journal
  • Reviewer in international journals in the field of metabolomics
  • Invited expert reviewer in European Commission
  • Visiting Scientist in 2009 at IMS, Universty of Cambridge, UK.
  • Consortium partner in Finnish National network for proteomics and metabolomics
  • Member in The Biobio society, Helsinki, Finland

     

    Professional Experience

    • Adjunct Professor (2012 - ) - at Faculty of Biological and Environmental Sciences, Department of Biosciences, University of Helsinki, Finland.
    • Head of the Metabolomics Unit (2010 -) at Technology Centre, Institute for Molecular Medicine Finland FIMM, Helsinki, Finland
    • Research Scientist & Project Manager (2007 - 2009) at Metabolomics Team, VTT Technical Research Centre of Finland, Espoo, Finland
    • Post-doctoral Fellow (2006 - 2007) at Quantitative Biology and Bioinformatics group, VTT Technical Research Centre of Finland, Espoo, Finland
    • Research Associate (2002 - 2003) at Proteomics group, Bioinformatics division, Zenovus Biotech Limited, Dr. Reddy's Laboratories, Hyderabad, India

     

    Education

    • Ph.D in Applied Biochemistry (2005), Biochemical Engineering Institute, University of Saarland in collaboration with Max-Planck Institute for Informatics, Saarbrucken, Germany with grade Magna cum laude ("accepted with great honours")
    • PGdip - Advanced Post Graduate Diploma in Bioinformatics (2002), Jawaharlal Nehru University, New Delhi, India
    • M.Sc in Biotechnology (2001), University of Hyderabad, Hyderabad, India
    • B.Sc in Biosciences (1999), Sri Venkateswara University, Tirupathi, India

     

    Fellowships

    • Post-doctoral Fellowships (2006-2009) from EU FP6 and FP7 and Human Frontier Science organization (HFSO) through VTT Technical Research Centre of Finland.
    • Doctoral Fellowship (2003-2005) from Centre for Bioinformatics under Deutsche  Forschungs gemeinschaft (DFG) programme
    • Visiting Student Research Program Fellowship (2000) from Tata Institute of Fundamental Research (TIFR), Mumbai, India during summer internship
    • Merit Fellowships (1999-2002) from Department of Biotechnology (DBT), India during both Master's degree and Advanced Postgraduate Diploma in Bioinformatics.

     

    Awards and Grants

    • Award for Merit - 2008 for excellent collaborative work in establishment of Systems Biology platform at VTT Technical Research Centre of Finland, Finland
    • Award for Merit - 2007 for exceptionally well performed project work at VTT Technical Research Centre of Finland, Finland.
    • Young post-doctoral scientist grant to attend first focused "FutureSysBio" workshop, Nov 19th - 21st, 2008 Gothenburg, Sweden.
    • Young scientist bursary scheme award to attend "Genomes to systems" conference, Mar 22nd -24th, 2006 Manchester, UK.
    • Graduate Student grants to attend 5th European Symposium on Biochemical Engineering Science  (ESBES), Sep 8th -11th, 2004 Stuttgart, Germany.

     

    Conference/Workshop lectures

    • Metabolomics. In: The Finnish Proteomics and Metabolomics Technology Platform's annual meeting (The ProtMet Network), Nov 29th, 2010 Helsinki, Finland.
    • Microbial regulation of host physiology. In: Academy of Finland's annual seminar in Research Programme on Nutrition, Food and Health, Mar 19th, 2009, Vaanta, Finland.
    • Systems biology approach to examine gut microbial effects on host metabolism in mice. In: Mass spectrometric metabolomics workshop, Feb 27th, 2009, Denmark.
    • Multivariate analysis of lipidomics data. In: Multivariate data modeling for Systems Biology (Sysdiet) workshop, Jan 16th, 2009, Oslo, Norway
    • What is needed for systems biology to enter the clinic? 肓 Industrial aspects. In: First focused "FutureSysBio" workshop, Nov 19th - 21st, 2008 Gothenburg, Sweden.
    • Microbial regulation of host metabolism - A metabolomics strategy. In: The Second Finnish Gut day, Nov 7th, 2008, Helsinki, Finland.
    • Lipidomic profiling of animal models. In: EU Consortium meeting of Hepatic and Adipose tissue and functions in the metabolic syndrome (HEPADIP), Oct 23rd, 2008, Lille, France.

     

    Publications

    A. Scientific monographs and doctoral dissertation

    • Velagapudi, V.R., 2005. Physiological and metabolic flux screening of Saccharomyces cerevisiae mutants on different carbon sources (Ph.D Thesis, University of Saarland, Germany)
    • Velagapudi, V.R., 2002. Statistical characterization of complete microbial genomes (Advanced Post Graduate Diploma Thesis, Jawaharlal Nehru University, India)
    • Velagapudi, V.R., 2001. Screening for phosphate solubilising activity of rhizobacteria and cloning one rhizobacterial isolate (Master's Thesis, University of Hyderabad, Hyderabad, India)
    • Velagapudi, V.R., 2000. Sugar transport defective mutants of S. pombe: Analysis of genomic and cDNA clones (Summer project report, Tata Institute of Fundamental Research, Mumbai, India)

    B. Articles (* Joint Authors)

    B1. Scientific articles in refereed journals

    • Virtue S, Masoodi M, Velagapudi, V.R, Tan CY, Dale M, Suorti T, Slawik M, Blount M, Burling K, Campbell M, Eguchi N, Medina-Gomez G, Sethi JK, Oreši M, Urade Y, Griffin JL, Vidal-Puig A. (2012) Lipocalin prostaglandin D synthase and PPARgamma2 coordinate to regulate carbohydrate and lipid metabolism in vivo. PLoS One (7):e39512.
    • Martínez-García, C., Izquierdo, A., Velagapudi, V.R, Vivas, Y., Velasco, I., Campbell, M., Burling, K., Ros, M., Orešic, M., Vidal-Puig, A., Medina-Gomez, G (2012) Accelerated renal disease associated to the development of metabolic syndrome in a glucolipotoxic murine model. Disease Models and Mechanisms (In Press)
    • Rodriguez-Cuenca, S., Carobbio, S., Velagapudi, V.R., Barbarroja, N., Moreno-Navarrete, J.M., Tinahones, F.J., Fernandez Real, J.M., Oresic, M., Vidal-puig, A., 2011. PPARγ dependent regulation of lipolytic nodes and metabolic flexibility. Molecular and Cellular Biology. 32, 1555-1565
    • Pietiläinen, K.H.,* Róg, T.,* Seppänen-Laakso, T.,* Virtue, S.,* Gopalacharyulu, P., Tang, J., Rodriguez-Cuenca, S., Maciejewski, A., Naukkarinen, J., Ruskeepää, A.L., Niemelä, P., Yetukuri, L., Tan, C.Y., Velagapudi, V.R., Castillo, S., Nygren, H., Hyötyläinen, T., Rissanen, A., Kaprio, J., Yki-Järvinen, H., Vattulainen, I., Vidal-Puig, A., Oreši, M., 2011. Association of lipidome remodelling in the adipocyte membrane with acquired obesity in humans. PLoS Biology. 9, e1000623
    • Gurung, I.S., Medina-Gomez, G., Kis, A., Baker, M., Velagapudi, V.R., Guha Neogi, S., Campbell, M., Rodriguez-Cuenca, S., Lelliott, C., McFarlane, I., Oreši, M., Grace, A.A., Vidal-Puig, A., Huang, C.L.H., 2011. Deletion of the metabolic transcriptional coactivator PGC1β induces cardiac arrhythmia. Cardiovascular Research. 92, 29-32.
    • Prawitt, J., Abdelkarim, M., Stroeve, J. H. M., Popescu, I., Duez, H., Velagapudi, V. R., Dumont, J., Bouchaert, E., van Dijk, T. H., Lucas, A., Dorchies, E., Daoudi, M., Lestavel, S., Gonzalez, F. J., Oreši, M., Cariou, B., Kuipers, F., Caron, S., Staels, B., 2011. Farnesoid X Receptor Deficiency Improves Glucose Homeostasis in Mouse Models of Obesity. Diabetes. 60, 1861-1871
    • Prieur, X., Mok, C.Y.L.,* Velagapudi, V.R.,* Nuñez, V.,* Fuentes, L., Montaner, D.,   Ishikawa, K., Camacho-Morales, A., O'Rahilly, S., Sethi, J., Dopazo, J., Oresic, M., Ricote, M., Vidal-Puig, A., 2011. Differential lipid partitioning between adipocytes and tissue macrophages modulates macrophage lipotoxicity and M2/M1 polarization in obese mice. Diabetes. 60, 797-809
    • López, M., Varela, L., Vázquez, M.J., Rodríguez-Cuenca, S., González, R.,Velagapudi, V.R., Morgan, D.A., Schoenmakers, E., Agassandian, K., Lage, R., Martínez de Morentin, P.B., Tovar, S., Nogueiras, R., Carling, D., Lelliott, C.J., Gallego, R.,* Oreši, M.,* Chatterjee, K.,* Saha, A.K.,* Rahmouni, K., Diéguez, C., Vidal-Puig, A., 2010.     Hypothalamic AMPK and fatty acid metabolism mediate thyroid regulation of energy       balance. Nature Medicine. 16, 1001-1008
    • Hall, D., Poussin, C.,* Velagapudi, V.R.,* Empsen, C., Joffraud, M., Beckmann, J.,     Geerts, A.E., Ravussin, Y., Ibberson, M., Oresic, M., Thorens, B., 2010. Peroxisomal and microsomal lipid pathways associated with resistance to hepatic steatosis and reduced pro-inflammatory state. Journal of Biological Chemistry. 285, 31011-31023
    • Velagapudi, V.R., Hezaveh, R., Reigstad, C., Peddinti, G.V., Felin, J., Yetukuri, L.,     Mattila, I., Borén, J., Oreši, M., Bäckhed, F., 2010. The gut microbiota as a global       modulator of host metabolism. Journal of Lipid Research. 5, 1101-12.
    • Medina-Gomez, G., Yetukuri, L., Velagapudi, V.R., Campbell, M., Blount, M., Jimenez- Linan, M., Ros, M., Oreši, M., Vidal-Puig, A., 2009. Adaptation and failure of pancreatic beta cells in murine models with different degrees of metabolic syndrome. Disease         Models and Mechanisms. 2, 582-592.
    • Kotronen, A.,* Velagapudi, V.R.,* Yetukuri, L., Westerbacka, J., Bergholm, R., Ekroos, K., Makkonen, J., Taskinen, M.R., Oreši, M., Yki-Järvinen, H., 2009. Saturated fatty acids containing triglycerides are better markers of insulin resistance than total serum triglyceride concentrations. Diabetologia. 52, 684-690.
    • Peddinti, G.V.,* Velagapudi, V.R.,* Lindfors, E., Halperin, E., Oresic, M., 2009. Dynamic network topology changes in functional modules predict responses to oxidative stress in yeast. Molecular BioSystems. 5, 276-287.
    • Velagapudi, V.R., Wittmann, C., Schniden, K., Heinzle, E., 2007. Metabolic Flux         Screening of Saccharomyces cerevisiae Single Knock-out Strains on Glucose and Galactose Supports Elucidation of Gene Function. Journal of Biotechnology. 132, 395
    • Sysi-Aho, M., Vehtari, A., Velagapudi, V.R., Westerbacka, J., Yetukuri, L., Bergholm, R., Taskinen, M.R., Yki-Järvinen, H., Oreši, M., 2007. Predicting the lipoprotein           composition using Bayesian regression on serum lipidomic profiles. Bioinformatics. 23.
    • Kolak, M.,* Westerbacka, J.,* Velagapudi, V.R., Wågsäter, D., Yetukuri, L., Makkonen, J., Rissanen, A., Häkkinen, A.M., Lindell, M., Hamsten, A., Eriksson, P., Fisher, R.M., Oreši, M., Yki-Järvinen, H., 2007. Adipose Tissue Inflammation And Increased Ceramide Content Characterize Subjects with High Liver Fat Content Independent of Obesity. Diabetes. 56, 1960.
    • Hollemeyer, K., Velagapudi, V.R., Wittmann, C., Heinzle, E., 2007. Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry for metabolic flux analyses using isotope-labeled ethanol. Rapid Communications in Mass Spectrometry. 21.
    • Velagapudi, V.R., Wittmann, C., Lengauer, T., Talwar, P., Heinzle, E., 2006.Metabolic Screening of Saccharomyces cerevisiae Single Knock-out Strains Reveals Unexpected     Mobilization of Metabolic Potential. Process Biochemistry. 41, 2170-2179.

      B2. Summaries in refereed journals

      • Martínez-García., C, Izquierdo., A, Vivas., Y, Velasco., I, Velagapudi., V.R, Campbell., M, Oreši., M, Vidal-Puig., A,Medina-Gomez., G, 2011. The role of glucolipotoxicity in the renal pathogenesis associated with metabolic syndrome. Journal of Diabetes. 3, s1, 134.
      • Velagapudi, V.R., Yetukuri, L., Westerbacka, J., Sysi-Aho, M., Bergholm, R., Vehtari, A., Taskinen, M.R., Yki-Järvinen, H., Oreši, M.,2007. Comprehensive metabolomic characterisation of lipoprotein fractions reveals differential lipoprotein-specific regulation of xenobiotic and pro-inflammatory metabolites in patients with metabolic syndrome. Atherosclerosis. 8, S1.

      C. Scientific conference proceedings

      C1. Refereed conference talk abstracts

      • Velagapudi, V.R.,* Hezaveh, R.,* Reigstad, C., Peddinti, G.V., Felin, J., Yetukuri, L., Mattila, I., Borén, J., Oreši, M., Bäckhed, F., 2009. The gut microbiota regulates energy and lipid metabolism. In: Frontier lipidology: Lipidomics in health and diseases. May 10-13, Sweden
      • Sysi-Aho, M., Vehtari, A., Velagapudi, V.R., Westerbacka, J., Yetukuri, L., Bergholm, R., Taskinen, M.R., Yki-Järvinen, H., Oreši, M., 2007. Predicting the lipoprotein composition using Bayesian regression on serum lipidomic profiles. In: 15th ISMB/ECCB, July 21-25, Austria
      • Velagapudi, V.R., Yetukuri, L., Westerbacka, J., Sysi-Aho, M., Bergholm, R., Vehtari, A., Taskinen, M.R., Yki-Järvinen, H., Oreši, M.,2007. Characterisation of Lipoprotein Fractions using Comprehensive UPLC/MS and GCxGC ToF/MS Analyses in patients with metabolic syndrome. In: Metabolomics 3rd Scientific Meeting. June 11-14, Manchester.
      • Heinzle, E., Wittmann, C., Velagapudi, V.R., Kim, H.M., John, G.T., 2006. Miniaturization and mini-bioreactors In: Engineering conferences international (ECI) - Natural products discovery and production: New challenges, new opportunities. June 4-8, New Mexico, USA
      • C. Wittmann., Kim, H.M., Velagapudi, V.R., Heinzle, E., 2005. Metabolic network analysis at miniaturized scale - A novel tool in strain and process development. In: Industrial Microbiology & Biotechnology Conference SIM Annual Meeting, August 21-25, Chicago, IL, USA.
      • Heinzle, E., Velagapudi, V.R., Wittmann, C., Hollemeyer, K., Talwar, P., Lengauer, T., 2005. Metabolische Hochdurchsatz-Charakterisierung von Deletionsmutanten von Saccharomyces cerevisiae. In: Systembiologie für industrielle Prozesse, May 1-4, Braunschweig, Germany.
      • Heinzle, E., John, G., Velagapudi, V.R., Desphande, R., Wittmann, C., 2004. Biocatalyst screening using novel microtiter plates. In: Bioperspectives, May 4-6, Wiesbaden, Germany
      • Wittmann, C., Kim, H.M., Velagapudi, V.R., Heinzle, E., 2004. Cultivation and metabolic profiling at miniaturized scale. In: Bioperspectives, May 4-6, Wiesbaden, Germany.

      C2. Refereed conference poster abstracts

      • Kantae, V., Yorke, J.C., Velagapudi., V.R* and Oresic, M*, 2012. High-throughput Mass Spectrometry based Method for the Quantitative Targeted Metabolomics. In: Metabomeeting, Sep 25-27, Manchester, UK
      • Martínez-García., C, Izquierdo., A, Vivas., Y, Velasco., I, Velagapudi., V.R, Campbell., M, Oreši., M, Vidal-Puig., A,Medina-Gomez., G, 2011. The role of glucolipotoxicity in the renal pathogenesis associated with metabolic syndrome. In: The fourth International Conference on Prediabetes and Metabolic Syndrome, April 6 - 9, Madrid, Spain.
      • Velagapudi, V.R., Bäckhed, F., Oreši, M., 2009. A systems biology approach to examine gut microbial effects on host metabolism in mice. In: The fifth International Conference of the Metabolomics Society, Aug 30 肓 Sep 2, Edmonton, Alberta, Canada.
      • Peddinti, G.V.,* Velagapudi, V.R.,* Lindfors, E., Halperin, E., Oresic, M., 2008. Dynamic network topology changes in functional modules predict responses to oxidative stress in yeast. In: 9th International Conference on Systems Biology (ICSB-9), Aug 22 肓 28, Gothenburg, Sweden.
      • Peddinti, G.V., Velagapudi, V.R.,* Lindfors, E., Halperin, E., Oresic, M., 2007. Dynamic network topology changes as result of cellular stress. In: 15th ISMB/ECCB, July 21-25, Austria.
      • Velagapudi, V.R., Yetukuri, L., Westerbacka, J., Sysi-Aho, M., Bergholm, R., Vehtari, A., Taskinen, M.R., Yki-Järvinen, H., Oreši, M.,2007. Comprehensive metabolomic characterisation of lipoprotein fractions reveals differential lipoprotein-specific regulation of xenobiotic and pro-inflammatory metabolites in patients with metabolic syndrome. In: 76th EAS, June, Finland.
      • Talwar, P., Lengauer, T., Wittmann, C., Velagapudi, V.R., Heinzle, E., 2006. Development of Computational Methods for Analysis of Metabolic Profiling Data. In: 7th ICSB, Japan.
      • Peddinti, G.V.,* Velagapudi, V.R.,* Lindfors, E., Halperin, E., Oresic, M., 2007. Dynamic network topology changes as result of cellular stress. In: ISSY-25, June 18-21, Espoo, Finland.
      • Velagapudi, V.R., Wittmann, C., Hollemeyer, K., Lengauer, T., Talwar, P., Heinzle, E., 2006. Metabolic high-throughput characterization of yeast deletion mutants. In: ISSY-25. Helsinki, Finland.
      • Velagapudi, V.R., Wittmann, C., Lengauer, T., Talwar, P., Heinzle, E., 2006. Functional Genomics of Yeast by Phenotypic and Metabolic Flux Profiling. In: Genomes to Systems Conference, 3rd Consortium for Post-genome science, Mar 22-24, Manchester, UK.
      • Talwar, P., Lengauer, T., Rahnenführer, J., Heinzle, E., Velagapudi, V.R., Wittmann, C., 2005. Computational methods for protein functional prediction using metabolomics and transcript co-response data. In: 6th ICSB, Oct 19 肓 23, Boston, USA.
      • Talwar, P., Lengauer, T., Rahnenführer, J., Wittmann, C., Velagapudi, V.R., Heinzle, E., 2005. Computational methods for protein functional prediction using metabolomics data. In: International workshop on systems biology, May 12-13, Milan, Italy.
      • Velagapudi, V.R., Wittmann, C., Lengauer, T., Talwar, P., Heinzle, E., 2005. High-throughput screening of Saccharomyces cerevisiae Knockout Library: Method Development and Stoichiometric Profiling. In: FEBS Advanced Course on Systems Biology, March 12-18, Austria.
      • Talwar, P., Lengauer, T., Rahnenführer, J., Wittmann, C., Velagapudi, V.R., Heinzle, E., 2004. Computational Methods for Metabolite Screening. In:12th ISMB/ECCB, July 31-Aug 4, UK.
      • Talwar, P., Lengauer, T., Rahnenführer, J., Velagapudi, V.R., Wittmann, C., Heinzle, E., 2004.Computational Methods for Metabolite Screening. In: 5th ICSB, Oct 9 肓 13, Heidelberg, Germany.
      • Velagapudi, V.R., Wittmann, C., Talwar, P., Lengauer, T., Heinzle, E., 2004. Functional Genomics of Yeast by Metabolic Flux Profiling. In: 5th ICSB, Oct 9-13, Heidelberg, Germany.
      • Velagapudi, V.R., Wittmann, C., Lengauer, T., Talwar, P., Heinzle, E., 2004. Metabolic Flux Profiling of Saccharomyces cerevisiae Mutants with Deletion of Genes in Central Metabolism at Miniaturized Scale. In: 5th ESBES, Sep 8-11, Stuttgart, Germany.
      • Talwar, P., Lengauer, T., Wittmann, C., Velagapudi, V.R., Heinzle, E., 2003. Towards cellular function through metabolite screening. In: Metabolic Profiling-Pathways in Discovery, Cambridge Healthtech Institute Conference, Dec 8-9, New Jersey, USA