Comparison of miRNAs and Their Targets in Seed Development between Two Maize Inbred Lines by High-Throughput Sequencing and Degradome Analysis

Abstract

MicroRNAs (miRNAs) play an important role in plant growth, development, and response to environment. For identifying and comparing miRNAs and their targets in seed development between two maize inbred lines (i.e. PH6WC and PH4CV), two sRNAs and two degradome libraries were constructed. Through high-throughput sequencing and miRNA identification, 55 conserved and 24 novel unique miRNA sequences were identified in two sRNA libraries; moreover, through degradome sequencing and analysis, 137 target transcripts corresponding to 38 unique miRNA sequences were identified in two degradome libraries. Subsequently, 16 significantly differentially expressed miRNA sequences were verified by qRT-PCR, in which 9 verified sequences obviously target 30 transcripts mainly involved with regulation in flowering and development in embryo. Therefore, the results suggested that some miRNAs (e.g. miR156, miR171, miR396 and miR444) related reproductive development might differentially express in seed development between the PH6WC and PH4CV maize inbred lines in this present study.

The explant developmental stage profoundly impacts small RNA-mediated regulation at the dedifferentiation step of maize somatic embryogenesis

“…Consistent with the embryo distinct morphological features, the accumulation of many development-related miRNAs 36,37 decreased at stages beyond 15 DAP, whereas stress- and nutrient transport-related miRNAs 38 significantly increased. In addition, dedifferentiation from IE15 resulted in more significant miRNA accumulation switches than for the other explants.…”

“…Similar miRNA patterns observed during dedifferentiation could be interpreted as abundance adjustments dictated by the imposed stress and hormone concentration 12 . Ultimately, transcription factors targeted by miRNAs would regulate the precise response to external stimuli 22,37 . Consistently, significant differences for miRNA targets were evident between calli generated from the distinct explants and might better correlate with their distinct embryogenic potential.…”

Effect of aneuploidy of a non‐essential chromosome on gene expression in maize

“…Considering that we can only detect changes in the transcription level, targets with type 'translation repression' were filtered out. Degradome sequencing data were collected from various studies regarding miRNA regulation (Fu et al 2017;Gong et al 2015;Li et al 2017;Liu et al 2014;Wu et al 2016;Zhang et al 2019;Zhao et al 2013;Zhao et al 2016;Zhou et al 2016). Afterward, we translated gene model names of these targets from B73 to W22.…”

Identification of miRNAs Mediating Seed Storability of Maize during Germination Stage by High-Throughput Sequencing, Transcriptome and Degradome Sequencing

“…In addition, miR160 and miR167 are, respectively, down- and up-regulated at the late stages of endosperm development, impacting this process by targeting ARF [ 38 ]. During the development process of seeds in two maize inbred lines (PH4CV and PH6WC), the differentially expressed miR156, miR171, miR396, and miR444, which, respectively, target SPL , SCL , QQT , and EDA , regulate flowering and embryonic development [ 39 ]. In addition, miR319a-3p and its target genes MYB33 and MYB101 participate in the regulation of seed storability in sweet maize through the MYB protein-binding chromatin pathway [ 40 ].…”