Prof. Dr. Thomas Hohn (Lab Head)

PD Dr. Mikhail Pooggin (Lab co-Head, an independent group leader)

Dr. Anna Zvereva (Postdoc; SNSF grant)

Dr. Rajendran Rajeswaran (Postdoc; Marie Curie fellowship)

Nachelli Malpica Lopez (PhD student; SNSF grant)

Jonathan Seguin (PhD student; COST grant)

Victor Golyaev (Master student)

4056 Basel, Schönbeinstr. 6
Lab: +41 61 267 3502
Office: + 41 61 267 2977 (TH: 697 7266)

 

Current research projects:

  • “Silencing and Cell Cycle Inducted and Suppressed by Geminiviruses”. Funded by the Swiss National Science Foundation (SNSF); www.snf.ch
  • “Innate immunity and silencing in plant defense against plant pararetroviruses”. Funded by the Swiss National Science Foundation (SNSF); www.snf.ch
  • “Genetic diversity and RNAi-based control of cassava mosaic geminiviruses in India”. Funded by the Indo-Swiss Collaboration in Biotechnology (ISCB). http://iscb.epfl.ch
  • “Next generation sequencing for studying viruses and RNA silencing-based antiviral defense in crop plants”. Funded by European Cooperation in Science and Technology (COST); www.cost.esf.org
  • “Plant virus control employing RNA-based vaccines: A novel non-transgenic strategy.” The COST action FA0806; http://costfa0806.aua.gr

 

 

 


 

2012

  • Aregger M, Borah B, Seguin J, Rajeswaran R, Gubaeva E, Zvereva A, Windels D, Vazquez F, Blevins T, Farinelli L, Pooggin M. 2012. Primary and Secondary siRNAs in Geminivirus-induced Gene Silencing. PLoS Pathogens, 8: e1002941
  • Pooggin MM, Rajeswaran R, Schepetilnikov MV, Ryabova LA (2012) Short ORF-Dependent Ribosome Shunting Operates in an RNA Picorna-Like Virus and a DNA Pararetrovirus that Cause Rice Tungro Disease. PLoS Pathogens 8: e1002568.
  • Rajeswaran R, Aregger M, Zvereva AS, Borah BK, Gubaeva EG, Pooggin MM (2012) Sequencing of RDR6-dependent double-stranded RNAs reveals novel features of plant siRNA biogenesis. Nucleic Acids Research Mar 19. [Epub ahead of print]
  • Rajeswaran R, Pooggin MM (2012) Role of virus-derived small RNAs in plant antiviral defense: insights from DNA viruses. In MicroRNAs in Plant development and Stress Response. Edited by R. Sunkar. Springer-Verlag Berlin Heidelberg, pp. 261-289.
  • Rajeswaran R, Pooggin MM (2012) RDR6-mediated synthesis of complementary RNA is terminated by miRNA stably bound to template RNA. Nucleic Acids Research 40: 594-599.
  • Zvereva AS, Pooggin MM (2012) Review: Silencing and Innate Immunity in Plant Defense Against Viral and Non-Viral Pathogens.Viruses 4: 2578-259

 

2008-2011

  • Rajeswaran R, Pooggin MM. 2011. RDR6-mediated synthesis of complementary RNA is terminated by miRNA stably bound to template RNA. Nucleic Acids Research Sep 19. [Epub ahead of print].
  • Amin I, Hussain K, Akbergenov R, Yadav JS, Qazi J, Mansoor S, Hohn T, Fauquet CM, Briddon RW. 2011. Suppressors of RNA silencing encoded by the components of the cotton leaf curl begomovirus-betasatellite complex. Mol Plant Microbe Interact. 24: 973-83.
  • Hohn T and Vazquez F. 2011. RNA Silencing Pathways of Plants: Silencing and its Suppression by Plant DNA Viruses. Biochimica et Biophysica Acta - Gene Regulatory Mechanisms.
  • Hu Q, Hollunder J, Niehl A, Kørner CJ, Gereige D, Windels D, Arnold A, Kuiper M, Vazquez F, Pooggin M, Heinlein M. 2011. Specific impact of tobamovirus infection on the Arabidopsis small RNA profile. PLoS One 6: e19549.
  • Blevins T, Rajeswaran R, Aregger M, Borah BK, Schepetilnikov M, Baerlocher L, Farinelli L, Meins F Jr, Hohn T, Pooggin MM. 2011. Massive production of small RNAs from a non-coding region of Cauliflower mosaic virus in plant defense and viral counter-defense. Nucleic Acids Research 39:5003-14.
  • Hohn T, Schachermayr G (2010) Genetic modification as a new tool in the resistance toolbox. In Strange R (editor) "The role of plant pathology in food safety and food security". p 73-76 Springer
  • Esfandiari N, Kohi-Habibi M, Hohn T, Pooggin MM. 2009. Complete genome sequence of an Iranian isolate of Potato virus X from the legume plant Pisum sativum. Virus Genes 39: 141-145.
  • Thiébeauld O, Schepetilnikov M, Park HS, Geldreich A, Kobayashi K, Keller M, Hohn T, Ryabova LA. 2009. A new plant protein interacts with eIF3 and 60S to enhance virus-activated translation re-initiation. EMBO J. 28: 3171-84.
  • Staginnus C, Iskra-Caruana ML, Lockhart B, Hohn T, Richert-Pöggeler KR. 2009. Suggestions for a nomenclature of endogenous pararetroviral sequences in plants. Arch Virol. 154: 1189-93.
  • Shivaprasad PV, Rajeswaran R, Blevins T, Schoelz J, Meins F Jr, Hohn T, Pooggin MM. 2008. The CaMV transactivator/viroplasmin interferes with RDR6-dependent trans-acting and secondary siRNA pathways in Arabidopsis. Nucleic Acids Research 36: 5896-5909.
  • Deb Roy S, Saxena M, Bhomkar PS, Pooggin M, Hohn T, Bhalla-Sarin N. 2008. Generation of marker free salt tolerant transgenic plants of Arabidopsis thaliana using the gly I gene and cre gene under inducible promoters. Plant Cell, Tissue and Organ Culture 95: 1-14.
  • Pooggin MM, Futterer J, Hohn T. 2008. Cross-species functionality of pararetroviral elements driving ribosome shunting. PLoS One 3: :e1650.
  • Hohn T (2008) Caulimoviruses: Molecular Biology. Encyclopedia of Virology (B.W.J. Mahy and M.H.V. Van Regenmortel, Editors) Oxford: Elsevier pp 464-469
  • Hohn T (2008) Plant pathogenic DNA viruses. In The Encyclopedia of Microbiology (Moselio Schaechter, ed.) Oxford: Elsevier pp 430-442.

2007

  • Hohn T (2007) Plant virus transmission from the insect point of view. Proc Natl Acad Sci U S A 104: 17905-17906
  • Hohn T, Akbergenov R, Pooggin MM (2007) Production and transport of the silencing signal in transgenic and virus-infected plant systems. In E Waigmann, M Heinlein, eds Viral transport in plant. Springer, Berlin, pp 127-157
  • Hohn T, Richert-Pöggeler KR, Staginnus C, Harper G, Schwarzacher T, Teo CH, Teycheney P-Y, Iskra-Caruana M-L, Hull R (2007) Evolution of integrated plant viruses.. In MJ Roossinck, ed, Evolution of Viruses, Springer, Heidelberg, pp. 53-80
  • Noreen F, Akbergenov R, Hohn T, Richert-Pöggeler KR (2007) Distinct expression of endogenous Petunia vein clearing virus and the DNA transposon dTph1 in two Petunia hybrida lines is correlated with differences in histone modification and siRNA production. Plant J 50: 219-229
  • Rajeswaran R, Sunitha S, Shivaprasad PV, Pooggin MM, Hohn T, Veluthambi K (2007) The mungbean yellow mosaic begomovirus transcriptional activator protein transactivates the viral promoter-driven transgene and causes toxicity in transgenic tobacco plants. Mol Plant Microbe Interact 20: 1545-1554
  • Vanderschuren H, Akbergenov R, Pooggin MM, Hohn T, Gruissem W, Zhang P (2007) Transgenic cassava resistance to African cassava mosaic virus is enhanced by viral DNA-A bidirectional promoter-derived siRNAs. Plant Mol Biol 64: 549-557
  • Vogler H, Akbergenov R, Shivaprasad PV, Dang V, Fasler M, Kwon MO, Zhanybekova S, Hohn T, Heinlein M (2007) Modification of small RNAs associated with suppression of RNA silencing by tobamovirus replicase protein. J Virol 81: 10379-10388

2006

  • Akbergenov R, Si-Ammour A, Blevins T, Amin I, Kutter C, Vanderschuren H, Zhang P, Gruissem W, Meins F, Hohn T, Pooggin MM. 2006. Molecular characterization of geminivirus-derived small RNAs in different plant species. Nuc Acids Res, 34, 462-471
  • Blevins T, Rajeswaran R, Shivaprasad PV, Beknazariants D, Si-Ammour A, Park H-S, Vazquez F, Robertson D, Meins F, Hohn T and Pooggin MM. 2006. Multiple plant dicers mediate viral small RNA biogenesis and DNA virus induced gene silencing. Nucleic Acids Research, 34, 6233-6246.
  • Pooggin MM, Ryabova LA, He X, Fütterer J, Hohn T. 2006. Mechanism of ribosomal shunting in rice tungro bacillifom virus. RNA 12 , 841-850
  • Ryabova, L.A., Pooggin, M. M.; Hohn, T. 2006. Translation reinitiation and leaky scanning in plant viruses. Virus Research 119 ,52-62.
  • Staginnus, Ch., Richert-Pöggeler, K.R. 2006. Endogenous pararetroviruses: two-faced travelers in the plant genome. Trends in Plant Science 11, 485-491.

 

 

 

2005

  • Geering , A. D. , M.M. Pooggin, N.E. Olszewski, , B.E. Lockhart, J.E. Thomas. 2005. Characterisation of Banana streak Mysore virus and evidence that its DNA is integrated in the B genome of cultivated Musa. Arch Virol, 150 : 787-796
  • Guerra-Peraza, O., D. Kirk, V. Seltzer, K. Veluthambi, A.-C. Schmit, T. Hohn, E. Herzog. 2005. The coat proteins of Rice tungro bacilliform virus and Mungbean yellow mosaic virus contain multiple nuclear localization signals and interact with importin a. J Gen. Virol., 86: 1815-1826

    Shivaprasad, P.V., R. Akbergenov, D. Trinks, R. Rajeshwari, K. Veluthambi, T. Hohn, M. M. Pooggin. 2005. Promoters, transcripts and regulatory proteins of Mungbean yellow mosaic geminivirus. J Virol, 79: 8149-8163
  • Stavolone, L., M. E. Villani, D. Leclerc, T. Hohn. 2005. The virion-associated-protein (VAP) mediates Cauliflower mosaic virus (CaMV) movement from cell to cell. Proc Natl Acad Sci U S A, 102 : 6219-6224
  • Trinks D, Rajeswaran R, Shivaprasad PV, Akbergenov R, Oakley E, Veluthambi K, Hohn T, Pooggin MM. 2005. Suppression of silencing by gemininirus nuclear protein AC2 correlates with transactivation of host genes. J. Virol., 79: 2517-2527.

 

 

 

2004

  • Akbergenov RZ, Zhanybekova SS, Kryldakov RV, Zhigailov A, Polimbetova NS, Hohn T, Iskakov BK (2004) ARC-1, a sequence element complementary to an internal 18S rRNA segment, enhances translation efficiency in plants when present in the leader or intercistronic region of mRNAs. Nucleic Acids Res 32: 239-247
  • Froissart, R., M. Uzest, V. Ruiz-Ferrer, M. Drucker, E. Hebrard, T. Hohn, S. Blanc. 2004. Splicing of Cauliflower mosaic virus 35S RNA serves to downregulate a toxic gene product. Journal of General Virology 85: 2719-2726
  • Kobayashi K, Hohn T (2004) Dissection of Cauliflower Mosaic Virus Transactivator/Viroplasmin Reveals Distinct Essential Functions in Basic Virus Replication. J Virol 77: 8577-8583
  • Kobayashi K, Hohn T (2004) A domain of cauliflower mosaic virus transactivator/viroplasmin is a determinant of viral virulence in susceptible hosts. Molecular Plant Microbe Interactions 17: 475-483
  • Park HS, Browning KS, Hohn T, Ryabova LA (2004) Eucaryotic initiation factor 4B controls eIF3-mediated ribosomal entry of viral reinitiation factor. EMBO Journal 23: 1381-1391
  • Pooggin, M.M., T. Hohn, 2004. Fighting geminiviruses by RNAi and vice versa. Plant Mol Biol 55: 149-152
  • Ryabova, L., H.S. Park, T. Hohn. 2004. Control of translation reinitiation on the cauliflower mosaic virus (CaMV) polycistronic RNA. Biochemical Society Transactions 32: 592-596

2003

  • Kobayashi K, Hohn T (2003) Dissection of cauliflower mosaic virus transactivator/viroplasmin reveals distinct essential functions in basic virus replication. J Virol 77: 8577-8583
  • Pooggin MM, Shivaprasad PV, Veluthambi K, Hohn T (2003) RNAi targeting of DNA virus in plants. Nat Biotechnol 21: 131-132
  • Richert-Poggeler KR, Noreen F, Schwarzacher T, Harper G, Hohn T (2003) Induction of infectious petunia vein clearing (pararetro) virus from endogenous provirus in petunia. EMBO J 22: 4836-4845
  • Stavolone L, Kononova M, Pauli S, Ragozzino A, de Haan P, Milligan, Lawton KA, Hohn T (2003) Cestrum yellow leaf curling virus (CmYLCV) promoter: a new strong constitutive promoter for heterologous gene expression in a wide variety of crops. Plant Mol Biol 53: 703-713
  • Stavolone L, Ragozzino A, Hohn T (2003) Characterization of Cestrum yellow leaf curling virus: a new member of the family Caulimoviridae. J Gen Virol 84: 3459-3464


2002

  • Chapdelaine Y, Kirk D, Karsies A, Hohn T, Leclerc D (2002) Mutation of capsid protein phosphorylation sites abolishes cauliflower mosaic virus infectivity. J Virol 76: 11748-11752
  • Chen W, Provart N, Chang H-S, Glazebrook J, Zou G, Whitham SA, Katagiri F, Budworth P, Luan S, Lam S, Kreps J, Mauch F, Dangl J, Heinlein M, Kobayashi K, Hohn T, Wang X, Yhu T (2002) Transcription profile matrix of Arabidopsis transcription factors reveals their functions in response to environmental stress. Plant Cell 14: 559-574
  • Dorokhov YL, Skulachev MV, Ivanov PA, Zvereva SD, Tjulkina LG, Merits A, Gleba YY, Hohn T, Atabekov JG (2002) Polypurine (A)-rich sequences promote universal internal ribosome entry. Proc Natl Acad Sci USA 99: 5301-5306
  • He X, Fütterer J, Hohn T (2002) Contrubution of downstream promoter elements to transcriptional regulation of the rice tungro bacilliform virus promoter. Nucleic Acids Res 30: 497-506
  • Hohn T, Park H-S, Guerra-Peraza O, Stavolone L, Pooggin MM, Kobayashi K, Ryabova LA (2002) Shunting and controlled reinitiation. The encounter of cauliflower mosaic virus with the translational machinery. . Cold Spring Harbor Symposium on Quantitative Biology 66: 269-276
  • Karsies A, Merkle T, Szurek B, Bonas U, Hohn T, Leclerc D (2002) Regulated Nuclear Targeting of Cauliflower Mosaic Virus. J Gen Virol 83: 1783-1790
    Klöti A, He X, Potrykus I, Hohn T, Fütterer J (2002) Tissue specific silencing of a transgene in rice. Proc Natl Acad Sci USA 99: 10881-10886
  • Kobayashi K, Tsuge S, Stavolone L, Hohn T (2002) The Cauliflower Mosaic Virus Virion-Associated Protein Is Dispensable for Viral Replication in Single Cells. J Virol 76: 9457-9464
  • Zeenko V, Ryabova LA, Spirin AS, Rothnie HM, Hess D, Browning KS, Hohn T (2002) Eukaryotic elongation factor 1A interacts with the upstream pseudoknot domain in the 3' untranslated region of tobacco mosaic virus RNA. J Virol 76: 5678-56910


2001

  • Karsies A, Leclerc D, Hohn T (2001) Degradation signals within both terminal domains of the cauliflower mosaic virus capsid protein precursor. Plant J 27: 335-343
  • Leclerc D, Stavolone L, Meier E, Guerra-Peraza O, Herzog E, Hohn T (2001) The product of ORF III in cauliflower mosaic virus interacts with the viral coat protein through its C-terminal proline rich domain. Virus Genes 22: 159-165
    Park H-S, Hohn T, Ryabova LA (2001) A plant viral "Reinitiation" factor interacts with the host transcriptional machinery. Cell 106: 723-733
  • Pooggin, M. M., Fütterer, J., Skryabin K.G., and Hohn, T. Ribosome shunt is essential for infectivity of cauliflower mosac virus. Proc.Natl.Acad.Sci.USA 98, 886-891. 2001.
  • Rothnie HM, Chen G, Fütterer J, Hohn T (2001) Polyadenylation in Rice Tungro Bacilliform Virus: cis-Acting Signals and Regulation. J Virol 75: 4184-4194
  • Schneider R, Hohn T, Kozak M (2001) New Ways of Initiating Translation in Eukaryotes? Mol Cell Biol 21: 8238-8246
  • Stavolone L, Herzog E, Leclerc D, Hohn T (2001) Tetramerization is a conserved feature of the virion-associated protein in plant pararetroviruses. J Virol 75: 7739-7743


2000

  • Guerra-Peraza O, DeTapia M, Hohn T, Hemmings-Mieszczak M (2000) Interaction of the cauliflower mosaic virus coat protein with the pregenomic RNA leader. J Virol 74: 2067-2072
  • He X, Hohn T, Fütterer J (2000) Transcriptional Activation of the Rice Tungro Bacilliform Virus Gene Is Critically Dependent on an Activator Element Located Immediately Upstream of the TATA Box. J Biol Chem 275: 11799-11808
    Hemmings-Mieszczak M, Hohn T, Preiss T (2000) Termination and Peptide Release at the Upstream Open Reading Frame Are Required for Downstream Translation on Synthetic Shunt-Competent mRNA Leaders. Mol Cell Biol 20: 6212-6223
  • Herzog E, Guerra-Peraza O, Hohn T (2000) The rice tungro bacilliform virus gene II product interacts with the coat protein domain of the viral gene III polyprotein. J Virol 74: 2073-2083
  • Hohn T, Corsten S, Hemmings-Mieszczak M, Park H-S, Pooggin MM, Ryabova LA, Stavolone L, Zeenko V, Atabekov JG, Skulachev MV, Fütterer J (2000) Polycistronic Translation in Plants. What can we learn from Viruses. In A Arencibia, ed, Proceeding ISPGE, Elsevier, pp 126-129
  • Hohn T, Corsten S, Dominguez D, Fütterer J, Kirk D, Hemmings-Mieszczak M, Pooggin MM, Schärer-Hernandez N, Ryabova LA (2000) Shunting, a translation strategy used by plant pararetroviruses (Caulimoviridae). Micron 32: 51-58
  • Pooggin MM, Fütterer J, Skryabin KG, Hohn T (2000) Translation of a short ORF in ribosome shunt on the CaMV RNA leader. J Biol Chem 275: 17288-17296
  • Ryabova LA, Pooggin MM, Dominguez DI, Hohn T (2000) Continuous and discontinuous ribosome scanning on the cauliflower mosaic virus 35S RNA leader is controlled by sORFs. J Biol Chem 275: 37278-37284
  • Ryabova LA, Hohn T (2000) Ribosome shunting in cauliflower mosaic virus 35S RNA leader is a special case of reinitiation of translation functioning in plant and animal systems. Genes Dev 14: 817-829

 

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