Characterization of a new apple luteovirus identified by high-throughput sequencing

Huawei Liu, Liping Wu, Ekaterina Nikolaeva, Kari Anne Peter, Zongrang Liu, Dimitre Mollov, Mengji Cao, Ruhui Li

Research output: Contribution to journalArticle

Abstract

Background: 'Rapid Apple Decline' (RAD) is a newly emerging problem of young, dwarf apple trees in the Northeastern USA. The affected trees show trunk necrosis, cracking and canker before collapse in summer. In this study, we discovered and characterized a new luteovirus from apple trees in RAD-affected orchards using high-throughput sequencing (HTS) technology and subsequent Sanger sequencing. Methods: Illumina NextSeq sequencing was applied to total RNAs prepared from three diseased apple trees. Sequence reads were de novo assembled, and contigs were annotated by BLASTx. RT-PCR and 5′/3' RACE sequencing were used to obtain the complete genome of a new virus. RT-PCR was used to detect the virus. Results: Three common apple viruses and a new luteovirus were identified from the diseased trees by HTS and RT-PCR. Sequence analyses of the complete genome of the new virus show that it is a new species of the genus Luteovirus in the family Luteoviridae. The virus is graft transmissible and detected by RT-PCR in apple trees in a couple of orchards. Conclusions: A new luteovirus and/or three known viruses were found to be associated with RAD. Molecular characterization of the new luteovirus provides important information for further investigation of its distribution and etiological role.

Original languageEnglish (US)
Article number85
JournalVirology Journal
Volume15
Issue number1
DOIs
StatePublished - May 15 2018

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Luteovirus
Malus
Viruses
Polymerase Chain Reaction
Luteoviridae
Genome
Sequence Analysis
Necrosis
RNA
Technology
Transplants

All Science Journal Classification (ASJC) codes

  • Virology
  • Infectious Diseases

Cite this

Liu, Huawei ; Wu, Liping ; Nikolaeva, Ekaterina ; Peter, Kari Anne ; Liu, Zongrang ; Mollov, Dimitre ; Cao, Mengji ; Li, Ruhui. / Characterization of a new apple luteovirus identified by high-throughput sequencing. In: Virology Journal. 2018 ; Vol. 15, No. 1.
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abstract = "Background: 'Rapid Apple Decline' (RAD) is a newly emerging problem of young, dwarf apple trees in the Northeastern USA. The affected trees show trunk necrosis, cracking and canker before collapse in summer. In this study, we discovered and characterized a new luteovirus from apple trees in RAD-affected orchards using high-throughput sequencing (HTS) technology and subsequent Sanger sequencing. Methods: Illumina NextSeq sequencing was applied to total RNAs prepared from three diseased apple trees. Sequence reads were de novo assembled, and contigs were annotated by BLASTx. RT-PCR and 5′/3' RACE sequencing were used to obtain the complete genome of a new virus. RT-PCR was used to detect the virus. Results: Three common apple viruses and a new luteovirus were identified from the diseased trees by HTS and RT-PCR. Sequence analyses of the complete genome of the new virus show that it is a new species of the genus Luteovirus in the family Luteoviridae. The virus is graft transmissible and detected by RT-PCR in apple trees in a couple of orchards. Conclusions: A new luteovirus and/or three known viruses were found to be associated with RAD. Molecular characterization of the new luteovirus provides important information for further investigation of its distribution and etiological role.",
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Characterization of a new apple luteovirus identified by high-throughput sequencing. / Liu, Huawei; Wu, Liping; Nikolaeva, Ekaterina; Peter, Kari Anne; Liu, Zongrang; Mollov, Dimitre; Cao, Mengji; Li, Ruhui.

In: Virology Journal, Vol. 15, No. 1, 85, 15.05.2018.

Research output: Contribution to journalArticle

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