Investigation of Splicing Quantitative Trait Loci inArabidopsis thaliana.
The alteration of alternative splicing patterns has an effect on the quantification of functional proteins, leading to phenotype variation. The splicing quantitative trait locus (sQTL) is one of the main genetic elements affecting splicing patterns. Here, we report the results of genome-wide sQTLs across 141 strains ofArabidopsis thalianawith publicly available next generation sequencing datasets. As a result, we found 1,694 candidate sQTLs inArabidopsis thalianaat a false discovery rate of 0.01. Furthermore, among the candidate sQTLs, we found 25 sQTLs that overlapped with the list of previously examined trait-associated single nucleotide polymorphisms (SNPs). In summary, this sQTL analysis provides new insight into genetic elements affecting alternative splicing patterns inArabidopsis thalianaand the mechanism of previously reported trait-associated SNPs.
Department of Bioinformatics and Life Science, Soongsil University, Seoul 06978, Korea.
Wonseok
W
Yoo
Department of Bioinformatics and Life Science, Soongsil University, Seoul 06978, Korea.
Sungkyu
S
Kyung
Department of Bioinformatics and Life Science, Soongsil University, Seoul 06978, Korea.
Seonggyun
S
Han
Department of Bioinformatics and Life Science, Soongsil University, Seoul 06978, Korea.
Sangsoo
S
Kim
QTL mapping; RNA-seq; sQTLs