Deep Sequencing Reveals the Complete Genome and Evidence for Transcriptional Activity of the First Virus-Like Sequences Identified in Aristotelia chilensis (Maqui Berry)
Here, we report the genome sequence and evidence for transcriptional activity of a virus-like element in the native Chilean berry tree Aristotelia chilensis. We propose to name the endogenous sequence as Aristotelia chilensis Virus 1 (AcV1). High-throughput sequencing of the genome of this tree unco...
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doaj-4597dba36fd44c9d858edea148afc2ac2020-11-24T23:50:16ZengMDPI AGViruses1999-49152015-04-01741685169910.3390/v7041685v7041685Deep Sequencing Reveals the Complete Genome and Evidence for Transcriptional Activity of the First Virus-Like Sequences Identified in Aristotelia chilensis (Maqui Berry)Javier Villacreses0Marcelo Rojas-Herrera1Carolina Sánchez2Nicole Hewstone3Soledad F. Undurraga4Juan F. Alzate5Patricio Manque6Vinicius Maracaja-Coutinho7Victor Polanco8Centro de Genómica y Bioinformática, Facultad de Ciencias, Universidad Mayor, Santiago 8580000, ChileCentro de Genómica y Bioinformática, Facultad de Ciencias, Universidad Mayor, Santiago 8580000, ChileCentro de Genómica y Bioinformática, Facultad de Ciencias, Universidad Mayor, Santiago 8580000, ChileMaqui New Life, Santiago, ChileCentro de Genómica y Bioinformática, Facultad de Ciencias, Universidad Mayor, Santiago 8580000, ChileCentro Nacional de Secuenciación Genómica, Universidad de Antioquia, Medellín, ColombiaCentro de Genómica y Bioinformática, Facultad de Ciencias, Universidad Mayor, Santiago 8580000, ChileCentro de Genómica y Bioinformática, Facultad de Ciencias, Universidad Mayor, Santiago 8580000, ChileCentro de Genómica y Bioinformática, Facultad de Ciencias, Universidad Mayor, Santiago 8580000, ChileHere, we report the genome sequence and evidence for transcriptional activity of a virus-like element in the native Chilean berry tree Aristotelia chilensis. We propose to name the endogenous sequence as Aristotelia chilensis Virus 1 (AcV1). High-throughput sequencing of the genome of this tree uncovered an endogenous viral element, with a size of 7122 bp, corresponding to the complete genome of AcV1. Its sequence contains three open reading frames (ORFs): ORFs 1 and 2 shares 66%–73% amino acid similarity with members of the Caulimoviridae virus family, especially the Petunia vein clearing virus (PVCV), Petuvirus genus. ORF1 encodes a movement protein (MP); ORF2 a Reverse Transcriptase (RT) and a Ribonuclease H (RNase H) domain; and ORF3 showed no amino acid sequence similarity with any other known virus proteins. Analogous to other known endogenous pararetrovirus sequences (EPRVs), AcV1 is integrated in the genome of Maqui Berry and showed low viral transcriptional activity, which was detected by deep sequencing technology (DNA and RNA-seq). Phylogenetic analysis of AcV1 and other pararetroviruses revealed a closer resemblance with Petuvirus. Overall, our data suggests that AcV1 could be a new member of Caulimoviridae family, genus Petuvirus, and the first evidence of this kind of virus in a fruit plant.http://www.mdpi.com/1999-4915/7/4/1685Aristotelia chilensisMaqui berrygenometranscriptomecomparative genomicsdeep sequencingRNA sequencingPetuvirusCaulimoviridaeplant virus |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Javier Villacreses Marcelo Rojas-Herrera Carolina Sánchez Nicole Hewstone Soledad F. Undurraga Juan F. Alzate Patricio Manque Vinicius Maracaja-Coutinho Victor Polanco |
spellingShingle |
Javier Villacreses Marcelo Rojas-Herrera Carolina Sánchez Nicole Hewstone Soledad F. Undurraga Juan F. Alzate Patricio Manque Vinicius Maracaja-Coutinho Victor Polanco Deep Sequencing Reveals the Complete Genome and Evidence for Transcriptional Activity of the First Virus-Like Sequences Identified in Aristotelia chilensis (Maqui Berry) Viruses Aristotelia chilensis Maqui berry genome transcriptome comparative genomics deep sequencing RNA sequencing Petuvirus Caulimoviridae plant virus |
author_facet |
Javier Villacreses Marcelo Rojas-Herrera Carolina Sánchez Nicole Hewstone Soledad F. Undurraga Juan F. Alzate Patricio Manque Vinicius Maracaja-Coutinho Victor Polanco |
author_sort |
Javier Villacreses |
title |
Deep Sequencing Reveals the Complete Genome and Evidence for Transcriptional Activity of the First Virus-Like Sequences Identified in Aristotelia chilensis (Maqui Berry) |
title_short |
Deep Sequencing Reveals the Complete Genome and Evidence for Transcriptional Activity of the First Virus-Like Sequences Identified in Aristotelia chilensis (Maqui Berry) |
title_full |
Deep Sequencing Reveals the Complete Genome and Evidence for Transcriptional Activity of the First Virus-Like Sequences Identified in Aristotelia chilensis (Maqui Berry) |
title_fullStr |
Deep Sequencing Reveals the Complete Genome and Evidence for Transcriptional Activity of the First Virus-Like Sequences Identified in Aristotelia chilensis (Maqui Berry) |
title_full_unstemmed |
Deep Sequencing Reveals the Complete Genome and Evidence for Transcriptional Activity of the First Virus-Like Sequences Identified in Aristotelia chilensis (Maqui Berry) |
title_sort |
deep sequencing reveals the complete genome and evidence for transcriptional activity of the first virus-like sequences identified in aristotelia chilensis (maqui berry) |
publisher |
MDPI AG |
series |
Viruses |
issn |
1999-4915 |
publishDate |
2015-04-01 |
description |
Here, we report the genome sequence and evidence for transcriptional activity of a virus-like element in the native Chilean berry tree Aristotelia chilensis. We propose to name the endogenous sequence as Aristotelia chilensis Virus 1 (AcV1). High-throughput sequencing of the genome of this tree uncovered an endogenous viral element, with a size of 7122 bp, corresponding to the complete genome of AcV1. Its sequence contains three open reading frames (ORFs): ORFs 1 and 2 shares 66%–73% amino acid similarity with members of the Caulimoviridae virus family, especially the Petunia vein clearing virus (PVCV), Petuvirus genus. ORF1 encodes a movement protein (MP); ORF2 a Reverse Transcriptase (RT) and a Ribonuclease H (RNase H) domain; and ORF3 showed no amino acid sequence similarity with any other known virus proteins. Analogous to other known endogenous pararetrovirus sequences (EPRVs), AcV1 is integrated in the genome of Maqui Berry and showed low viral transcriptional activity, which was detected by deep sequencing technology (DNA and RNA-seq). Phylogenetic analysis of AcV1 and other pararetroviruses revealed a closer resemblance with Petuvirus. Overall, our data suggests that AcV1 could be a new member of Caulimoviridae family, genus Petuvirus, and the first evidence of this kind of virus in a fruit plant. |
topic |
Aristotelia chilensis Maqui berry genome transcriptome comparative genomics deep sequencing RNA sequencing Petuvirus Caulimoviridae plant virus |
url |
http://www.mdpi.com/1999-4915/7/4/1685 |
work_keys_str_mv |
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