Abstract
Grain shape is controlled by quantitative trait loci (QTLs) in rice (Oryza sativa L.). A rice mutant (JF178) with long and large grains has been used in a breeding program for over a decade, but its genetic basis has been unclear. Here, a semi-dominant QTL, designated Large Grain Size 1 (LGS1), was cloned and the potential molecular mechanism of LGS1 function was studied. Near-isogenic lines (NILs) and a map-based approach were employed to clone the LGS1 locus. LGS1 encodes the OsGRF4 transcription factor and contains a 2 bp missense mutation in the coding region that coincides with the putative pairing site of miRNA396. The LGS1 transcript levels in the mutant line were found to be higher than the lgs1 transcript levels in the control plants, suggesting that the mutation might disrupt the pairing of the LGS1 mRNA with miR396. In addition to producing larger grains, LGS1 also enhanced cold tolerance at the seedling stage and increased the survival rate of seedlings after cold stress treatment. These findings indicate that the mutation in LGS1 appears to disturb the GRF4-miR396 stress response network and results in the development of enlarged grains and enhancement of cold tolerance in rice.
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Claims 7
Claim · model-written summary
The LGS1 locus carries a 2 bp missense mutation in its coding region.
- Taxon
- rice
Oryza sativae0 - Gene
- LGS1e1
- Outcome
- missense mutatione1
- Value
- 2 bpe1
- Qualifier
- in the coding regione1
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Grain shape is controlled by quantitative trait loci (QTLs) in rice (Oryza sativa L.)”
e1“LGS1 encodes the OsGRF4 transcription factor and contains a 2 bp missense mutation in the coding region that coincides with the putative pairing site of miRNA396”
Claim · model-written summary
LGS1 transcript levels were higher in the mutant line than in control plants.
- Taxon
- riceOryza sativae0
- Material
- mutant linee2
- Gene
- LGS1e2
- Outcome
- LGS1 transcript levelse2
- Direction
- highere2
- Comparator
- control plantse2
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Grain shape is controlled by quantitative trait loci (QTLs) in rice (Oryza sativa L.)”
e2“The LGS1 transcript levels in the mutant line were found to be higher than the lgs1 transcript levels in the control plants”
Claim · model-written summary
The mutation might disrupt the pairing of LGS1 mRNA with miR396.
- Taxon
- riceOryza sativae0
- Gene
- LGS1e3
- Outcome
- pairing of the LGS1 mRNA with miR396e3
- Qualifier
- might disrupte3
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Grain shape is controlled by quantitative trait loci (QTLs) in rice (Oryza sativa L.)”
e3“suggesting that the mutation might disrupt the pairing of the LGS1 mRNA with miR396”
Claim · model-written summary
LGS1 increases grain size in rice.
- Taxon
- riceOryza sativae0
- Gene
- LGS1e5
- Outcome
- grainse5
- Direction
- largere5
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Grain shape is controlled by quantitative trait loci (QTLs) in rice (Oryza sativa L.)”
e5“In addition to producing larger grains, LGS1 also enhanced cold tolerance at the seedling stage and increased the survival rate of seedlings after cold stress treatment”
Claim · model-written summary
LGS1 enhanced cold tolerance at the seedling stage in rice.
- Taxon
- riceOryza sativae0
- Organ / stage
- seedling stagee5
- Treatment
- cold stress treatmente5
- Gene
- LGS1e5
- Outcome
- cold tolerancee5
- Direction
- enhancede5
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Grain shape is controlled by quantitative trait loci (QTLs) in rice (Oryza sativa L.)”
e5“In addition to producing larger grains, LGS1 also enhanced cold tolerance at the seedling stage and increased the survival rate of seedlings after cold stress treatment”
Claim · model-written summary
LGS1 increased the survival rate of rice seedlings after cold stress.
- Taxon
- riceOryza sativae0
- Organ / stage
- seedlingse5
- Treatment
- cold stress treatmente5
- Gene
- LGS1e5
- Outcome
- survival rate of seedlingse5
- Direction
- increasede5
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Grain shape is controlled by quantitative trait loci (QTLs) in rice (Oryza sativa L.)”
e5“In addition to producing larger grains, LGS1 also enhanced cold tolerance at the seedling stage and increased the survival rate of seedlings after cold stress treatment”
Claim · model-written summary
The mutation in LGS1 appears to disturb the GRF4-miR396 stress response network, leading to enlarged grains and enhanced cold tolerance.
- Taxon
- riceOryza sativae1
- Gene
- LGS1e1
- Outcome
- development of enlarged grainse1
- Qualifier
- appears to disturb the GRF4-miR396 stress response networke1
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Grain shape is controlled by quantitative trait loci (QTLs) in rice (Oryza sativa L.)”
e1“These findings indicate that the mutation in LGS1 appears to disturb the GRF4-miR396 stress response network and results in the development of enlarged grains and enhancement of cold tolerance in rice”
The same questions in other papers
cold · survival · Oryza sativa (rice)Positive and negative results
3 papers in the same direction as this paper · 2 in the opposite direction
- negative
- negative
- positive
2 papers more in this group
See all 6 papers →cold · tolerance: abiotic · Oryza sativa (rice)Results agree
4 papers in the same direction as this paper
- positive
- positive
- positive
1 paper more in this group
See all 5 papers →Claims are grouped by organism, treatment and what was measured or targeted. A paper counts as positive when any of its claims in the group is positive.