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First report of <i>Pepper chat fruit viroid</i> in capsicum pepper in Canada

2011· article· en· W2012477728 on OpenAlexaboutno aff
J. Th. J. Verhoeven, Marleen Botermans, C. C. C. Jansen, J. W. Roenhorst

Bibliographic record

VenueNew Disease Reports · 2011
Typearticle
Languageen
FieldAgricultural and Biological Sciences
TopicPlant Virus Research Studies
Canadian institutionsnot available
Fundersnot available
KeywordsPepperViroidPotato spindle tuber viroidInoculationBiologyHorticultureCapsicum annuumSolanumGenBankCultivarChlorosisBotanyPlant virusVirusVirologyGene

Abstract

fetched live from OpenAlex

In the summer of 2009 in a greenhouse in the south of Ontario, Canada, up to 3% of the plants of the pepper cvs. Score and Lamborgini (Capsicum annuum) showed mild growth reduction and abnormally small fruits (Fig. 1). Symptoms were observed spreading along the rows. These observations suggested the presence of Pepper chat fruit viroid (PCFVd), a viroid recently described infecting capsicum pepper in the Netherlands (Verhoeven et al., 2009). For diagnosis, two small-sized pepper fruits of cultivar Lamborgini were sent by the grower to the Plant Protection Service of the Netherlands. The fruits were tested in a single sample by reverse transcription polymerase chain reaction (RT-PCR) with primer pairs Pospi1-RE/FW (Verhoeven et al., 2004) and AP-FW1/RE2 (Verhoeven et al., 2009), which produced amplicons of 193 and 335 bp for PCFVd, respectively. The complete viroid genome of 348 nt was derived from overlapping sequence fragments, after directly sequencing RT-PCR products (GenBank Accession No. HQ731652). BLAST analysis of the obtained sequence showed a 100% of sequence identity to that of the PCFVd isolate from the Netherlands (FJ409044) (Verhoeven et al., 2009). In addition, the Canadian isolate was mechanically inoculated to young plants, four each for capsicum pepper cv. Yolo Wonder and tomato (Solanum lycopersicum) cv. Moneymaker. The tomato plants developed symptoms after four weeks of inoculation, including chlorosis and stunting, whereas no symptoms were observed on the post-inoculated pepper plants. After six weeks, the presence of the viroid in the post-inoculated plants was confirmed for both plant species by RT-PCR with primers Pospi1-RE/FW in bulked samples of four plants. Although PCFVd may be transmitted through capsicum pepper seed, a direct relationship between the outbreaks in Canada and the Netherlands seems unlikely as different cultivars from different seed companies were involved (Verhoeven et al., 2009). Symptomless infected ornamental host plants may have been the source of infection of pepper plants in the Ontario greenhouse, as reported for the Potato spindle tuber viroid in tomato. Thus ornamentals may pose a phytosanitary risk for vegetable crops (Navarro et al., 2009; Verhoeven et al., 2010). The grower was encouraged to notify the Canadian phytosanitary authorities of these findings.

Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.

How this classification was reachedexpand

Full frame machine prediction

Teacher imitation

Not calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.

metaresearch head score (Codex)0.000
metaresearch head score (Gemma)0.000
Version: metacan-v3-hybrid-931329e0061cValidation status: machine_predicted_unvalidated
Candidate categoriesnone
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Case report · Consensus signal: none
GenreCandidate signal: Empirical · Consensus signal: Empirical
Teacher disagreement score0.083
Threshold uncertainty score0.167

Distilled classifier scores by category (both heads)

CategoryCodexGemma
Metaresearch0.0000.000
Meta-epidemiology (narrow)0.0010.000
Meta-epidemiology (broad)0.0000.000
Bibliometrics0.0010.001
Science and technology studies0.0040.001
Scholarly communication0.0010.000
Open science0.0010.001
Research integrity0.0010.001
Insufficient payload (model declined to judge)0.0010.000

Machine scores (provisional)

The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.

Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.

Opus teacher head0.033
GPT teacher head0.219
Teacher spread0.186 · how far apart the two teachers sit on this one work
Validation statusscore_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it

Classification

machine, unvalidated

Machine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.

The models applied no category: nothing in the taxonomy fit this work.
Study designCase report
Domainnot available
GenreEmpirical

How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".

Quick stats

Citations16
Published2011
Admission routes1
Has abstractyes

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