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AG Puchta - Research Articles

2019

Enderle, Janina; Dorn, Annika; Beying, Natalja; Trapp, Oliver; Puchta, Holger (2019): The protease WSS1A, the endonuclease MUS81 and the phosphodiesterase TDP1 are involved in independent pathways of DNA-protein crosslink repair in plants. In: The Plant cell. DOI: 10.1105/tpc.18.00824.

 

2018

Dorn, A.; Röhrig, S.; Papp, K.; Schröpfer, S.; Hartung, F.; Knoll, A.; Puchta, H. (2018), The topoisomerase 3α zinc-finger domain T1 of Arabidopsis thaliana is required for targeting the enzyme activity to Holliday junction-like DNA repair intermediates. In: PLoS genetics 14 (9), e1007674. DOI: 10.1371/journal.pgen.1007674

Wolter, F. , Klemm, J. and Puchta, H. (2018), Efficient in planta gene targeting in Arabidopsis using egg‐cell specific expression of the Cas9 nuclease of S. aureus. Plant J. . doi:10.1111/tpj.13893

Röhrig, S. , Dorn, A. , Enderle, J. , Schindele, A. , Herrmann, N. J., Knoll, A. and Puchta, H. (2018), The RecQ‐like helicase HRQ1 is involved in DNA crosslink repair in Arabidopsis in a common pathway with the Fanconi anemia‐associated nuclease FAN1 and the postreplicative repair ATPase RAD5A. New Phytol. . doi:10.1111/nph.15109

 

2017

Dreissig, S., Schiml, S., Schindele, P., Weiss, O., Rutten, T., Schubert, V., Gladilin, E., Mette, MF., Puchta, H & Houben, A. (2017). Live cell CRISPR‐imaging in plants reveals dynamic telomere movements. The Plant Journal.

Klemm, T., Mannuß, A., Kobbe, D., Knoll, A., Trapp, O., Dorn, A., & Puchta, H. (2017). The DNA translocase RAD5A acts independently of the other main DNA repair pathways and requires both its ATPase and RING domain for activity in Arabidopsis thaliana. The Plant Journal.

Vu, G. T., Cao, H. X., Fauser, F., Reiss, B., Puchta, H., & Schubert, I. (2017). Endogenous sequence patterns predispose the repair modes of CRISPR/Cas9‐induced DNA double strand breaks in Arabidopsis thaliana. The Plant Journal.

 

2016

Röhrig, S., Schröpfer, S., Knoll, A and Puchta, H (2016) The RTR Complex Partner RMI2 and the DNA Helicase RTEL1 Are Both Independently Involved in Preserving the Stability of 45S rDNA Repeats in Arabidopsis thaliana. PLoS Genetics 12: e1006394

Kobbe, D., Kahles, A., Walter, M., Klemm, T., Mannuss, A., Knoll, A., Focke, M. and Puchta, H. (2016), AtRAD5A is a DNA translocase harboring a HIRAN domain which confers binding to branched DNA structures and is required for DNA repairin vivo. Plant J. doi:10.1111/tpj.13283

Barth A., Kobbe D. and Focke M. (2016) DNA-DNA kissing complexes as a new tool for the assembly of DNA nanostructures Nucleic Acids Research 44 , 1502-1513, 2016;DOI: 10.1093/nar/gkw014

Schiml, S., Fauser, F., & Puchta, H. (2016). Repair of adjacent single-strand breaks is often accompanied by the formation of tandem sequence duplications in plant genomes. Proceedings of the National Academy of Sciences, 201603823.

 

2015

Hermann N., Knoll A. and Puchta H. (2015) The nuclease FAN1 is involved in DNA crosslink repair in Arabidopsis thaliana independently of the nuclease MUS81 Nucl. Acids Res. DOI: 10.1093/nar/gkv208

Steinert J., Schiml S., Fauser F. and Puchta H. (2015) Highly efficient heritable plant genome engineering using Cas9 orthologues from Streptococcus thermophilus and Staphylococcus aureus. Plant J. DOI: 10.1111/tpj.13078

Pradillo, M., Knoll, A., Oliver, C., Varas, J., Corredor, E., Puchta, H., & Santos, J. L. (2015). Involvement of the cohesin cofactor PDS5 (SPO76) during meiosis and DNA repair in Arabidopsis thaliana. Frontiers in Plant Science, 6, 1034.

Kobbe S., Trapp O., Knoll A., Mannuß M., and Puchta H. (2015). The translesion polymerase ζ has roles dependent and independent of the nuclease MUS81 and the helicase RECQ4A in DNA damage repair in Arabidopsis. Plant physiology (2015): pp-00806.

 

2014

Recker J., Knoll A. and Puchta H. (2014) The Arabidopsis thaliana Homolog of the Helicase RTEL1 Plays Multiple Roles in Preserving Genome Stability Plant Cell DOI: 10.1105/tpc.114.132472

Schiml S., Fauser F. and Puchta H. (2014) The CRISPR/Cas system can be used as nuclease for in planta gene targeting and as paired nickases for directed mutagenesis in Arabidopsis resulting in heritable progeny. Plant J 80,  1139–1150.

Bauknecht M. and Kobbe D. (2014) AtGEN1 and AtSEND1, two paralogs in Arabidopsis thaliana, possess Holliday junction resolvase activity.  Plant Physiol DOI: 10.​1104/​pp.​114.​237834

Eschbach V. and Kobbe D. (2014) Different Replication Protein A Complexes of Arabidopsis thaliana Have Different DNA-Binding Properties as a Function of Heterotrimer Composition. Plant Cell Physiol DOI: 10.1093/pcp/pcu076 

Fauser F., Schiml S. and Puchta H. (2014) Both CRISPR/Cas-based nucleases and nickases can be used efficiently for genome engineering in Arabidopsis thaliana. Plant J 79, 348-359

Dangel N.J., Knoll A. and Puchta H. (2014) MHF1 plays FANCM-dependent and -independent roles in DNA repair and homologous recombination in plants. Plant J 78, 822-833

Schröpfer S., Kobbe D., Hartung F., Knoll A. and Puchta H. (2014). Defining the roles of the N-terminal region and the helicase activity of RECQ4A in DNA repair and homologous recombination in Arabidopsis. Nucleic Acids Res. 42, 1684-1697

 

2013

Bonnet S., Knoll A., Hartung F. and Puchta H. (2013). Different functions for the domains of the Arabidopsis thaliana RMI1 protein in DNA cross-link repair, somatic and meiotic recombination. Nucleic Acids Res. 41, 9349-9360

Klaue D., Kobbe D., Kemmerich F., Kozikowska A., Puchta H. and Seidel R. (2013). Fork sensing and strand switching control antagonistic activities of RecQ helicases. Nature communications.

 

2012

Roth N.,  Klimesch J.,  Dukowic-Schulze S.,  Pacher M.,  Mannuss A. and Puchta H. (2012). The requirement for recombination factors differs considerably between different pathways of homologous double-strand break repair in somatic plant cells. Plant J 72, 781-90

Knoll A., Higgins J.D., Seeliger K., Reha S.J., Dangel N.J., Bauknecht M., Schröpfer S., Franklin F.C.H. and Puchta H. (2012). The Fanconi Anemia Ortholog AtFANCM Ensures Ordered Homologous Recombination in Both Somatic and Meiotic Cells in Arabidopsis thaliana. Plant Cell 24, 1448-1464

Fauser F., Roth N., Pacher M., Ilg G., Sánchez-Fernández R., Biesgen C. and Puchta H. (2012) In planta gene targeting. Proc. Natl. Acad. Sci. USA 109, 7535-7540

Ehrenschwender T., Barth A., Puchta H. and Wagenknecht H.A. (2012). Metal-mediated DNA assembly using the ethynyl linked terpyridine ligand. Org. Biomol. Chem. 10, 46-48

Seeliger, K., Dukowic-Schulze, S., Wurz-Wildersinn, R., Pacher, M. and Puchta, H. (2012) BRCA2 is a mediator of RAD51- and DMC1-facilitated homologous recombination in Arabidopsis thaliana. New Phytologist 193: 364–375

 

2011

Pérez R., Cuadrado, A., Chen, I-P., Puchta, H., Jouve, N. and De Bustos, A. (2011) The Rad50 genes of diploid and polyploid wheat species. Analysis of homologue and homoeologue expression and interactions with Mre11. Theoretical and Applied Genetics. 122: 251-262

Block-Schmidt, A., Dukowic-Schulze, S., Wanieck, K., Reidt, W. and Puchta, H. (2011) BRCC36A is epistatic to BRCA1 in DNA crosslink repair and homologous recombination in Arabidopsis thaliana. Nucleic Acids Res. 39: 146-154

 

2010

Mannuss A., Dukowic-Schulze S., Suer S., Hartung F., Pacher M. and Puchta H. (2010) RAD5A, RECQ4A and MUS81 have specific functions in homologous recombination and define different pathways of DNA repair in Arabidopsis thaliana. Plant Cell 22: 3318–3330

Kobbe D., Focke M. and Puchta H. (2010) Purification and Characterization of RecQ Helicases of Plants. In: M.M. Abdelhaleem (ed.), Helicases, Methods in Molecular Biology (Humana Press) 587, Chapter 14: 195-209

 

2009

Kobbe D., Blanck S., Focke M. and Puchta H. (2009) Biochemical characterization of AtRECQ3 reveals significant differences relative to other RecQ helicases. Plant Physiol. 151: 1658-1666

Blanck S., Kobbe D., Hartung F., Fengler K., Focke M. and Puchta H. (2009) A SRS2 homologue from Arabidopsis thaliana disrupts recombinogenic DNA intermediates and facilitates single strand annealing. Nucleic Acids Res. 37: 7163-7176

Watanabe K., Pacher M., Dukowic S., Schubert V., Puchta H. and Schubert I. (2009) The SMC5/6 complex promotes reorganization of sister chromatid arrangement and homologous recombination after DNA damage in Arabidopsis thaliana. Plant Cell 21: 2688-2699

Eing C.J., Bonnet S., Pacher M., Puchta H. and Frey W. (2009) Effects of nanosecond pulsed electric field exposure on Arabidopsis thaliana. IEEE Transactions on Dielectrics and Electrical Insulation 16: 1322-1328

Geuting V., Kobbe D., Hartung F., Dürr J., Focke M. and Puchta H. (2009) Two distinct MUS81-EME1 complexes from Arabidopsis thaliana process Holliday junctions. Plant Physiol. 150: 1062-1071

 

2008

Hartung F., Suer S., Knoll A., Wurz-Wildersinn R. and Puchta H. (2008) Topoisomerase 3A and RMI1 suppress somatic crossovers and are essential for resolution of meiotic recombination intermediates in Arabidopsis thaliana. PLoS Genetics 4 (12), 1-11

Kobbe D., Blanck S., Demand K., Focke M. and Puchta H. (2008) AtRECQ2, a RecQ-helicase homologue from Arabidopsis thaliana, is able to disrupt different recombinogenic DNA-structures in vitro. Plant J. 55, 397-405

Chen I.-P., Mannuss A., Orel N., Heitzeberg F. and Puchta H. (2008) A homologue of ScRAD5 is involved in DNA repair and homologous recombination in Arabidopsis. Plant Physiol. 146, 1786-1796

 

2007

Hartung F., Wurz-Wildersinn R., Fuchs J., Schubert I., Suer S. and Puchta H. (2007) The catalytically active tyrosine residues of both SPO11-1 and SPO11-2 are required for meiotic DSB induction in Arabidopsis. Plant Cell 19, 3090-3099

Hartung F., Suer S., and Puchta H. (2007) Two closely related RecQ-helicases have antagonistic roles in homologous recombination and DNA repair in Arabidopsis thaliana. Proc. Natl. Acad. Sci. USA 104, 18836-18841

Pacher M., Schmidt-Puchta W. and Puchta H. (2007) Two unlinked double-strand breaks can induce reciprocal exchanges in plant genomes via homologous recombination and non-homologous end-joining. Genetics 175, 21-29

 

2006

Hartung F., Suer S., Bergmann T. and Puchta H. (2006) The Role of AtMUS81 in DNA Repair and its Genetic Interaction with the Helicase AtRecQ4A. Nucleic Acids Res. 34, 4438-4448

Reidt W., Wurz R., Wanieck K., Chu H.H. and Puchta H. (2006) A homologue of the breast cancer associated gene BARD1 is involved in DNA repair in plants. EMBO J 25, 4326-4337

 

2004

Heitzeberg F., Chen, I.-P., Orel N., Hartung F., Angelis K.J. and Puchta H. (2004) The Rad17 homologue of Arabidopsis is involved in the regulation of DNA damage repair and homologous recombination. Plant Journal 38, 954-968.

Schmidt-Puchta W., Orel, N., Kirik A. and Puchta H. (2004) Intrachromosomal homologous recombination in Arabidopsis thaliana. Methods Mol. Biol. 262, 25-35.

 

2003

Chen, I.-P., Schubert I., Haehnel U., Altschmied L. and Puchta H. (2003) The transcriptional response of Arabidopsis to genotoxic stress – a high density colony array study (HDCA). Plant Journal 35, 771-786.

Orel N., Kirik A. and Puchta H. (2003) Different pathways of homologous recombination are used for the repair of double-strand breaks within tandemly arranged sequences in the plant genome. Plant Journal 35, 604-612.

Orel, N. and Puchta H. (2003) Differences in the processing of DNA ends in Arabidopsis and tobacco and its implication for genome evolution. Plant Mol. Biol. 51, 523-531.

Plchova H., Hartung F., and Puchta H. (2003) Biochemical characterization of a exonuclease from Arabidopsis thaliana reveals similarities to the DNA exonuclease of the human Werner protein. J. Biol. Chem. 278, 44128-44138.

 

2002

Gisler B., Salomon S. and Puchta H. (2002) The role of double-strand break-induced allelic homologous recombination in somatic plant cells. Plant Journal 32, 277-284.

Hartung F., Angelis K.J., Meister A., Schubert I., Melzer M. and Puchta H. (2002) An archaebacterial topoisomerase homologue not present in other eukaryotes is indispensable for cell proliferation of plants. Current Biology 12, 1787-1791.

Hartung F., Blattner F.R. and Puchta H. (2002) Intron gain and loss but not intron sliding are common mechanisms during evolution of the conserved eukaryotic recombination machinery. Nucleic Acids Res. 30, 5175-5181.

Siebert, R. and Puchta H. (2002) Efficient Repair of Genomic Double-Strand Breaks via Homologous Recombination between Directly Repeated Sequences in the Plant Genome. Plant Cell 14, 1121-1131.

 

2001

Hartung F. and Puchta H. (2001) Molecular characterization of homologues of both subunits A (SPO11) and B of the archaebacterial topoisomerase 6 in plants. Gene, 271, 81-86.

 

2000

Hartung F., Plchova F. and Puchta H. (2000) Molecular characterization of RecQ homologues in Arabidopsis thaliana. Nucleic Acids Res. 28, 4275-4282.

Hartung F. and Puchta H. (2000) Molecular characterization of two paralogous SPO11 homologues in Arabidopsis thaliana. Nucleic Acids Res. 28, 1548-1554.

Kirik A., Salomon S. and Puchta H. (2000) Species-specific double-strand break repair and genome evolution in plants. EMBO J. 19, 5562-5566.

Reiss B.. Schubert I., Köpchen K., Wendeler E., Schell J. and Puchta H. (2000) RecA stimulates sister chromatid exchange and the fidelity of double-strand break repair, but not gene targeting, in plants transformed by Agrobacterium. Proc. Natl. Acad. Sci. USA 97, 3358-3363.

Ries G., Heller W., Puchta H., Sandermann H.J., Seidlitz H.K. and Hohn B. (2000) Elevated UV-B radiation reduces genome stability in plants. Nature 406, 98-101.

 

1999

Hartung F. and Puchta H. (1999) Isolation of the complete cDNA of the Mre11 homologue of Arabidopsis (Accession No. AJ243822) indicates conservation of DNA recombination mechanisms between plants and other eucaryotes (PGR 99-132). Plant Physiol. 121, 311.

Korzun V., Börner A., Siebert R., Malyshev S., Hilpert M., Kunze R. and Puchta H. (1999) Chromosomal location and genetic mapping of the mismatch repair gene homologs MSH2, MSH3 and MSH6 in rye and wheat. Genome 42, 1255-1257.

Puchta H. (1999) Double-strand break-induced recombination between ectopic homologous sequences in somatic plant cells. Genetics 152, 1173-1181.

Puchta H. (1999) Use of I-SceI to induce double-strand breaks in Nicotiana. Methods Mol. Biol. 113, 447-451.

 

1998

Puchta H. (1998) Repair of genomic double-strand breaks in somatic plant cells by one-sided invasion of homologous sequences. Plant J. 13, 331-340.

Salomon S. and Puchta H. (1998) Capture of genomic and T-DNA sequences during double-strand break repair in somatic plant cells. EMBO J. 17, 6086-6095.

 

1996

Puchta H., Dujon B. and Hohn B. (1996) Two different but related mechanisms are used in plants for the repair of genomic double-strand breaks by homologous recombination. Proc. Natl. Acad. Sci. USA 93, 5055-5060.

 

1995

Akama K., Puchta H. and Hohn B. (1995) Efficient Agrobacterium-mediated transformation of Arabidopsis thaliana using the bar gene as selectable marker. Plant Cell Rep., 14, 450-454.

Puchta H., Swoboda P., Gal S., Blot M. and Hohn B. (1995) Somatic intrachromosomal homologous recombination events in populations of plant siblings. Plant Mol. Biol. 28, 281-292.

Puchta H., Swoboda P. and Hohn B. (1995) Induction of intrachromosomal homologous recombination in whole plants. Plant J. 7, 203-210.

 

1994

Swoboda P., Gal S., Hohn B. and Puchta H. (1994) Intrachromosomal homologous recombination in whole plants. EMBO J. 13, 484-489.

Tinland B., Hohn B. and Puchta H. (1994) Agrobacterium tumefaciens transfers single stranded T-DNA into the plant cell nucleus. Proc. Natl. Acad. Sci. USA 91, 8000-8004.

 

1988 - 1993

Puchta H., Dujon B. and Hohn B. (1993) Homologous recombination in plant cells is enhanced by in vivo induction of double strand breaks into DNA by a site-specific endonuclease. Nucleic Acids Res. 21, 5034-5040.

Puchta H., Kocher S. and Hohn B. (1992) Extrachromosomal homologous DNA recombination in plant cells is fast and is not affected by CpG methylation. Mol. Cell. Biol. 12, 3372-3379.

Puchta H. and Hohn B. (1991) The mechanism of extrachromosomal homologous DNA recombination in plant cells. Mol. Gen. Genet. 230, 1-7.

Puchta H. and Hohn B. (1991) A transient assay in plant cells reveals a positive correlation between extrachromosomal recombination rates and length of homologous overlap. Nucleic Acids Res. 19, 2693-2700.

Puchta H., Ramm K., Luckinger R., Hadas R., Bar-Joseph M. and Sänger H.L. (1991) Primary and secondary structure of citrus viroid IV (CVd IV), a new chimeric viroid present in dwarfed grapefruit in Israel. Nucleic Acids Res. 19, 6640.

Collasius M., Puchta H., Schlenker S. and Valet G. (1991) Analysis of unknown DNA sequences by polymerase chain reaction (PCR) using a single specific primer and a standardized adaptor. J. Virol. Meth. 32, 115-119.

Puchta H., Herold T., Verhoeven K., Roenhorst A., Ramm K., Schmidt-Puchta W. and Sänger H.L. (1990) A new strain of potato spindle tuber viroid (PSTVd-N) exhibits major sequence differences as compared to all other PSTVd strains sequenced so far. Plant Mol. Biol. 15, 509-511.

Puchta H., Luckinger R., Yang X., Hadidi A. and Sänger H.L. (1990) Nucleotide sequence and secondary structure of apple scar skin viroid (ASSVd) from China. Plant Mol. Biol. 14, 1065-1067.

Puchta H., Ramm K., Luckinger R., Freimüller K. and Sänger H.L. (1989) Nucleotide sequence of a hop stunt viroid (HSVd) isolate from the German grapevine rootstock 5BB as determined by PCR mediated sequence analysis. Nucleic Acids Res. 17, 5841.

Puchta H. and Sänger H.L. (1989) Sequence analysis of minute amounts of viroid RNA using the polymerase chain reaction (PCR). Arch. Virol. 106, 335-340.

Puchta H., Ramm K., Hadas R., Bar Joseph M., Luckinger R., Freimüller K. and Sänger H.L. (1989) Nucleotide sequence of a hop stunt viroid (HSVd) isolate from grapefruit in Israel. Nucleic Acids Res. 17, 1247.

Lee Y.J., Puchta H., Ramm K. and Sänger H.L. (1988) Nucleotide sequence of the Korean strain of hop stunt viroid (HSV). Nucleic Acids Res. 16, 8708.

Puchta H., Ramm K. and Sänger H.L. (1988) Molecular and biological properties of a cloned and infectious new sequence variant of cucumber pale fruit viroid (CPFV). Nucleic Acids Res. 16, 8171.

Puchta H. and Sänger H.L. (1988) An improved procedure for the rapid one step cloning of full length viroid cDNA. Arch. Virol. 101, 137-140.

Puchta H., Ramm K. and Sänger H.L. (1988) The molecular structure of hop latentviroid (HLV), a new viroid occurring worldwide in hops. Nucleic Acids Res. 16, 4197-4216.

Puchta H., Ramm K. and Sänger H.L. (1988) Nucleotide sequence of a hop stunt viroid from the German grapevine cultivar “Riesling”. Nucleic Acids Res. 16, 2730.