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Observation 17

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Observationobservedoriginal resultmeasured

Claim · model-written summary

No naked (-)RNA templates are present during Tomato bushy stunt virus replication.

Taxon
plantsViridiplantaee0
Outcome
absence of naked (-)RNA templatese2

Verbatim

e0

“Replication of plus-strand RNA [(+)RNA] viruses of plants”

✓ located verbatim in the source · abstract, characters 12–69
e2

“we demonstrate the absence of naked (-)RNA templates during replication”

✓ located verbatim in the source · abstract, characters 607–678

Title

Template Role of Double-Stranded RNA in Tombusvirus Replication

Nikolay Kovalev; Judit Pogany; Peter D. Nagy Journal of Virology 2014. doi:10.1128/jvi.03842-13

Other claims from this paper (5)
Observationobservedoriginal resultmeasured

Claim · model-written summary

Single stranded templates underwent multiple replication rounds.

Outcome
single-stranded DNA templates undergo more than one round of replicatione0

Verbatim

e0

“Both strands of template DNA are synthesized and single-stranded DNA templates undergo more than one round of replication.”

✓ located verbatim in the source · abstract, characters 306–428
t0

“pea”

✓ located verbatim in the source · title, characters 53–56

Title

Characterisation and mode of in vitro replication of pea chloroplast OriA sequences

Malireddy K. REDDY; Nirupam Roy CHOUDHURY; Dhirendra KUMAR; et al. European Journal of Biochemistry 1994. doi:10.1111/j.1432-1033.1994.tb18697.x

Other claims from this paper (7)
Observationobservedoriginal resultmeasured

Claim · model-written summary

Exogenous 180-kDa protein and replication templates added after translation can contribute to replication and can be replicated, respectively.

Taxon
tobacco BY-2 protoplastse1
Outcome
contribute to replicatione0

Verbatim

e0

“posttranslationally added exogenous 180-kDa protein and replication templates can contribute to replication and can be replicated, respectively”

✓ located verbatim in the source · abstract, characters 1511–1654
e1

“evacuolated tobacco BY-2 protoplasts”

✓ located verbatim in the source · abstract, characters 161–197

Title

Identification of a Ribonucleoprotein Intermediate of Tomato Mosaic Virus RNA Replication Complex Formation

Keisuke Komoda; Natsuki Mawatari; Yuka Hagiwara-Komoda; et al. Journal of Virology 2006. doi:10.1128/jvi.01921-06

Other claims from this paper (5)

Mechanism 7

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Mechanismhypothesisoriginal resultbasis n/a

Claim · model-written summary

The authors propose that replication templates in the centromere originate from multiple CENH3-nucleosome complexes bound to CentGm sequences.

Taxon
soybeanGlycine maxt0
Gene
CENH3e0
Outcome
replication templatese0

Verbatim

t0

“soybean centromeres”

✓ located verbatim in the source · title, characters 48–67
e0

“We propose a model in which replication templates within the centromere region originate from multiple CENH3-nucleosome complexes bound to CentGm sequences”

✓ located verbatim in the source · abstract, characters 1491–1646

Title

Genetic diversity and architectural dynamics of soybean centromeres

Yicheng Huang; Enlai Guan; Shipeng Song; et al. Genome biology 2026. doi:10.1186/s13059-025-03924-9

Other claims from this paper (6)
Mechanismauthor interpretationoriginal resultmeasured

Claim · model-written summary

Tomato bushy stunt virus replication involves dsRNA templates in strand displacement reactions.

Taxon
plantsViridiplantaee0
Interactor
TBSVTomato bushy stunt viruse4pathogen
Outcome
mechanism of TBSV replicatione4
Qualifier
strand displacement reactionse4

Verbatim

e0

“Replication of plus-strand RNA [(+)RNA] viruses of plants”

✓ located verbatim in the source · abstract, characters 12–69
e4

“Radioactive nucleotide chase experiments showed that the mechanism of TBSV replication involves the use of dsRNA templates in strand displacement reactions”

✓ located verbatim in the source · abstract, characters 842–997

Title

Template Role of Double-Stranded RNA in Tombusvirus Replication

Nikolay Kovalev; Judit Pogany; Peter D. Nagy Journal of Virology 2014. doi:10.1128/jvi.03842-13

Other claims from this paper (5)
Mechanismauthor interpretationoriginal resultmeasured

Claim · model-written summary

Distinct BARE transcript subfamilies may separately supply proteins and replication templates.

Gene
BAREe0
Outcome
providing the proteins and replication templatese0
Qualifier
may play independent rolese0

Not reportedTaxon

Verbatim

e0

“The data suggest that distinct subfamilies of transcripts may play independent roles in providing the proteins and replication templates for the BARE retrotransposon life cycle.”

✓ located verbatim in the source · abstract, characters 1462–1639

Title

BARE retrotransposons produce multiple groups of rarely polyadenylated transcripts from two differentially regulated promoters

Wei Chang; Alan H. Schulman The Plant Journal 2008. doi:10.1111/j.1365-313x.2008.03572.x

Other claims from this paper (10)

Intervention effect 2

Show all 2 →
Intervention effectobservedoriginal resultno effectmeasured

Claim · model-written summary

RNAs of cucumber mosaic cucumovirus and red clover necrotic mosaic dianthovirus did not act as templates for the polymerase.

Treatment
RNAs of cucumber mosaic cucumovirus and red clover necrotic mosaic dianthoviruse4
Outcome
act as templatese4
Direction
did not act as templatese4

Not reportedComparator

Verbatim

e0

“extracts of tomato leaves infected with tobacco mosaic tobamovirus (tomato strain L) TMV-L)”

✓ located verbatim in the source · abstract, characters 82–173
e4

“RNAs of cucumber mosaic cucumovirus and red clover necrotic mosaic dianthovirus, or 5'-terminal sequences of TMV-L positive or negative strands, did not act as templates for the polymerase”

✓ located verbatim in the source · abstract, characters 582–770

Title

Complete replication in vitro of tobacco mosaic virus RNA by a template-dependent, membrane-bound RNA polymerase

T A Osman; K W Buck Journal of Virology 1996. doi:10.1128/jvi.70.9.6227-6234.1996

Other claims from this paper (10)
Intervention effectobservedoriginal resultsignificant (as stated)measured

Claim · model-written summary

Mutations next to the initiation cytidylate significantly decreased plus-strand RNA accumulation.

Treatment
mutations at positions adjacent to the initiation cytidylatee0
Interactor
Brome Mosaic VirusBrome mosaic virust0pathogen
Outcome
RNA accumulatione0
Direction
decreasede0

Not reportedComparator

Verbatim

e0

“mutations at positions adjacent to the initiation cytidylate in the templates for genomic and subgenomic plus-strand RNA synthesis significantly decreased RNA accumulation”

✓ located verbatim in the source · abstract, characters 954–1125
t0

“Brome Mosaic Virus RNA Accumulation in Plant Protoplasts”

✓ located verbatim in the source · title, characters 62–118
e1

“BMV replication in barley protoplasts”

✓ located verbatim in the source · abstract, characters 767–804

Title

Template Sequence near the Initiation Nucleotide Can Modulate Brome Mosaic Virus RNA Accumulation in Plant Protoplasts

M. Hema; C. Cheng Kao Journal of Virology 2004. doi:10.1128/jvi.78.3.1169-1180.2004

Other claims from this paper (5)

Method / resource 2

Show all 2 →
Method / resourceobservedoriginal resultpositivemeasured

Claim · model-written summary

Shorter templates with HCPro enabled effective trans-replication in plant cells.

Taxon
Nicotiana benthamianaNicotiana benthamianae1
Treatment
addition of helper component proteinase (HCPro)e0
Interactor
Potato virus XPotato virus Xt0pathogen
Outcome
effective trans-replication of the templates in plant cellse0
Value
shorter templatese0

Verbatim

e0

“Further optimization of the system with shorter templates and addition of helper component proteinase (HCPro), a potyviral silencing suppressor, led to effective trans-replication of the templates in plant cells.”

✓ located verbatim in the source · abstract, characters 1275–1487
e1

“Nicotiana benthamiana leaves”

✓ located verbatim in the source · abstract, characters 1001–1029
t0

“Potato Virus X”

✓ located verbatim in the source · title, characters 21–35

Title

Trans-replication of Potato Virus X in planta

Pinky Dutta Työväentutkimus Vuosikirja 2018

Other claims from this paper (2)
Method / resourceobservedoriginal resultnegativemeasured

Claim · model-written summary

Longer templates did not replicate at four or six days when replicase was supplied in trans.

Taxon
Nicotiana benthamianaNicotiana benthamianae1
Treatment
replicase protein was provided in transe0
Interactor
Potato virus XPotato virus Xt0pathogen
Outcome
replicatee0
Value
4 and 6 dayse0

Verbatim

e0

“The longer templates did not replicate at 4 and 6 days post inoculation, when the replicase protein was provided in trans.”

✓ located verbatim in the source · abstract, characters 1152–1274
e1

“Nicotiana benthamiana leaves”

✓ located verbatim in the source · abstract, characters 1001–1029
t0

“Potato Virus X”

✓ located verbatim in the source · title, characters 21–35

Title

Trans-replication of Potato Virus X in planta

Pinky Dutta Työväentutkimus Vuosikirja 2018

Other claims from this paper (2)

Association 1

Show all 1 →
Associationobservedoriginal resultmeasured

Claim · model-written summary

PS5A and PS5D associated preferentially with the large polymerase protein.

Taxon
cereal cropse1
Interactor
Barley yellow striate mosaic virusCytorhabdovirus hordeie1pathogen
Gene
large polymerase proteine4
Outcome
associated preferentiallye4

Not reportedDirection

Verbatim

e1

“Barley yellow striate mosaic virus (BYSMV), a plant cytorhabdovirus, infects cereal crops”

✓ located verbatim in the source · abstract, characters 224–313
e4

“PS5A and PS5D associated preferentially with nucleocapsid protein–RNA templates and the large polymerase protein”

✓ located verbatim in the source · abstract, characters 872–984

Title

Casein Kinase 1 Regulates Cytorhabdovirus Replication and Transcription by Phosphorylating a Phosphoprotein Serine-Rich Motif

Qiang Gao; Teng Yan; Zhen-Jia Zhang; et al. The Plant Cell 2020. doi:10.1105/tpc.20.00369

Other claims from this paper (8)

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