Curriculum Vitae

Irina S. Druzhinina, Ph.D.

PROFESSIONAL ADDRESS

Nanjing Agricultural University, College of Resources and Environmental Sciences.

FungiG Fungal Genomics Group www.FungiG.org

Weigang NO. 1, Nanjing, P.R. China, 210095 Tel +86 15 996344211 Email: Irina.druzhinina@njau.edu.cn

CURRENT POSITIONS

Professor (Full), Research Group Leader

Editor, Applied and Environmental Microbiology, ASM

QUALIFICATIONS

  • 1981 – 1991 Gymnasium with emphasis on Mathematics & Physics, school-leaving certificate with honor, Moscow, Russia
  • 1991 – 1996 Lomonosov’s Moscow State University, Faculty of Biology, Dept. of Mycology & Algology, Russia. Diploma with honor degree: Botany and Ecology, Mycology and Algology
  • 1996 – 1997 Post-graduate course (Philosophy, Mycology, Genetics of Populations) at the Lomonosov’s Moscow University, Russia
  • 1998 Ratification of Master’s degree in University of Vienna, Austria
  • 1998 – 2001 PhD study in the Institute of Botany, University of Vienna, Austria, Doctor of natural sciences, specialization on Botany, University of Vienna, Austria
  • 2001 PhD degree (Doctor of natural science) University of Vienna, Austria
  • 2011 Habilitation on Microbiology (“Privatdozentin”) TU Wien, Vienna, Austria

PROFESSIONAL LIFE

  • 2002 Postdoc Researcher in the Institute of Risk Research, University of Vienna, Vienna, Austria
  • 2002 – 2003 Postdoc Researcher in the Institute of Chemical Engineering, TU Wien, Vienna, Austria
  • 2002 – 2007 Scientific secretary of the International Subcommission on Trichoderma and Hypocrea of IUMS, International Commission on Taxonomy of Fungi (ICTF)
  • 2003 – 2014 University assistant in the Institute of Chemical Engineering, TU Wien, Vienna, Austria
  • since 2003 Leader of the Project Group Fungal Diversity and Evolution
  • since 2002 Responsible curator of the TU Collection of Industrial Microorganisms (TUCIM), TU Wien
  • 2003 Training on Phenotype Microarrays, ECORC, Ottawa, Canada
  • 2004 Training on Molecular Evolution, Woods Hole, USA
  • since 2007 Chair of the International Subcommission on Trichoderma and Hypocrea, www.ISTH.info
  • 2008Maternity leave, 10 months
  • 2009 – 2010 Principal investigator for industrial project “Pest management”, BASF, Germany
  • 2008 – 2009 Principal investigator for industrial project “BioDiesel production from microalgae”, TUMA pumpen, Austria
  • 2010 – 2015 Project manager in the Austrian Centre of Industrial Biotechnology (ACIB), strategic project “Targeting Enzymes to Polymers”
  • May 2011 Habilitation on Microbiology (“Privatdozentin”)
  • 2011 – 2018 Leader of the Microbiology Research Group (FG), Institute of Chemical Engineering (ICEBE), TU Wien, Austria
  • 2011 – 2013 Lecturer for TVFA (TU Wien) Seminar SCHIMMELPILZE IN GEBÄUDEN
  • 2012 – 2018 Key Researcher in the Austrian Centre of Industrial Biotechnology (ACIB)
  • 2013 – 2014 Project Group Leader in the Austrian Centre of Industrial Biotechnology (ACIB)
  • 2013 – 2016 Acting head (Bereichsleiterin) of the Research Division Biotechnology and Microbiology, ICEBE, TU Wien, Austria
  • 2014 – 2016 Assistant Professor, ICEBE, TU Wien, Austria
  • 2015 “Leadership in science”, hfp consulting, UK
  • 2016 – 2018 Associate Professor (Laufbahnstelle), ICEBE, TU Wien, Austria
  • 2017 – 2018 Guest Professor FH Campus Wien
  • 2018 – Honored guest Professor, Nanjing Agricultural University, Nanjing, China
  • 2018 – 2023 – Editor in the Applied and Environmental Microbiology, ASM
  • Since 2019 – Professor, Research group leader, Nanjing Agricultural University, Nanjing, China

RESEARCH KEYWORDS

Fungal genomics, fungal communities, genetics, molecular evolution and phylogeny, horizontal gene transfer in fungi, fungal diversity, metagenomics, surface-active proteins, hydrophobins, Trichoderma, mycoparasitism, microbial diversity, DNA BarCoding, phenotype profiles, microbial ecophysiology, heterologous protein production, proteomics, microbial ecology, fungal – bacterial interactions, biological control of fungal pests, plant growth promotion, tropical ecology, insect microbiomes, biological degradation of synthetic polymers

Book chapters by Irina S. Druzhinina

Chen, P., Pang, G., Cai, F., Druzhinina I.S., Genetic improvement of Trichoderma strains for biotechnology. De Vries, R., Mäkelä, M.R., eds. Encyclopedia of Mycology, Elsevier, ISBN: 9780128199909 (in press)

Chenthamara, K., Rahimi, M., Grujic, M., Druzhinina, I. S. and Cai, F. Trichoderma reesei – Methods and Protocols: Ecological genomics and evolution of Trichoderma reesei, Mach-Aigner, A., and Martzy, R., eds. Methods in Molecular Biology, Springer Nature (in press)

Rahimi, M., Cai, F., Grujic, M., Chenthamara, K., and Druzhinina, I. S. Trichoderma reesei – Methods and Protocols: Molecular identification of Trichoderma reesei. Mach-Aigner, A. and Martzy, R., eds. Methods in Molecular Biology, Springer Nature (in press)

Cai, F., Kubicek, C. P., and Druzhinina, I. S. Biofuels and Biodiesel: Genetic transformation of Trichoderma spp. Chhandak B., ed. Methods in Molecular Biology, Springer Nature (in press)

Marik T, Szekeres A, Andersson MA, Salkinoja-Salonen M, Tyagi C, Leitgeb B, Vágvölgyi C, Druzhinina IS, Kredics L Bioactive Peptaibols of Forest-Derived Trichoderma Isolates from Section Longibrachiatum. In: Soil Biological Communities and Ecosystem Resilience Lukac M, Grenni P, Gamboni M (eds), 2017. Springer International Publishing, Cham, pp 277-290

Chenthamara K, Druzhinina IS (2016) 12 Ecological Genomics of Mycotrophic Fungi. In: Druzhinina IS, Kubicek CP (eds) Mycota IV Environmental and Microbial Relationships. Springer International Publishing, Cham, pp 215-246

Kubicek CP and Druzhinina IS. Trichoderma Mycoses and Mycotoxins. In Paterson RRM, Lima N (eds.): Molecular Biology of Food and Water Borne Mycotoxigenic and Mycotic Fungi. CRC Press, 2015. ISBN 9781466559868 – CAT# K15868

Hatvani L, Vagvölgyi C, Kredics L, Druzhinina I. DNA Barcode for Species Identification in Trichoderma. In: Gupta VK, Schmoll M, Herrera‐Estrella A, Upadhyay RS, Druzhinina IS and Tuohy M (eds.) Biotechnology and Biology of Trichoderma. 2014. Elsevier BV, Amsterdam, the Netherlands.

Kredic L, Hatvani L, Naeimi S, Körmöczi P, Manczinger L, Vagvölgyi C, Druzhinina I. Biodiversity of the Genus Hypocrea/Trichoderma in Different Habitats. In: Gupta VK, Schmoll M, Herrera‐Estrella A, Upadhyay RS, Druzhinina IS and Tuohy M (eds.) Biotechnology and Biology of Trichoderma. 2014. Elsevier BV, Amsterdam, the Netherlands.

Seidl-Seiboth V, Ihrmark K, Druzhinina I, Karlsson M. Molecular Evolution of Trichoderma Chitinases. In: Gupta VK, Schmoll M, Herrera‐Estrella A, Upadhyay RS, Druzhinina IS and Tuohy M (eds.) Biotechnology and Biology of Trichoderma. 2014. Elsevier BV, Amsterdam, the Netherlands.

Schmoll M, Seiboth B, Druzhinina I, Kubicek CP. Genomics Analysis of Biocontrol Species and Industrial Enzyme Producers from the Genus Trichoderma. In: Nowrousian M (ed.) Fungal Genomics, 2nd Edition, The Mycota XIII. Springer-Verlag Berlin Heidelberg 2014

Kubicek CP and Druzhinina IS 2013 Trichoderma – genomic aspects of biocontrol and biomass degradation In: Genomics of Soil- and Plant-Associated Fungi Soil Biology Volume 36, 2013, pp 127-156

Kubicek CP. And Druzhinina IS. 2013 Trichoderma and mycotoxins. In: R.R. M. Paterson (ed.) Molecular Biology of Food and Water Borne Mycotoxigenic and Mycotic Fungi of Humans. CRC Press, http://www.crcpress.com/product/isbn/9781466559868

Atanasova L, Druzhinina IS, Jaklitsch WM. 2013 Two hundered Trichoderma species recognized based on molecular phylogeny. In: Mukherjee PK, Sigh US, Horwitz BA, Schmoll M, Mukherjee M (eds.) Trichoderma: Biology and Applications. . CABI of Nosworthy Way, Wallingford, Oxon, UK.

Druzhinina IS and Kubicek CP. 2013. Ecological genomics of Trichoderma. In: F. Martinn (ed.) Ecological genomics of fungi.  Wiley-Blackwell, Oxford, UK, in press.

dela Cruz TEE, Schulz BE and IS Druzhinina (2010) Polyphasic approach to the taxonomy of the marine Dendriphiella species from different geographic locations. In Gupta VK et al (eds.) “Fungal Biochemistry and Biotechnology, LAP LAMBERT Academic Publishing AG & Co. KG, Germany

Peer-reviewed articles of Irina S. Druzhinina

A complete list of publications may also be found at https://www.researchgate.net/profile/Irina_Druzhinina/contributions

Cai, F., Zhao, Z., Gao R., Ding, M., Jiang, S., Gao, Q., Chenthamara, K., Grujic, M., Bayram-Akcapinar, G., Shen, Q., and Druzhinina, I. S. Intracellular hydrophobin vesicles modulate the architecture and longevity of fungal colonies. (preprint) doi: 10.1101/2020.08.18.255406

Cai F, Druzhinina IS (2020) In honor of John Bissett: Authoritative guidelines on molecular identification of Trichoderma. Fungal Diversity. (in press) doi: 10.1007/s13225-020-00464-4

Cai F, Gao R, Zhao Z, Ding M, Jiang S, Yagtu C, Zhu H, Zhang J, Ebner T, Mayrhofer-Reinhartshuber M, Kainz P, Chenthamara K, Akcapinar GB, Shen Q, Druzhinina IS (2020) Evolutionary compromises in fungal fitness: hydrophobins can hinder the adverse dispersal of conidiospores and challenge their survival. The ISME Journal 14 (10):2610-2624. doi:10.1038/s41396-020-0709-0

Ding MY, Chen W, Ma XC, Lv BW, Jiang SQ, Yu YN, Rahimi MJ, Gao RW, Zhao Z, Cai F, Druzhinina IS (2020) Emerging salt marshes as a source of Trichoderma arenarium sp. nov. and other fungal bio effectors for bio saline agriculture. Journal of Applied Microbiology :jam.14751. doi:10.1111/jam.14751

Gao R, Ding M, Jiang S, Zhao Z, Chenthamara K, Shen Q, Cai F, Druzhinina IS (2020) The Evolutionary and Functional Paradox of Cerato-platanins in Fungi. Appl Environ Microb 86 (13):e00696-00620, /aem/00686/00613/AEM.00696-00620.atom. doi:10.1128/AEM.00696-20

Hoenigsberger M, Pretzer C, Rahimi MJ, Kopchinskiy AG, Parich A, Laciny A, Metscher B, Chan CM, Lim LBL, Salim KA, Zettel H, Druzhinina IS, Schuhmacher R (2020) Strong antimicrobial and low insecticidal activity of mandibular gland reservoir content in Bornean “exploding ants” Colobopsis explodens Laciny & Zettel, 2018 (Hymenoptera: Formicidae). doi:10.25849/ MYRMECOL.NEWS_030:201

Lücking R, Aime MC, Robbertse B, Miller AN, Ariyawansa HA, Aoki T, Cardinali G, Crous PW, Druzhinina IS, Geiser DM, Hawksworth DL, Hyde KD, Irinyi L, Jeewon R, Johnston PR, Kirk PM, Malosso E, May TW, Meyer W, Öpik M, Robert V, Stadler M, Thines M, Vu D, Yurkov AM, Zhang N, Schoch CL (2020) Unambiguous identification of fungi: where do we stand and how accurate and precise is fungal DNA barcoding? IMA Fungus 11 (1):14. doi:10.1186/s43008-020-00033-z

Pérez-Llano Y, Rodríguez-Pupo EC, Druzhinina IS, Chenthamara K, Cai F, Gunde-Cimerman N, Zalar P, Gostinčar C, Kostanjšek R, Folch-Mallol JL, Batista-García RA, Sánchez-Carbente MdR (2020) Stress Reshapes the Physiological Response of Halophile Fungi to Salinity. Cells 9 (3):525. doi:10.3390/cells9030525

Wijayawardene N, Hyde KD, Dai DQ, Tang LZ, Aptroot A, CastanedaRuiz RF, Druzhinina IS, Cai F, Ekanayaka AH, Erdogdu M (2020) A dynamic portal for a community-driven, continuously updated classification of Fungi and fungus-like organisms: outlineoffungi.org. Mycosphere 11 (1):1514-1526. doi:10.5943/mycosphere/11/1/11

Grujić M, Dojnov B, Potočnik I, Atanasova L, Duduk B, Srebotnik E, Druzhinina IS, Kubicek CP, Vujčić Z (2019) Superior cellulolytic activity of Trichoderma guizhouense on raw wheat straw. World Journal of Microbiology and Biotechnology 35 (12):194. doi:10.1007/s11274-019-2774-y

Hatvani L, Homa M, Chenthamara K, Cai F, Kocsubé S, Atanasova L, Mlinaric-Missoni E, Manikandan P, Revathi R, Dóczi I, Bogáts G, Narendran V, Büchner R, Vágvölgyi C, Druzhinina IS, Kredics L (2019) Agricultural systems as potential sources of emerging human mycoses caused by Trichoderma: a successful, common phylotype of Trichoderma longibrachiatum in the frontline. FEMS Microbiology Letters 366 (21):fnz246. doi:10.1093/femsle/fnz246

Hoenigsberger M, Kopchinskiy A, Bueschl C, Parich A, Laciny A, Zettel H, Salim K, Lim L, Druzhinina I, Schuhmacher R (2019) Volatiles from the Mandibular Gland Reservoir Content of Colobopsis explodens Laciny and Zettel, 2018, Worker Ants (Hymenoptera: Formicidae). Molecules 24 (19):3468. doi:10.3390/molecules24193468

Kubicek CP, Steindorff AS, Chenthamara K, Manganiello G, Henrissat B, Zhang J, Cai F, Kopchinskiy AG, Kubicek EM, Kuo A, Baroncelli R, Sarrocco S, Noronha EF, Vannacci G, Shen Q, Grigoriev IV, Druzhinina IS (2019) Evolution and comparative genomics of the most common Trichoderma species. BMC Genomics 20 (1):485. doi:10.1186/s12864-019-5680-7

Laciny A, Nemeschkal HL, Zettel H, Metscher B, Druzhinina IS (2019) Caste-specific morphological modularity in the ant tribe Camponotini (Hymenoptera, Formicidae). BMC Zoology 4 (1):9. doi:10.1186/s40850-019-0048-7

Marik T, Tyagi C, Balázs D, Urbán P, Szepesi Á, Bakacsy L, Endre G, Rakk D, Szekeres A, Andersson MA, Salonen H, Druzhinina IS, Vágvölgyi C, Kredics L (2019) Structural Diversity and Bioactivities of Peptaibol Compounds From the Longibrachiatum Clade of the Filamentous Fungal Genus Trichoderma. Front Microbiol 10:1434. doi:10.3389/fmicb.2019.01434

Zhang J, Miao Y, Rahimi MJ, Zhu H, Steindorff A, Schiessler S, Cai F, Pang G, Chenthamara K, Xu Y, Kubicek CP, Shen Q, Druzhinina IS (2019) Guttation capsules containing hydrogen peroxide: an evolutionarily conserved NADPH oxidase gains a role in wars between related fungi. Environmental Microbiology 21 (8):2644-2658. doi:10.1111/1462-2920.14575

Chadha S, Mehetre ST, Bansal R, Kuo A, Aerts A, Grigoriev IV, Druzhinina IS, Mukherjee PK (2018) Genome-wide analysis of cytochrome P450s of Trichoderma spp.: annotation and evolutionary relationships. Fungal Biology and Biotechnology 5 (1):12. doi:10.1186/s40694-018-0056-3

Druzhinina IS, Chenthamara K, Zhang J, Atanasova L, Yang D, Miao Y, Rahimi MJ, Grujic M, Cai F, Pourmehdi S, Salim KA, Pretzer C, Kopchinskiy AG, Henrissat B, Kuo A, Hundley H, Wang M, Aerts A, Salamov A, Lipzen A, LaButti K, Barry K, Grigoriev IV, Shen Q, Kubicek CP (2018) Massive lateral transfer of genes encoding plant cell wall-degrading enzymes to the mycoparasitic fungus Trichoderma from its plant-associated hosts. PLOS Genetics 14 (4):e1007322. doi:10.1371/journal.pgen.1007322

du Plessis IL, Druzhinina IS, Atanasova L, Yarden O, Jacobs K (2018) The diversity of Trichoderma species from soil in South Africa, with five new additions. Mycologia 110 (3):559-583. doi:10.1080/00275514.2018.1463059

Hoenigsberger M, Kopchinskiy AG, Parich A, Hiller K, Laciny A, Zettel H, Lim LBL, Salim KA, Druzhinina IS, Schuhmacher R (2018) Isolation of Mandibular Gland Reservoir Contents from Bornean ‘Exploding Ants’ (Formicidae) for Volatilome Analysis by GC-MS and Metabolite Detector. JoVE (138):57652. doi:10.3791/57652

Kamravamanesh D, Kovacs T, Pflügl S, Druzhinina I, Kroll P, Lackner M, Herwig C (2018) Increased poly-β-hydroxybutyrate production from carbon dioxide in randomly mutated cells of cyanobacterial strain Synechocystis sp. PCC 6714: Mutant generation and characterization. Bioresource Technology 266:34-44. doi:10.1016/j.biortech.2018.06.057

Laciny A, Zettel H, Kopchinskiy A, Pretzer C, Pal A, Abu Salim K, Javad Rahimi M, Hoenigsberger M, Lim L, Jaitrong W, Druzhinina IS (2018) Colobopsis explodens sp. n., model species for studies on “exploding ants” (Hymenoptera, Formicidae), with biological notes and first illustrations of males of the Colobopsis cylindrica group. Zookeys 751:1-40. doi:10.3897/zookeys.751.22661

Zettel H, Laciny A, Weeyawat J, Syaukani S, Kopchinskiy A, Druzhinina IS (2018) Evidence of predation in two species of the Colobopsis cylindrica group (Hymenoptera: Formicidae: Camponotini). Asian Myrmecology 10: e010011 (1-11) doi:10.20362/AM.010011

Druzhinina IS, Kubicek CP (2017) Genetic engineering of Trichoderma reesei cellulases and their production. Microb Biotechnol 10 (6):1485-1499. doi:10.1111/1751-7915.12726

Gaskell J, Kersten P, Larrondo LF, Canessa P, Martinez D, Hibbett D, Schmoll M, Kubicek CP, Martinez AT, Yadav J, Master E, Magnuson JK, Yaver D, Berka R, Lail K, Chen C, LaButti K, Nolan M, Lipzen A, Aerts A, Riley R, Barry K, Henrissat B, Blanchette R, Grigoriev IV, Cullen D (2017) Draft genome sequence of a monokaryotic model brown-rot fungus Postia (Rhodonia) placenta SB12. Genomics Data 14:21-23. doi:10.1016/j.gdata.2017.08.003

Laciny A, Zettel H, Metscher B, Kamariah AS, Kopchinskiy A, Druzhinina IS (2017) Morphological variation and mermithism in female castes of Colobopsis sp. nrSA, a Bornean “exploding ant” of the Colobopsis cylindrica group (Hymenoptera: Formicidae). Myrmecological News 24:91-106

Marik T, Urbán P, Tyagi C, Szekeres A, Leitgeb B, Vágvölgyi M, Manczinger L, Druzhinina IS, Vágvölgyi C, Kredics L (2017) Diversity Profile and Dynamics of Peptaibols Produced by Green Mould Trichoderma Species in Interactions with Their Hosts Agaricus bisporus and Pleurotus ostreatus. Chem Biodiversity 14 (6):e1700033. doi:10.1002/cbdv.201700033

Miao Y, Li P, Li G, Liu D, Druzhinina IS, Kubicek CP, Shen Q, Zhang R (2017) Two degradation strategies for overcoming the recalcitrance of natural lignocellulosic xylan by polysaccharides-binding GH10 and GH11 xylanases of filamentous fungi: Lignocellulosic xylan degradation strategies. Environmental Microbiology 19 (3):1054-1064. doi:10.1111/1462-2920.13614

Pretzer C, Druzhinina IS, Amaro C, Benediktsdóttir E, Hedenström I, Hervio‐Heath D, Huhulescu S, Schets FM, Farnleitner AH, Kirschner AKT (2017) High genetic diversity of Vibrio cholerae in the European lake Neusiedler See is associated with intensive recombination in the reed habitat and the long‐distance transfer of strains. Environmental Microbiology 19 (1):328-344. doi:10.1111/1462-2920.13612

Przylucka A, Akcapinar GB, Bonazza K, Mello-de-Sousa TM, Mach-Aigner AR, Lobanov V, Grothe H, Kubicek CP, Reimhult E, Druzhinina IS (2017) Comparative physiochemical analysis of hydrophobins produced in Escherichia coli and Pichia pastoris. Colloids and Surfaces B: Biointerfaces 159:913-923. doi:10.1016/j.colsurfb.2017.08.058

Przylucka A, Akcapinar GB, Chenthamara K, Cai F, Grujic M, Karpenko J, Livoi M, Shen Q, Kubicek CP, Druzhinina IS (2017) HFB7 – A novel orphan hydrophobin of the Harzianum and Virens clades of Trichoderma, is involved in response to biotic and abiotic stresses. Fungal Genetics and Biology 102:63-76. doi:10.1016/j.fgb.2017.01.002

Qin Y, Pan X, Kubicek C, Druzhinina I, Chenthamara K, Labbé J, Yuan Z (2017) Diverse Plant-Associated Pleosporalean Fungi from Saline Areas: Ecological Tolerance and Nitrogen-Status Dependent Effects on Plant Growth. Front Microbiol 8. doi:10.3389/fmicb.2017.00158

Davidson DW, Kopchinskiy A, Salim KA, Grujic M, Lim L, Mei CC, Jones TH, Casamatta D, Atanasova L, Druzhinina IS (2016) Nutrition of Borneo’s ‘exploding’ ants (Hymenoptera: Formicidae: Colobopsis ): a preliminary assessment. Biotropica 48 (4):518-527. doi:10.1111/btp.12323

de Man TJB, Stajich JE, Kubicek CP, Teiling C, Chenthamara K, Atanasova L, Druzhinina IS, Levenkova N, Birnbaum SSL, Barribeau SM, Bozick BA, Suen G, Currie CR, Gerardo NM (2016) Small genome of the fungus Escovopsis weberi, a specialized disease agent of ant agriculture. Proceedings of the National Academy of Sciences 113 (13):3567-3572. doi:10.1073/pnas.1518501113

Druzhinina IS, Kopchinskiy AG, Kubicek EM, Kubicek CP (2016) A complete annotation of the chromosomes of the cellulase producer Trichoderma reesei provides insights in gene clusters, their expression and reveals genes required for fitness. Biotechnology for Biofuels 9 (1):75. doi:10.1186/s13068-016-0488-z

Druzhinina IS, Kubicek CP (2016) Familiar Stranger. Ecological Genomics of the Model Saprotroph and Industrial Enzyme Producer Trichoderma reesei Breaks the Stereotypes In: Advances in Applied Microbiology, Adv Appl Microbiol. 2016;95:69-147.doi: 10.1016/bs.aambs.2016.02.001.

Druzhinina IS, Kubicek EM, Kubicek CP (2016) Several steps of lateral gene transfer followed by events of ‘birth-and-death’ evolution shaped a fungal sorbicillinoid biosynthetic gene cluster. BMC Evolutionary Biology 16 (1):269. doi:10.1186/s12862-016-0834-6

Laciny A, Zettel H, Druzhinina I (2016) Workers, soldiers, and gynes – morphometric characterization and description of the female castes of Camponotus singularis (Smith, 1858) (Hymenoptera, Formicidae). DEZ 63 (2):183-193. doi:10.3897/dez.63.9435

Qin Y, Druzhinina IS, Pan X, Yuan Z (2016) Microbially Mediated Plant Salt Tolerance and Microbiome-based Solutions for Saline Agriculture. Biotechnology Advances 34 (7):1245-1259. doi:10.1016/j.biotechadv.2016.08.005

Yuan Z, Druzhinina IS, Labbé J, Redman R, Qin Y, Rodriguez R, Zhang C, Tuskan GA, Lin F (2016) Specialized Microbiome of a Halophyte and its Role in Helping Non-Host Plants to Withstand Salinity. Scientific Reports: 2016 Aug 30;6:32467. doi: 10.1038/srep32467.

Zhang N, Yang D, Kendall JRA, Borriss R, Druzhinina IS, Kubicek CP, Shen Q, Zhang R (2016) Comparative Genomic Analysis of Bacillus amyloliquefaciens and Bacillus subtilis Reveals Evolutional Traits for Adaptation to Plant-Associated Habitats. Front Microbiol 7. doi:10.3389/fmicb.2016.02039

Bonazza K, Gaderer R, Neudl S, Przylucka A, Allmaier G, Druzhinina IS, Grothe H, Friedbacher G, Seidl-Seiboth V (2015) The fungal cerato-platanin protein EPL1 forms highly ordered layers at hydrophobic/hydrophilic interfaces. Soft Matter 11 (9):1723-1732. doi:10.1039/C4SM02389G

Ribitsch D, Herrero Acero E, Przylucka A, Zitzenbacher S, Marold A, Gamerith C, Tscheließnig R, Jungbauer A, Rennhofer H, Lichtenegger H, Amenitsch H, Bonazza K, Kubicek CP, Druzhinina IS, Guebitz GM (2015) Enhanced Cutinase-Catalyzed Hydrolysis of Polyethylene Terephthalate by Covalent Fusion to Hydrophobins. Appl Environ Microb 81 (11):3586-3592. doi:10.1128/AEM.04111-14

Yang D, Pomraning K, Kopchinskiy A, Karimi Aghcheh R, Atanasova L, Chenthamara K, Baker SE, Zhang R, Shen Q, Freitag M, Kubicek CP, Druzhinina IS (2015) Genome Sequence and Annotation of Trichoderma parareesei, the Ancestor of the Cellulase Producer Trichoderma reesei. Genome Announcements 3 (4):e00885-00815. doi:10.1128/genomeA.00885-15

Zhang J, Akcapinar GB, Atanasova L, Rahimi MJ, Przylucka A, Yang D, Kubicek CP, Zhang R, Shen Q, Druzhinina IS (2015) The neutral metallopeptidase NMP1 of Trichoderma guizhouense is required for mycotrophy and selfdefence. Environmental Microbiology: https://doi.org/10.1111/1462-2920.12966

Hori C, Ishida T, Igarashi K, Samejima M, Suzuki H, Master E, Ferreira P, Ruiz-Dueñas FJ, Held B, Canessa P, Larrondo LF, Schmoll M, Druzhinina IS, Kubicek CP, Gaskell JA, Kersten P, St. John F, Glasner J, Sabat G, Splinter BonDurant S, Syed K, Yadav J, Mgbeahuruike AC, Kovalchuk A, Asiegbu FO, Lackner G, Hoffmeister D, Rencoret J, Gutiérrez A, Sun H, Lindquist E, Barry K, Riley R, Grigoriev IV, Henrissat B, Kües U, Berka RM, Martínez AT, Covert SF, Blanchette RA, Cullen D (2014) Analysis of the Phlebiopsis gigantea Genome, Transcriptome and Secretome Provides Insight into Its Pioneer Colonization Strategies of Wood. PLoS Genetics 10 (12):e1004759. doi:10.1371/journal.pgen.1004759

Karimi Aghcheh R, Németh Z, Atanasova L, Fekete E, Paholcsek M, Sándor E, Aquino B, Druzhinina IS, Karaffa L, Kubicek CP (2014) The VELVET A Orthologue VEL1 of Trichoderma reesei Regulates Fungal Development and Is Essential for Cellulase Gene Expression. PLoS ONE 9 (11):e112799. doi:10.1371/journal.pone.0112799

Pfliegler WP, Atanasova L, Karanyicz E, Sipiczki M, Bond U, Druzhinina IS, Sterflinger K, Lopandic K (2014) Generation of New Genotypic and Phenotypic Features in Artificial and Natural Yeast Hybrids.12

Agneheh RK, Druzhinina IS, Kubicek CP (2013) The Putative Protein Methyltransferase LAE1 of Trichoderma atroviride Is a Key Regulator of Asexual Development and Mycoparasitism. PLoS ONE 8 (6):e67144. doi:10.1371/journal.pone.0067144

Atanasova L, Crom SL, Gruber S, Coulpier F, Seidl-Seiboth V, Kubicek CP, Druzhinina IS (2013) Comparative transcriptomics reveals different strategies of Trichoderma mycoparasitism. BMC Genomics 14 (1):121. doi:10.1186/1471-2164-14-121

Atanasova L, Knox BP, Kubicek CP, Druzhinina IS, Baker SE (2013) The Polyketide Synthase Gene pks4 of Trichoderma reesei Provides Pigmentation and Stress Resistance. Eukaryotic Cell 12 (11):1499-1508. doi:10.1128/EC.00103-13

Erper I, Turkkan M, Atanasova L, Druzhinina IS, Karaca GH, CebI-KilIcoglu M (2013) Integrated assessment of the mycoparasitic and phytostimulating properties of Trichoderma strains against Rhizoctonia solani. Bulgarian Journal of Agricultural Science 19(4):737-743

Espino-Rammer L, Ribitsch D, Przylucka A, Marold A, Greimel KJ, Herrero Acero E, Guebitz GM, Kubicek CP, Druzhinina IS (2013) Two Novel Class II Hydrophobins from Trichoderma spp. Stimulate Enzymatic Hydrolysis of Poly(Ethylene Terephthalate) when Expressed as Fusion Proteins. Appl Environ Microb 79 (14):4230-4238. doi:10.1128/AEM.01132-13

Karaffa L, Coulier L, Fekete E, Overkamp KM, Druzhinina IS, Mikus M, Seiboth B, Novák L, Punt PJ, Kubicek CP (2013) The intracellular galactoglycome in Trichoderma reesei during growth on lactose. Applied Microbiology and Biotechnology 97 (12):5447-5456. doi:10.1007/s00253-012-4667-y

Lehner SM, Atanasova L, Neumann NKN, Krska R, Lemmens M, Druzhinina IS, Schuhmacher R (2013) Isotope-Assisted Screening for Iron-Containing Metabolites Reveals a High Degree of Diversity among Known and Unknown Siderophores Produced by Trichoderma spp. Appl Environ Microb 79 (1):18-31. doi:10.1128/AEM.02339-12

López-Quintero CA, Atanasova L, Franco-Molano AE, Gams W, Komon-Zelazowska M, Theelen B, Müller WH, Boekhout T, Druzhinina I (2013) DNA barcoding survey of Trichoderma diversity in soil and litter of the Colombian lowland Amazonian rainforest reveals Trichoderma strigosellum sp. nov. and other species. Antonie van Leeuwenhoek 104 (5):657-674. doi:10.1007/s10482-013-9975-4

Mulaw T, Druzhinina I, Kubicek C, Atanasova L (2013) Novel Endophytic Trichoderma spp. Isolated from Healthy Coffea arabica Roots are Capable of Controlling Coffee Tracheomycosis. Diversity 5 (4):750-766. doi:10.3390/d5040750

Pummer BG, Atanasova L, Bauer H, Bernardi J, Druzhinina IS, Fröhlich-Nowoisky J, Grothe H (2013) Spores of many common airborne fungi reveal no ice nucleation activity in oil immersion freezing experiments. Biogeosciences 10 (12):8083-8091. doi:10.5194/bg-10-8083-2013

Degenkolb T, Karimi Aghcheh R, Dieckmann R, Neuhof T, Baker SE, Druzhinina IS, Kubicek CP, Brückner H, von Döhren H (2012) The Production of Multiple Small Peptaibol Families by Single 14-Module Peptide Synthetases in Trichoderma/Hypocrea. Chem Biodiversity 9 (3):499-535. doi:10.1002/cbdv.201100212

Druzhinina IS, Komoń-Zelazowska M, Ismaiel A, Jaklitsch W, Mullaw T, Samuels GJ, Kubicek CP (2012) Molecular phylogeny and species delimitation in the section Longibrachiatum of Trichoderma. Fungal Genetics and Biology 49 (5):358-368. doi:10.1016/j.fgb.2012.02.004

Druzhinina IS, Shelest E, Kubicek CP (2012) Novel traits of Trichoderma predicted through the analysis of its secretome. FEMS Microbiology Letters 337 (1):1-9. doi:10.1111/j.1574-6968.2012.02665.x

Friedl MA, Druzhinina IS (2012) Taxon-specific metagenomics of Trichoderma reveals a narrow community of opportunistic species that regulate each other’s development. Microbiology 158 (1):69-83. doi:10.1099/mic.0.052555-0

Mukherjee PK, Buensanteai N, Moran-Diez ME, Druzhinina IS, Kenerley CM (2012) Functional analysis of non-ribosomal peptide synthetases (NRPSs) in Trichoderma virens reveals a polyketide synthase (PKS)/NRPS hybrid enzyme involved in the induced systemic resistance response in maize. Microbiology 158 (1):155-165. doi:10.1099/mic.0.052159-0

Samuels GJ, Ismaiel A, Mulaw TB, Szakacs G, Druzhinina IS, Kubicek CP, Jaklitsch WM (2012) The Longibrachiatum Clade of Trichoderma: a revision with new species. Fungal Diversity 55 (1):77-108. doi:10.1007/s13225-012-0152-2

Druzhinina IS, Seidl-Seiboth V, Herrera-Estrella A, Horwitz BA, Kenerley CM, Monte E, Mukherjee PK, Zeilinger S, Grigoriev IV, Kubicek CP (2011) Trichoderma: the genomics of opportunistic success. Nature Reviews Microbiology 9 (10):749-759. doi:10.1038/nrmicro2637

Gal-Hemed I, Atanasova L, Komon-Zelazowska M, Druzhinina IS, Viterbo A, Yarden O (2011) Marine Isolates of Trichoderma spp. as Potential Halotolerant Agents of Biological Control for Arid-Zone Agriculture. Appl Environ Microb 77 (15):5100-5109. doi:10.1128/AEM.00541-11

Kubicek CP, Herrera-Estrella A, Seidl-Seiboth V, Martinez DA, Druzhinina IS, Thon M, Zeilinger S, Casas-Flores S, Horwitz BA, Mukherjee PK, Mukherjee M, Kredics L, Alcaraz LD, Aerts A, Antal Z, Atanasova L, Cervantes-Badillo MG, Challacombe J, Chertkov O, McCluskey K, Coulpier F, Deshpande N, von Döhren H, Ebbole DJ, Esquivel-Naranjo EU, Fekete E, Flipphi M, Glaser F, Gómez-Rodríguez EY, Gruber S, Han C, Henrissat B, Hermosa R, Hernández-Oñate M, Karaffa L, Kosti I, Le Crom S, Lindquist E, Lucas S, Lübeck M, Lübeck PS, Margeot A, Metz B, Misra M, Nevalainen H, Omann M, Packer N, Perrone G, Uresti-Rivera EE, Salamov A, Schmoll M, Seiboth B, Shapiro H, Sukno S, Tamayo-Ramos JA, Tisch D, Wiest A, Wilkinson HH, Zhang M, Coutinho PM, Kenerley CM, Monte E, Baker SE, Grigoriev IV (2011) Comparative genome sequence analysis underscores mycoparasitism as the ancestral life style of Trichoderma. Genome Biology 12 (4):R40. doi:10.1186/gb-2011-12-4-r40

Atanasova L, Druzhinina IS (2010) Global nutrient profiling by Phenotype MicroArrays: a tool complementing genomic and proteomic studies in conidial fungi. J Zhejiang Univ Sci B 11 (3):151-168. doi:10.1631/jzus.B1000007

Atanasova L, Jaklitsch WM, Komoń-Zelazowska M, Kubicek CP, Druzhinina IS (2010) Clonal Species Trichoderma parareesei sp. nov. Likely Resembles the Ancestor of the Cellulase Producer Hypocrea jecorina/T. reesei. Appl Environ Microb 76 (21):7259-7267. doi:10.1128/AEM.01184-10

Druzhinina IS, Komoń-Zelazowska M, Atanasova L, Seidl V, Kubicek CP (2010) Evolution and Ecophysiology of the Industrial Producer Hypocrea jecorina (Anamorph Trichoderma reesei) and a New Sympatric Agamospecies Related to It. PLoS ONE 5 (2):e9191. doi:10.1371/journal.pone.0009191

Druzhinina IS, Kubicek CP, Komon-Zelazowska M, Belayneh Mulaw T, Bissett J (2010) The Trichoderma harzianum demon: complex speciation history resulting in coexistence of hypothetical biological species, recent agamospecies and numerous relict lineages. BMC Evolutionary Biology 10 (1):94. doi:10.1186/1471-2148-10-94

Mulaw TB, C.P. K, Druzhinina IS (2010) The Rhizosphere of Coffea Arabica in Its Native Highland Forests of Ethiopia Provides a Niche for a Distinguished Diversity of Trichoderma. Diversity 2(4)

Paz Z, Komon-Zelazowska M, Druzhinina IS, Aveskamp MM, Shnaiderman A, Aluma Y, Carmeli S, Ilan M, Yarden O (2010) Diversity and potential antifungal properties of fungi associated with a Mediterranean sponge. Fungal Diversity 42 (1):17-26. doi:10.1007/s13225-010-0020-x

Kemptner J, Marchetti-Deschmann M, Mach R, Druzhinina IS, Kubicek CP, Allmaier G (2009) Evaluation of matrix-assisted laser desorption/ionization (MALDI) preparation techniques for surface characterization of intact Fusarium spores by MALDI linear time-of-flight mass spectrometry. Rapid Commun Mass Spectrom 23 (6):877-884. doi:10.1002/rcm.3949

Kredics Ls, Kocsubé Sn, Nagy Ls, Komoń-Zelazowska M, Manczinger Ls, Sajben E, Nagy A, Vágvölgyi C, Kubicek CP, Druzhinina IS, Hatvani Lrn (2009) Molecular identification of Trichoderma species associated with Pleurotus ostreatus and natural substrates of the oyster mushroom. FEMS Microbiology Letters 300 (1):58-67. doi:10.1111/j.1574-6968.2009.01765.x

Le Crom S, Schackwitz W, Pennacchio L, Magnuson JK, Culley DE, Collett JR, Martin J, Druzhinina IS, Mathis H, Monot F, Seiboth B, Cherry B, Rey M, Berka R, Kubicek CP, Baker SE, Margeot A (2009) Tracking the roots of cellulase hyperproduction by the fungus Trichoderma reesei using massively parallel DNA sequencing. Proceedings of the National Academy of Sciences 106 (38):16151-16156. doi:10.1073/pnas.0905848106

Migheli Q, Balmas V, Komoñ-Zelazowska M, Scherm B, Fiori S, Kopchinskiy AG, Kubicek CP, Druzhinina IS (2009) Soils of a Mediterranean hot spot of biodiversity and endemism (Sardinia, Tyrrhenian Islands) are inhabited by pan-European, invasive species of Hypocrea/Trichoderma. Environmental Microbiology 11 (1):35-46. doi:10.1111/j.1462-2920.2008.01736.x

Mikus M, Hatvani Lrn, Neuhof T, Komoń-Zelazowska M, Dieckmann R, Schwecke T, Druzhinina IS, von D�hren H, Kubicek CP (2009) Differential Regulation and Posttranslational Processing of the Class II Hydrophobin Genes from the Biocontrol Fungus Hypocrea atroviridis. Appl Environ Microb 75 (10):3222-3229. doi:10.1128/AEM.01764-08

Zachow C, Berg C, Müller H, Meincke R, Komon-Zelazowska M, Druzhinina IS, Kubicek CP, Berg G (2009) Fungal diversity in the rhizosphere of endemic plant species of Tenerife (Canary Islands): relationship to vegetation zones and environmental factors. The ISME Journal 3 (1):79-92. doi:10.1038/ismej.2008.87

Brunner K, Omann M, Pucher ME, Delic M, Lehner SM, Domnanich P, Kratochwill K, Druzhinina I, Denk D, Zeilinger S (2008) Trichoderma G protein-coupled receptors: functional characterisation of a cAMP receptor-like protein from Trichoderma atroviride. Current Genetics 54 (6):283-299. doi:10.1007/s00294-008-0217-7

Druzhinina IS, Komoń-Zelazowska M, Kredics L, Hatvani L, Antal Z, Belayneh T, Kubicek CP (2008) Alternative reproductive strategies of Hypocrea orientalis and genetically close but clonal Trichoderma longibrachiatum, both capable of causing invasive mycoses of humans. Microbiology 154 (11):3447-3459. doi:10.1099/mic.0.2008/021196-0

Friedl MA, Kubicek CP, Druzhinina IS (2008) Carbon Source Dependence and Photostimulation of Conidiation in Hypocrea atroviridis. Appl Environ Microb 74 (1):245-250. doi:10.1128/AEM.02068-07

Friedl MA, Schmoll M, Kubicek CP, Druzhinina IS (2008) Photostimulation of Hypocrea atroviridis growth occurs due to a cross-talk of carbon metabolism, blue light receptors and response to oxidative stress. Microbiology 154(Pt 4):1229-41

Jaklitsch WM, Kubicek CP, Druzhinina IS (2008) Three European species of Hypocrea with reddish brown stromata and green ascospores. Mycologia 100 (5):796-815. doi:10.3852/08-039

Kubicek CP, Baker SE, Gamauf C, Kenerley CM, Druzhinina IS (2008) Purifying selection and birth-and-death evolution in the class II hydrophobin gene families of the ascomycete Trichoderma/Hypocrea. BMC Evolutionary Biology 8 (1):4. doi:10.1186/1471-2148-8-4

Kubicek CP, Komon-Zelazowska M, Druzhinina IS (2008) Fungal genus Hypocrea/Trichoderma: from barcodes to biodiversity. J Zhejiang Univ Sci B 9 (10):753-763. doi:10.1631/jzus.B0860015

Seidl V, Gamauf C, Druzhinina IS, Seiboth B, Hartl L, Kubicek CP (2008) The Hypocrea jecorina (Trichoderma reesei) hypercellulolytic mutant RUT C30 lacks a 85 kb (29 gene-encoding) region of the wild-type genome. BMC Genomics 9 (1):327. doi:10.1186/1471-2164-9-327

Váczy KZ, Sándor E, Karaffa L, Fekete E, Fekete É, Árnyasi M, Czeglédi L, Kövics GJ, Druzhinina IS, Kubicek CP (2008) Sexual Recombination in the Botrytis cinerea Populations in Hungarian Vineyards. Phytopathology 98 (12):1312-1319. doi:10.1094/PHYTO-98-12-1312

Druzhinina IS, LaFe K, Willinger B, Komoń-Zelazowska M, Ammirati J, Kubicek CP, Rogers JD (2007) An Unknown Hypocreaceae Species Isolated from Human Lung Tissue of a Patient with Non-Fatal Pulmonary Fibrosis. Clinical Microbiology Newsletter 29 (23):180-184. doi:10.1016/j.clinmicnews.2007.11.002

Hatvani L, Antal Z, Manczinger L, Szekeres A, Druzhinina IS, Kubicek CP, Nagy A, Nagy E, Vágvölgyi C, Kredics L (2007) Green Mold Diseases of Agaricus and Pleurotus spp. Are Caused by Related but Phylogenetically Different Trichoderma Species. Phytopathology 97 (4):532-537. doi:10.1094/PHYTO-97-4-0532

Komoń-Zelazowska M, Bissett J, Zafari D, Hatvani L, Manczinger L, Woo S, Lorito M, Kredics L, Kubicek CP, Druzhinina IS (2007) Genetically Closely Related but Phenotypically Divergent Trichoderma Species Cause Green Mold Disease in Oyster Mushroom Farms Worldwide. Appl Environ Microb 73 (22):7415-7426. doi:10.1128/AEM.01059-07

Komon-Zelazowska M, Neuhof T, Dieckmann R, von Döhren H, Herrera-Estrella A, Kubicek CP, Druzhinina IS (2007) Formation of Atroviridin by Hypocrea atroviridis Is Conidiation Associated and Positively Regulated by Blue Light and the G Protein GNA3. Eukaryotic Cell 6 (12):2332-2342. doi:10.1128/EC.00143-07

Kubicek CP, Komoń-Zelazowska M, Sándor E, Druzhinina IS (2007) Facts and Challenges in the Understanding of the Biosynthesis of Peptaibols by Trichoderma. Chem Biodiversity 4 (6):1068-1082. doi:10.1002/cbdv.200790097

Nagy V, Seidl V, Szakacs G, Komoń-Zelazowska M, Kubicek CP, Druzhinina IS (2007) Application of DNA Bar Codes for Screening of Industrially Important Fungi: the Haplotype of Trichoderma harzianum Sensu Stricto Indicates Superior Chitinase Formation. Appl Environ Microb 73 (21):7048-7058. doi:10.1128/AEM.00995-07

Neuhof T, Dieckmann R, Druzhinina IS, Kubicek CP, Nakari-Setälä T, Penttilä M, von Döhren H (2007) Direct identification of hydrophobins and their processing in Trichoderma using intact-cell MALDI-TOF MS: Trichoderma hydrophobins. FEBS Journal 274 (3):841-852. doi:10.1111/j.1742-4658.2007.05636.x

Neuhof T, Dieckmann R, Druzhinina IS, Kubicek CP, von Döhren H (2007) Intact-cell MALDI-TOF mass spectrometry analysis of peptaibol formation by the genus Trichoderma/Hypocrea: can molecular phylogeny of species predict peptaibol structures? Microbiology 153 (10):3417-3437. doi:10.1099/mic.0.2007/006692-0

Schuster A, Kubicek CP, Friedl MA, Druzhinina IS, Schmoll M (2007) Impact of light on Hypocrea jecorina and the multiple cellular roles of ENVOY in this process. BMC Genomics 8 (1):449. doi:10.1186/1471-2164-8-449

Zhang C-l, Liu S-p, Lin F-c, Kubicek CP, Druzhinina IS (2007) Trichoderma taxi sp. nov., an endophytic fungus from Chinese yew Taxus mairei. FEMS Microbiology Letters 270 (1):90-96. doi:10.1111/j.1574-6968.2007.00659.x

Dela Cruz TEE, Schulz BE, Kubicek CP, Druzhinina IS (2006) Carbon source utilization by the marine Dendryphiella species D. arenaria and D. salina. FEMS Microbiology Ecology 58 (3):343-353. doi:10.1111/j.1574-6941.2006.00184.x

Druzhinina IS, Kopchinskiy AG, Kubicek CP (2006) The first 100 Trichoderma species characterized by molecular data. Mycoscience 47 (2):55-64. doi:10.1007/S10267-006-0279-7

Druzhinina IS, Schmoll M, Seiboth B, Kubicek CP (2006) Global Carbon Utilization Profiles of Wild-Type, Mutant, and Transformant Strains of Hypocrea jecorina. Appl Environ Microb 72 (3):2126-2133. doi:10.1128/AEM.72.3.2126-2133.2006

Jaklitsch WM, Komon M, Kubicek CP, Druzhinina IS (2006) Hypocrea crystalligena sp. nov., a common European species with a white-spored Trichoderma anamorph. Mycologia 98(3):499-513

Jaklitsch WM, Komon M, Kubicek CP, Druzhinina IS (2006) Hypocrea voglmayrii sp. nov. from the Austrian Alps represents a new phylogenetic clade in Hypocrea/Trichoderma. Mycologia 97(6):1365-78

Jaklitsch WM, Samuels GJ, Dodd SL, Lu B-S, Druzhinina IS (2006) Hypocrea rufa/Trichoderma viride: a reassessment, and description of five closely related species with and without warted conidia. Studies in Mycology 56:135-177. doi:10.3114/sim.2006.56.04

Samuels GJ, Dodd SL, Lu B-S, Petrini O, Schroers H-J, Druzhinina IS (2006) The Trichoderma koningii aggregate species. Studies in Mycology 56:67-133. doi:10.3114/sim.2006.56.03

Seidl V, Druzhinina IS, Kubicek CP (2006) A screening system for carbon sources enhancing β-N-acetylglucosaminidase formation in Hypocrea atroviridis (Trichoderma atroviride). Microbiology 152 (7):2003-2012. doi:10.1099/mic.0.28897-0

Druzhinina I, Kubicek CP (2005) Species concepts and biodiversity in Trichoderma and Hypocrea: from aggregate species to species clusters? J Zhejiang Univ Sci B (2):100-112. doi:10.1631/jzus.2005.B0100

Druzhinina IS, Kopchinskiy AG, Komoń M, Bissett J, Szakacs G, Kubicek CP (2005) An oligonucleotide barcode for species identification in Trichoderma and Hypocrea. Fungal Genetics and Biology 42 (10):813-828. doi:10.1016/j.fgb.2005.06.007

Kopchinskiy A, Komoń M, Kubicek CP, Druzhinina IS (2005) TrichoBlast: A Multilocus Database for Trichoderma and Hypocrea Identifications. Mycol Res 109 (6):658-660. doi:10.1017/S0953756205233397

Zhang C-l, Druzhinina IS, Kubicek CP, Xu T (2005) Trichoderma biodiversity in China: Evidence for a North to South distribution of species in East Asia. FEMS Microbiology Letters 251 (2):251-257. doi:10.1016/j.femsle.2005.08.034

Druzhinina I, Palma-Oliveira JM (2004) Radioactive contamination of wild mushrooms: a cross-cultural risk perception study. Journal of Environmental Radioactivity 74 (1-3):83-90. doi:10.1016/j.jenvrad.2004.01.025

Druzhinina IS, Chaverri P, Fallah P, Kubicek CP, Samuels GJ (2004) Hypocrea flaviconidia, a new species from Costa Rica with yellow conidia. Studies in Mycology, 50:401–407.

Gherbawy Y, Druzhinina I, Shaban GM, Wuczkowsky M, Yaser M, El-Naghy MA, Prillinger H-J, Kubicek CP (2004) Trichoderma populations from alkaline agricultural soil in the Nile valley, Egypt, consist of only two species. Mycol Prog 3 (3):211-218. doi:10.1007/s11557-006-0091-y

Kraus GF, Druzhinina I, Gams W, Bissett J, Zafari D, Szakacs G, Koptchinski A, Prillinger H, Zare R, Kubicek CP (2004) Trichoderma brevicompactum sp. nov. Mycologia 96 (5):1059-1073. doi:10.1080/15572536.2005.11832905

Lu B, Druzhinina IS, Fallah P, Chaverri P, Gradinger C, Kubicek CP, Samuels GJ (2004) Hypocrea/Trichoderma species with pachybasium-like conidiophores: teleomorphs for T. minutisporum and T. polysporum and their newly discovered relatives. Mycologia 96(2):310-42

Pail M, Peterbauer T, Seiboth B, Hametner C, Druzhinina I, Kubicek CP (2004) The metabolic role and evolution of l-arabinitol 4-dehydrogenase of Hypocrea jecorina. Eur J Biochem 271 (10):1864-1872. doi:10.1111/j.1432-1033.2004.04088.x

Bissett J, Szakacs G, Nolan CA, Druzhinina I, Gradinger C, Kubicek CP (2003) New species of Trichoderma from Asia. Can J Bot 81 (6):570-586. doi:10.1139/b03-051

Kubicek CP, Bissett J, Druzhinina I, Kullnig-Gradinger C, Szakacs G (2003) Genetic and metabolic diversity of Trichoderma: a case study on South-East Asian isolates. Fungal Genetics and Biology 38 (3):310-319. doi:10.1016/S1087-1845(02)00583-2

Wuczkowski M, Druzhinina I, Gherbawy Y, Klug B, Prillinger H, Kubicek CP (2003) Species pattern and genetic diversity of Trichoderma in a mid-European, primeval floodplain-forest. Microbiological Research 158 (2):125-133. doi:10.1078/0944-5013-00193

Druzhinina IS, Insarova ID, Shnyreva AV, D’Yakov YT, Altukhov YP (1997) Homokaryotic mycelial pellets of basidiomycetes: Application to genetic analysis. Russian Journal of Genetics 33 (5):521-526

Irina S. Druzhinina, Ph. D.

Irina S. Druzhinina

Nanjing Agricultural University, College of Resources and Environmental Sciences

Weigang NO. 1, Nanjing, P.R. China, 210095 Tel +86 15 996344211

FungiG Fungal Genomics Group

Website:             www.FungiG.org

Email:                   Irina.druzhinina@njau.edu.cn

ORCID:                   0000-0003-2821-5268

Research Gate: https://www.researchgate.net/profile/Irina-Druzhinina

Google Scholar: https://scholar.google.com/citations?user=TRnrszkAAAAJ&hl=ru&oi=ao

Professor (Full), Fungal Genomics Laboratory (FungiG), Leader

Editor, Applied and Environmental Microbiology (AEM), ASM

Head of the TU Wien Collection of Industrial Microorganisms, Vienna, Austria

Associate Editor, Mycoasia

Editorial Board Member, Fungal Biology and Biotechnology, BMC

Head of the International Committee of Trichoderma Taxonomy (ICTT)

Coordinator of Trichoderma whole genus genomics project, JGI DOE, Berkeley, USA

Feng Cai

Feng Cai

Feng Cai, Ph.D

ORCID: 0000-0003-2032-6190

Current position: Postdoc

Tel.: +86 (0)25 84396825

E-mail: fengcai@njau.edu.cn

Address: Nanjing Agricultural University, Yifulou 5064, Weigang 1, Nanjing 210095, P.R. China

Research Gate

RESEARCH INTEREST

I am mainly working on fungal ecological genomics using Trichoderma spp. as the model for fitness, speciation, diversity and evolution. Ubiquitously spread on land and ocean, fungi form one of the most diverse eukaryotic phyla with millions of species. However, the peculiarities of their biology such as their pleomorphic life cycles with frequent prevalence of asexual reproduction, prolonged stages of dormancy and superior metabolic plasticity impede studies on fungal evolution and ecology, leaving this group largely unexplored. On the other hand, the unique fungal traits can shed light on the evolutionary forces that shape their environmental adaptions. Filamentous fungi that disperse through aerial spores produce unique amphiphilic and highly surface-active proteins, hydrophobins (HFBs), which coat spores and mediate a multitude of environmental interactions. We recently exploited a library of hfb-edited mutants for closely-related Trichoderma species and the HFBome in this fungus at a genus-wide level. The results pointed fungal HFBs are linked with their fitness that address fungal development, reproductive potential and stress resistance. And the net contribution of such genes to fitness was found to result from the evolutionary tradeoff between individual effects. In parallel, the question how spores get coated by such a huge HFB matrix on their surface also raised the interest of our research. Using the HFB-enriched mold Trichoderma and the HFB‐free yeast Pichia pastoris, we found that HFBs tended to accumulate in lipid bodies (LBs). Subsequent internalization of such LBs in vacuoles resulted in the maintenance of turgor pressure in aerial hyphae which are seen as “conidia rings” on colony. Besides, I am also interested into exploring the functional roles of other small secreted cysteine-rich proteins (SSCPs) playing in the complex environment called “hyphosphere” that created by the fungus itself.

RESEARCH KEYWORDS

Cerato-platanin (CP), DNA barcoding, Ecological genetics, evolution, fungal-bacterial interaction, fungal-plant interaction, fungal diversity, fitness, halotolerant microbes, hydrophobin (HFB), new fungus exploration, phylogeny, plastic biodegradation, saline agriculture, small secreted cysteine-rich proteins (SSCP), spore dispersal, soil microbiome, speciation, Trichoderma, WGS

PRESENTATIONS ON THE INTERNATIONAL CONFERENCES

(Talk) “Never shall those born to crawl, learn to fly: Evolutionary compromises between spore hydrophobicity and fitness in Trichoderma”. The 15th European Conference on Fungal Genetics (ECFG15), February 2020. Rome, Italy.

(Talk) “Hydrophobins influence fungal fitness by modulating spore dispersal and survival”, Session “Fungal spore: development, dormancy and germination”. The 30th Fungal Genetics Conference, March 2019. Asilomar, CA, USA.

(Poster) “Unconventional secretion of hydrophobins by aerial hyphae resembles the autophagy and explains the conidiation landscape of Trichoderma colony”. The 30th Fungal Genetics Conference, March 2019. Asilomar, CA, USA.

(Poster) “Hydrophobins constitute the major part of the massive extracellular matrix of the conidiating Trichoderma colony and influence its fitness by modulating spore dispersal and survival”. The 30th Fungal Genetics Conference, March 2019. Asilomar, CA, USA.

(Poster) “Hydrophobins of Trichoderma guizhouense inhibit tomato defense system for successful colonization of rhizosphere”. The 13th European Conference on Fungal Genetics (ECFG13), April, 2016. Paris, France.

(Poster) “HFB8, the orphan-hydrophobin of Trichoderma guizhouense, is involved in mycoparasitism, surface growth and protects hyphae from fungicides”, The 14th European Conference on Fungal Genetics (ECFG14), February, 2018. Haifa, Israel.

LANGUAGE SKILLS

Chinese                                         Native

English                                          Fluent

German                                         Basic

 LIST OF PUBLICATIONS

FIRST- AND CORRESPONDING-AUTHORED ARTICLES

Cai, F., Gao, R., Zhao, Z., Ding, M., Jiang, S., Yagtu, C., Zhu, H., Zhang, J., Ebner, T., Mayrhofer-Reinhartshuber, M., Kainz, P., Chenthamara, K., Bayram-Akcapinar, G., Shen, Q., and Druzhinina, I. S. Evolutionary compromises in fungal fitness: hydrophobins hinder the adverse dispersal of spores and challenge their survival. ISME J 14, 2610–2624 (2020). https://doi.org/10.1038/s41396-020-0709-0

Ding, M., Chen, W., Ma, X., Lv, B., Gao, R., Jiang, S., Zhao, Z., Cai, F.*, and Druzhinina, I. S. Emerging salt marshes as a source of Trichoderma arenerea sp. nov. and other fungal bioeffectors for biosaline agriculture. (in press, Journal of Applied Microbiology)

Gao, R., Ding, M., Jiang, S., Zhao, Z., Chenthamara, K., Shen, Q. Cai, F.*, Druzhinina I.S. 2020. The evolutionary and functional paradox of cerato-platanins in the mycoparasitic fungi. Applied and Environmental Microbiology 86:e00696-20

Cai, F., Pang, G., Li, R.-X., Li, R., Gu, X.-L., Shen, Q.-R., and Chen, W. 2017a. Bioorganic fertilizer maintains a more stable soil microbiome than chemical fertilizer for monocropping. Biology and Fertility of Soils. 53:861–872

Cai, F., Pang, G., Miao, Y., Li, R., Li, R., Shen, Q., and Chen, W. 2017b. The nutrient preference of plants influences their rhizosphere microbiome. Applied Soil Ecology. 110:146–150

Cai, F., Chen, W., Wei, Z., Pang, G., Li, R., Ran, W., and Shen, Q. 2015. Colonization of Trichoderma harzianum strain SQR-T037 on tomato roots and its relationship to plant growth, nutrient availability and soil microflora. Plant and Soil. 388:337–350

Li, R.-X., Cai, F., Pang, G., Shen, Q.-R., Li, R., and Chen, W. 2015. Solubilisation of phosphate and micronutrients by Trichoderma harzianum and its relationship with the promotion of tomato plant growth. PLoS ONE. 10:e0130081 (shared first authorship)

Cai, F., Yu, G., Wang, P., Wei, Z., Fu, L., Shen, Q., and Chen, W. 2013. Harzianolide, a novel plant growth regulator and systemic resistance elicitor from Trichoderma harzianum. Plant Physiology and Biochemistry. 73:106–113

CO-AUTHORED ARTICLES

Perez-Llano, Y., Rodriguez-Pupo, E.C., Druzhinina, I.S., Chenthamara, K., Cai, F., Gunde-Cimerman, N. et al. 2020. Stress reshapes the physiological response of halophile fungi to salinity. Cells 9.

Zhang, Y., Wang, X., Pang, G., Cai, F., Zhang, J., Shen, Z., Li, R., and Shen, Q., 2019. Two-step genomic sequence comparison strategy to design Trichoderma strain-specific primers for quantitative PCR. AMB Express 9: 179.

Zhang, J., Miao, Y., Rahimi, M.J., Zhu, H., Steindorff, A., Schiessler, S., Cai, F., Pang, G., Chenthamara, K., Xu, Y., Kubicek, C.P., Shen, Q., Druzhinina, I.S., 2019. Guttation capsules containing hydrogen peroxide: an evolutionarily conserved NADPH oxidase gains a role in wars between related fungi: The role of hydrogen peroxide in fungal wars. Environmental Microbiology.

Hatvani, L., Homa, M., Chenthamara, K., Cai, F., Kocsubé, S., Atanasova, L., Mlinaric-Missoni, E., Manikandan, P., Revathi, R., Dóczi, I., Iványi, B., Bogáts, G., Narendran, V., Büchner, R., Vágvölgyi, C., Druzhinina, I.S., Kredics, L. 2019. Agricultural systems as potential sources of emerging human mycoses caused by Trichoderma FEMS Microbiology Letters, in press

Jiang, S.-Q., Yu, Y.-N., Gao, R.-W., Wang, H., Zhang, J., Li, R., Long, X.-H., Shen, Q.-R., Chen, W., and Cai, F. 2019. High-throughput absolute quantification sequencing reveals the effect of different fertilizer applications on bacterial community in a tomato cultivated coastal saline soil. Science of the Total Environment. 687:601–609

Kubicek, C. P., Steindorff, A. S., Chenthamara, K., Manganiello, G., Henrissat, B., Zhang, J., Cai, F., Kopchinskiy, A. G., Kubicek, E. M., Kuo, A., Baroncelli, R., Sarrocco, S., Noronha, E. F., Vannacci, G., Shen, Q., Grigoriev, I. V., and Druzhinina, I. S. 2019. Evolution and comparative genomics of the most common Trichoderma species. BMC Genomics. 20

Druzhinina, I. S., Chenthamara, K., Zhang, J., Atanasova, L., Yang, D., Miao, Y., Rahimi, M. J., Grujic, M., Cai, F., Pourmehdi, S., Salim, K. A., Pretzer, C., Kopchinskiy, A. G., Henrissat, B., Kuo, A., Hundley, H., Wang, M., Aerts, A., Salamov, A., Lipzen, A., LaButti, K., Barry, K., Grigoriev, I. V., Shen, Q., and Kubicek, C. P. 2018. Massive lateral transfer of genes encoding plant cell wall-degrading enzymes to the mycoparasitic fungus Trichoderma from its plant-associated hosts. PLOS Genetics. 14:e1007322

Pang, G., Cai, F., Li, R., Zhao, Z., Li, R., Gu, X., Shen, Q., and Chen, W. 2017. Trichoderma-enriched organic fertilizer can mitigate microbiome degeneration of monocropped soil to maintain better plant growth. Plant and Soil. 416:181–192

Przylucka, A., Akcapinar, G. B., Chenthamara, K., Cai, F., Grujic, M., Karpenko, J., Livoi, M., Shen, Q., Kubicek, C. P., and Druzhinina, I. S. 2017. HFB7 – A novel orphan hydrophobin of the Harzianum and Virens clades of Trichoderma, is involved in response to biotic and abiotic stresses. Fungal Genetics and Biology. 102:63–76

BOOK CHAPTERS

Chenthamara, K., Rahimi, M., Grujic, M., Druzhinina, I. S. and Cai, F.* Trichoderma reesei – Methods and Protocols: Ecological genomics and evolution of Trichoderma reesei, Mach-Aignar, A., and Martzy, R., eds. Methods in Molecular Biology, Springer Nature (in press)

Rahimi, M., Cai, F., Grujic, M., Chenthamara, K., andDruzhinina, I. S. Trichoderma reesei – Methods and Protocols: Molecular identification of Trichoderma reesei. Mach-Aignar, A. and Martzy, R., eds. Methods in Molecular Biology, Springer Nature (in press)

Cai, F., Kubicek, C. P., and Druzhinina, I. S. Biofuels and Biodiesel: Genetic transformation of Trichoderma spp. Chhandak B., ed. Methods in Molecular Biology, Springer Nature (in press)