Abstract
A comprehensive genome-wide identification of SET-domain-containing genes in Solanum lycopersicum (tomato) has revealed 46 members. Phylogenetic analysis showed that these SET genes, along with those from Arabidopsis thaliana and Oryza sativa, are divided into five subfamilies, with Subfamilies II and V being the largest. Motif and domain analyses identified 15 conserved motifs and revealed the presence of pre-SET and post-SET domains in several genes, suggesting functional diversification. Gene structure analysis further demonstrated variation in exon–intron organization, likely contributing to differential gene regulation. Promoter analysis identified cis-acting elements related to light responsiveness, plant growth, hormones, and stress, implicating SET genes in various biological processes. RNA-seq and qRT-PCR data revealed distinct expression patterns of SlSET genes under salt stress, with several genes showing significant upregulation, indicating their potential role in stress tolerance. In particular, SlSET6 silencing using VIGS reduced tomato’s tolerance to salt stress, leading to higher lipid peroxidation, reduced antioxidant enzyme activity, and decreased proline content, further confirming its critical role in salt stress response. These findings provide valuable insights into the functional diversity, evolutionary history, and stress-related roles of SET domain genes in tomato, with potential applications for crop improvement strategies.
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Claims 11
Claim · model-written summary
A genome-wide analysis identified 46 SET-domain-containing genes in tomato.
- Taxon
- tomato
Solanum lycopersicume0 - Gene
- SET-domain-containing genese0
- Outcome
- revealed 46 memberse0
- Value
- 46e0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“A comprehensive genome-wide identification of SET-domain-containing genes in Solanum lycopersicum (tomato) has revealed 46 members”
Claim · model-written summary
Tomato SET genes, together with those of Arabidopsis thaliana and Oryza sativa, fall into five subfamilies, with Subfamilies II and V the largest.
- Taxon
- tomatoSolanum lycopersicume0
- Gene
- SET genese1
- Outcome
- divided into five subfamiliese1
- Value
- five subfamiliese1
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Solanum lycopersicum (tomato)”
e1“these SET genes, along with those from Arabidopsis thaliana and Oryza sativa, are divided into five subfamilies, with Subfamilies II and V being the largest”
Claim · model-written summary
Motif and domain analyses identified 15 conserved motifs in the tomato SET genes.
- Taxon
- tomatoSolanum lycopersicume0
- Outcome
- conserved motifse1
- Value
- 15e1
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Solanum lycopersicum (tomato)”
e1“Motif and domain analyses identified 15 conserved motifs”
Claim · model-written summary
Pre-SET and post-SET domains were present in several tomato SET genes.
- Taxon
- tomatoSolanum lycopersicume0
- Gene
- several genese1
- Outcome
- presence of pre-SET and post-SET domainse1
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Solanum lycopersicum (tomato)”
e1“revealed the presence of pre-SET and post-SET domains in several genes”
Claim · model-written summary
Gene structure analysis showed variation in exon–intron organization among tomato SET genes.
- Taxon
- tomatoSolanum lycopersicume0
- Outcome
- variation in exon–intron organizatione1
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Solanum lycopersicum (tomato)”
e1“Gene structure analysis further demonstrated variation in exon–intron organization”
Claim · model-written summary
Promoter analysis identified cis-acting elements related to light responsiveness, plant growth, hormones and stress.
- Taxon
- tomatoSolanum lycopersicume0
- Outcome
- cis-acting elementse1
- Qualifier
- light responsiveness, plant growth, hormones, and stresse1
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Solanum lycopersicum (tomato)”
e1“Promoter analysis identified cis-acting elements related to light responsiveness, plant growth, hormones, and stress”
Claim · model-written summary
RNA-seq and qRT-PCR showed distinct expression patterns of SlSET genes under salt stress, with several genes significantly upregulated.
- Taxon
- tomatoSolanum lycopersicume0
- Treatment
- salt stresse1
- Gene
- SlSET genese1
- Outcome
- distinct expression patternse1
- Direction
- upregulatione1
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Solanum lycopersicum (tomato)”
e1“RNA-seq and qRT-PCR data revealed distinct expression patterns of SlSET genes under salt stress, with several genes showing significant upregulation”
Claim · model-written summary
Silencing SlSET6 by VIGS reduced tomato tolerance to salt stress.
- Taxon
- tomatoSolanum lycopersicume0
- Treatment
- SlSET6 silencing using VIGSe0
- Gene
- SlSET6e0
- Outcome
- tolerance to salt stresse0
- Direction
- reducede0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“SlSET6 silencing using VIGS reduced tomato’s tolerance to salt stress”
Claim · model-written summary
SlSET6 silencing led to higher lipid peroxidation under salt stress.
- Taxon
- tomatoSolanum lycopersicume0
- Treatment
- SlSET6 silencing using VIGSe0
- Gene
- SlSET6e0
- Outcome
- lipid peroxidatione0
- Direction
- highere0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“SlSET6 silencing using VIGS reduced tomato’s tolerance to salt stress, leading to higher lipid peroxidation”
Claim · model-written summary
SlSET6 silencing led to reduced antioxidant enzyme activity under salt stress.
- Taxon
- tomatoSolanum lycopersicume0
- Treatment
- SlSET6 silencing using VIGSe0
- Gene
- SlSET6e0
- Outcome
- antioxidant enzyme activitye0
- Direction
- reducede0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“SlSET6 silencing using VIGS reduced tomato’s tolerance to salt stress, leading to higher lipid peroxidation, reduced antioxidant enzyme activity”
Claim · model-written summary
SlSET6 silencing led to decreased proline content under salt stress.
- Taxon
- tomatoSolanum lycopersicume0
- Treatment
- SlSET6 silencing using VIGSe0
- Gene
- SlSET6e0
- Outcome
- proline contente0
- Direction
- decreasede0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“SlSET6 silencing using VIGS reduced tomato’s tolerance to salt stress, leading to higher lipid peroxidation, reduced antioxidant enzyme activity, and decreased proline content”
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