We investigated the role of the salicylic acid (SA) signaling pathway in defense responses of tomato plants to the herbivore, cotton bollworm. After exposure to the cotton bollworm, tomato leaves rapidly accumulated a high level of SA. The transcription of PR1 and BGL2 genes, the marker genes of SA pathway, was up-regulated. An enhanced endogenous SA level was accompanied by an increase in the endogenous H2O2 level as compared with controls. Spraying tomato plants with a solution containing either SA or methyl salicylic acid (Me-SA), the H2O2 level dramatically increased. These data proved that the SA pathway was involved in the tomato plant defense responses to the herbivore.
In this study, we provide a comparison of resequencing strategies, with regard to their utility, applied to the same hepatocellular carcinoma sample for copy number determination. These strategies include whole-genome, exome and restriction site-associated DNA (RAD) sequencing. The last of these strategies is a targeted sequencing technique that involves cutting the genome with a restriction enzyme and isolating the targeted sequences. Our data demonstrate that RAD sequencing is an efficient and comprehensive strategy that allows the cost-effective determination of CNAs. Further investigation of RAD sequencing data led to the finding that a precise measurement of the allele frequency would be a helpful complement to the read depth for CNA analysis for two reasons. First, knowledge of the allele frequency helps to resolve refined calculations of allele-specific copy numbers, which, in turn, identify the functionally important CNAs that are under natural selection on the parental alleles. Second, this knowledge enables deconvolution of CNA patterns in complex genomic regions.
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