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Tolerance Data 2012 Torent !!TOP!!

Tolerance Data 2012 Torent !!TOP!!





 
 
 
 
 
 
 

Tolerance Data 2012 Torent

the large number of clade-specific sequences in the symbiodinium database has important implications for the molecular tools that are available for functional studies of this symbiont. for example, most available symbiodinium genomes are clade a-derived, which limits studies to this clade. it is possible that some genes may be missing in the public databases, and also that there is no current genome sequence available for clade b. with the rapid expansion of the genome database, and our ability to sequence even partial genomes using short-read technologies, the number of clade-specific sequences in the databases is likely to continue to increase over time. this will allow us to capture the full extent of genetic diversity within these major symbiotic lineages, which will be critical for a more comprehensive understanding of the molecular mechanisms behind thermal tolerance and the ability of these symbionts to adapt to changing environmental conditions.

the identification of heat-tolerant symbionts within corals is of broad interest, and our current work is only the first step in understanding the molecular basis of thermal tolerance in this symbiosis. as genome sequences become available for more symbiodinium clades, it will be possible to analyze individual genes and pathways for their roles in heat-tolerance and their associated evolution. the genes and functional categories highlighted here as candidates for thermal-tolerance may be over-expressed or under-expressed in response to exposure to higher-than-average temperatures.

rna-seq data can be used to study the expression level of each gene in a population, allowing researchers to determine which genes are commonly expressed in different tissues and cell types and how those expression patterns change over time. in addition to comparing expression levels between tissues and treatments, rna-seq data can also be used to identify novel splice variants of transcripts. for example, the splice donor site within the 3′ untranslated region (3′ utr) may vary between tissues or under different experimental conditions. in this study, we found that the number of reads aligned with star was significantly higher for the illumina data than for the ion torrent data across all four comparisons (figure 2). as a result, the number of novel and known splice variants identified by port was significantly lower for the ion torrent data (table 1).
one commonly used approach to evaluate the quality of a sequencing experiment is to compare the number of reads mapped to each gene for the two platforms used (e.g., illumina and ion torrent). the number of reads mapped to each gene provides a measure of the coverage of the gene, and this coverage is often used to determine how accurately the sequencing experiment was designed and conducted. in this study, we found that the number of reads aligned with star was significantly higher for the illumina data than for the ion torrent data across all four comparisons (figure 2). consequently, the number of genes with at least one mapped read was also significantly higher for the illumina data than for the ion torrent data (table 1).
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