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Deep Sequencing Analysis of RNAs from Citrus Plants Grown in a Citrus Sudden Death-Affected Area Reveals Diverse Known and Putative Novel Viruses

1
Instituto de Biociências da Universidade Estadual Paulista (Unesp), Botucatu, SP, 18615-689, Brazil
2
Centro de Citricultura Sylvio Moreira, Instituto Agronômico de Campinas, Cordeirópolis, SP, 13490-970, Brazil
3
Department of Plant Pathology, University of California, Davis, CA 9561608751, USA
4
Institute for Sustainable Plant Protection (IPSP), CNR, Turin, 10135, Italy
*
Author to whom correspondence should be addressed.
Received: 6 March 2017 / Revised: 18 April 2017 / Accepted: 20 April 2017 / Published: 24 April 2017
(This article belongs to the Section Viruses of Plants, Fungi and Protozoa)
Citrus sudden death (CSD) has caused the death of approximately four million orange trees in a very important citrus region in Brazil. Although its etiology is still not completely clear, symptoms and distribution of affected plants indicate a viral disease. In a search for viruses associated with CSD, we have performed a comparative high-throughput sequencing analysis of the transcriptome and small RNAs from CSD-symptomatic and -asymptomatic plants using the Illumina platform. The data revealed mixed infections that included Citrus tristeza virus (CTV) as the most predominant virus, followed by the Citrus sudden death-associated virus (CSDaV), Citrus endogenous pararetrovirus (CitPRV) and two putative novel viruses tentatively named Citrus jingmen-like virus (CJLV), and Citrus virga-like virus (CVLV). The deep sequencing analyses were sensitive enough to differentiate two genotypes of both viruses previously associated with CSD-affected plants: CTV and CSDaV. Our data also showed a putative association of the CSD-symptomatic plants with a specific CSDaV genotype and a likely association with CitPRV as well, whereas the two putative novel viruses showed to be more associated with CSD-asymptomatic plants. This is the first high-throughput sequencing-based study of the viral sequences present in CSD-affected citrus plants, and generated valuable information for further CSD studies. View Full-Text
Keywords: citrus sudden death; CSDaV; CTV; plant viruses; high-throughput sequencing citrus sudden death; CSDaV; CTV; plant viruses; high-throughput sequencing
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MDPI and ACS Style

Matsumura, E.E.; Coletta-Filho, H.D.; Nouri, S.; Falk, B.W.; Nerva, L.; Oliveira, T.S.; Dorta, S.O.; Machado, M.A. Deep Sequencing Analysis of RNAs from Citrus Plants Grown in a Citrus Sudden Death-Affected Area Reveals Diverse Known and Putative Novel Viruses. Viruses 2017, 9, 92. https://0-doi-org.brum.beds.ac.uk/10.3390/v9040092

AMA Style

Matsumura EE, Coletta-Filho HD, Nouri S, Falk BW, Nerva L, Oliveira TS, Dorta SO, Machado MA. Deep Sequencing Analysis of RNAs from Citrus Plants Grown in a Citrus Sudden Death-Affected Area Reveals Diverse Known and Putative Novel Viruses. Viruses. 2017; 9(4):92. https://0-doi-org.brum.beds.ac.uk/10.3390/v9040092

Chicago/Turabian Style

Matsumura, Emilyn E., Helvecio D. Coletta-Filho, Shahideh Nouri, Bryce W. Falk, Luca Nerva, Tiago S. Oliveira, Silvia O. Dorta, and Marcos A. Machado 2017. "Deep Sequencing Analysis of RNAs from Citrus Plants Grown in a Citrus Sudden Death-Affected Area Reveals Diverse Known and Putative Novel Viruses" Viruses 9, no. 4: 92. https://0-doi-org.brum.beds.ac.uk/10.3390/v9040092

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