Abstract
The B-BOX (BBX) proteins encode a class of zinc-finger transcription factors possessing one or two B-BOX domains and in some cases an additional CCT (CO, CO-like, and TOC1) motif, which play important roles in regulating plant growth, development and stress response. Nevertheless, no systematic study of BBX genes has been undertaken in tomato (Solanum lycopersicum). Here we present the results of a genome-wide analysis of the 29 BBX genes in this important vegetable species. Their structures, conserved domains, phylogenetic relationships, subcellular localizations, and promoter cis-regulatory elements were analyzed; their tissue expression profiles and expression patterns under various hormones and stress treatments were also investigated in detail. Tomato BBX genes can be divided into five subfamilies, and thirteen of them were found to be segmentally duplicated. Real-time quantitative PCR analysis showed that most BBX genes exhibited different temporal and spatial expression patterns, such as SlBBX24, which was constitutively expressed with high abundance in nearly all tissues studied, and eight genes (SlBBX4, 5, 6, 11, 16, 18, 19, and 22) showed relatively higher expression levels in vegetative tissues and non-ripening fruits. The expression of most BBX genes can be induced by drought, polyethylene glycol-6000 or heat stress. Some BBX genes were induced strongly by phytohormones such as abscisic acid, gibberellic acid or ethephon. The majority of tomato BBX proteins was predicted to be located in nuclei, and the transient expression assay using Arabidopsis mesophyll protoplasts demonstrated that all the seven BBX members tested (SlBBX5, 7, 15, 17, 20, 22 and 24) were localized in nucleus. Our analysis of tomato BBX genes on the genome scale would provide valuable information for future functional characterization of specific genes in this family.
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Claims 14
Claim · model-written summary
A genome-wide analysis identified 29 tomato BBX genes.
- Taxon
- Tomato
Solanum lycopersicumt0 - Gene
- BBXe0
- Outcome
- BBX genese0
- Value
- 29e0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“a genome-wide analysis of the 29 BBX genes in this important vegetable species.”
t0“Tomato”
Claim · model-written summary
Tomato BBX genes were divided into five subfamilies.
- Taxon
- TomatoSolanum lycopersicume0
- Gene
- BBXe0
- Outcome
- subfamiliese0
- Value
- fivee0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Tomato BBX genes can be divided into five subfamilies”
Claim · model-written summary
Thirteen tomato BBX genes were segmentally duplicated.
- Taxon
- TomatoSolanum lycopersicumt0
- Outcome
- segmentally duplicatede0
- Value
- thirteene0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“thirteen of them were found to be segmentally duplicated.”
t0“Tomato”
Claim · model-written summary
Most BBX genes showed different temporal and spatial expression patterns.
- Taxon
- TomatoSolanum lycopersicumt0
- Gene
- BBXe0
- Outcome
- temporal and spatial expression patternse0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“most BBX genes exhibited different temporal and spatial expression patterns”
t0“Tomato”
Claim · model-written summary
SlBBX24 was expressed at high abundance in nearly all studied tissues.
- Taxon
- TomatoSolanum lycopersicumt0
- Gene
- SlBBX24e0
- Outcome
- expressed with high abundancee0
- Qualifier
- nearly all tissues studiede0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“SlBBX24, which was constitutively expressed with high abundance in nearly all tissues studied”
t0“Tomato”
Claim · model-written summary
Eight named BBX genes had relatively higher expression in vegetative tissues and non-ripening fruits.
- Taxon
- TomatoSolanum lycopersicumt0
- Organ / stage
- vegetative tissues and non-ripening fruitse0
- Gene
- SlBBX4, 5, 6, 11, 16, 18, 19, and 22e0
- Outcome
- expression levelse0
- Direction
- highere0
- Value
- eighte0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“eight genes (SlBBX4, 5, 6, 11, 16, 18, 19, and 22) showed relatively higher expression levels in vegetative tissues and non-ripening fruits.”
t0“Tomato”
Claim · model-written summary
Drought induced expression of most BBX genes.
- Taxon
- TomatoSolanum lycopersicumt0
- Treatment
- droughte0
- Outcome
- expression of most BBX genese0
- Direction
- inducede0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“The expression of most BBX genes can be induced by drought, polyethylene glycol-6000 or heat stress.”
t0“Tomato”
Claim · model-written summary
Polyethylene glycol-6000 induced expression of most BBX genes.
- Taxon
- TomatoSolanum lycopersicumt0
- Treatment
- polyethylene glycol-6000e0
- Outcome
- expression of most BBX genese0
- Direction
- inducede0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“The expression of most BBX genes can be induced by drought, polyethylene glycol-6000 or heat stress.”
t0“Tomato”
Claim · model-written summary
Heat stress induced expression of most BBX genes.
- Taxon
- TomatoSolanum lycopersicumt0
- Treatment
- heat stresse0
- Outcome
- expression of most BBX genese0
- Direction
- inducede0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“The expression of most BBX genes can be induced by drought, polyethylene glycol-6000 or heat stress.”
t0“Tomato”
Claim · model-written summary
Abscisic acid strongly induced some BBX genes.
- Taxon
- TomatoSolanum lycopersicumt0
- Treatment
- abscisic acide0
- Outcome
- BBX genese0
- Direction
- inducede0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Some BBX genes were induced strongly by phytohormones such as abscisic acid, gibberellic acid or ethephon.”
t0“Tomato”
Claim · model-written summary
Gibberellic acid strongly induced some BBX genes.
- Taxon
- TomatoSolanum lycopersicumt0
- Treatment
- gibberellic acide0
- Outcome
- BBX genese0
- Direction
- inducede0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Some BBX genes were induced strongly by phytohormones such as abscisic acid, gibberellic acid or ethephon.”
t0“Tomato”
Claim · model-written summary
Ethephon strongly induced some BBX genes.
- Taxon
- TomatoSolanum lycopersicumt0
- Treatment
- ethephone0
- Outcome
- BBX genese0
- Direction
- inducede0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Some BBX genes were induced strongly by phytohormones such as abscisic acid, gibberellic acid or ethephon.”
t0“Tomato”
Claim · model-written summary
Most tomato BBX proteins were predicted to be nuclear.
- Taxon
- tomatoSolanum lycopersicume0
- Gene
- BBXe0
- Outcome
- located in nucleie0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“The majority of tomato BBX proteins was predicted to be located in nuclei”
Claim · model-written summary
All seven BBX proteins tested in Arabidopsis protoplasts localized to the nucleus.
- Taxon
- TomatoSolanum lycopersicumt0
- Gene
- SlBBX5, 7, 15, 17, 20, 22 and 24e0
- Outcome
- localized in nucleuse0
- Value
- sevene0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“all the seven BBX members tested (SlBBX5, 7, 15, 17, 20, 22 and 24) were localized in nucleus.”
t0“Tomato”
The same questions in other papers
heat · molecular: expression · Solanum lycopersicum (tomato)Positive and negative results
12 papers in the same direction as this paper · 14 in the opposite direction
- negative
- no effect
- negative
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See all 27 papers →drought · molecular: expression · Solanum lycopersicum (tomato)Positive and negative results
26 papers in the same direction as this paper · 13 in the opposite direction
- negative
- no effect
- negative
36 papers more in this group
See all 40 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.