Journal Article

Small RNA and degradome sequencing reveals important microRNA function in Astragalus chrysochlorus response to selenium stimuli

Cakir, Ozgur, Candar‐Cakir, Bilgin, Zhang, Baohong

2016

Overview

Selenium (Se), an essential element, plays important roles in human health as well as environmental sustainability. Se hyperaccumulating plants are thought as an alternative selenium resource, recently. Astragalus species are known as hyperaccumulator of Se by converting it to nonaminoacid compounds. However, Se‐metabolism‐related hyperaccumulation is not elucidated in plants yet. MicroRNAs (miRNAs) are key molecules in many biological and metabolic processes via targeting mRNAs, which may also play an important role in Se accumulation in plants. In this study, we identified 418 known miRNAs, belonging to 380 families, and 151 novel miRNAs induced by Se exposure in Astragalus chyrsochlorus callus. Among known miRNAs, the expression of 287 families was common in both libraries, besides 71 families were expressed only in Se‐treated sample, whereas 60 conserved families were expressed in control tissue. miR1507a, miR1869 and miR2867‐3p were mostly up‐regulated, whereas miR1507‐5p and miR8781b were significantly down‐regulated by Se exposure. Computational analysis shows that the targets of miRNAs are involved in different types of biological mechanisms including 47 types of cellular component, 103 types of molecular function and 144 types of biological process. Degradome analysis shows that 1256 mRNAs were targeted by 499 miRNAs. We conclude that some known and novel miRNAs such as miR167a, miR319, miR1507a, miR4346, miR7767‐3p, miR7800, miR9748 and miR‐n93 target transcription factors, disease resistance proteins and some specific genes like cysteine synthase and might be related to plant hormone signal transduction, plant–pathogen interaction and sulphur metabolism pathways.

• Publisher: Blackwell Pub,John Wiley & Sons, Inc,John Wiley and Sons Inc
• Subject: Analysis / Astragalus / Astragalus chrysochlorus / Astragalus Plant - drug effects / Astragalus Plant - genetics / Base Sequence / Biological / Biological activity / Bioremediation / Callus / Cellular signal transduction / Computer applications / Cysteine synthase / Degradation / degradome analysis / Disease resistance / Down-Regulation - drug effects / Down-Regulation - genetics / Environmental protection / Environmental sustainability / Exposure / Flowers & plants / Gene expression / Gene Expression Profiling / Gene Expression Regulation, Plant - drug effects / Gene Library / Gene Ontology / Gene sequencing / genes / Genetic transcription / Genomes / high‐throughput deep sequencing / human health / hyperaccumulators / Mathematical analysis / Mathematical models / Menopause / messenger RNA / metabolism / MicroRNA / MicroRNAs / MicroRNAs - genetics / MicroRNAs - metabolism / miRNA / Ontology / Plant hormones / Plants / Plants (organisms) / proteins / Resistance factors / Ribonucleic acid / Ribonucleic acids / RNA / RNA Stability - drug effects / RNA Stability - genetics / Selenium / Selenium - pharmacology / Sequence Analysis, RNA - methods / signal transduction / Studies / Sulfur / Transcription factors / Transduction / Up-Regulation - drug effects / Up-Regulation - genetics