Population of Endogenous Pararetrovirus Genomes in Carrizo Citrange

Roy, Avijit; Shao, Jonathan; Schneider, William L.; Hartung, John; Brlansky, R. H.

doi:10.1128/genomea.01063-13

Cited by 12 publications

(15 citation statements)

References 8 publications

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“…Our alignment searches revealed that ORF1 has high similarity with the movement proteins of PVCV ( e-value = 8e-106) [ 15 ], followed by Citrus endogenous pararetrovirus (CitPRV) ( e-value = 4e-94) [ 16 ] and Figwort mosaic virus (FMV) ( e-value = 5e-06) [ 17 ]. A deeper exploration using multiple sequence alignments with CLUSTAL OMEGA [ 18 ] showed that ORF1 displays a movement protein family I domain, which is conserved in all Caulimoviridae family’s movement proteins (plant pararetrovirus) [ 19 ].…”

Section: Resultsmentioning

confidence: 99%

Deep Sequencing Reveals the Complete Genome and Evidence for Transcriptional Activity of the First Virus-Like Sequences Identified in Aristotelia chilensis (Maqui Berry)

Villacreses

Rojas-Herrera

Sánchez

et al. 2015

Viruses

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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.

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Section: Resultsmentioning

confidence: 99%

Deep Sequencing Reveals the Complete Genome and Evidence for Transcriptional Activity of the First Virus-Like Sequences Identified in Aristotelia chilensis (Maqui Berry)

Villacreses

Rojas-Herrera

Sánchez

et al. 2015

Viruses

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“…The latter is in particular the case for Petuviruses, which appears to be closest to CBaPRV (Roy et al, 2014;Schneider et al, 2015). The latter is in particular the case for Petuviruses, which appears to be closest to CBaPRV (Roy et al, 2014;Schneider et al, 2015).…”

Section: Biology Of the Pestmentioning

confidence: 97%

“…Considering the hypothesis of a causative role for CBaPRV, it can be pointed out that a variety of situations exist in the Caulimoviridae family, from insect-vectored genera (aphids for Caulimoviruses, scale insects for Badnaviruses) to genera for which no insect-mediated transmission is known. The latter is in particular the case for Petuviruses, which appears to be closest to CBaPRV (Roy et al, 2014;Schneider et al, 2015).…”

Section: Biology Of the Pestmentioning

confidence: 97%

“…all failed to associate a particular pathogen with the Blight disease, giving weight to the notion that (a) virus(es) is(are) implicated in the disease. In 2014, a Florida group (Roy et al, 2014) assembled Is the identity of the pest established, or has it been shown to produce consistent symptoms and to be transmissible? A fragment of the genome of an idaeovirus was reconstructed from a subtraction library prepared from leaves and root tissues of Blight-affected plants (Derrick et al, 2006) but proof that this putative virus might be implicated in the Blight disease was never provided.…”

Section: Conclusion Of Pest Categorisation (Section 4)mentioning

confidence: 99%

“…A virus theory for Blight aetiology was recently revived by virus discovery results from High-Throughput Sequencing (HTS) analyses. In 2014, a Florida group (Roy et al, 2014) assembled three complete genome sequences of endogenous pararetroviruses (EPRVs) from RNA extracts prepared from bark tissues of mature roots taken from apparently healthy Carrizo citrange rootstock, one of the many susceptible hosts of Blight. The three homologous sequences (85-89% nucleotide identity) have been assigned to a new virus, the Citrus endogenous pararetrovirus (CitPRV).…”

Section: Conclusion Of Pest Categorisation (Section 4)mentioning

confidence: 99%

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Pest categorisation of ‘Blight and blight‐like’ diseases of citrus

Jeger¹,

Bragard²,

Caffier³

et al. 2018

EFS2

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The EFSA Panel on Plant Health performed a pest categorisation of 'Blight and blight-like' for the EU territory. Blight is a major disease of citrus. Similar 'blight-like' diseases are also known (e.g. declinio, declinamiento) and are addressed simultaneously with Blight in the present categorisation. The causal agent(s) remain(s) unknown and the potential role of a recently identified citrus endogenous pararetrovirus (Citrus Blight-associated pararetrovirus, CBaPRV) remains to be established. Transmissibility and ability to produce consistent (although poorly specific) symptoms have been demonstrated and a combination of indirect approaches is used, with limits, for diagnosis. There are large uncertainties on the biology of the causal agent(s) and on the epidemiology of the disease, including the transmission mechanism(s) responsible for the observed field spread. Blight has been reported from North, Central and South America, Africa and Oceania but is not known to occur in the EU. It is listed in Annex IIA of Directive 2000/29EC. It has the potential to enter, establish and spread in the EU territory. The main entry pathway (citrus plants for planting) is closed by existing legislation and entry is only possible on minor pathways (such as illegal import). Blight is a severe disease and a negative impact is expected should it be introduced in the EU, but the magnitude of this negative impact is very difficult to estimate. 'Blight and blight like' satisfies all criteria evaluated by EFSA to qualify as a Union quarantine pest. It does not meet the criterion of being present in the EU to qualify as a Union regulated non-quarantine pest (RNQP). Since the identity of the causal agent(s) of the Blight and blight-like disease(s) and the existence and efficiency of natural spread mechanism(s) remain unknown, large uncertainties affect all aspects of the present pest categorisation.

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