Abstract
Abstract Improving seed germination under drought stress has the potential to increase crop yield in dry direct‐seeded rice. In this study, a genome‐wide association study (GWAS) was conducted to determine the genetic basis of seed germination under drought stress in a panel of 165 rice accessions using a multi‐locus compressed variance‐component mixed model, 3VmrMLM. A total of 33 quantitative trait nucleotides (QTNs) were identified in association with drought tolerance during seed germination. Around these QTNs, eight were found to be co‐localized with known drought‐related genes. Furthermore, a causal candidate gene, OsGA2ox5 , which encodes a gibberellin (GA) 2‐oxidase, was identified for QTN‐Chr07_242906 by integrating linkage disequilibrium (LD) analysis and gene expression analysis. Knockout mutation of OsGA2ox5 resulted in delayed seed germination and retarded seedling growth under drought stress. RNA‐seq analysis revealed that OsGA2ox5 regulates drought tolerance during seed germination mainly by modulating carbohydrate metabolism. Additionally, a non‐synonymous coding variant in OsGA2ox5 , SNP‐Chr07_218893, was found to be strongly associated with drought tolerance level during seed germination. These findings provide valuable information for further exploration of novel drought‐related genes and genetic improvement of rice drought tolerance in the future.
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Claims 8
Claim · model-written summary
The study identified 33 quantitative trait nucleotides associated with drought tolerance during seed germination.
- Taxon
- rice
Oryza sativat0 - Outcome
- quantitative trait nucleotides (QTNs)e0
- Value
- 33e0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“A total of 33 quantitative trait nucleotides (QTNs) were identified in association with drought tolerance during seed germination.”
t0“rice”
Claim · model-written summary
Eight of the identified quantitative trait nucleotides co-localized with known drought-related genes.
- Taxon
- riceOryza sativat0
- Outcome
- co‐localized with known drought‐related genese0
- Value
- eighte0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Around these QTNs, eight were found to be co‐localized with known drought‐related genes.”
t0“rice”
Claim · model-written summary
OsGA2ox5 was identified as a candidate causal gene for QTN‐Chr07_242906.
- Taxon
- riceOryza sativat0
- Gene
- OsGA2ox5e0
- Outcome
- causal candidate genee0
- Qualifier
- QTN‐Chr07_242906e0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“a causal candidate gene, OsGA2ox5 , which encodes a gibberellin (GA) 2‐oxidase, was identified for QTN‐Chr07_242906”
t0“rice”
Claim · model-written summary
OsGA2ox5 encodes a gibberellin 2-oxidase.
- Taxon
- riceOryza sativat0
- Gene
- OsGA2ox5e0
- Outcome
- encodes a gibberellin (GA) 2‐oxidasee0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“OsGA2ox5 , which encodes a gibberellin (GA) 2‐oxidase”
t0“rice”
Claim · model-written summary
Knocking out OsGA2ox5 delayed seed germination under drought stress.
- Taxon
- riceOryza sativat0
- Treatment
- Knockout mutation of OsGA2ox5e0
- Gene
- OsGA2ox5e0
- Outcome
- seed germinatione0
- Direction
- delayede0
- Qualifier
- under drought stresse0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Knockout mutation of OsGA2ox5 resulted in delayed seed germination and retarded seedling growth under drought stress.”
t0“rice”
Claim · model-written summary
Knocking out OsGA2ox5 retarded seedling growth under drought stress.
- Taxon
- riceOryza sativat0
- Treatment
- Knockout mutation of OsGA2ox5e0
- Gene
- OsGA2ox5e0
- Outcome
- seedling growthe0
- Direction
- retardede0
- Qualifier
- under drought stresse0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Knockout mutation of OsGA2ox5 resulted in delayed seed germination and retarded seedling growth under drought stress.”
t0“rice”
Claim · model-written summary
RNA-seq analysis indicated that OsGA2ox5 regulates drought tolerance during germination mainly through carbohydrate metabolism.
- Taxon
- riceOryza sativat0
- Gene
- OsGA2ox5e0
- Outcome
- drought tolerance during seed germinatione0
- Qualifier
- modulating carbohydrate metabolisme0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“OsGA2ox5 regulates drought tolerance during seed germination mainly by modulating carbohydrate metabolism.”
t0“rice”
Claim · model-written summary
A nonsynonymous OsGA2ox5 variant, SNP‐Chr07_218893, was strongly associated with drought tolerance during germination.
- Taxon
- riceOryza sativat0
- Gene
- OsGA2ox5e0
- Outcome
- drought tolerance level during seed germinatione0
- Qualifier
- SNP‐Chr07_218893e0
Not reportedDirection
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“a non‐synonymous coding variant in OsGA2ox5 , SNP‐Chr07_218893, was found to be strongly associated with drought tolerance level during seed germination.”
t0“rice”
The same questions in other papers
loss of function · growth · Oryza sativa (rice)Positive and negative results
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