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| EDUCATION, ACADEMIC AND PROFESSIONAL EXPERIENCE
EDUCATION 2004 Bachelor degree Biological Sciences, Pontificia Universidad Católica de Chile. 2009 Doctor Biological Sciences, University of Cambridge 2013 Postdoc Department of Plant Science, University of Cambridge, Jim Haseloff group 2017 Visiting Research Fellow Department of Plant Science, University of Cambridge, Jim Haseloff group APPOINTMENTS 2015-present Assistant professor at PUC, Chile 2013-2015 Adjunct professor at PUC, Chile 2010-2013 Research associate at University of Cambridge (UK) 2004 Research associate at Laboratory of molecular Genetics, Universidad Nacional Autónoma de México.
PROFESSIONAL ACTIVITIES 2022-present Member of PLoS board of directors 2022-present Member of IBSP-UNESCO board 2017-present Review editor, Journal of Open Hardware 2017-present International OpenPlant fellow, University of Cambridge (UK) 2015-2017 Visiting Research Fellow at University of Cambridge (UK) 2014- present Review editor, Frontiers in Plant Science.
PHD SUPERVISION Current Severine Cazaux Current Paola Laurrari Current Tamara Matute Current Isaac Nuñez Current Susan Hitschfeld 2022 Kevin Simpson 2021 Anibal Arce 2022 Ariel Cerda
UNDERGRADUATE 2021 Macarena Muñoz 2016 Tamara Matute (PUC Engineering – PhD program) 2016 Isaac Nuñez (PUC Engineering – PhD program) 2016 Ilenne Del Valle (Rice – PhD program) HONORS AND AWARDS (selected) 2022 PRED Teaching award PUC 2018 PLOS Open Source Toolkit Award por proyecto Open Hardware del año 2018 Nikon Small World in Motion Microscopy video Award 2016 Wellcome Trust Image Award 2014 Olympus Bioscapes Image Honorable Award 2014 Olympus Bioscapes Honorable Image Award 2013 Nikon Small World Image of distinction Award 2012 Nikon Small World Image of distinction Award 2012 Wellcome Trust Image Award 2011 Wellcome Trust Image Award 2011 Olympus Bioscapes Honorable Image Award 2010 Olympus Bioscapes Honorable Image Award 2009 Olympus Bioscapes Honorable Image Award 2008 St Edmund’s College Tutorial Award 2007 St Edmund’s Commonwealth and Overseas Studentship Award 2005 Gates Cambridge PhD Scholarship – Bill and Melinda Gates Foundation 2005 European Union Alban PhD Scholarship 2005 ORS “Overseas Research Student” scholarship 2004 Distinguished Latin-American student – Becas LIDER award 2003 Matrícula de Honor UC 2002 Beca Juan Pablo II BOOK CHAPTERS Benjamin D. and Federici F. (2013) “Bioprocessing. in “Bio Design: Nature + Science + Creativity” by Myers W. and Antonelli P.MoMA-NY. Museum of Modern Art, New York editorial. US. Benjamin D. and Federici F. (2014) “Biologic”. in “Synthetic Aesthetics” by Endy D. Ginsberg D. and Elfick A. MIT press. US.
INTELLECTUAL PROPERTY (Patents) 2014 Canadian Patent CA2615249C, US Patent US7994397B2. Chinese Patent CN101275139B., Method to produce sterile male flowers and partenocarpic fruits by genetic silencing, associated sequences and vectors containing said sequences.
GRANTS as PI 2021-2024 Fondecyt Regular 1211218 2021-2022 ANID-CONCYTEC covbio0012 2020-2023 ICGEB CRP/CHL19-01 2019-2023 CYTED P618RT0233 2017-2018 Gordon and Betty Moore Foundation MMI Grant #4981.01 2014-2017 FONDECYT Iniciacion 11140776 2015-2016 Office of Naval Research (ONR) N62909-16-12106 2016-2017 OpenPlant Fund 2016/17 2015-2016 OpenPlant Fund 2015/16 2013-2015 PAI CONICYT 82130027 grant. “Synthetic Biology in plants and microbes” 2011 Synthetic Aesthetics, EPSRC and NSF 2009 Chile Projects Cambridge 2008 Chile Projects Cambridge
GRANTS as co-PI 2021 IDRC Canada 2019 Gordon and Betty Moore Foundation Grant #5007.02 MMI Experimental Model Systems 2019 SRI-Biomaker grant (UK) 2016 – 2018 FONDAP CRG 2016 – 2018 ICM – Millennium Nucleus in Plant Systems and Synthetic Biology. Young Researcher. 2014 – 2015 Chile-Harvard University DRCLAS grant 2015 – 2016 International networking Between Research Centres (Newton Funds UK) 2015 – 2016 Gordon and Betty and Moore Foundation EMS
OUTREACH ACTIVITIES Since the beginning of is graduate studies, Fernan has worked intensively on outreach events and science engagement activities. His work has been exhibited on Palacio La Moneda Chile (2014) (solo exhibition of microscopy still images and laser projection of images on Palacio La Moneda), Victoria and Albert Hall Museum – London (2014), Centro Cultural Le Parc – Argentina (2015), Museo del Hongo – Casa del artista -Chile (2016), Cambridge University 800th anniversary laser-projected show “Transforming Tomorrow” (www.800.cam.ac.uk/events/18/), Wellcome Trust gallery – London (2011, 2012, 2013, 2016), ArtCell exhibition gallery – Cambridge Research Institute, UK (2011), Science exhibition Royal Photography Society – UK (2013), Koch institute MIT – US (2012, 2013), Designers Open – Germany (2013) and British Science Museum – London (2016). His images have been used for iTunes U, Cambridge University, Conicyt Explora booklefts, “Bacterium” music album, Adeptsound Label – Australia (2013), “Trancemission” music album – Chile (2015) and “Molecular Affinity” music album, by Pauline Oliveros, Thollem McDonas and Nels Cline – US (2016). His projects have been featured on BBC TV news, BBC web 2011 and 2016. BBC Focus Magazine. NewScientist Magazine (issue 2801, 2011), Wired Magazine (2013), Popular Mechanics Magazine (2012), NewScientist Magazine (issue 2013) and (2014 issue 2966), Scientific American website, The Guardian (2012), The Scientist (2013), Gizmodo, Huffinsgton Post, Revista Que pasa, Nature News, Discovery online, National Geographic webpage (2016), NIU Espacio Artistico Contemporaneo (Barcelona, Spain, 2010), Image of the week Howard Hughes Medical Institute (2015), Default magazine (issue 11), Zine magazine (2010), i-ref magazine (Istanbul, 2011) and Capitel Magazine (Mexico, 2016). His project has been featured on the cover of EMBO, FEBS letters and ACS Synthetic Biology. In addition, Fernan has organized a series of hands-on workshops in high schools in Puerto Natales, Valdivia and Santiago. He has also organized outreach activities in Barrio Yungay. (https://federicilab.org/press/ for links) FORMAL COLLABORATION NETWORKS Fernán has active collaborations with Jim Haseloff (University of Cambridge), Gudrun Kausel (Universidad Austral de Chile, Valdivia), Juan Keymer (Pontificia Universidad Católica de Chile), Backyard Brains (Chile), Neil Dalchau (Biological Computing Group – Microsoft Research Cambridge), Rodrigo Gutiérrez (Pontificia Universidad Católica de Chile), Drew Endy (Stanford University), Phil Ross (Stanford University), Francisco Chateau (Pontificia Universidad Católica de Chile), Tim Rudge (Pontificia Universidad Católica de Chile). Nicola Patron (Earlham Institute, UK), Alejandro Nadra e Ignacio Sanchez (Universidad de Buenos Aires, Argentina).
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PUBLICATIONS
- Guzman-Chavez, F., Arce, A., Adhikari, A., Vadhin, S., Pedroza-Garcia, J.A., Gandini, C., Ajioka, J.W., Molloy, J., Sanchez-Nieto, S., Varner, J.D., Federici, F., Haseloff, J., 2022. Constructing Cell-Free Expression Systems for Low-Cost Access. ACS Synth Biol 11, 1114–1128. https://doi.org/10.1021/acssynbio.1c00342
- Arce, A., Guzman Chavez, F., Gandini, C., Puig, J., Matute, T., Haseloff, J., Dalchau, N., Molloy, J., Pardee, K., Federici, F., 2021. Decentralizing Cell-Free RNA Sensing With the Use of Low-Cost Cell Extracts. Front Bioeng Biotechnol 9, 727584. https://doi.org/10.3389/fbioe.2021.727584
- Bekta?, A., Covington, M.F., Aidelberg, G., Arce, A., Matute, T., Núñez, I., Walsh, J., Boutboul, D., Delaugerre, C., Lindner, A.B., Federici, F., Jayaprakash, A.D., 2021. Accessible LAMP-Enabled Rapid Test (ALERT) for Detecting SARS-CoV-2. Viruses 13. https://doi.org/10.3390/v13050742
- Cerda, A., Rivera, M., Armijo, G., Ibarra-Henriquez, C., Reyes, J., Blázquez-Sánchez, P., Avilés, J., Arce, A., Seguel, A., Brown, A.J., Vásquez, Y., Cortez-San Martín, M., Cubillos, F., García, P., Ferres, M., Ramírez-Sarmiento, C.A., Federici, F., Gutiérrez, R.A., 2021. A One-Step open RT-qPCR for SARS-CoV-2 detection. medRxiv 2021.11.29.21267000. https://doi.org/10.1101/2021.11.29.21267000
- Matute, T., Nuñez, I., Rivera, M., Reyes, J., Blázquez-Sánchez, P., Arce, A., Brown, A.J., Gandini, C., Molloy, J., Ramírez-Sarmiento, C.A., Federici, F., 2021a. Homebrew reagents for low-cost RT-LAMP. J Biomol Tech 32, 114–120. https://doi.org/10.7171/jbt.21-3203-006
- Matute, T., Nuñez, I., Rivera, M., Reyes, J., Blázquez-Sánchez, P., Arce, A., Brown, A.J., Gandini, C., Molloy, J., Ramirez-Sarmiento, C.A., Federici, F., 2021b. Homebrew reagents for low cost RT-LAMP. medRxiv 2021.05.08.21256891. https://doi.org/10.1101/2021.05.08.21256891
- Moore, K.J.M., Cahill, J., Aidelberg, G., Aronoff, R., Bekta?, A., Bezdan, D., Butler, D.J., Chittur, S.V., Codyre, M., Federici, F., Tanner, N.A., Tighe, S.W., True, R., Ware, S.B., Wyllie, A.L., Afshin, E.E., Bendesky, A., Chang, C.B., Dela Rosa, R. 2nd, Elhaik, E., Erickson, D., Goldsborough, A.S., Grills, G., Hadasch, K., Hayden, A., Her, S.-Y., Karl, J.A., Kim, C.H., Kriegel, A.J., Kunstman, T., Landau, Z., Land, K., Langhorst, B.W., Lindner, A.B., Mayer, B.E., McLaughlin, L.A., McLaughlin, M.T., Molloy, J., Mozsary, C., Nadler, J.L., D’Silva, M., Ng, D., O’Connor, D.H., Ongerth, J.E., Osuolale, O., Pinharanda, A., Plenker, D., Ranjan, R., Rosbash, M., Rotem, A., Segarra, J., Schürer, S., Sherrill-Mix, S., Solo-Gabriele, H., To, S., Vogt, M.C., Yu, A.D., Mason, C.E., 2021. Loop-Mediated Isothermal Amplification Detection of SARS-CoV-2 and Myriad Other Applications. J Biomol Tech 32, 228–275. https://doi.org/10.7171/jbt.21-3203-017
- Yáñez Feliú, G., Earle Gómez, B., Codoceo Berrocal, V., Muñoz Silva, M., Nuñez, I.N., Matute, T.F., Arce Medina, A., Vidal, G., Vidal Céspedes, C., Dahlin, J., Federici, F., Rudge, T.J., 2021. Flapjack: Data Management and Analysis for Genetic Circuit Characterization. ACS Synth Biol 10, 183–191. https://doi.org/10.1021/acssynbio.0c00554
- Faktorová, D., Nisbet, R.E.R., Fernández Robledo, J.A., Casacuberta, E., Sudek, L., Allen, A.E., Ares, M.J., Aresté, C., Balestreri, C., Barbrook, A.C., Beardslee, P., Bender, S., Booth, D.S., Bouget, F.-Y., Bowler, C., Breglia, S.A., Brownlee, C., Burger, G., Cerutti, H., Cesaroni, R., Chiurillo, M.A., Clemente, T., Coles, D.B., Collier, J.L., Cooney, E.C., Coyne, K., Docampo, R., Dupont, C.L., Edgcomb, V., Einarsson, E., Elustondo, P.A., Federici, F., Freire-Beneitez, V., Freyria, N.J., Fukuda, K., García, P.A., Girguis, P.R., Gomaa, F., Gornik, S.G., Guo, J., Hampl, V., Hanawa, Y., Haro-Contreras, E.R., Hehenberger, E., Highfield, A., Hirakawa, Y., Hopes, A., Howe, C.J., Hu, I., Ibañez, J., Irwin, N.A.T., Ishii, Y., Janowicz, N.E., Jones, A.C., Kachale, A., Fujimura-Kamada, K., Kaur, B., Kaye, J.Z., Kazana, E., Keeling, P.J., King, N., Klobutcher, L.A., Lander, N., Lassadi, I., Li, Z., Lin, S., Lozano, J.-C., Luan, F., Maruyama, S., Matute, T., Miceli, C., Minagawa, J., Moosburner, M., Najle, S.R., Nanjappa, D., Nimmo, I.C., Noble, L., Novák Vanclová, A.M.G., Nowacki, M., Nuñez, I., Pain, A., Piersanti, A., Pucciarelli, S., Pyrih, J., Rest, J.S., Rius, M., Robertson, D., Ruaud, A., Ruiz-Trillo, I., Sigg, M.A., Silver, P.A., Slamovits, C.H., Jason Smith, G., Sprecher, B.N., Stern, R., Swart, E.C., Tsaousis, A.D., Tsypin, L., Turkewitz, A., Turnšek, J., Valach, M., Vergé, V., von Dassow, P., von der Haar, T., Waller, R.F., Wang, L., Wen, X., Wheeler, G., Woods, A., Zhang, H., Mock, T., Worden, A.Z., Lukeš, J., 2020. Genetic tool development in marine protists: emerging model organisms for experimental cell biology. Nat Methods 17, 481–494. https://doi.org/10.1038/s41592-020-0796-x
- Pollak, B., Matute, T., Nuñez, I., Cerda, A., Lopez, C., Vargas, V., Kan, A., Bielinski, V., von Dassow, P., Dupont, C.L., Federici, F., 2020. Universal loop assembly: open, efficient and cross-kingdom DNA fabrication. Synth Biol (Oxf) 5, ysaa001. https://doi.org/10.1093/synbio/ysaa001
- Pollak, B., Cerda, A., Delmans, M., Álamos, S., Moyano, T., West, A., Gutiérrez, R.A., Patron, N.J., Federici, F., Haseloff, J., 2019. Loop assembly: a simple and open system for recursive fabrication of DNA circuits. New Phytol 222, 628–640.https://doi.org/10.1111/nph.15625
- Kan, A., Del Valle, I., Rudge, T., Federici, F., Haseloff, J., 2018. Intercellular adhesion promotes clonal mixing in growing bacterial populations. J R Soc Interface 15. https://doi.org/10.1098/rsif.2018.0406
- Zúñiga, A., Fuente, F. de la, Federici, F., Lionne, C., Bônnet, J., de Lorenzo, V., González, B., 2018. An Engineered Device for Indoleacetic Acid Production under Quorum Sensing Signals Enables Cupriavidus pinatubonensis JMP134 To Stimulate Plant Growth. ACS Synth Biol 7, 1519–1527. https://doi.org/10.1021/acssynbio.8b00002
- Nuñez, I., Matute, T., Herrera, R., Keymer, J., Marzullo, T., Rudge, T., Federici, F., 2017. Low cost and open source multi-fluorescence imaging system for teaching and research in biology and bioengineering. PLoS One 12, e0187163. https://doi.org/10.1371/journal.pone.0187163
- Nuñez, I.N., Matute, T.F., Del Valle, I.D., Kan, A., Choksi, A., Endy, D., Haseloff, J., Rudge, T.J., Federici, F., 2017. Artificial Symmetry-Breaking for Morphogenetic Engineering Bacterial Colonies. ACS Synth Biol 6, 256–265. https://doi.org/10.1021/acssynbio.6b00149
- Grant, P.K., Dalchau, N., Brown, J.R., Federici, F., Rudge, T.J., Yordanov, B., Patange, O., Phillips, A., Haseloff, J., 2016. Orthogonal intercellular signaling for programmed spatial behavior. Mol Syst Biol 12, 849. https://doi.org/10.15252/msb.20156590
- Rudge, T.J., Brown, J.R., Federici, F., Dalchau, N., Phillips, A., Ajioka, J.W., Haseloff, J., 2016. Characterization of Intrinsic Properties of Promoters. ACS Synth Biol 5, 89–98. https://doi.org/10.1021/acssynbio.5b00116
- Ron, M., Kajala, K., Pauluzzi, G., Wang, D., Reynoso, M.A., Zumstein, K., Garcha, J., Winte, S., Masson, H., Inagaki, S., Federici, F., Sinha, N., Deal, R.B., Bailey-Serres, J., Brady, S.M., 2014. Hairy root transformation using Agrobacterium rhizogenes as a tool for exploring cell type-specific gene expression and function using tomato as a model. Plant Physiol 166, 455–469. https://doi.org/10.1104/pp.114.239392
- Federici, F., Rudge, T.J., Pollak, B., Haseloff, J., Gutiérrez, R.A., 2013. Synthetic Biology: opportunities for Chilean bioindustry and education. Biol Res 46, 383–393. https://doi.org/10.4067/S0716-97602013000400010
- Rudge, T.J., Federici, F., Steiner, P.J., Kan, A., Haseloff, J., 2013. Cell polarity-driven instability generates self-organized, fractal patterning of cell layers. ACS Synth Biol 2, 705–714. https://doi.org/10.1021/sb400030p
- Aquea, F., Federici, F., Moscoso, C., Vega, A., Jullian, P., Haseloff, J., Arce-Johnson, P., 2012. A molecular framework for the inhibition of Arabidopsis root growth in response to boron toxicity. Plant Cell Environ 35, 719–734. https://doi.org/10.1111/j.1365-3040.2011.02446.x
- Federici, F., Dupuy, L., Laplaze, L., Heisler, M., Haseloff, J., 2012. Integrated genetic and computation methods for in planta cytometry. Nat Methods 9, 483–485. https://doi.org/10.1038/nmeth.1940
- Maizel, A., von Wangenheim, D., Federici, F., Haseloff, J., Stelzer, E.H.K., 2011. High-resolution live imaging of plant growth in near physiological bright conditions using light sheet fluorescence microscopy. Plant J 68, 377–385. https://doi.org/10.1111/j.1365-313X.2011.04692.x
- Ubeda-Tomás, S., Federici, F., Casimiro, I., Beemster, G.T.S., Bhalerao, R., Swarup, R., Doerner, P., Haseloff, J., Bennett, M.J., 2009. Gibberellin signaling in the endodermis controls Arabidopsis root meristem size. Curr Biol 19, 1194–1199. https://doi.org/10.1016/j.cub.2009.06.023
- Poupin, M.J., Federici, F., Medina, C., Matus, J.T., Timmermann, T., Arce-Johnson, P., 2007. Isolation of the three grape sub-lineages of B-class MADS-box TM6, PISTILLATA and APETALA3 genes which are differentially expressed during flower and fruit development. Gene 404, 10–24. https://doi.org/10.1016/j.gene.2007.08.005
