Ontology highlight
ABSTRACT:
PROVIDER: PRJNA781125 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR16966241_1.fastq.gz | Fastqsanger.gz |
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Project description:The molecular mechanisms underlying the development and progression of sugarcane mosaic virus (SCMV) infection in maize are poorly understood. A transcript profiling study based on maize unigene-microarrays was conducted to identify genes associated with SCMV resistance in the near isogenic line (NIL) pair F7+ (SCMV resistant) and F7 (susceptible). Four comparisons were conducted, which is addressing constitutive genetic discrepancy (Non-infected F7 vs. Non-infected F7+), inducible genetic discrepancy (Infected F7 vs. Infected F7+), compatible reaction (Non-infected F7 vs. Infected F7), and incompatible reaction (Non-infected F7+ vs. Infected F7+).
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Project description:To accelerate genetic studies in sugarcane, an Axiom Sugarcane100K single nucleotide polymorphism (SNP) array was designed and customized in this study. Target enrichment sequencing 300 sugarcane accessions selected from the world collection of sugarcane and related grass species yielded more than four million SNPs, from which a total of 31,449 single dose (SD) SNPs and 68,648 low dosage (33,277 SD and 35,371 double dose) SNPs from two datasets respectively were selected and tiled on Affymetrix Axiom SNP array. Most of selected SNPs (91.77%) were located within genic regions (12,935 genes), with an average of 7.1 SNPs/gene according to sorghum gene models. This newly developed array was used to genotype 469 sugarcane clones, including one F1 population derived from cross between Green German and IND81-146, one selfing population derived from CP80-1827, and 11 diverse sugarcane accessions as controls. Results of genotyping revealed a high polymorphic SNP rate (77.04%) among the 469 samples. Three linkage maps were constructed by using SD SNP markers, including a genetic map for Green German with 3,482 SD SNP markers spanning 3,336 cM, a map for IND81-146 with 1,513 SD SNP markers spanning 2,615 cM, and a map for CP80-1827 with 536 SD SNP markers spanning 3,651 cM. Quantitative trait loci (QTL) analysis identified a total of 18 QTLs controlling Sugarcane yellow leaf virus resistance segregating in the two mapping populations, harboring 27 disease resistant genes. This study demonstrated the successful development and utilization of a SNP array as an efficient genetic tool for high throughput genotyping in highly polyploid sugarcane.
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Project description:Sugarcane streak mosaic virus (SCSMV) is the most important cause of sugarcane mosaic disease in the main production region. The SCSMV-encoded protein 1 (P1SCSMV) plays a vital role in disease development. However, the molecular mechanisms by which P1SCSMV participates in plant immunity remains unknown. Here, we found that the relative expression levels of P1SCSMV were negatively correlated with the xyloglucan endotransglucosylase/hydrolase gene (XTH) in a linear relationship. P1SCSMV directly interacts with the transcription factor, NbBES1, in vivo and in vitro. P1SCSMV-NbBES1 interaction interferes the binding of NbBES1 to the E-box element on the promoter region of NbXTH1 gene and inhibits the normal transcription of NbXTH1 gene. Furthermore, we found that down-regulation of the NbXTH1 directly resulted in enhanced infection of different plant pathogenic fungi and viruses, disrupted compositions of xyloglucan and xylan in the cell wall, and thinner middle lamellae in cell walls. We found that xyloglucan is a direct trigger of damage-associated molecular pattern- (DAMP) induced plant innate immunity. Moreover, the decrease in xyloglucan content in the cell wall caused by down-regulation of NbXTH1 leads to a reduction in DAMP-triggered immunity. Our study revealed the molecular mechanism of how a plant virus manipulates plant cell wall-mediated plant innate immunity, and identified NbXTH1, a wide-spectrum disease resistance protein for both plant pathogenic fungi and viruses. Our research also provides the basis for the application of the small molecule xyloglucan and the wide-spectrum disease resistance gene, XTH, in wide-spectrum resistance improvement in the future crop molecular breeding.
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