Anastasia Gioti

Anastasia Gioti
Anastasia Gioti
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Personal InformationAnastasia Gioti
Research fellow
Microbial Bioinformatics

HCMR Thalassocosmos 71500 Gournes, Crete, Greece
2810337719

n.gioti@hcmr.gr

Field & DegreeBiology, PhD
SectionBiodiversity & Genetics
LocationMain Building
Secondary E-mailnatassagioti@googlemail.com
Mobile Number6978847761
ORCID iD0000-0001-8680-5974
ResearchGate IDhttps://www.researchgate.net/profile/Anastasia-Gioti
Scopus iD56015918300
Linked iNhttps://www.linkedin.com/in/anastasia-gioti-203a1474/
Scientific impact
Publication recordNo of ProjectsThesis supervision
H-index (scopus): 14Coordinator: 1PhD: 1
Articles: 16Princ. Invest.: 1MSc: 3
Citations-total: 502Project member: 10BSc: 3
Citations-nonself: 493Funding: 82,000
Education & training
Year (completed) Degree, Department, University, Town (optional), Country
2001BSc. Biology, National and Kapodistrian University of Athens, Greece
2002MSc. Evolutionary and functional Genomics, University Paris-Sud XI, France
2006PhD Biology, University Paris-Sud XI, France
2007University Diploma (D.U) Informatics in Biology, Institut Pasteur, France
Work Experience
Year (start) Position – Organization, Town (optional), Country
2008Wellcome Trust Research Fellow, University College London & European Bioinformatics Institute, U.K
2009Karl Tryggers Fellow & Researcher, Uppsala University & ScienceforLife Laboratory, Sweden
2013Visting Researcher, University California Riverside, U.S
2014Postdoctoral researcher, IMBB-FORTH & University of Crete, Greece
2017Assistant Professor & Head of Bioinformatics Unit, Perrotis College, American Farm School, Greece
Personal skills
Mother tongue(s)Greek
Other language(s)
Language Basic/Intermediate/Proficient
FrenchProficient
EnglishProficient
Computer skills Operating systems: Linux, MacOS, Windows; Programming: Python, R, bash, Subversion systems; HPC: torque, swarm, slurm
Other skills Image editing & typesetting: Adobe InDesign, Illustrator, Photoshop; Open-source learning platforms: Moodle; Laboratory methods: Advanced molecular biology and genetics, Microbiology-Plant pathology
Educational activities
Teaching experience
  1. Evolutionary processes in ecological communities (theory and computer practicals): 1st Aegean Seminar for Computational Ecology and Evolution, Ismir, Turkey, September 2018.
  2. Biology (theory and labs): BSc. Sustainable Agriculture and Food Science & Technology, Perrotis College, American Farm School Thessaloniki, spring semester 2018.
  3. Statistics (theory): BSc. Sustainable Agriculture and Food Science & Technology, Perrotis College, Amercan Farm School Thessaloniki, spring semester 2018
  4. Bioinformatics/Genomics (theory and computer practicals): MSc. New Food Product & Business Development, Perrotis College, American Farm School Thessaloniki, fall semester 2017.
  5. Methods and applications of genetic modification in fungi (theory, invited lecture in the course Modern transgenic technologies): BSc. Biology, University of Crete, spring semester 2017.
Supervision
PhD
  1. Siaperas Romanos (November 2019 -), National and Technical University of Athens: “Discovery of biocatalysts with biotechnological interest from marine fungi using -omic technologies”. Supervision of the genomics and bioinformatics part of his PhD.
MSc
  1. Mekuli Rina (February-May 2018), New Food Product & Business Development, Perrotis College, American Farm School Thessaloniki: “Metagenomic study of the fermented olive microbiota”.
  2. Mushegian Αlexandra (September 2010-August 2011), Harvard University- Uppsala University exchange: “Molecular identification and architecture of the genetic locus mat in Neurospora species”. A. Mushegian is now a postdoc fellow at Georgetown University, US.
  3. Pessia Eugénie (January-July 2009), Master International Biology M2, Ecole Normale Superieure Lyon - Uppsala University exchange: “Evolutionary strata in the mat chromosomes of Neurospora tetrasperma”. Supervised the structural annotation part and thesis writing. Dr. E. Pessia is now Innovation Consultant at Ayming, France.   

 

Practicals
  1. Kalyva Maria (June-November 2017), BSc. Biology, University of Crete: “Detection of horizontal gene transfer events in the symbiotic bacterium Erwinia dacicola”. M. Kalyva is now a PhD student at EMBL, European Bioinformatics Institute (EBI), UK.
  2. Moustaka Ioulietta (July-September 2015), MSc. Plant Molecular Biology & Biotechnology, University of Crete: “Transcriptomics of the olive fruit fly symbiont Erwinia dacicola". I. Moustaka is now a PhD student at University of Copenhagen, Danemark.
  3. Kaplanis Stefanos (October-December 2015), BSc. Biology, University of Crete: “Molecular detection & in vitro growth of the olive fruit fly symbiont Erwinia dacicola”.
Conferences-Symposia

Invited speaker

  1. Exploring a symbiosis of agronomical interest in metagenomic data: The olive fruit fly microbiome (in greek). Aristotle University, Schoool of Biology Seminars, Thessaloniki, 04 February 2019.
  2. Emerging -omic resources for the microbiome of an important pest. HCMR, Crete, 06 December 2018.
  3. Emerging -omic resources to combat Bactrocera oleaefrom its own microbiome. 1st International Olive Center Conference, American Farm School Thessaloniki, 25 May 2018.
  4. The effects of a redox cline and historical processes on bacterial community structure in Aegean marine sediments. Hellenic Bioinformatcs (H. Bio) 10thConference, IMBB-FORTH, Crete, 7 September 2017.
  5. Genome evolution in a haploid system: What can we learn on lifestyle transitions from fungi? IMBB-FORTH, Crete, 22 May 2015.
  6. Evolution of reproductive systems in fungi (in french). National Concours for Maître de Conférences, Université Paris XI Orsay, France, 10 May 2012.
  7. The basidiomycete Malassezia species complex - a genomic platform to elucidate host-fungal interactions involved in common skin disorders. Keystone Symposia Fungal pathogens: From basic biology to drug discovery, Santa Fe, New Mexico, US, 15-20 January 2012.
  8. Next-gen sequencing on selfing Neurosporas: How do these genomes evolve? Swedish Agricultural University, Uppsala, Sweden, 23 Μarch 2011.
  9. Genomic consequences of self-compatibility: comparative studies including 4 new Neurospora genomes (best oral presentation award). EMBO Conference “Comparative genomics of eukaryotic microorganisms: understanding the complexity of diversity”, Sant Feliu de Guixols, Spain, 15-20 Οctober 2011.
  10. Sex-peptide of Drosophila melanogaster: A global regulator of various processes in females. Uppsala University, Uppsala, Sweden, 11 December 2008.
  11. The sex peptide of melanogaster: Conflict in sexual selection. The Sainsbury Lab, Norwich, UK, Οctober 2008.
  12. From cinereatranscriptomics to the isolation of fungal emopamil-binding proteins. 2nd International Botrytis genome Workshop, Versailles, France, 5-7 October 2006.
  13. Fungal emopamil-binding proteins: An amplified gene family and examples from Botrytis cinerea. Bayer Crop Science, Lyon, France, January 2005.
  14. Transcriptomic study of the phytopathogenic fungus Botrytis cinerea during the infection of Arabidopsis thaliana.13th International Botrytis Symposium, Antalya,Turkey, 25-31 October 2004.

 

Conference posters

  1. Gioti, E. Pafilis, C. Christakis, P. Bravakos, K. Keklikoglou, P.Polymenakou, C. Arvanitidis & G. Kotoulas. The Elixir-GR Marine -omics pilot action and the LifeWatch-GR microCT vLab. Hellenic Bioinformatics (H.Bio) 12thConference, IMBB-FORTH Crete, 11-13 October 2019.
  2. Potirakis, S. Ninidakis, J.Lagnel, V. Quoc Ha, G. Perantinos, E. Panteri, E. Sarropoulou, T. Manousaki, C. Pavloudi, A. Gioti, Z. Haris, G.Tsamis, P. Kasapidis, C. Tsigenopoulos, G. Kotoulas, D. Sidirokastritis, E. Pafilis, C. Arvanitidis & A. Magoulas. Zorbas: the HPC cluster for biological analysis in IMBBC, HCMR. Hellenic Bioinformatics (H.Bio) 12th Conference, IMBB-FORTH Crete, 11-13 October 2019.
  3. Kalyva, F. Blow, I. Iliopoulos & A. Gioti. The olive fruit fly microbiome: Advantage or Achilles’ heel? 1st International Olive Center Conference, American Farm School, Thessaloniki, Greece 24-26 May 2018.
  4. Mekuli, E. Geci, C. Kissoudis, A. Gioti& A. Tsaftaris. Μicrobial diversity and oleuropein content in naturally fermented olives: Metagenomics to bridge the gap. 1st International Olive Center Conference, American Farm School, Thessaloniki, Greece 24-26 May 2018.
  5. Papanikolaou, A. Gioti, E. Sifaki, I. Iliopoulos & V. Petoussi. Text mining the scientific literature on research integrity and misconduct. Hellenic Bioinformatics (H.Bio) 10thConference, IMBB-FORTH, Crete, 6-9 September 2017.
  6. Gioti,B. Kalogeropoulou, I. Karakassis, E. Ladoukakis. The relative contribution of environmental parameters and historical processes in bacterial community composition in marine sediments. 8ο Panhellenic Conference in Ecology (HELECOS-8), Thessaloniki, Greece, 20-23 October 2016.
  7. Gioti, B. Nysted, W. Li, A. Andersson, J. Lundeberg, T. Boekhout, J. Heitman & A. Scheynius. The basidiomycete Malassezia species complex - a genomic platform to elucidate host-fungal interactions involved in common skin disorders. 18th Congress of the International Society for Human and Animal Mycology (ISHAM) Berlin, Germany, 11-15 June 2012.
  8. Gioti& the Malassezia Research Consortium. The basidiomycete Malassezia species complex - a genomic platform to elucidate host-fungal interactions involved in common skin disorders. Keystone Symposia Fungal pathogens: From basic biology to drug discovery, Santa Fe, New Mexico, U.S., 15-20 January 2012.
  9. Strandberg, K. Nygren,A. Gioti, M. Karlsson & H. Johannesson. Molecular evolution of pheromone receptor genes in self-fertilizing taxa of the fungal genus Neurospora. Society for Molecular Biology and Evolution (SMBE) Kyoto, Japan, 26-30 July 2011.
  10. Gioti& H. Johannesson. Exploring causes and consequences of reproductive behavior in the fungal genus Neurospora. Society for Molecular Biology and Evolution (SMBE) Lyon, France, 4-8 July 2010.
  11. Gioti, A. Mushegian, E. Pessia & H. Johannesson. Origins of self-compatibility:comparative studies including 4 new Neurospora genomes. 26th Fungal Genetics Conference, Asilomar, Pacific Grove, U.S., 15-20 March 2010.
  12. Strandberg, K. Nygren, M. Karlsson,A. Gioti & H. Johannesson. The evolution of pheromonal signal system in homothallic Neurospora. 26th Fungal Genetics Conference, Asilomar, Pacific Grove, U.S., 15-20 March 2010.
  13. Fournier, A. Gautier,A. Gioti, L. Gout, C. Lévis & M. Viaud. Molecular evolution of genes involved in the infectious process within the genus Botrytis (Ascomycota) Conférences Jacques Monod: Evolutionary Genomics, Roscoff, France, 2-6 May 2007.
  14. Gioti, JM Pradier, E. Fournier, D. Debieu & C. Levis. The emopamil-binding protein of B. cinerea: Role in pathogenicity and phylogenetic analysis. 8th European Conference on Fungal Genetics, Vienna, Austria, 8-11 April 2006.
  15. Gioti, A. Simon, M. Viaud, JM Pradier & C. Levis. Identification of novel pathogenicity genes by macroarray analysis of the Botrytis-Arabidopsis interaction. 23rd Fungal Genetics Conference, Asilomar, California, USA, 15-20 March 2005.
  16. Gioti, A. Simon, M. Viaud, J-M. Pradier & C. Levis. Identification of fungal genes over-expressed during infection of Arabidopsis by macroarray analysis. 7th European Conference on Fungal Genetics, Copenhagen, Denmark, 21 April 2004.
  17. Viaud, A. Simon, JM Pradier, Y. Brygoo, I. Lebrun, B. Faivre, C. Giraud, A. Gioti & C. Levis. A physical cluster of calcineurin-regulated genes in Botrytis cinerea. 7th European Conference on Fungal Genetics, Copenhagen, Denmark, 21 April 2004.
  18. Viaud, A. Simon, JM Pradier, Y. Brygoo, I. Lebrun, B. Faivre, C. Giraud, A. Gioti & C. Levis. Macroarrays reveal a physical cluster of co-regulated genes in Botrytis cinerea. 11th International Congress in Molecular Plant-Microbe Interactions, St Petersbourg, Russia, 18-27 July 2003.
  19. Ε. Argyrou, Ζ. Erpapazoglou, Α. Gioti, G. Dialinas & Β. Sophianopoulou. Using the fungus Αspergillus nidulansfor functional characterization and elucidation of structure-function interactions in nucleobase transporters of ascorbic acid. 23th Panhellenic Conference of the Biology Society Chios, Greece, 24-27 May 2001.

 

Participation in conferences/meetings

  1. Assemble 2021: Marine biological research at the frontier , 18-29 January 2021 (online, EMBRC-EU  & CCMAR Algarve)
  2. Biodiversity Genomics, 5-9 October 2020(online, Wellcome Sanger Institute)
  3. DEFORM Young Career Researchers Focus Group, Heraklion, Greece, 12 May 2018.
  4. Governance of Science and Research Integrity: Agencies, Researchers, Case studies. 2nd International DEFORM Workshop Heraklion-Rethymno, Greece, 6-9 September 2017.
  5. 9th Conference of the Hellenic Society for Computational Biology and Bioinformatics (HSCBB14), Agricultural University of Athens, Athens, Greece 10-12 Οctober 2014.
  6. 10th New Phytologist Symposium on Functional Genomics of Plant-Microbe Interactions, Nancy, France, 23-25 Οctober 2002.
  7. ΙV Rencontres de Phytopathologie/Mycologie, Aussois, France, 13-17 March 2002.
Services

Microbial Genomics & Bioinformatics: setup and analyses
Scientific editing & proofreading

Organization of conferences & symposia
  1. Hellenic Bioinformatics (H.Bio) 12, IMBB-FORTH, Crete, 11-13 October 2019: Chair of the Environmental Genomics session (with G. Tsiamis) and Evaluation Committee member (poster and oral awards).
  2. 1st International Olive Center Conference, American Farm School, Thessaloniki, 24-26 May 2018: Scientific Committee member and Coordinator of the panel “Genetic improvement-Cultivars-Traceability (with C. Kissoudis).
Scientific reviewing
  1. Reviewer, since 2008, for the journals:
  • Molecular Biology and Evolution
  • Molecular Plant-Microbe Interactions
  • Genome Biology and Evolution
  • PLoS One
  • Journal of Fungi
  • G3 (Genes,Genomes, Genetics)
  • Ιnsects
  • Microbes
  • Biotechnology for Biofuels
  • Annals of the Entomological Society of America
  • Molecular Ecology
  • Scientific Reports

2. Member of scientific evaluation committee in the conferences H.Bio 2019 and International Conference of the Olive Center, American Farm School 2018

Membership of scientific societies
  • Board of Directors: Hellenic Bioinformatics Society (Η.Bio), 2019-2022.
  • Member: ISME (2024-2026), Mikrobiokosmos (2021-2023).
Awards & distinctions

 

  • National Concours for teaching-research positions (“Evolution”), University of Patras, Biology Dept., 2021: Classified second.
    National Concours for teaching-research positions (“Maître de Conférences”), Université Paris XI, France, 2012: Classified third.
  • EMBO conference ‘Comparative genomics of microorganisms’, Sant Feliu, Spain, 2011: Best oral presentation.
  • Public PhD thesis defence, Université Paris XI, France, nov. 2006: “Excellent” with honours, received the scientific committee’s congratulations.
  • INRA-SPE, France, 2005: 1-year pre-doctoral grant (salary) for Excellent Foreign Scientists.
  • French Ministry of Research and Technology (Université Paris XI Concours), France, 2002: 3-year pre-doctoral grant (salary and part of consumables)
  • Competitive Entrance National Examination, Greece, 1996: First position in  the Department of Biology - University of Athens.
Publications outside HCMR

*corresponding author # equal contribution

  1. Blow, Gioti A.*, Goodhead B., Kalyva M., Kampouraki A., Vontas J. & Darby A.C.* 2020. Functional genomics of a symbiotic community: shared traits in the olive fruit fly gut microbiota. Genome Biology and Evolution 12 (2), 3778-3791.
  2. Pavlidi N.#, Gioti A.#, Wybouw N., Dermauw W., Ben-Yosef M., Yuval B., Jurkevich E., Kampouraki A., Van Leeuwen T. & Vontas J. 2017. Transcriptomic responses of the olive fruit fly Bactrocera oleae and its symbiont Candidatus Erwinia dacicola to olive feeding. Scientific Reports 7: 42633.
  3. Blow F., Gioti A., Starns D., Ben-Yosef M., Pasternak Z., Jurkevich E., Vontas J.& Darby A.C. 2016. Draft genome sequence of the Bactrocera oleae symbiont Candidatus Erwinia dacicola. ASM
    Genome Announcements 4 (5): e00896-16.
  4. Gioti A.*,Stajich J.E. & Johannesson, H. 2013. Neurospora and the dead-end hypothesis: Genomic consequences of selfing in the model genus. Evolution, 67 (12): 3600-3616.
  5. Samils N., Gioti A.,Karlsson M., Sun, Y., Takao K., Bastians E., Zheng W., Ning, L., Townsend J. & Johannesson, H. 2013. Sex-linked transcriptional divergence in the hermaphrodite fungus Neurospora tetrasperma. Proceedings of the Royal Academy B: Biological Sciences, 280 (1764):
  6. Gioti A., Nystedt B., Li W., Xu J., Andersson A., Averette A.F., Karin M., Kingsbury, J., Xuying W., Stajich J.E. et al. 2013.  Genomic insights into the atopic eczema-associated skin commensal yeast Malassezia sympodialis. mBio.4(1): e00572-12.
  7. Gioti A.#,Wigby S.#, Wertheim B., Schuster E., Pennington C.J., Martinez P., Partridge L. & Chapman T. 2012. Sex peptide of Drosophila melanogaster males is a global regulator of reproductive processes in females. Proceedings of the Royal Academy B: Biological Sciences, 279: 4423-4432.
  8. Nygren, K., Strandberg R., Gioti A., Karlsson M. & Johannesson H. 2012. Deciphering the relationship between mating system and pheromone receptor gene evolution. Molecular Biology and Evolution, 29 (12): 3827-3842.
  9. Gioti A.*, Mushegian A.A, Strandberg R., Stajich J. E. & Johannesson H. 2012. Unidirectional evolutionary transitions in fungal mating systems and the role of transposable elements. Molecular Biology and Evolution, 29: 3215-3226.
  10. Gioti A.*, Pradier J.M., Fournier E., Le Pêcheur P., Giraud C., Debieu D. et al. 2008. An emopamil binding protein from the grey mould fungus Botrytis cinerea is involved in pathogenicity and belongs to a protein family, which has expanded in euascomycetes. Eukaryotic Cell 7: 368-378.
  11. Gioti A.*, Simon A., Le Pêcheur P., Giraud C., Pradier J.M., Viaud M.& Levis C. 2006. Expression profiling of Botrytis cinerea genes identifies three patterns of up-regulation in planta and an FKBP12 protein affecting pathogenicity. Journal of Molecular Biology, 358: 372-386.
  12. Fillinger S., Amselem J., Artiguenave F., Billault A., Choquer M., Couloux A., Cuomo C., Dickman M., Fournier E., Gioti A. et al., 2006. The genome projects of the plant pathogenic fungi  Botrytis cinerea and  Sclerotinia sclerotiorum. In: Macromolecules of Grape and Wines. P. Jeandet, C. Clément (eds); Lavoisier, London, Paris, New York (book chapter).
  13. Viaud M., Legeai F., Pradier J.M., Brygoo Y., Bitton F., Halary S., Weissenbach J., Brunet-Simon A., Duclert A., Fillinger S., Fortini D., Gioti A. et al., 2005. Expressed sequence tags from the phytopathogenic fungus Botrytis cinerea. European Journal of Plant Pathology, 111: 139-146.

 

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