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PLANT & ENVIRONMENTAL BIOTECHNOLOGY

icon fileFor more information  visit the website: http://plantenvlab.bio.uth.gr/

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         Selections
1. Brief Description 6. Thesis
2. Research Interests 7 Research Equipment & Infrastructure
3. Personnel 8 Services
4. Funded Research Projects 9 Photos
5. Publications 10
 Useful Links
    11 Contact
       

 

1. Brief Description:

The Laboratory of Plant and Environmental Biotechnology was funded in 2015 (ΦΕΚ 511/3.4.2015). The research of the laboratory focuses on the study of interactions between plants - microorganisms and the environment and the biotechnological applications of plants and microorganisms in (a) sustainable production processes, (b) production of bioactive molecules and (c) environmental protection.  The group has access to a fully equipped laboratory in the 1st floor of the building of the Department of Biochemistry and Biotechnology, two rooms for the growth of plants and the processing of soils and other lab rooms with the relevant instrumentation

2. Research Interests:

  • Plant Biotechnology: Plant secondary metabolism, with emphasis on the biosynthesis and functional role of triterpenes; Manipulation of synthesis in legume model and crop plants; genomic modification Expression in heterologous systems; Effect of triterpenes on plant physiology and defense; biological activity assays of crude extracts and purified molecules
  • Plant Microbe – Interactions: Molecular plant-microbe interactions with emphasis on endophytic fungi, symbiotic relationships; Tri-partite interactions Multi-trophic interactions; Phytopathogenic fungi; Biostimulants, Ecology and function of arbuscular mycorrhizal fungi, Plant – Fungal (Pathogenic and antagonistic soil-borne fungi) and Plant-Bacterial (Rhizospheric bacteria/ Legume-rhizobia symbiosis) interactions, study of the plant microbiome and its exploitation for the promotion of plant growth and the production of high quality agro-food products
  • Environmental Microbiology: Microbial degradation of pesticides, anthelminthics and veterinary antibiotics in soil, isolation of relevant degrading microbes, characterization of their hydrolytic genes/enzymes using omic approaches (genomic, transcriptomic, proteomic), identification of novel enzymes with biotechnological interest through functional metagenomics, biological treatment of agro-industrial effluents using microbial inocula and biobed systems
  • Microbial Ecology: Effects of crop protection and agronomic practices on the structure and function of the microbial community, evaluation of the toxicity of pesticides and veterinary medicines (antibiotics and anthelmintics) on the function and diversity of soil microorganisms, synthetic microbial ecology and applications in environmental clean up
  • Biological functions of plant metabolites: emphasis is given on the molecular mechanisms of anticancer effects

Molecular Diagnosis: in a variety of tissues, including human, animal, and plant organisms and environmental samples.

3. Personnel:

Research Leaders

  • Prof. Environmental Microbiology and Biotechnology Dimitrios Karpouzas
  • Associate Prof. Plant Biotechnology Kalliope Papadopoulou
  • Assistant Prof. Biochemical Pharmacology Kalliope Liadaki
  • Assistant Prof. Molecular and Developmental Biology of Plants Daniela Tsikou

Postdocs

  • Dr Kostantinos Garagounis – Plant Biotechnology
  • Dr Sotirios Vasiliadis  – Molecular Microbial Ecology, Bioinformatics
  • Dr Evangelia PapadopoulouEnvironmental Microbiology
  • Dr Chiara Perruchon – Environmental Microbiology and Biotechnology
  • Dr Panagiotis KarasEnvironmental Microbiology
  • Dr Fotis Bekris – Environmental Microbiology, Plant Microbiome
  • Dr Myrsini Kakagianni – Plant Microbe Interactions
  • Dr Eleni Ntantami – Plant Biotechnology
  • Dr Athanassio Dalakouras – Plant Biotechnology

PhD Students

 

  • Konstantina Rousidou
  • Athanasia Katsoula
  • Christina Papazlatani
  • Mariana Avramidou
  • Stathis Lagos
  • Maria Feka
  • Eleni Papadopoulou
  • Eleni Katsivelou
  • Eleni Labronikou

     

4. Research Projects-Funding:

An indicative list of research projects of the laboratory funded during the period 2010-2019

  1. SEE.ERA-NETplus, Development and implementation of innovative tools to estimate the ecotoxicological impact of low dose pesticide application in agriculture on soil functional microbial diversity (ECOFUN-MICROBIODIV). Funding: European Commission, Duration: 1/11/2010-30/9/2012, Coordinator: D. Karpouzas
  2. Research Projects THALIS, Contribution of Mycorrhizae to the sustainability of marginal Mediterranean ecosystems – development of mycorrhizal inocula (SALTY-MYC). Funding: GSRT, Greece, Duration: 1/2/2012 – 31/6/2015, Partner: D. Karpouzas and K. Papadopoulou
  3. Research Project THALIS, Mechanisms of signal transduction and gene expression in the liver cancer. Φορέας Funding: GSRT, Greece, Duration: 2011 – 2014. Partner: K. Liadaki,
  4. Industry-Academia Partnership Project (IAPP) Marie Curie project, Pesticides – Felicity or curse for the soil microbes (LOVE-TO-HATE). Funding: European Commission – FP7, Duration: 2013 – 2016, Coordinator: D. KarpouzasWebsite: http://lovetohate.bio.uth.gr
  5. Call for the Support of New and Small-Medium Enterprises, Isolation of indigenous arbuscular mycorrhizal fungi and development of mycorrhizal inocula for rhizosphere, inoculation and the development of new soil amendments. Funding: GSRT, GR. Duration: 1/1/2013-31/12/2015, Partner: K. Papadopoulou.
  6. EXCELLENCE ΙΙ Call, The microbial detoxification of pesticides from the fruit-packaging industry: using omics in bioremediation (BIOREMEDIATOMICS). Funding GSRT, Greece, Duration: 1/2/2014-31/7/2015, Coordinator: D. Karpouzas Website: http://bioremediatomics.bio.uth.gr
  7. Project Call HRAKLEITOS, Genome organization and functional analysis of biosynthetic genes and metabolic diversity of triterpenoids in legumes, Funding: Ministry of Education, Duration: 2010-2013, Coordinator: Κ. Papadopoulou
  8. FP7 European Projects KBBE, Triterpenoid For Commercialization, A pipeline for the discovery, sustainable production and commercial utilization of known and novel high-value triterpenes with new or superior biological activities (TRIFORC) Duration: 1/1/2014 - 31/12/2017, Partner: K. Papadopoulou
  9. Call RESEARCH-CREATE-INNOVATE Development of a new and innovative biological system for the treatment of wastewater with high pesticide load produced by agro-food industries (MINOTAUR). Funding: EYDE-ETAK, Greece, Duration 2018-2021, Partner: D. Karpouzas
  10. Emblematic Action, The Routes of Vineyards, Duration 2018-2020, Funding: Ministry of Research and Technology. Partner: D. Karpouzas & K. Papadopoulou
  11. Call ELIDEK for Postdoc Fellows, Looking up for novel nitrification inhibitors: New stories with old compounds. Funding: ELIDEK, Duration: 2018-2020, Coordinator: Dr E. Papadopoulou (advisor D. Karpouzas), Website: http://nitric.bio.uth.gr
  12. Action for the Support of Plans for Research, Development and Innovation in the Agro-Food Sector, Priority of RIS3, The role of microbial terroir in the production of high quality wine from local vine varieties (MICROBE-TERROIR). Funding: Region of Western Greece, Duration 2019-2021, Partner: D. Karpouzas
  13. MSCA-IF-H2020, Exploring microbial networking in pesticides biodegradation: novel inocula and biocatalysts for biodepuration of agro-industrial effluents (EMIGRATE). Funding: European Commission-H2020, Duration 7/2017-7/2019, Fellow: Dr S. Vasileiadis, Coordinator: D. Karpouzas, Website: http://emigrate.bio.uth.gr
  14. Call for the Support of Small Research Groups and Young Researchers Environmental fate and interactions of veterinary antibiotics ceftiofur and tiamulin with the soil microbial community: resistance, biodegradation or ecotoxicity? Funding: Ministry of Education, Duration 2019-2020, Coordinator: D. Karpouzas
  15. Action «SUPPORT OF RESEARCH AND INNOVATION INFRASTRUCTURES » Synthetic Biology: From omic technologies to genomic engineering (OMIC-Engine), Funding: Ministry of Development, Finance and Tourism, Duration 2017-2019, Partners: K. Papadopoulou and D. Karpouzas, Website: http://omic-engine.com
  16. Action RESEARCH-CREATE-INNOVATE Development and use of mixed microbial inocula in the Peloponnese for the production of horticultural crops, propagation material, hydroponics and advanced growth substrates. Duration 2018-2020, Partner: Κ. Papadopoulou & D. Karpouzas
  17. Emblematic Action The Routes of Olive, Funding: Ministry of Research and Technology. Duration 2018-2020, Partner: K. Papadopoulou & K. Papadopoulou
  18. PRIMA, Section II Innovative tools to combat crop pests in the Mediterranean (INTOMED), Funding: GSRT-GR, Duration 2019-2022, Coordinator: K. Papadopoulou
  19. MSCA-IF-H2020 RNA prays as a tool for crop improvement and protection (RNASTIP), Funding: European Commission-H2020, Duration: 2018-2020, Fellow: Dr A. Dalakouras, Coordinator: K. Papadopoulou, Website: http://rnastip.bio.uth.gr

 

5. Publicatios:

We present 10 indicative publications in each of the thematic research areas within the research focus of the laboratory 

Plant Biotechnology – Secondary metabolism of plants

  1. Delis C, Krokida A, Georgiou S, Peña-Rodríguez LM, Kavroulakis N, Ioannou E, Roussis V, Osbourn AE, Papadopoulou KK (2010) Role of lupeol synthase in Lotus japonicus nodule formation, New Phytologist 189:335-346
  2. Osbourn AE,Papadopoulou K, Qi X, Field B, Wegel E. (2012) Finding and analysing plant secondary metabolic gene clusters Methods in Enzymology 517: 113-138
  3.   Krokida A, Delis C, Geisler K, Garagkounis C, Tsikou D, Peña-Rodríguez LM, Field B, Osbourn AE, Papadopoulou KK (2013) A metabolic gene cluster in Lotus japonicus discloses novel enzyme functions and products in triterpene biosynthesis New Phytologist 200: 675-690
  4. Mosses T, Papadopoulou KK, Osbourn AE (2014) Metabolic and functional diversity of saponins, biosynthetic intermediates and semi-synthetic derivatives. Critical Reviews in Biochemistry and Molecular Biology DOI: 10.3109/10409238.2014. 953628
  5. Georgatza  D,  Gorgogietas  VA,  Kylindri  P,  Charalambous  MCh, Papadopoulou  KK,  Hayes JM, Psarra AMG.  (2016) The triterpene echinocystic acid and its 3-O-glucoside derivative are revealed as potent and selective glucocorticoid receptor  agonists.  The  International Journal of Biochemistry & Cell Biology 79:277–287
  6. Delis  C,  Krokida  A,  Tomatsidou  A,  Tsikou  D,  Beta  RAA,  Tsioumpekou  M,  Moustaka  J, Stravodimos  G,  Leonidas  DD,  Balatsos  NAA, Papadopoulou  KK* (2016)  AtHESPERIN:  a novel  regulator  of  circadian  rhythms  with  poly(A)-degrading  activity  in  plants.  RNA Biology, 13:1, 68-89
  7. Katsarou D, Omirou M, Liadaki K, Tsikou D, Delis C, Garagounis C, Krokida A, Zambounis A, Papadopoulou  KK (2016)  Glucosinolate  biosynthesis  in Eruca sativa. Plant Physiology and Biochemistry, http://dx.doi.org/10.1016/j.plaphy.2016. 10.024
  8. Castella  C,  Mirtziou  I,  Seassau  A,  Boscari  A,  Montrichard  F, Papadopoulou  K,  Rouhier  N, Puppo  A,  Brouquisse  R  (2017)  Post-translational  modifications  of Medicago  truncatula glutathione peroxidase 1 induced by nitric oxide. Nitric Oxide, dx.doi.org/10.1016/j.niox.2017.02.004
  9. Fatemi F, Abdollahi MR, Mirzaieasl A, Dastan D, Garagounis C, Papadopoulou KK(2018) Identification and expression profiling of rosmarinic acid biosynthetic genes from Satureja khuzistanica under carbon nanotubes and methyl jasmonate elicitation. Plant Cell, Tissue and Organ Culture, https://doi.org/10.1007/s11240-018-01537-8
  10. Dalakouras  A,  Wassenegger  M,  Dadami  E,  Ganopoulos  I,  Pappas  MI, Papadopoulou  KK (2020)  Genetically  modified  organism-free  RNA  interference:  Exogenous  application  of RNA molecules in plants. Plant Physiology 182, 1–13

Plant-Microbe Interactions

  1. Ipsilantis I., Samourelis C., Karpouzas D.G., (2012) The impact of biological pesticides on arbuscular mycorrhizal fungi. Soil Biology and Biochemistry 45: 147-155
  2. Hadar Y, Papadopoulou KK (2012) Suppressive composts: microbial links between abiotic environments and healthy plants. Annual Review of Phytopathology 50:133–53
  3. Karamanoli E., Thallasinos G., Karpouzas D.G., Bozapalidis A., Vokou D., Isis-Konstantinidou, E (2012) Are leaf glandular trichomes of oregano hospitable habitats for bacterial growth? Journal of Chemical Ecology 38(5): 476-485
  4. Ouzounidou G, Skiada V, Papadopoulou KK, Stamatis N, Kavvadias V, Elefteriadis E, Gaitis F (2015) Effects of soil pH and arbuscular mycorrhiza (AM) inoculation on growth and chemical composition of chia (Salvia hispanica) leaves. Brazilian Journal of Botany 38: 487-495 DOI: 10.1007/s40415-015-0166-6
  5. Garantonakis N, Pappas ML, Varikou K, Skiada V, Broufas GD, Kavroulakis N, Papadopoulou KK (2018)  Tomato  inoculation  with  the  endophytic  strain  Fusarium  solani  K  results  in reduced feeding damage by the zoophytophagous predator Nesidiocoris tenuis. Frontiers in Ecology & Evolution https://doi.org/10.3389/ fevo.2018.00126
  6. Κavroulakis N, Doupis G, Papadakis IE, Ehaliotis C, Papadopoulou KK (2018) Tolerance of tomato  plants  to  water  stress  is  improved  by  the  root  endophyte  Fusarium  solani  FsK. Rhizosphere 6:77–85
  7. Tsikou D, Ramirez EE, Psarrakou IS, Wong JE, Jensen DB, Isono E, Radutoiu S, Papadopoulou KK (2018)  A  Lotus  japonicus  E3  ligase  interacts  with  the  Nod  factor  receptor  5  and positively regulates nodulation. BMC Plant Biology 18:217 https://doi.org/10.1186/s12870-018-1425-z
  8. Malandrakis,  A,  Daskalaki,  ER,  Skiada,  V, Papadopoulou  KK,  Kavroulakis  N  (2018).  A Fusarium  solani  endophyte  vs  fungicides:  Compatibility  in  a  Fusarium  oxysporum  f.sp. radicis-lycopersici –tomato pathosystem. Fungal Biology.  doi:10.1016/j.funbio.2018.10.003
  9. Pappas ML, Liapoura M, Papantoniou D, Avramidou M, Kavroulakis N, Weinhold A, Broufas G, Papadopoulou  KK(2018)  The  beneficial  endophytic  fungus Fusarium  solani  strain  K alters tomato responses against spider mites to the benefit of the plant.  Frontiers in Plant Science, https://doi:10.3389/fpls.2018.01603
  10. Garagounis  C,  Tsikou  D,  Plitsi  PΚ,  Psarrakou  IS,  Avramidou  M,  Stedel  C,  Anagnostou  M, Georgopoulou MΕ, Papadopoulou KK (2019) Lotus Shaggy-like Kinase 1 is required to suppress nodulation in Lotus japonicus. Plant Journal, 98: 228-242 https://doi.org/10.1111/tpj.14207

Environmental Microbiology

  1. Karas P., Perucchon C., Exarhou C., Ehaliotis C., Karpouzas DG., (2011) Potential for bioremediation of agro-industrial effluents with high loads of pesticides by selected fungi. Biodegradation 22: 215-228
  2. Chanika E., Soueref E., Georgiadou D, Karas P., Karanasios E., Tsiropoulos N., Tzortzakakis E., Karpouzas D.G., (2011) Isolation of soil bacteria able to hydrolyze both organophosphate and carbamate pesticides. Bioresource Technology 102 (3): 3184-3192

3.       Perruchon C., Batianis C., Zouborlis, S., Papadopoulou E.S., Ntougias S., Vasileiadis S., Karpouzas D.G., (2015) Isolation of a diphenylamine-degrading bacterium and characterization of its metabolic capacities, bioremediation and bioaugmentation potential. Environmental Science and Pollution Research 22: 19485-19496

4.       Perruchon C., Patsioura V., Vasileiadis S., Karpouzas D.G, (2016) Isolation and characterization of a Sphingomonas strain able to degrade the fungicide ortho-phenylphenol. Pest Management Science 72(1): 113-124

5.       Rousidou C., Chanika E., Georgiadou D., Soueref E., Katsarou D., Kolovos P., Ntougias S., Tourna M., Tzortzakakis E.A., Karpouzas D.G.,(2016) Isolation of oxamyl-degrading bacteria and identification of cehA as a novel oxamyl hydrolase gene. Frontiers in Microbiology 7: 616 (doi:10.3389/fmicb.2016. 00616)

6.       Campos M., Karas P., Perruchon C., Papadopoulou E.S., Christou V., Menkissoglou-Spiroudi U., Diez M.C., Karpouzas D.G.,(2017) Novel insights into the metabolic pathway of iprodione by soil bacteria. Environmental Science and Pollution Research 24:152-163

  1. Perruchon C., Chatzinotas A., Omirou M., Vasileiadis S., Menkissoglu-Spiroudi U., Karpouzas D.G., (2017) Isolation of a bacterial consortium able to degrade the fungicide thiabendazole: the key role of a Sphingomonas phylotype. Applied Microbiology and Biotechnology 101:3881-3893
  2. Perruchon, C., Vasileiadis S., Rousidou C., Papadopoulou E.S., Tanou G., Samiotaki M., Garagounis C., Molassiotis A., Papadopoulou K.K., Karpouzas D.G., (2017) Metabolic pathway and cell adaptation mechanisms revealed through genomic, proteomic and transcription analysis of a Sphingomonas haloaromaticamans strain degrading ortho-phenylphenol. Scientific Reports 7: Article 6449, doi:10.1038/s41598-017-06727-6
  3. Papadopoulou E.S., Genitsaris S., Omirou M., Perruchon C., Stamatopoulou A., Ioannides I., Karpouzas D.G., (2018) Bioaugmentation of thiabendazole-contaminated soils from a wastewater disposal site: Factors driving the efficacy of this strategy and the diversity of the indigenous soil bacterial community. Environmental Pollution 233: 16-25
  4. Papadopoulou E.S, Perruchon C., Vasileiadis S., Rousidou K., Tanou G., Samiotaki M., Molassiotis A., Karpouzas D.G., (2018) Metabolic and evolutionary insights in the transformation of diphenylamine by a Pseudomonas putida strain unravelled by genomic, proteomic and transcription analysis. Frontiers in Microbiology 9: 676, doi: 10.3389/fmicb.2018.00676

 Microbial Ecology  

  1. Omirou, C. Rousidou, F. Bekris, K.K. Papadopoulou, C. Ehaliotis, U. Menkissoglu-Spiroudi, D.G. Karpouzas. (2011) Τhe impact of biofumigation and chemical fumigation methods on the structure and function of the soil microbial community. Microbial Ecology 61: 201-213
  2. Puglisi E., Vasileiadis S., Demiris, C., Bassi D., Karpouzas D.G., Capri E., Cocconcelli PS., Trevisan M., (2012) Fungicides impact on the diversity and function of non-target ammonia oxidizing microorganisms residing in a litter soil cover. Microbial Ecology 64: 692-701
  3. Rousidou C., Papadopoulou E., Kortsinidou M., Giannakou I.O., Singh B.K., Menkissoglu-Spiroudi, U., and Karpouzas D.G.,(2013) Bio-pesticides: Harmful or harmless to ammonia oxidizing microorganisms? The case of a Paecilomyces lilacinus-based nematicide. Soil Biology & Biochemistry 67:98-105
  4. Karpouzas D.G., Papadopoulou, E, Ipsilantis I., Petric I., Udikovic-Kolic N., Djuric S., Kandeler E., Menkissoglu-Spiroudi U., Martin-Laurent F., (2013) Effects of nicosulfuron on the abundance and diversity of arbuscular mycorrhizal fungi used as indicators of pesticide soil microbial toxicity. Ecological Indicators 39: 44-53
  5. Karpouzas, D.G., Kandeler, E., Bru, D., Friedel, I., Auer, Y., Kramer, S., Vasileiadis, S., Petric, I., Udikovic-Kolic, N., Djuric, S., Martin-Laurent, F. (2014) A tiered assessment approach based on standardized methods to estimate the impact of nicosulfuron on the abundance and function of the soil microbial community. Soil Biology and Biochemistry 75: 282-291

6.       Papadopoulou E.S., Tsachidou P., Sulowic S., Menkissoglu-Spiroudi U., Karpouzas D.G., (2016) Land spreading of wastewaters from the fruit packaging industry and potential effects on soil microbes: Effects of the antioxidant ethoxyquin and its metabolites on ammonia oxidizers. Applied and Environmental Microbiology 82: 747-755

7.       Rousidou C., Karaiskos D., Myti D., Karanasios E., Karas P.A., Tourna M., Tzortzakakis E.A., Karpouzas D.G. (2017) Distribution and function of carbamate hydrolase genes cehA and mcd in soils: the distinct role of soil pH. FEMS Microbiology Ecology 93(1): fiw219 doi:10.1093/femsec/fiw219

  1. Karas P.A., Baguelin C., Pertile G., Papadopoulou E.S., Nikolaki S., Storck V., Ferrari F., Trevisan M., Ferrarini A., Fornasier F., Vasileiadis S., Tsiamis G., Martin-Laurent F., Karpouzas D.G., (2018) Assessment of the impact of three pesticides on microbial dynamics and functions in a lab-to-field experimental approach. Science of the Total Environment 637-638: 636-646
  2. Vasileiadis S., Puglisi E., Papadopoulou E.S., Pertile G., Suciu N., Papolla, A., Tourna M., Karas P.A., Papadimitriou F., Kasiotakis A, Ipsilanti N., Ferrarini A., Sulowic S., Fornasier F., Nicol G.W, Trevisan M., Karpouzas D.G (2018) Blame it on the metabolite: 3,5-dichloraniline rather than the parent compound iprodione induces strong effects on the diversity and function of soil microorganisms. Applied and Environmental Microbiology 84(22): e01536-18
  3. Gallego-Blanco S., Devers-Lamrani M., Rousidou K., Karpouzas D.G., Martin-Laurent F., (2019) Assessment of the effects of oxamyl on the bacterial community of an agricultural soil exhibiting enhanced biodegradation. Science of the Total Environment 651: 1189-1198

Environmental Pollution - Bioremediation

  1. Karanasios E, Tsiropoulos N, Karpouzas D.G., Menkissoglu-Spiroudi U., (2010) Novel biomixtures based on local Mediterranean ligninocellulosic materials: evaluation for use in biobeds. Chemosphere 80: 914-921
  2. Karanasios, E., Tsiropoulos, N., Karpouzas, D.G., Ehaliotis C., (2010) Degradation and adsorption of pesticides in compost-based biomixtures as potential substrates for biobeds in south Europe. Journal of Agricultural and Food Chemistry 58: 9147-9156
  3. Omirou M, Dalias P., Costa C., Papastefanou C., Dados A., Ehaliotis C., Karpouzas D.G., (2012) Exploring the potential of biobeds for the depuration of pesticide-contaminated wastewaters from the citrus production industry: laboratory, column and field studies. Environmental Pollution 166: 31-39
  4. Karanasios E. Tsiropoulos N. Karpouzas D.G., (2012) On-farm biopurification systems for the depuration of pesticide-wastewaters: recent advances and future perspectives. Biodegradation 23(6): 787-802
  5. Tsohatzis E.D., Tzimou-Tsitouridou R Menkissoglu-Spiroudi, U, Karpouzas D.G., Katasantonis D. (2013) Dissipation of tricyclazole, profoxydim and penoxsulam in rice paddy systems: Laboratory and field studies. Chemosphere 91(7): 1049-1057
  6. Karanasios E., Karpouzas D.G., Tsiropoulos N., (2013) Quantitative and qualitative differences in the metabolism of pesticides in biobed substrates and soil. Chemosphere 93(1): 20-28

7.       Papadopoulou E.S., Karas P.A., Nikolaki S., Storck V., Ferrari F., Trevisan M., Tsiamis G., Martin-Laurent F., Karpouzas D.G., (2016) Dissipation and adsorption of isoproturon, tebuconazole, chlorpyrifos, and their main transformation products under laboratory and field conditions. Science of the Total Environment 569-570:86-96

8.       Karas P.A. Perruchon C., Karanasios E., Papadopoulou E.S, Manthou E., Sitra., S., Ehaliotis C., Karpouzas D.G., (2016) Integrated biodepuration of pesticide-contaminated wastewaters from the fruit-packaging industry using biobeds: Bioaugmentation, risk assessment and optimized management. Journal of Hazardous Materials 320: 635-644

9.       Campos M., Perruchon C., Karas P.A.., Karavasilis D., Diez M.C., Karpouzas D.G., (2017) Biodegradation and rhizosphere-assisted bioaugmentation as strategies for optimization of the dissipation capacity of biobeds. Journal of Environmental Management 187(1): 103-110

 

  1. Papazlatani CV., Karas P.A., Tucat G., Karpouzas D.G., (2019) Expanding the use of biobeds: Dissipation and adsorption of pesticides contained in effluents from seed-coating, bulb disinfestation and fruit-packaging activities. Journal of Environmental Management 248: 109221 https://doi.org/10.1016/j.jenvman.2019.06.122

6. Thesis: 

An indicative list of BSc, MSc and full list of PhD thesis performed in the Laboratory of Plant and Environmental Biotechnology    

BSc Thesis

  1. Psarakou Ioanna-Sofia (2012) Proteins which carry Arm repeats and their role in the symbiosis of legumes-Rhizobia (Supervisor K Papadopoulou)
  2. Ntallas George (2013) Transient transformation of the gene of suynthase of beta amyrine in Medicago truncatula. (Supervisor K Papadopoulou)
  3. Bella Tsachidou (2013) Study of the effect of fungicides which are contained in effluents of the fruit-packaging plants on the function of soil microbial community (Supervisor: D Karpouzas)
  4. Flora Spentza (2014) Study of the dissipation of soil insecticides ethoprophos and chlorpyrifos in soils from potato cultivation areas in Greece (Supervisor: D. Karpouzas)
  5. George Papoutsidakis (2014) Μolecular analysis of HRAS in thyroid carcinomas in the Greek population (Supervisor: Κ. Liadaki)
  6. Chrysanthi Moschandrea (2014) Unravelling the biochemical action of betulinic acid on the growth of human breast and cervical cancer cells (Supervisor: Κ. Liadaki)
  7. Katerina Maragkou (2014) Effect of Eruca sativa extracts on the growth of human cervix cancer cells (Supervisor: Κ. Liadaki)
  8. Christos Batianis (2014) Characterization of the degrading and bioremediation capacity of a Pseudomonas strain which was able to degrade the antioxidant diphenylamine (Supervisor: D. Karpouzas)
  9. Eleni Synadaki (2015) Molecular analysis of HRAS and NRAS genes in thyroid carcinoma in the Greek Population (Supervisor: K. Liadaki)
  10. Pagona-Maria Karanatsiou (2015) Molecular analysis of BRAF and KRAS genes in thyroid carcinoma in the Greek Population (Supervisor: K. Liadaki)
  11. Dimitris Veroutis (2016) Study of detoxification of the fungicide thiabendazole by a bacterial community (Supervisor: K. Liadaki)
  12. Aggelos Yfantis (2016) Effect of triterpenoid compounds in the growth of liver cancer cells (Supervisor: K. Liadaki)
  13. Maria Anna Papadopoulou (2016) Heterologous expression of a 2,3-oxidosqualene cyclase gene (AMY2) in prokaryotic and eukaryotic expression systems (Supervisor K Papadopoulou)
  14. Fotini Dimakou (2016) Heterologous expression of the Medicago truncatula triterpene activating saponin regulators (TSARs) in Lotus japonicus- effect on triterpene biosynthesis(Supervisor K Papadopoulou)
  15. Alexandros Kassiotakis (2017) Study of the effect of 3,5-dichloraniline on ammonia oxidizing bacteria of agricultural soils (Supervisor: D. Karpouzas)
  16. Maria Eleni Georgopoulou (2017) Developing an efficient transformation protocol for Trigonella foenum-graecum (fenugreek) (Supervisor K Papadopoulou)
  17. Eleftheria Baxevani (2018) In vitro assessment of the inhibitory effects of metabolic products of the antioxidant ethoxyquin, quinone imine και ethoxyquinoline on the ammonia-oxidizing bacteria Nitrosomonas europeae and Nitrosospira multiformis (Supervisor D. Karpouzas)
  18. Christos Chrisanthou (2018) Study of the biodegradation of the anthelmintics eprinomectin and ivermectin in soils from Cyprus with records of previous exposure to the specific compounds (Supervisor D. Karpouzas)
  19. Ioanna Rigou (2018)  Yeast-two hybrid system analysis towards the detection of interacting partners of LSK1 kinase in Lotus japonicus (Supervisor K Papadopoulou)
  20. Afrodite Katsianouni (2019) In vitro assessment of the toxicity of ethoxyquin and their main derivatives on the nitrite-oxidizing bacerium Νitrobacter (Supervisor D. Karpouzas)
  21. Olga Tsiouri (2019) In silico analysis of the regulatory elements of the LSK1 kinase gene in Lotus japonicus (Supervisor K Papadopoulou)
  22. Melina Sapountzi (2019) Study of the metabolic pathway of iprodione in bacterial cultures which were isolated from the rhizosphere and phyllosphere of pepper plants (Supervisor D. Karpouzas)
  23. Valia Moutzoureli (2019) The biodegradation of albendazole in soils from Lesvos with prior exposure to veterinary anthelminthics (Supervisor D. Karpouzas)
  24. Panagiotis Vletsos (2019) Effect of the endophytic fungus Fusarium solani στελεχος K (FsK) in the tolerance of tomato plants to drought stress. (Supervisor  K  Papadopoulou)
  25. Theothorakis Ntoupis (2019) Overexpression of LjAMY2 gene in Lotus japonicus roots-Effect on nodulation (Supervisor K. Papadopoulou)

            MSc Thesis

  1.  Kortsinidou Mariana (2012) Study of the effects of the biological nematicide BIOACT® (Paecilomyces lilacinus) on the population and activity of ammonia oxidizing bacteria and archaea (Supervisor K Karpouzas)
  2.  Maria Metsoviti (2013) Study of the degradation of pesticides used by the fruit-packaging industry in anaerobically digested sewage sludge from the municipal wastewater treatment plant of Larissa. (Supervisor K Karpouzas)
  3. Panagiotis Kolovos (2013) Isolation of bacteria which hydrolyze the carbamate insecticide oxamyl and investigation of the degradation mechanisms of the metabolite produced (oxamyl oxime) (Supervisor K Karpouzas)
  4. Sotiria Makri (2013) Study of the capacity of different organic substrates to retain and degrade the fungicides ortho-phenylphenol and imazalil contained in effluents from the fruit-packaging plants (Supervisor K Karpouzas) 
  5. Konstantinos Petsoulas (2013) Phyllosphere: The response of an unexplored microbial world to folliage and soil application of systemic pesticides (Supervisor K Karpouzas)
  6. Stefania Sitra (2014) Changes in the population of bacteria in biobeds used for the treatment of effluents from fruit-packaging plants. (Supervisor K Karpouzas)
  7. Zisis Vasileios (2015) Synthesis and chromatographic analysis of metabolic products of the antioxidant ethoxyquin - Application on the determination of its dissipation in organic substrates (Supervisor K Karpouzas)
  8. Chrysoula Thymniou (2013) Effects of extracts of Eruca sativa on the growth of human cancer cells (Supervisor K. Liadaki)
  9. Iro Pappa (2013) Study of the effects of rocket extracts and isolated glucosinates on cancer cell lines (Suprevisor: K. Papadopoulou)
  10. Alexandra Papadopoulou (2015) Molecular analysis of HRAS and KRAS genes in thyroid cancer in the Greek Population (Supervisor: K. Liadaki)
  11. Sotirios Dafopoulos (2015) Study of the interactions of protein HESP1 of Arabidopsis thaliana with proteins OXT6 and GRP7. (Supervisor K. Papadopoulou)
  12. Despoina Myti (2016) Dispersal of genes involved in the hydrolysis of carbamate insecticides in soils of the Plateau of Lasithi: Correlation between abundance of catabolic genes and degradation of carbamate insecticides (Supervisor D. Karpouzas)
  13. Panagiota Plitsi (2016) LSK1, a SHAGGY-like kinase with role in the nodulation of the plant Lotus japonicus (Supervisor D. Karpouzas)
  14. Christina Papazlatani (2017) Mapping of the most important soil-borne fungal plant pathogens in soils from protected crops from Crete, Peloponnese and Western Greece (Supervisor D. Karpouzas)
  15. Christina Tsadila (2017) Functional metagenomic analysis of soils and microbial communities which exhibit high biodegradation capacity against pesticides (Supervisor D. Karpouzas)
  16. Emily Epifaneiou (2018) Triterpenes with cytotoxic action as potential drugs (Supervisor K Papadopoulou)
  17. Maria Tziortziou (2018) Investigation of the biological activity of plant derived molecules (Supervisor K Papadopoulou)
  18. Stathis Lagos (2018) Isolation and identification of soil bacteria able to degrade the organophosphorus nematicide fosthiazate (Supervisor D. Karpouzas)
  19. Marianna Avramidou (2018) Effect of an endophytic fungus Fusarium solani  strain K on tomato plants under  Tetranychus urticae infestation (Supervisor K Papadopoulou)
  20. Ioanna Maria Lemonitsaki (2018) The effect of endophytic fungus on the growth of Lotus japonicus under iron deficiency conditions (Supervisor K Papadopoulou)
  21. Elias Gourombinos (2019) Assessment of the capacity of a thiabendazole-degrading bacterial consortium to degrade other anthelminthic benzimidazole compounds (Supervisor D. Karpouzas)
  22. Antonis Brouziotis (2019) Evaluation of the toxicity of ethoxyquin and of the nitrification inhibitors nitrapyrin and DCD on the abundance and function of ammonia-oxidizing microorganisms in acidic vs alkaline soils (Supervisor D. Karpouzas)
  23. Fotini Dimakou (2019) Identification of peptides interacting with a shaggy-like kinase with a role in nodulation in Lotus japonicus by yeast two-hybrid system (Supervisor D Papadopoulou)
  24. Eleni Lambronikou (2019) In Vitro study of the effect of nitrification inhibitors DCD, Nitrapyrin and DMPP on ammonia-oxidizing bacteria and archaea (Supervisor D. Karpouzas)
  25. MagdaliniTsitsikli (2019) Mutagenesis of Lotus japonicus LSK1 utilizing a CRISPR/Cas9 system (Supervisor K Papadopoulou)

 

PhD Thesis

  1. Ioanna Mirtziou: The role of nitrate on the antioxidative system of Medicago truncatula, Supervisor: K. Papadopoulou (2013)
  2. Demetra Katsarou: Biosynthesis and regulation of glucosinolate metabolism in Εruca sativa, Supervisor: K. Papadopoulou (2014)
  3. Afrodite Krokida: Biosynthesis and role of triperpenoids on the development and function of roots and nodulates on the legume model-plant Lotus japonicus Supervisor: K. Papadopoulou (2014)
  4. Chiara Perruchon: Study of the molecular mechanisms involved in the detoxification of fungicides contained in agro-industrial effluents, Supervisor: D Karpouzas (2014)
  5. Panagiotis Karas: Biological treatment of agro-industrial wastewaters with high, Supervisor: D Karpouzas (2016)
  6. Vasiliki Skiada: Endophytic fungi in plant roots: colonization patterns and mechanism of plant protection under conditions of biotic or abiotic stress. Supervisor:  K Papadopoulou (2019)
  7. Athanasia Katsoula: Study of the function and diversity of microbial communities in plant phyllosphere and interactions with the environment, Supervisor: D Karpouzas (2019)
  8. Konstantina Rousidou: Study of the dynamics of bacterial genes involved in the degradation of organophosphate and carbamate insecticides, Supervisor: D Karpouzas (2019)
  9. Christina Papazlatani: Study of the efficiency and microbiology of biobed systems receiving pesticide-contaminated wastewaters from various agro-food industries, Supervisor: D Karpouzas (on going)
  10. Stathis Lagos: The biodegradation of veterinary drugs as method to avert environmental contamination and antibiotic resistance gene dispersal, Supervisor: D Karpouzas (on going)
  11. Marianna Avramidou: The activity and mechanisms used by endophytic fungi to promote plant growth and defense in legumes, Supervisor: K Papadopoulou (on going)
  12. Eleni Papadopoulou: Study of the role of the microbiome of local vines varieties and vinification on the quality of wine products Supervisor: D Karpouzas (on going)
  13. Eleni Katsivelou: Environmental fate and interactions of veterinary antibiotics with the soil microbial community: Resistance, biodegradation or ecotoxicity? Supervisor: D Karpouzas (on going)
  14. Maria Feka: Beneficial microbes and natural metabolites as novel tools in enhancing stress resilience in plants Supervisor: K Papadopoulou (on going)
  15. Eleni Lambronikou: Study of the microbial ecotoxicity, efficiency, range of activity and mode of action of compounds acting as nitrification inhibitors Supervisor: D Karpouzas (on going)

7 Research Equipment  and Infrastucture

Analytical Facilities
• HPLC-UV
• HPLC-PDA
• Rotavap
• High accuracy balances (4 digits) (2)
• Portable balances (3)

Molecular Biology Facilities
• MultiBlock PCR (2)
• DGGE
• Electrophoresis for DNA/RNA and proteins
• q-PCR for 96 and 384 well plates (3)
• Qubit 2v for quantification of DNA,RNA and proteins

Μultimode plater reader luminescence, fluorescence, adsorption (2)

• Ultracentrifuge

• Liquid handler high throughput PCR preparation - 384 well plates

• Flow cytometers FACS

• 96-well plate tissue lyser (2)

• MinION sequencing system

• Plant growth chamber

• Confocal microscope

• Fluorescence microscope

Microbiology Facilities
• Laminar flow (3)
• Shaking Incubators with cooling system (5)
• Microbiological incubators - upright (5)
• Spectrophotometer UV-VIS (2)
• Shakers (3)
• Ultrasonic bath
• pHmeter
• Vortexes
• Ultrapure water system
• Benchtop centrifuge with cooling system (2)
• Microcentrifuges (3)
• Autoclave (100 L) (2)
 Freezers (-20°C) (8)
 Ultrafreezers (-80°C) (2)
 Fridges (4)

 

8 Services

 1. Monitoring of the environmental fate of pesticides – Degradation, adsorption, leaching studies – Pesticide risk and exposure assessment
Estimation of the adsorption/desorption of a soil insecticide, Funding Body: Agrochemical Company.
A survey of the degradation of selected soil insecticides in potato cultivation areas in Greece. Funding: Agrochemical Company, Duration: 1/7/2013-31/5/2014,Study of the degradation of a soil nematicide in soils from potato monoculture areas in Greece and Cyprus with record of prior exposure to this chemical Funding: Agrochemical Company, Duration: 1/10/2015-30/11/2015Investiation of the effect of pesticide commercial formulation on N mineralization in soil. Funding: Agrochemical Company, Duration: 20/6/2017-20/7/2017

2. Assessment of the population of soil borne fungal pathogens in agricultural soils with diagnostic qPCR tools Relevant Industry-funded projects
Investigating the effect of a novel fumigant on the population of soil-borne fungal pathogens via qPCR analysis. Funding body: Agrochemical company. Duration: 1/8/2013- 31/3/2014 Investigation of the population dynamics of soil-borne fungal pathogens via q-PCR. Funding body: Agrochemical Company. Duration: 1.1.2017-31.12.2017.Investigation of the fungal infestations of trees in the park of the Stavros Niarchos Foundation using molecular diagnostics. Funding Body: Stavros Niarchos Foundation. Duration:  1.9.2017-31.12.2107

3. Identification of fungi and bacteria which infect plant tissues and agricultural products

4. Estimation of the microbial population which deteriorates agricultural products which are destined for pharmaceutical use and as feed

5. Development of innovative biotechnological products based on microorganisms for the optimization of agricultural production (Arbuscular Mycorrhizal Fungi, Beneficial Endophytic Fungi)

6. Assessment of endemic plants as sources for the development of new agricultural and pharmaceutical products of natural origin

7. Development of microbial inocula for use as starting inocula in wastewater treatment systems

8. Treatment and detoxification of wastewaters of agricultural origin which are characterized by high pesticide load (BIOBEDS)

9 Photographs:: 

   

 

10 Links:

•    Hellenic Scientific Society of Mikrobiokosmos
        http://www.mikrobiokosmos.org/
•    NITRIC project
        http://nitric.bio.uth.gr
•    TRIFORC project
        http://triforc.eu/
•    BIOREMEDIATOMICS project
        http://bioremediatomics.bio.uth.gr/
•    LOVE TO HATE project
        http://lovetohate.bio.uth.gr
•    ECOFUN-MICROBIODIV project
        https://www6.inra.fr/ecofun_microbiodiv_eng
•    RNASTIP project
        http://rnastip.bio.uth.gr/

11 Contact:

Prof. Dimitrios Karpouzas
University of Thessaly
Department of Biochemistry and Biotechnology,    Viopolis 41500 Larissa
Tel. 2410-565294
Fax. 2410-565290
Email.
This e-mail address is being protected from spambots. You need JavaScript enabled to view it

Assoc. Prof. Κalliope Papadopoulou

University of Thessaly
Department of Biochemistry and Biotechnology,     Viopolis 41500 Larissa
Tel. 2410-565244
Fax. 2410-565290
Email. 
This e-mail address is being protected from spambots. You need JavaScript enabled to view it

Assistant Prof. Kalliope Liadaki
University of Thessaly
Department of Biochemistry and Biotechnology,     Viopolis 41500 Larissa
Tel. 2410-565260
Fax. 2410-565290

Email: This e-mail address is being protected from spambots. You need JavaScript enabled to view it

Assistant Prof. Daniela Tsikou
University of Thessaly
Department of Biochemistry and Biotechnology,     Viopolis 41500 Larissa
Tel. 2410-565207
Fax. 2410-565290

Email: This e-mail address is being protected from spambots. You need JavaScript enabled to view it

 

 

 

 

        

1.   Papadopoulou K., Melton RE., Legget M., Daniels MJ. and Osbourn AE. (1999) Compromised disease resistance in saponin-deficient plants. PNAS 96:12923-12928

2.   Osbourn AE, Carter J, Daniels M, Dufresne M., Hugouvieux V, Leggett M, Martin-Hernandez A, Melton R, Morrissey J and Papadopoulou K. (2000) Preformed antifungal compounds and plant defence. In: Biology of Plant‑Microbe Interactions Vol. 2. pp: 170-174  (Eds. PJGM DeWit, T Bisseling and WJ Stiekema). 

3.   Osbourn AE, Carter J, Papadopoulou K, Haralampidis K, Trojanowska M and Melton R. (2000) Oat root saponins and root-infecting fungi. In: Saponins in Food, Feedstuffs and Medicinal Plants, Proceedings of the Phytochemical Society of Europe, 45, pp:121-128  (Eds. W Oleszek and A Marston). Kluwer Academic Publ., Dordrecht.

4.   Haralampidis K, Bryan G, Qi X, Papadopoulou K, Bakht S, Melton R and A Osbourn (2001) A new class of oxidosqualene cyclases directs synthesis of antimicrobial phytoprotectants in monocots. PNAS 98: 13431-13436

5.   I Iturbe-Ormaetxe, K Haralampidis, K Papadopoulou AE Osbourn (2003) Molecular cloning and characterization of triterpene synthases from the model legume species Medicago truncatula and Lotus japonicus. Plant Molecular Biology 51: 731-743.

6.   Mylona POwatworakit A, Papadopoulou K, Jenner H, Qin B, Findlay K, Hill L, Qi X, Bakht S, Melton S, Osbourn A. (2008) Sad3 and Sad4 are required for avenacin A-1 biosynthesis and root development in oat. Plant Cell 20:210-212

7.   Omirou, M., Papastylianou, I., Iori, R., Papastephanou C., Papadopoulou, K.K., Ehaliotis, C., Karpouzas, D.G., (2009) Microwave-assisted extraction of glucosinolates from Eruca sativa seeds and soil: Comparison with existing methods. Phytochemical Analysis 20: 214-220.

8.   Omirou MD., Papadopoulou K.K., Papastylianou I., Constantinou M., Karpouzas D.G.,  Passam H., Ehaliotis C., (2009) Impact of nitrogen and sulfur fertilization on the composition of glucosinolates in relation to sulfur assimilation in different plant organs of broccoli. Journal of Agricultural and Food Chemistry 57: 9408–9417

9.   Delis C, Krokida A, Georgiou S, Peña-Rodríguez LM, Kavroulakis N, Ioannou E, Roussis V, Osbourn AE, Papadopoulou KK (2010)Role of lupeol synthase in Lotus japonicus nodule formation, New Phytologist (in press)

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