Sumanth Mutte

I am studiying the gene family evolution across multiple kingdoms of life using large genome and transcriptome datasets. I am also skilled in performing multiple next-generation 'omics' data analysis - genome assembly, annotation, transcript profiling, and cistrome analysis etc.
Apart from research, I ought to spread my knowledge by teaching various bioinformatics courses to bachelor and master students.

Experience

Education

Skills

• Python, MATLAB, R, Shell

• GitHub, SnakeMake

• DNA-seq, RNA-seq, DAP-seq, ChIP-seq
• Handle both reference based and de novo genome assembly tools
• Multi-omics data integration

• SPSS, MeV, R

• Maximum Likelihood (RAxML, IQtree, PhyML etc.)
• Bayesian inference (MrBayes)

• Homology modelling & docking
• Molecular dynamics simulations

Personal Strengths

• Critical, logical and analytical thinker
• Excellent communication (verbal and written)
• Good team player
• Accountable and adaptable
• Self-motivated and able to take initiative

Interests

Being a bioinformatician is my profession, but I do not when, I have realized that it is my passion too. But of course there are other things that I enjoy spending my time, such as reading biographies and (sometimes) biking - yes! I am in the Netherlands... I enjoy watching documentaries of various 'old' places across the world. I love movies based on 'real' stories or the ones 'inspired by true events'. I love to eat as well as to cook, especially the flavorful 'indian' cuisine. Last but not the least, I do a bit of philanthropy too.

Awards

• Received the doctorate with honors – 'cum laude'
• Received the 'Research Award 2019' for the best research of Wageningen University, presented by University Fund Wageningen (UFW).

Seminars and Conferences

• Presented a poster at ''International Conference on Plant Growth Substances'' at Paris, France in June 2019.
• Presented a poster at ''New Shores in Land Plant Evolution'' EMBO meeting at Lisbon, Portugal in June 2018.
• Gave a talk at the European ''Auxin Workshop'' held in Gent, Belgium in September 2017.
• Attended a two-day conference conducted by the graduate school "Experimental Plant Sciences" in Lunteren, Netherlands held in April 2016, 2017, 2018 and 2019.
• Presented a poster at the ''Auxin2016'' conference held in Sanya, China in October 2016.
• Presented a poster on ''An in silico approach to candidate gene identification in QTLs'' at SABRAO (The Society for Advancement of Breeding Research in Asia and Oceania) Congress held during January 13-16, 2012 in Chiang Mai, Thailand.
• Attended a two day conference ''Proteomics: Advances, Applications and Challenges (PRAAC)'' at Institute of Bioinformatics and Applied Biotechnology ( Bangalore, Karnataka, India during 19 20 February, 2010.

Specialization Courses

• Attended a full-day (online) workshop on ''Workflow management with SnakeMake'' in May 2020
• Attended a four-day course on ''Introduction to multi omics data integration'' at EMBL EBI, Cambridge in February 2018
• Completed a short-term project on ''Cheminformatics and ligand library generation'' at Sai’s Biosciences Research Institute, Coimbatore, Tamil Nadu, India in December, 2009
• Undergone 15 days training on ''Drug designing'' at Neogen Biosolutions Chennai, India during May 2009

publications

• Ramalho JJ, Jones VAS, Mutte, S. K., Weijers D (2021). Pole position: how plant cells polarize along the axes. The Plant Cell. DOI: 10.1093/plcell/koab203.
• Mutte, S. K. (2020). Evolutionary analysis of a billion years of auxin biology. PhD thesis, Wageningen University. DOI: 10.18174/511001.
• Mutte, S. K. & Weijers, D. (2020). Deep Evolutionary History of the Phox and Bem1 (PB1) Domain Across Eukaryotes. Scientific Reports, 10, 3797. DOI: 10.1038/s41598-020-60733-9.
• Mutte, S. K. & Weijers, D. (2020). High-resolution and deep phylogenetic reconstruction of ancestral states from large transcriptomic data sets. Bio-Protocol, 10(6). DOI: 10.21769/BioProtoc.3566.
• Kato, H., Mutte, S. K., Suzuki, H., Crespo, I., Das, S., Radoeva, T., Fontana, M., Yoshitake, Y., Hainiwa, E., van den Berg, W., Lindhoud, S., Hohlbein, J., Borst, J.W., Boer, R., Nishihama, R., Kohchi, T., Ishizaki, K., Weijers, D. (2020) Design principles of a minimal auxin response system. Nature Plants, 6:473-482. DOI: 10.1038/s41477-020-0662-y.
• Li, F-W., Nishiyama, T., Waller, M., Frangedakis, E., Keller, J., Li, Z., Fernandez-Pozo, N., Barker, M., Bennett, T., Blazquez, M., Cheng, S., Cuming, A., de Vries, J., de Vries, S., Delaux, P-M., issa Diop, S., Harrison, C., Hauser, D., Hernández-García, J., Kirbis, A., Meeks, J., Monte, I., Mutte, S. K., Neubauer, A., Quandt, D., Robison, T., Shimamura, M., Rensing, S., Villarreal J., Weijers, D., Wicke, S., Wong, G., Sakakibara, K., Szoevenyi, P. (2020) Anthoceros genomes illuminate the origin of land plants and the unique biology of hornworts. Nature Plants, 6:259-272. DOI: 10.1038/s41477-020-0618-2.
• van Dop, M.*, Fiedler, M.*, Mutte, S. K., de Keijzer, J., Olijslager, L., Albrecht, C., Liao, C-Y., Janson, M., Bienz, M., Weijers, D. (2020). DIX Domain Polymerization Drives Assembly of Plant Cell Polarity Complexes. Cell, 180(3), 427-439. DOI: 10.1016/j.cell.2020.01.011.
• Lu, K.-J.*, van't Wout Hofland, N.*, Mor, E., Mutte, S. K., Abrahams, P., Kato, H., Vandepoele, K., Weijers, D., De Rybel, B. (2020). Evolution of vascular plants through redeployment of ancient developmental regulators. Proceedings of the National Academy of Sciences (PNAS), 117(1), 733-740. DOI: 10.1073/pnas.1912470117.
• Mutte, S. K.*, Kato, H.*, Rothfels, C., Melkonian, M., Wong, G. K.-S., Weijers, D. (2018). Origin and evolution of the nuclear auxin response system. eLife, 7, e33399. DOI: 10.7554/eLife.33399.
• Frommhagen, M., Mutte, S. K., Westphal, A. H., Koetsier, M. J., Hinz, S. W. A., Visser, J., Vincken, J-P., Weijers, D., van Berkel, W. J. H., Gruppen, H., Kabel, M. A. (2017). Boosting LPMO-driven lignocellulose degradation by polyphenol oxidase-activated lignin building blocks. Biotechnology for Biofuels, 10, 121. DOI: 10.1186/s13068-017-0810-4.
• Palovaara, J.*, Saiga, S.*, Wendrich, J. R., van ‘t Wout Hofland, N., van Schayck, J. P., Hater, F., Mutte, S. K., Sjollema, J., Boekschoten, M., Hooiveld, G., Weijers, D. (2017). Transcriptome dynamics revealed by a gene expression atlas of the early Arabidopsis embryo. Nature Plants, 3(11), 894-904. DOI: 10.1038/s41477-017-0035-3.
• Dixit, S., Kumar Biswal, A., Min, A., Henry, A., Oane, R. H., Raorane, M. L., Longkumer, T., Pabuayon, I. M., Mutte, S. K., Vardarajan, A. R., Miro, B., Govindan, G., Albano-Enriquez, B., Pueffeld, M., Sreenivasulu, N., Slamet-Loedin, I., Sundarvelpandian, K., Tsai, Y-C., Raghuvanshi, S., Hsing, Y-I. C., Kumar, A., Kohli, A. (2015). Action of multiple intra-QTL genes concerted around a co-localized transcription factor underpins a large effect QTL. Scientific Reports, 5, 15183. DOI: 10.1038/srep15183.
• Raorane, M. L., Pabuayon, I. M., Varadarajan, A. R., Mutte, S. K., Kumar, A., Treumann, A., Kohli, A. (2015). Proteomic insights into the role of the large-effect QTL qDTY12.1 for rice yield under drought. Molecular Breeding, 35(6), 139. DOI: 10.1007/s11032-015-0321-6.
• Raorane, M. L., Mutte, S. K., Varadarajan, A. R., Pabuayon, I. M., Kohli, A. (2013). Protein SUMOylation and plant abiotic stress signaling: in silico case study of rice RLKs, heat-shock and Ca2+-binding proteins. Plant Cell Reports, 32(7), 1053-1065. DOI: 10.1007/s00299-013-1452-z.