วรรณวิภา วงศ์แสงนาค
Name: Dr. Wanwipa Vongsangnak
Tel. + 66 2 5625555 ext. 647818
E-mail: This email address is being protected from spambots. You need JavaScript enabled to view it., This email address is being protected from spambots. You need JavaScript enabled to view it.
Nationality: Thai
Current Position: Associate Professor
EDUCATION
2009 Ph.D. in Bioscience, Department of Chemical and Biological Engineering, Chalmers University of Technology, Gothenburg, Sweden.
2006 M.Sc. in Bioinformatics, School of Bioresources and Technology and School of Information Technology, King Mongkut’s University of Technology Thonburi, Bangkok, Thailand.
2004 B.Sc. in Biotechnology (First honor), Faculty of Science, Mahidol University, Bangkok, Thailand.
RESEARCH FIELD
Bioinformatics and Systems Biology
Metagenomics and Microbiomes
Multi-Omics integration and analysis
Fungal Biotechnology
PROFESSIONAL EXPERIENCES
2019-present Assistant Dean for International Affairs, Faculty of Science, Kasetsart University, Bangkok, Thailand.
2018-present International Program Leader for Ph.D. in Bioscience, Faculty of Science, Kasetsart University, Bangkok, Thailand.
2014-present Associate Professor, Department of Zoology, Faculty of Science, Kasetsart University, Bangkok, Thailand.
2018-2019 Assistant Dean for Research, Faculty of Science, Kasetsart University, Bangkok, Thailand.
2011-2014 Associate Professor, Center for Systems Biology, Soochow University, Suzhou, China.
2013 Visiting Professor, Department of Computer Science, School of Computing, National University of Singapore (NUS), Singapore.
2013 Visiting Professor, Systems Biology Group, King Mongkut's University of Technology Thonburi (KMUTT), Thailand.
2009-2011 Post-Doc, Department of Chemical and Biological Engineering, Chalmers University of Technology, Gothenburg, Sweden.
2007 Research Assistant, Department of Systems Biology, Technical University of Denmark, Denmark.
HONORS AND AWARDS
2018 KU Research Star, Kasetsart University, Thailand
2020 The 2020 Taguchi Prize for Outstanding Research Achievements by a Young Scientist in the Field of Biotechnology from Thai Society for Biotechnology
2021 The highest H-index (Rising star) in the Field of Bioscience, Faculty of Science, Kasetsart University
2021 Outstanding publication awards, Faculty of Science, Kasetsart University
PROFESSIONAL SOCIETIES AND ORGANIZATIONS
Editorial Board Member, Scientific Reports
Guest Editor, Translational Biomedical Informatics and Computational
Systems Medicine
Academic Editor, International Journal of Genomics
Reviewers (PeerJ, Microbiology, BMC Research Notes, Translational Biomedical
Informatics and Computational Systems Medicine, The journal BBA –
General Subjects, Future Microbiology, Agriculture and Natural Resources,
Proceeding)
PUBLICATIONS
1.Patumcharoenpol P, Nakphaichit M, Panagiotou G, Senavonge A, Suratannon N, Vongsangnak W (2021) MetGEMs Toolbox: Metagenome-scale models as integrative toolbox for uncovering metabolic functions and routes of human gut microbiome. PLOS Computational Biology 17(1):e1008487.
2. Raethong N, Nakphaichit M, Suratannon N, Sathitkowitchai W, Weerapakorn W, Keawsompong S, Vongsangnak W (2021) Analysis of Human Gut Microbiome: Taxonomy and Metabolic Functions in Thai Adults. Genes (Basel). 12(3):331.
3. Thananusak R, Laoteng K, Raethong N, Zhang Y, Vongsangnak W (2020) Metabolic responses of carotenoid and cordycepin biosynthetic pathways in Cordyceps militaris under light-programming exposure through genome-wide transcriptional analysis. Biology 21;9(9): E242.
4. Sirithep K, Xiao F, Raethong N, Zhang Y, Laoteng K, Hu G, Vongsangnak W (2020) Probing carbon utilization of Cordyceps militaris by sugar transportome and protein structural analysis. Cells. 9(2): 401.
5. Raethong N, Wang H, Nielsen J, Vongsangnak W (2020) Optimizing cultivation of Cordyceps militaris for fast growth and cordycepin overproduction using rational design of synthetic media. Computational and Structural Biotechnology Journal 18: 1-8.
6. Wongsa B, Raethong N, Chumnanpuen P, Wong-ekkabut J, Laoteng K, and Vongsangnak W (2020) Alternative metabolic routes in channeling xylose to cordycepin production of Cordyceps militaris identified by comparative transcriptome analysis. Genomics 112(1):629-636
7. Raethong N, Laoteng K, Vongsangnak W (2018) Uncovering global metabolic response to cordycepin production in Cordyceps militaris through transcriptome and genome-scale network-driven analysis. Scientific Reports8: 9250.
8.Vongsangnak W, Raethong N, Mujchariyakul W, Nguyen NN, Leong HW, Laoteng K (2017)Genome-scale metabolic network of Cordyceps militaris useful for comparative analysis of entomopathogenic fungi. Gene 626: 132-139.
9. Raethong N, Wong-Ekkabut J, Laoteng K, Vongsangnak W (2016) Sequence- and structure-based functional annotation and assessment of metabolic transporters in Aspergillus oryzae: a representative case study BioMed Research International: 8124636.
10.Patumcharoenpol P, Doungpan N, Meechai A, Shen B, Chan JH, Vongsangnak W (2016) An integrated text mining framework for metabolic interaction network reconstruction. PeerJ 4: e1811.
11. Isarankura Na Ayudhya N, Laoteng K, Song Y, Meechai A, Vongsangnak W (2019) Metabolic traits specific for lipid-overproducing strain of Mucor circinelloides WJ11 identified by genome-scale modeling approach. PeerJ 7: e7015.
12. Vongsangnak W, Klanchui A, Tawornsamretkit I, Tatiyaborwornchai W, Laoteng K, Meechai A (2016) Genome-scale metabolic modeling of Mucor circinelloides and comparative analysis with other oleaginous species. Gene 583: 121-129.
13. Vongsangnak W, Kingkaw A, Yang J, Song Y, Laoteng K (2018) Dissecting metabolic behavior of lipid over-producing strain of Mucor circinelloides through genome-scale metabolic network and multi-level data integration, Gene 670: 87-97.
14. Yang J, Li S, Khan MAK, Garre V, Vongsangnak W, Song Y (2019) Increased lipid accumulation in Mucor circinelloides by overexpression of mitochondrial citrate transporter genes. Industrial & Engineering Chemistry Research 58: 2125-2134.
15. Nguantad S, Chumnanpuen P, Thancharoen A, Vongsangnak W, Sriboonlert A. (2020). Identification of potential candidate genes involved in the sex determination cascade in an aquatic firefly, Sclerotia aquatilis (Coleoptera,
Lampyridae). Genomics 112(3): 2590-2602.
16. Zhen Y, Chundang P, Zhang Y, Wang M, Vongsangnak W, Pruksakorn C, Kovitvadhi A. (2020) Impacts of killing process on the nutrient content, product stability and in vitro digestibility of black soldier fly (Hermetia illucens) larvae meals. Applied Sciences 10(17): 6099.
17. Zhang Y, Gu T, Chen Y, Zhu G, Vongsangnak W, Xu Q, Chen G. (2019) Screening and identification of SipC-interacting proteins in Salmonella enteritidis using Gal4 yeast two-hybrid system in duck. PeerJ 7: e7663.
18. Chanchay P, Vongsangnak W, Thancharoen A, Sriboonlert A (2019) Reconstruction of insect hormone pathways in an aquatic firefly, Sclerotia aquatilis (Coleoptera: Lampyridae), using RNA-seq. PeerJ 7, e7428.
19. Jatuponwiphat T, Chumnanpuen P, Othman S, E-Kobon T, Vongsangnak W (2019) Iron associated protein interaction networks reveal the key functional modules related to survival and virulence of Pasteurella multocida. Microbial Pathogenesis 127: 257-266.
20. Jatuponwiphat T, Namrak T, Supataragul A, Nitisinprasert S, Nakpaichit M, Vongsangnak W (2019) Comparative genome analysis reveals metabolic traits associated with probiotics properties in Lactobacillus reuteri KUB-AC5. Gene Reports 17, 100536.
21.Nakphaichit M, Sobanbua S, Siemuang S, Vongsangnak W, Nakayama J, Nitisinprasert S (2019)
Protective effect of Lactobacillus reuteri KUB-AC5 against Salmonella Enteritidis challenge in chickens.
Beneficial Microbes 10: 43-54.
22. Vongsangnak W, Chumnanpuen P, Sriboonlert A (2016) Transcriptome analysis reveals candidate genes involved in luciferin metabolism in Luciola aquatilis (Coleoptera: Lampyridae). PeerJ 4: e2534.
23. Kingkaw A, Nakphaichit M, Suratannon N, Nitisinprasert S, Wongoutong C, Chatchatee P, Krobthong S, Sawanya Charoenlappanit S, Roytrakul S, Vongsangnak W. (2020) Analysis of the infant gut microbiome reveals metabolic functional roles associated with healthy infants and infants with atopic dermatitis using metaproteomics. Accepted in PeerJ
24. Kongsema M, Wongkhieo S, Khongkow M, Lam EWF, Boonnoy P, Vongsangnak W, Wong-Ekkabut J. (2019) Molecular mechanism of Forkhead box M1 inhibition by thiostrepton in breast cancer cells. Oncology reports 42 (3), 953-962.
25. Vongsangnak W, Raethong N, Mujchariyakul W, Nguyen NN, Leong HW, Laoteng K. Genome-scale metabolic network of Cordyceps militaris useful for comparative analysis of entomopathogenic fungi. Gene. 2017 Aug 30;626:132-139.
26. Vongsangnak W, Chumnanpuen P, Sriboonlert A(2016) Transcriptome analysis reveals candidate genes involved in luciferin metabolism in Luciola aquatilis (Coleoptera: Lampyridae).PeerJ 4:e2534.
27. Raethong N, Wong-Ekkabut J, Laoteng K, Vongsangnak W (2016) Sequence- and Structure-Based Functional Annotation and Assessment of Metabolic Transporters in Aspergillus oryzae: A Representative Case Study. Biomed Res Int: 8124636. doi: 10.1155/2016/8124636.
28. Patumcharoenpol P, Doungpan N, Meechai A, Shen B, Chan JH, Vongsangnak W (2016) An integrated text mining framework for metabolic interaction network reconstruction. PeerJ4:e1811. doi: 10.7717/peerj.1811.
29. Vongsangnak W, Klanchui A, Tawornsamretkit I, Tatiyaborwornchai W, Laoteng K, Meechai A. (2016) Genome-scale metabolic modeling of Mucor circinelloides and comparative analysis with other oleaginous species. Gene 583(2):121-9. doi: 10.1016/j.gene.2016.02.028.
30. Xiao F, Yang M, Xu Y, Vongsangnak W (2015) Comparisons of Prostate Cancer Inhibitors Abiraterone and TOK-001 Binding with CYP17A1 through Molecular Dynamics. Comput Struct Biotechnol J 13:520-7. doi: 10.1016/j.csbj.2015.10.001.
31. Nguyen NN, Vongsangnak W, Shen B, Nguyen P, Leong HW. Megafiller: A Retrofitted Protein Function Predictor for Filling Gaps in Metabolic Networks, Journal of Proteomics and BioinformaticsS9: 003.
32. Li Y, Vongsangnak. W, Chen. L, Shen B. (2014) Integrative analysis reveals disease-associated genes and biomarkers for prostate cancer progression, BMC Medical Genomics 7. (Suppl 1):S3.
33. Huang M, Wattanachaisaereekul S, Han Y, Vongsangnak W (2014) In silico analysis of plant and animal transposable elements, International Journal of Bioinformatics Research and Applications 10:297-306. (Scopus (Elsevier), SJR: Q3)
34. Jiang J, Cui W, Vongsangnak W, Hu G, Shen B. (2013) Post genome-wide association studies functional characterization of prostate cancer risk loci, BMC Genomics 14: Suppl 8:S9.
35. Zhao Z, Shen B, Lu X, Vongsangnak W. (2013) Translational biomedical informatics and computational systems medicine, Biomed Research International, 237465.
36. Vongsangnak W, Ruenwai R, Xin T, Xinjie H, Hao Z, Shen B, Song Y, Laoteng K. (2013) Genome-scale analysis of the metabolic networks of oleaginous Zygomycete fungi, Gene, 25: 180-190.
37. Agren R, Liu L, Shoaie S, Vongsangnak W, Nookaew I, Nielsen J (2013) The RAVEN Toolbox and Its Use for Generating a Genome-scale Metabolic Model for Penicillium chrysogenum, PLoS Computational Biology 9: e1002980.
38. Zhu F, Patumcharoenpol P, Zhang C, Yang Y, Chan J, Meechai A, Vongsangnak W, Shen B (2013) Biomedical text mining and its applications in cancer research, Journalof Biomedical Informatics 46: 200-211.
39. Klanchui A, Vorapreeda T, Vongsangnak W, Kannapho C, Cheevadhanarak S, Meechai A (2012) Systems biology and metabolic engineering of Arthrospira cell factories, Computational and Structural Biotechnology Journal 3: e201210015.
40. Patumcharoenpol P, Chan J, Meechai A, Shen B, Vongsangnak W (2012) Bibliome Mining Platform and Application for Building Metabolic Interaction Network, Procedia Computer Science 11: 55-62.
41. Geijer C, Pirkov I, Vongsangnak W, Ericsson A, Nielsen J, Krantz M, Hohmann S (2012) Time course gene expression profiling of yeast spore germination reveals a network of transcription factors orchestrating the global response, BMC Genomics 13: 554.
42. Nijkamp JF, van den Broek M, Datema E, de Kok S, Bosman L, Luttik MA, Daran-Lapujade P, Vongsangnak W, Nielsen J, Heijne WH, Klaassen P, Paddon CJ, Platt D, Kötter P, van Ham RC, Reinders MJ, Pronk JT, de Ridder D, Daran JM (2012) De novo sequencing, assembly and analysis of the genome of the laboratory strain Saccharomyces cerevisiae CEN.PK113-7D, a model for modern industrial biotechnology, Microbial Cell Factories 11:36.
43. Li Y, Zhang Z, Liu F, Vongsangnak W, Jing Q, Shen B (2012) Performance comparison and evaluation of software tools for microRNA deep sequencing data analysis, Nucleic Acid Research 40:4298-305.
44. Vongsangnak W, Zhang Y, Chen W, Ratledge C, Song Y (2012) Annotation and analysis of malic enzyme genes encoding for multiple isoforms in the fungus Mucor circinelloides CBS 277.49, Biotechnology Letter34: 941-947.
45. Vongsangnak W, Figueiredo L F, Forster J, Weber T, Thykaer J, Stegmann E, Wohlleben, W, Nielsen J (2012) Genome-Scale Metabolic Representation of Amycolatopsis balhimycina. Biotechnology and Bioengineering 109:1798-807.
46. Hong K, Vongsangnak W, Vemuri G, Nielsen J (2011) Unraveling evolutionary strategies of yeast for improving galactose utilization through integrated systems level analysis. Proceedings of the National Academy of Sciences108: 12179-12184.
47. Vongsangnak W, Hansen K, Nielsen J (2011) Integrated analysis of the global transcriptional response to α-amylase over-production by Aspergillus oryzae. Biotechnology and Bioengineering 108: 1130-1139.
48. Rokem S, Vongsangnak W, Nielsen J (2011) Comparative metabolic capabilities for Micrococcus luteus NCTC 2665, the “Fleming” Strain, and Actinobacteria. Biotechnology and Bioengineering 108: 2270-2275.
49. Piddocke M, Fazio A, Vongsangnak W, Wong M, Heldt-Hansen H, Workman C, Nielsen J, Olsson L (2011) Revealing the beneficial effect of protease supplementation to high gravity beer fermentations using “–omics” techniques, Microbial Cell Factories 10: 27.
50. Ruenwai R, Neiss A, Laoteng K, Vongsangnak W, Dalfard A, Cheevadhanarak S, Petranovic D, Nielsen J (2011) Heterologous production of polyunsaturated fatty acids in Saccharomyces cerevisiae causes a global transcriptional response resulting in reduced proteasomal activity and increased oxidative stress. Biotechnology Journal 6: 343-356.
51. Otero J, Vongsangnak W, Asadollahi M, Olivares R, Maury J, Farinelli L, Barlocher L, Schalk M, Clark A, Nielsen J (2010) Whole genome sequencing of Saccharomyces cerevisiae: from genotype to phenotype for improved metabolic engineering applications, BMC Genomics 11: 723.
52. Cvijovic M, Olivares R, Agren R, Dahr N, Vongsangnak W, Nookaew I, Patil K, Nielsen J (2010) BioMet Toolbox: genome-wide analysis of metabolism, Nucleic Acid Research 38: W144–W149.
53. Vongsangnak W, Nookaew I, Salazar M, Nielsen J (2010) Analysis of genome-wide co- expression and co-evolution of Aspergillusoryzae and Aspergillusniger. OMICS A journal of Integrative Biology 14: 165-175.
54. Vongsangnak W, Salazar M, Hansen H, Nielsen J (2009) Genome-wide analysis of maltose utilization and regulation in aspergilli, Microbiology 155: 3893-3902.
55. Salazar M, Vongsangnak W, Andersen M, Panagiotou G, Nielsen J (2009) Uncovering transcriptional regulation of glycerol metabolism in aspergilli through genome-wide gene expression data analysis. Molecular Genetics and Genomics 282: 571-586.
56. Andersen M, Vongsangnak W, Panagiotou G, Margarita S, Lehmann L, Nielsen J (2008) A tri-species Aspergillusmicroarray - advancing comparative transcriptomics. Proceedings of the National Academy of Sciences105: 4387-4392.
57. Vongsangnak W, Olsen P, Hansen K, Krogsgaard S, Nielsen J (2008) Improved annotation through genome-scale metabolic modeling of Aspergillusoryzae. BMC Genomics 9: 245.
58. Vongsangnak W, Gua J, Chauvatcharin S, Zhong J J (2004) Towards efficient extraction of notoginsengsaponins from cultured cells of Panaxnotoginseng.Biochemical Engineering Journal18:115–120.
BOOK CHAPTERS
1. Hu G, Xiao F, Li Y, Li Y, Vongsangnak W (2017) Protein–protein interface and disease: perspective from biomolecular networks. In: Nookaew I. (eds) Network Biology. Advances in Biochemical Engineering/Biotechnology 160. Springer, Cham. pp. 57-74.
2. Klanchui A, Raethong N, Prommeenate P, Vongsangnak W, Meechai A (2016) Cyanobacterial biofuels: strategies and developments on network and modeling. In: Nookaew I (eds) Network Biology. Advances in Biochemical Engineering/Biotechnology 160. Springer, Cham. pp. 75-102.
3.Kusonmano K, Vongsangnak W, Chumnanpuen P (2016) Informatics for metabolomics. In: Shen B, Tang H, Jiang X (eds) Translational Biomedical Informatics. Advances in Experimental Medicine and Biology 939. Springer, Singapore. pp. 91-115.
4. Chumnanpuen P, Kocharin K, Vongsangnak W(2016)Yeast expression systems for industrial biotechnology. In: Schmoll M, Dattenböck C (eds) Gene Expression Systems in Fungi: Advancements and Applications. Springer, Switzerland. pp.227-237.
5. Vongsangnak W, Nielsen J (2013) Systems biology methods and developments for filamentous fungi in relation to the production of food ingredients. Microbial production of food ingredients, enzymes and nutraceuticals. Woodhead Publishing Ltd.
6. Vongsangnak W, Nielsen J (2010) Systems Biology of Aspergilli: Molecular Biology and Genomics, Horizon Scientific Press 61-83.
