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DNA primase large subunit is an essential plant gene for geminiviruses, putatively priming viral ss-DNA replication

View ORCID ProfileLampros Siskos, Maria Antoniou, Jose Riado, Montserrat Enciso, Carlos Garcia, Daniele Liberti, View ORCID ProfileDanny Esselink, View ORCID ProfileAndrey G. Baranovskiy, View ORCID ProfileTahir H. Tahirov, View ORCID ProfileRichard G.F. Visser, View ORCID ProfileRichard Kormelink, View ORCID ProfileYuling Bai, View ORCID ProfileHenk J. Schouten
doi: https://doi.org/10.1101/2022.12.23.521785
Lampros Siskos
1Laboratory of Plant Breeding, Wageningen University and Research, the Netherlands
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Maria Antoniou
1Laboratory of Plant Breeding, Wageningen University and Research, the Netherlands
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Jose Riado
3Sakata Vegetables Europe, Almeria, Spain
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Montserrat Enciso
3Sakata Vegetables Europe, Almeria, Spain
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Carlos Garcia
3Sakata Vegetables Europe, Almeria, Spain
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Daniele Liberti
4BASF Vegetable Seeds, Almeria, Spain
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Danny Esselink
1Laboratory of Plant Breeding, Wageningen University and Research, the Netherlands
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Andrey G. Baranovskiy
5Eppley Institute for Research in Cancer and Allied Diseases, Fred & Pamela Buffett Cancer Center, University of Nebraska Medical Center, Omaha, NE 68198, USA
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Tahir H. Tahirov
5Eppley Institute for Research in Cancer and Allied Diseases, Fred & Pamela Buffett Cancer Center, University of Nebraska Medical Center, Omaha, NE 68198, USA
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  • ORCID record for Tahir H. Tahirov
Richard G.F. Visser
1Laboratory of Plant Breeding, Wageningen University and Research, the Netherlands
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  • ORCID record for Richard G.F. Visser
Richard Kormelink
2Laboratory of Virology, Wageningen University and Research, the Netherlands
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Yuling Bai
1Laboratory of Plant Breeding, Wageningen University and Research, the Netherlands
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Henk J. Schouten
1Laboratory of Plant Breeding, Wageningen University and Research, the Netherlands
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  • ORCID record for Henk J. Schouten
  • For correspondence: henk.schouten@wur.nl
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Abstract

The family of Geminiviridae consists of more than 500 circular single-stranded (ss) DNA viral species that can infect numerous dicot and monocot plants. Geminiviruses replicate their genome in the nucleus of a plant cell, taking advantage of the host’s DNA replication machinery. For converting their DNA into double-stranded DNA, and subsequent replication, these viruses rely on host DNA polymerases. However, the priming of the very first step of this process, i.e. the conversion of incoming circular ssDNA into a dsDNA molecule, has remained elusive for almost 30 years. In this study, sequencing of melon (Cucumis melo) accession K18 carrying the Tomato leaf curl New Delhi virus (ToLCNDV) recessive resistance quantitative trait locus (QTL) in chromosome 11, and analyses of DNA sequence data from 100 melon genomes, showed a conservation of a shared mutation in the DNA Primase Large subunit (PRiL) of all accessions that exhibited resistance upon a challenge with ToLCNDV. Silencing of (native) Nicotiana benthamiana PriL and subsequent challenging with three different geminiviruses showed a severe reduction in titers of all three viruses, altogether emphasizing an important role of PRiL in geminiviral replication. A model is presented explaining the role of PriL during initiation of geminiviral DNA replication, i.e. as a regulatory subunit of primase that generates an RNA primer at the onset of DNA replication in analogy to DNA Primase-mediated initiation of DNA replication in all living organisms.

Competing Interest Statement

The authors have declared no competing interest.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-ND 4.0 International license.
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Posted December 23, 2022.
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DNA primase large subunit is an essential plant gene for geminiviruses, putatively priming viral ss-DNA replication
Lampros Siskos, Maria Antoniou, Jose Riado, Montserrat Enciso, Carlos Garcia, Daniele Liberti, Danny Esselink, Andrey G. Baranovskiy, Tahir H. Tahirov, Richard G.F. Visser, Richard Kormelink, Yuling Bai, Henk J. Schouten
bioRxiv 2022.12.23.521785; doi: https://doi.org/10.1101/2022.12.23.521785
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DNA primase large subunit is an essential plant gene for geminiviruses, putatively priming viral ss-DNA replication
Lampros Siskos, Maria Antoniou, Jose Riado, Montserrat Enciso, Carlos Garcia, Daniele Liberti, Danny Esselink, Andrey G. Baranovskiy, Tahir H. Tahirov, Richard G.F. Visser, Richard Kormelink, Yuling Bai, Henk J. Schouten
bioRxiv 2022.12.23.521785; doi: https://doi.org/10.1101/2022.12.23.521785

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