Expression Profiling of Arabidopsis Long Intergenic Nongcoding RNA in Inflorescences, Leaves, and Roots

Long intergenic noncoding RNAs (lincRNA) transcribed from intergenic regions of eukaryotic genomes play important roles in key biological processes; yet, plant lincRNAs remain poorly characterized. Here we profiled lincRNA expression in inflorescences, leaves and roots using ATH lincRNA v1 array. we found 92% lincRNAs could be detected in at least 2 ATH lincRNA v1 arrays and majority of the lincRNAs were expressed at levels higher than those of pri-miRNAs but lower than those of mRNAs.Using a cut-off of 2-fold change, we identified 149 lincRNAs preferentially expressed in inflorescences, 232 in leaves and 164 in roots. Nine arrays were hybridized with RNAs from inflorescences, leaves and roots with 3 biological replicates.

基因间长链非编码RNA（long intergenic noncoding RNAs，lincRNA）是从真核生物基因组基因间区域转录而来的非编码RNA，在诸多关键生物学过程中发挥重要功能；然而目前针对植物来源的这类RNA的研究仍相对匮乏。本研究利用ATH lincRNA v1芯片（ATH lincRNA v1 array），对花序、叶片与根系中的基因间长链非编码RNA表达谱进行了分析。结果显示，92%的这类RNA可在至少2次ATH lincRNA v1芯片检测中被检出；且大多数基因间长链非编码RNA的表达水平高于初级microRNA（pri-miRNA），但低于信使RNA（mRNA）。以2倍差异倍数作为筛选阈值，本研究共鉴定出149个在花序中偏好性表达、232个在叶片中偏好性表达以及164个在根系中偏好性表达的基因间长链非编码RNA。本研究共完成9次芯片杂交实验，所用RNA样本分别取自花序、叶片与根系，且每组样本均设置3次生物学重复。