Abstract
BACKGROUND: Nucleotide binding site-leucine rich repeat (NBS-LRR)-encoding genes comprise the largest class of plant disease resistance genes. The 149 NBS-LRR-encoding genes and the 58 related genes that do not encode LRRs represent approximately 0.8% of all ORFs so far annotated in Arabidopsis ecotype Col-0. Despite their prevalence in the genome and functional importance, there was little information regarding expression of these genes. RESULTS: We analyzed the expression patterns of approximately 170 NBS-LRR-encoding and related genes in Arabidopsis Col-0 using multiple analytical approaches: expressed sequenced tag (EST) representation, massively parallel signature sequencing (MPSS), microarray analysis, rapid amplification of cDNA ends (RACE) PCR, and gene trap lines. Most of these genes were expressed at low levels with a variety of tissue specificities. Expression was detected by at least one approach for all but 10 of these genes. The expression of some but not the majority of NBS-LRR-encoding and related genes was affected by salicylic acid (SA) treatment; the response to SA varied among different accessions. An analysis of previously published microarray data indicated that ten NBS-LRR-encoding and related genes exhibited increased expression in wild-type Landsberg erecta (Ler) after flagellin treatment. Several of these ten genes also showed altered expression after SA treatment, consistent with the regulation of R gene expression during defense responses and overlap between the basal defense response and salicylic acid signaling pathways. Enhancer trap analysis indicated that neither jasmonic acid nor benzothiadiazole (BTH), a salicylic acid analog, induced detectable expression of the five NBS-LRR-encoding genes and one TIR-NBS-encoding gene tested; however, BTH did induce detectable expression of the other TIR-NBS-encoding gene analyzed. Evidence for alternative mRNA polyadenylation sites was observed for many of the tested genes. Evidence for alternative splicing was found for at least 12 genes, 11 of which encode TIR-NBS-LRR proteins. There was no obvious correlation between expression pattern, phylogenetic relationship or genomic location of the NBS-LRR-encoding and related genes studied. CONCLUSION: Transcripts of many NBS-LRR-encoding and related genes were defined. Most were present at low levels and exhibited tissue-specific expression patterns. Expression data are consistent with most Arabidopsis NBS-LRR-encoding and related genes functioning in plant defense responses but do not preclude other biological roles.
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Claims 12
Claim · model-written summary
Most NBS-LRR-encoding and related genes in Arabidopsis were expressed at low levels with varied tissue specificity.
- Taxon
- Arabidopsis
Arabidopsist0 - Outcome
- expressed at low levelse1
- Qualifier
- with a variety of tissue specificitiese1
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“Arabidopsis”
e1“Most of these genes were expressed at low levels with a variety of tissue specificities”
Claim · model-written summary
Expression of NBS-LRR-encoding and related genes was detected by at least one approach for all but 10 genes.
- Taxon
- ArabidopsisArabidopsist0
- Outcome
- Expression was detectede1
- Qualifier
- by at least one approach for all but 10 of these genese1
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“Arabidopsis”
e1“Expression was detected by at least one approach for all but 10 of these genes”
Claim · model-written summary
Expression of some but not most NBS-LRR-encoding and related genes was affected by salicylic acid treatment.
- Taxon
- ArabidopsisArabidopsist0
- Treatment
- salicylic acid (SA) treatmente1
- Outcome
- expression of some but not the majority of NBS-LRR-encoding and related genese1
Not reportedComparatorDirection
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“Arabidopsis”
e1“The expression of some but not the majority of NBS-LRR-encoding and related genes was affected by salicylic acid (SA) treatment”
Claim · model-written summary
The response of NBS-LRR-encoding and related genes to SA varied among Arabidopsis accessions.
- Taxon
- ArabidopsisArabidopsist0
- Material
- different accessionse1
- Treatment
- SAe1
- Outcome
- response to SAe1
Not reportedDirection
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“Arabidopsis”
e1“the response to SA varied among different accessions”
Claim · model-written summary
Ten NBS-LRR-encoding and related genes showed increased expression in wild-type Landsberg erecta (Ler) after flagellin treatment.
- Taxon
- ArabidopsisArabidopsist0
- Material
- wild-type Landsberg erecta (Ler)e1
- Treatment
- flagellin treatmente1
- Gene
- NBS-LRR-encoding and related genese1
- Outcome
- expressione1
- Direction
- increasede1
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“Arabidopsis”
e1“ten NBS-LRR-encoding and related genes exhibited increased expression in wild-type Landsberg erecta (Ler) after flagellin treatment”
Claim · model-written summary
Several of the ten flagellin-induced genes showed altered expression after SA treatment.
- Taxon
- ArabidopsisArabidopsist0
- Treatment
- SA treatmente1
- Outcome
- altered expressione1
Not reportedComparatorDirection
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“Arabidopsis”
e1“Several of these ten genes also showed altered expression after SA treatment”
Claim · model-written summary
Jasmonic acid did not induce detectable expression of five NBS-LRR-encoding genes and one TIR-NBS-encoding gene.
- Taxon
- ArabidopsisArabidopsist0
- Treatment
- jasmonic acide1
- Gene
- the five NBS-LRR-encoding genes and one TIR-NBS-encoding genee1
- Outcome
- detectable expressione1
Not reportedComparatorDirection
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“Arabidopsis”
e1“neither jasmonic acid nor benzothiadiazole (BTH), a salicylic acid analog, induced detectable expression of the five NBS-LRR-encoding genes and one TIR-NBS-encoding gene tested”
Claim · model-written summary
Benzothiadiazole (BTH) did not induce detectable expression of five NBS-LRR-encoding genes and one TIR-NBS-encoding gene.
- Taxon
- ArabidopsisArabidopsist0
- Treatment
- benzothiadiazole (BTH)e1
- Gene
- the five NBS-LRR-encoding genes and one TIR-NBS-encoding genee1
- Outcome
- detectable expressione1
Not reportedComparatorDirection
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“Arabidopsis”
e1“neither jasmonic acid nor benzothiadiazole (BTH), a salicylic acid analog, induced detectable expression of the five NBS-LRR-encoding genes and one TIR-NBS-encoding gene tested”
Claim · model-written summary
BTH induced detectable expression of the other TIR-NBS-encoding gene analysed in Arabidopsis.
- Taxon
- ArabidopsisArabidopsist0
- Treatment
- BTHe1
- Gene
- the other TIR-NBS-encoding genee1
- Outcome
- detectable expressione1
Not reportedComparatorDirection
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“Arabidopsis”
e1“however, BTH did induce detectable expression of the other TIR-NBS-encoding gene analyzed”
Claim · model-written summary
Alternative mRNA polyadenylation sites were observed for many of the tested NBS-LRR-encoding and related genes.
- Taxon
- ArabidopsisArabidopsist0
- Outcome
- alternative mRNA polyadenylation sitese1
- Qualifier
- for many of the tested genese1
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“Arabidopsis”
e1“Evidence for alternative mRNA polyadenylation sites was observed for many of the tested genes”
Claim · model-written summary
Alternative splicing was found for at least 12 NBS-LRR-encoding and related genes, 11 of which encode TIR-NBS-LRR proteins.
- Taxon
- ArabidopsisArabidopsist0
- Outcome
- alternative splicinge1
- Value
- at least 12 genese1
- Qualifier
- 11 of which encode TIR-NBS-LRR proteinse1
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“Arabidopsis”
e1“Evidence for alternative splicing was found for at least 12 genes, 11 of which encode TIR-NBS-LRR proteins”
Claim · model-written summary
Expression data are consistent with most NBS-LRR-encoding and related genes functioning in plant defense responses, without excluding other roles.
- Taxon
- ArabidopsisArabidopsist0
- Outcome
- functioning in plant defense responsese1
- Qualifier
- do not preclude other biological rolese1
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“Arabidopsis”
e1“Expression data are consistent with most Arabidopsis NBS-LRR-encoding and related genes functioning in plant defense responses but do not preclude other biological roles”
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See all 34 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.