Treenut Saithong
Academic Position : Associate Professor
Tel. : (+66)2-470-7714
Email : treenut.sai@kmutt.ac.th
Lab Website : Biological Modeling Laboratory
Research Interests
- Systems biology and bioinformatics in plant metabolism
- Biological network construction from high-throughput data
- Mathematical modelling & omics data integration
- Genome-scale metabolic model & genetic networks
- Multi-level regulation in plants
- Genotype-phenotype relationship
- System regulation:
- plant-microbe interaction,
- plant growth with resource-used efficiency
- Principle of biological modelling:
- Model analysis and toy model simulation,
- Optimisation methods for biological modelling
Education
PhD in Systems Biology
Recent Publications
International Journals
- Thanasomboon R, Kalapanulak S, Netrphan S, Saithong T* (2020) Exploring dynamic protein-protein interaction in cassava through the integrative interactome network, Scientific Reports, (in press).
- Suksamran R, Saithong T, Thammarongtham C, Kalapanulak S* (2020) Genomic and transcriptomic analysis identified novel putative cassava lncRNAs involved in cold and drought stress, Genes, 11, 366; doi:10.3390/genes11040366.
- Thanasomboon R, Kalapanulak S, Netrphan S, Saithong T* (2019) Difference in defense mechanism of two cassava cultivars to bacterial blight disease inferred by analysis of interspecies protein-protein interaction networks. Genomics and Genetics 12(2): 34-40.
- Yawichai A, Kalapanulak S, Thammarongtham C, Saithong T* (2019) Genome-wide identification of putative micrornas in cassava (Manihot esculenta Crantz) and their functional landscape in cellular regulation. BioMed Research International 2019: 2019846.
- Punyasu N, Kalapanulak S, Siriwat W, Saithong T* (2019) Development of a compartmentalized model for insight into the structured metabolic pathway of carbon metabolism in cassava leaves. Australian Journal of Crop Science 13(4): 605-615.
- Chiewchankaset P, Kalapanulak S*, Saithong T* (2019) Extended utilization of constraint-based metabolic model in a long-growing crop. Processes 7(5): 259.
- Chiewchankaset P, Siriwat W, Suksangpanomrung M, Boonseng O, Meechai A, Tanticharoen M, Kalapanulak S, Saithong T* (2019) Understanding carbon utilization routes between high and low starch-producing cultivars of cassava through Flux Balance Analysis, Scientific Reports 9: 2964.
- Wirojsirasak W, Kalapanulak S, Saithong T* (2019) Pan- and core- gene association networks: Integrative approaches to understanding biological regulation, PLoS ONE 14(1): e0210481.
- Siriwat W, Kalapanulak S, Suksangpanomrung M, Saithong T* (2018) Unlocking conserved and diverged metabolic characteristics in cassava carbon assimilation via comparative genomics approach, Scientific Reports, 8(1): 16593.
- Thanasomboon R, Kalapanulak S, Netrphan S, Saithong T* (2017) Prediction of cassava protein interactome based on interolog method, Scientific Reports, 7: 17206.
- Rangsiwutisak C, Saithong T, Kalapanulak S* (2017) Genome-wide identification of potential transcription factor binding sites of cassava via phylogenetic footprinting approach, Chiang Mai University Journal of Natural Sciences, (in press).
- Sojikul P*, Saithong T, Kalapanulak S, Pisuttinusart N, Limsirichaikul S, Tanaka M, Utsumi Y, Sakurai T, Seki M, Narangajavana J (2015) Genome-Wide Analysis Reveals Phytohormone Action During Cassava Storage Root Initiation, Plant Molecular Biology, 88(6), pp. 531-43.
- Saithong T*, Saerue S, Kalapanulak S, Sojikul P, Narangajavana J, Bhumiratana S (2015) Gene co-expression analysis inferring the crosstalk of ethylene and gibberellin in modulating the transcriptional acclimation of cassava root growth in different seasons. PLoS ONE, 10(9): e0137602.
Book’s chapters
- Kalapanulak S, Saithong T*, Thammarongtham C* (2016) Networking Omic Data to Envisage Systems Biological Regulation, In Advances in Biochemical Engineering/Biotechnology. Springer Berlin Heidelberg, Berlin, Heidelberg: pp. 1-21
- Saithong T* and Kalapanulak S (2015) Chapter 17 Going beyond the current native nutritional food through the integration of the omic data in the post-genomic era, In Genomics, Proteomics and Metabolomics in Nutraceuticals and Functional Foods 2nd. John Wiley & Sons, Ltd.
Conference Proceedings
- Thanasomboon R, Netrphan S, Kalapanulak S*, Saithong T* (2019) Exploring genome-wide protein-protein interaction network of cassava KU50 toward the understanding in high starch yield cultivar, Proceedings of The 10th RMUTs International Conference, 24-26 July 2019, Chiang Mai International Exhibition and Conventional Center, Chiang Mai, Thailand.
- Chiewchankaset P, Kalapanulak S*, Saithong T* (2019) Assessment of biomass composition data impact on prediction of low-yield cassava metabolic model (rMeCBM-HN), Proceedings of The 21st National Genetics Conference (NGC2019), 6-22 June 2019, Pattaya, Chonburi, Thailand.
- Jaemthaworn T, Ruengsrichaiya B, Saithong T, Kalapanuluk S* (2018) Clustered Network Topology of Regulatory System Strengthens the Cellular Robustness to Stress: a Case Study in a Resistant Cultivar of Cassava (Manihot esculenta Crantz) to Viral Infection, Proceedings of the 9th International Conference on Computational Systems-Biology and Bioinformatics (CSBio2018), 10-13 December 2018, Bangkok, Thailand.
- Bumee S, Kalapanulak S, Meechai A, Saithong T* (2015) Analysis of reporter metabolites for the compartmentalized genome-scale metabolic model of Arabidopsis leaves, Proceedings of 6th international conference on Computational Systems-Biology and Bioinformatics 2015 (CSBio2015), 22-25 November 2015, Thailand.
- Vongthaiwan H, Siriwat W, Kalapanulak S, Saithong T* (2015) Shape the reconstructed metabolic pathway of cassava carbon assimilation into a cell, Proceedings of the 27th Annual Meeting of the Thai Society for Biotechnology and International Conference (TSB2015), 17-22 November 2015, Thailand.
- The first prize in the outstanding proceedings award over hundreds of all presented proceeding
- Sriwichai N, Saithong T, Thammarongtham C, Meechai A. and Kalapanulak S*. (2015) A hybrid computational approach for predicting the intergenic microRNA promoters in plants: A case study in cassava, Proceedings of the 27th Annual Meeting of the Thai Society for Biotechnology and International Conference (TSB2015), 17-22 November 2015, Bangkok, Thailand.
Conference Posters
- Thaiprasit J, Kalapanulak S, Saithong T* (2019) The variation of shoot-root carbon allocation during storage root initiation in 6 cassava varieties in Thailand, The 21st National Genetics Conference (NGC2019), 6-22 June 2019, Pattaya, Chonburi, Thailand.
- Saithong T*, Thanasomboon R, Kalapanulak S, Netrpan S, Suksangpanomrung M (2018) Highlighting the condition-specific protein-protein interaction by integrating expression data into the interactome network: A case of AGPase protein, The 19th International Conference on Systems Biology (ICSB), 28 October – 1 November 2018, Lyon, France.
- Kalapanulak S*, Sriwichai N, Saithong T, Suksangpanomrung M, Netrpan S (2018) Unraveling transcriptional regulation of starch metabolic genes in cassava through computational prediction with Yeast-one hybrid validation, The 19th International Conference on Systems Biology (ICSB), 28 October – 1 November 2018, Lyon, France.
- Chiewchankaset P, Siriwat W, Kalapanulak S, Saithong T* (2018) Genome-scale metabolic model predicts carbon flux partitioning towards starch biosynthesis in storage root of cassava, The 11th International Multiconference on Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB- 2018), 20-25 August 2018, Novosibrisk, Russia. [Poster]
- Kalapanulak S*, Rangsiwutisak C, Saithong T (2018) Genome-wide prediction of transcription factor binding sites in cassava via phylogenetic footprinting between plants in Euphorbiaceae family, The 11th International Multiconference on Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB-2018), 20-25 August 2018, Novosibrisk, Russia. [Poster]
- Siriwat W, Kalapanulak S, Saithong T* (2017) Investigation of canonical metabolic network of plants through topology-based analysis, The 21st Annual International Conference on Research in Computational Molecular Biology (RECOMB2017), 3-7 May 2017, University of Hongkong, Hongkong.
- Rangsiwutisak C, Saithong T, Kalapanulak S* (2017) Exploring the landscape of regulatory elements on non-coding regions of cassava genome via motif-based screening, The 21st Annual International Conference on Research in Computational Molecular Biology (RECOMB2017), 3-7 May 2017, University of Hongkong, Hongkong. Hongkong.
- Chungloo D, Netrphan S, Suksangpanomrung M, Kalapanulak S, Saithong T (2107) A study towards understanding of transcriptional regulation of ADP-glucose pyrophosphorylase genes in cassava through bioinformatics and molecular biology techniques, International Conference on Sustainable Agriculture and Bioeconomy (AGBIO2017), 27 February-2 March 2017, BITEC, Bangkok, Thailand.
- Dusschoten D, Chiewchankaset P, Saithong T, Kalapanulak S, Wojchiechowski T (2017) Development of fine roots of cassava in soil as observed by 3D MRI, International Conference on Sustainable Agriculture and Bioeconomy (AGBIO2017), 27 February-2 March 2017, BITEC, Bangkok, Thailand
- Sriwichai N, Saithong T, Kalapanulak S* (2017) Transcription Factors Controlling the Involvement of MIR164 and MIR167 in Cassava Response to Drought Stress Condition: A Potential Marker for
- Drought-resistant Trait Screening, International Conference on Sustainable Agriculture and Bioeconomy (AGBIO2017), 27 February-2 March 2017, BITEC, Bangkok, Thailand.
- Punyasu N, Kalapanulak S, Bumee S, Saithong T* (2016) Unravelling the changes in metabolism during storage root development of cassava through reporter metabolite analysis, The 28th Annual Meeting of the Thai Society for Biotechnology and International Conference, 28-30 Novermber 2016, The Empress Hotel, Chiangmai, Thailand.
- Suksamran R, Saithong T, Thammarongtham C, Kalapanulak S* (2016) A comparative approach to genome-wide discovery of intragenic non-coding RNAs in cassava, The 28th Annual Meeting of the Thai Society for Biotechnology and International Conference, 28-30 Novermber 2016, The Empress Hotel, Chiangmai, Thailand.
- Thanasomboon R, Kalapanulak S, Saithong T* (2016) Protein-Protein Interaction Network of Host and Pathogen inferring the Infection Mechanism of Xanthomonas axonopodis in Cassava, Siriraj International Conference, June 2016, Siriraj Hospital, Thailand.
- Chiewchankaset P, Boonseng O, Suksangpanomrung M, Kalapanulak S*, Saithong T* (2016) Investigation of growth behavior inferring the distinct carbon allocation between high and low starch-content traits of cassava, 1st international conference on World Congress on Root and Tuber Crops 2016, 18-23 January 2016, Mingyuan Xindu Hotel, Nanning, Guangxi, China.
- Bumee S, Khampoosa B, Saithong T*, Meechai A, Kalapanulak S (2016) Integrative approach for predicting transcription factors controlling starch genes in cassava, Proceedings of 1st international conference on World Congress on Root and Tuber Crops 2016, 18-23 January 2016, Mingyuan Xindu Hotel, Nanning, Guangxi, China.