Then, 100-bp flanking sequences of 1652 putative varietal SNPs (from both transcriptome and complexity-reduced DNA) identified between MCU-5 and Siokra 1−4 and evenly distributed on 13 G. raimondii scaffolds were submitted to Illumina for marker design suitability ranking, before the selection of SNPs to assay.
AS enriches the response capacity of cells by enabling them to synthesize structurally and functionally different proteins from a gene and contributes to the complexity of both transcriptome and proteome to increase the survival potential of a phenotype in various physiological conditions.
Alternative mRNA splicing is a complex post-transcriptional mechanism that enables the generation of multiple mRNA products from a single gene, increasing transcriptome and proteome complexity.
These studies have contributed to our understanding of the wound transcriptome and the complexity of the repair process.
Alternative splicing (AS) is emerging as a key mechanism for the expansion of transcriptome and proteome complexity in eukaryotes [ 1].
Alternative splicing (AS) is a mechanism that increases transcriptome and proteome complexity and controls developmental programs and responses to the environment in higher eukaryotes [ 47, 48].
The growing interest in AS is propelled by its prominent contribution to transcriptome and proteome complexity and the role of aberrant AS in numerous diseases.
Indeed, AS has been proposed to increase transcriptome and proteome complexity, for instance as a specific response to certain development stages or environmental stimuli.
These results unfortunately underline the incompleteness of the current annotation of the pig transcriptome and of its complexity.
RNA-seq has made a number of significant qualitative and quantitative improvements on gene expression analysis and provides multiple layers of resolutions and transcriptome complexity: the expression at exon, SNP, and positional level; splicing; posttranscriptional RNA editing across the entire gene; isoform and allele-specific expression [ 1].
Although further experiments are needed to determine how the optimum length depends on the amount of sequence data and transcriptome complexity, our simulations do suggest that for isoform and gene expression analysis, increasing the number of reads may be more useful than increasing read length beyond 50 bases.
