Dataset Information

MicroRNAs participate in gene expression regulation and phytohormone cross-talk in barley embryo during seed development and germination.

ABSTRACT: Small RNA and degradome sequencing have identified a large number of miRNA-target pairs in plant seeds. However, detailed spatial and temporal studies of miRNA-mediated regulation, which can reflect links between seed development and germination are still lacking.In this study, we extended our investigation on miRNAs-involved gene regulation by a combined analysis of seed maturation and germination in barley. Through bioinformatics analysis of small RNA sequencing data, a total of 1324 known miRNA families and 448 novel miRNA candidates were identified. Of those, 16 known miRNAs with 40 target genes, and three novel miRNAs with four target genes were confirmed based on degradome sequencing data. Conserved miRNA families such as miR156, miR168, miR166, miR167, and miR894 were highly expressed in embryos of developing and germinating seeds. A barley-specific miRNA, miR5071, which was predicted to target an OsMLA10-like gene, accumulated at a high level, suggesting its involvement in defence response during these two developmental stages. Based on target prediction and Kyoto Encyclopedia of Genes and Genomes analysis of putative targets, nine highly expressed miRNAs were found to be related to phytohormone signalling and hormone cross-talk. Northern blot and qRT-PCR analysis showed that these miRNAs displayed differential expression patterns during seed development and germination, indicating their different roles in hormone signalling pathways. In addition, we showed that miR393 affected seed development through targeting two genes encoding the auxin receptors TIR1/AFBs in barley, as over-expression of miR393 led to an increased length-width ratio of seeds, whereas target mimic (MIM393)-mediated inhibition of its activity decreased the 1000-grain weight of seeds. Furthermore, the expression of auxin-responsive genes, abscisic acid- and gibberellic acid-related genes was altered in miR393 misexpression lines during germination and early seedling growth.Our work indicates that miRNA-target pairs participate in gene expression regulation and hormone interaction in barley embryo and provides evidence that miR393-mediated auxin response regulation affects grain development and influences gibberellic acid and abscisic acid homeostasis during germination.

SUBMITTER: Bai B

PROVIDER: S-EPMC5586051 | biostudies-literature | 2017 Sep

REPOSITORIES: biostudies-literature

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microRNAs participate in gene expression regulation and phytohormone cross-talk in barley embryo during seed development and germination.

Bai Bin B Shi Bo B Hou Ning N Cao Yanli Y Meng Yijun Y Bian Hongwu H Zhu Muyuan M Han Ning N

BMC plant biology 20170906 1

<h4>Background</h4>Small RNA and degradome sequencing have identified a large number of miRNA-target pairs in plant seeds. However, detailed spatial and temporal studies of miRNA-mediated regulation, which can reflect links between seed development and germination are still lacking.<h4>Results</h4>In this study, we extended our investigation on miRNAs-involved gene regulation by a combined analysis of seed maturation and germination in barley. Through bioinformatics analysis of small RNA sequenc ...[more]

PMID: 28877679

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Project description:Drought is one of the harshest abiotic stresses hindering seed germination, plant growth, and crop productivity. A high rate and uniformity of germination under stressful conditions are vital for crop establishment and growth; thus, for productivity. A better understanding of the genetic architecture of seed germination under drought stress is a prerequisite for further increasing yield potential. Barley is considered one of the most abiotic stresses-tolerant cereals. Elucidating the drought tolerance of barley during seed germination would indeed pave the way towards improving the performance of all cereals. However, we still know relatively little about the genetic control of drought tolerance during the seed germination phase. In our study, 218 worldwide spring barley accessions were subjected to PEG-induced drought during seed germination. Induced drought stress "20% PEG" significantly reduced the seed germination parameters and seedling related traits. A genome-wide association scan (GWAS) was used to identify genomic regions associated with our trait of interest. In total, 338 single nucleotide polymorphisms (SNPs) were found to be associated with several traits distributed across seven barley chromosomes, of which 26 genomic regions were associated with candidate genes. The current study found some of the quantitative trait loci (QTL) that have previously been reported to be linked to seed germination-related traits under drought conditions, as well as some new associations. Noteworthy, the identified QTL colocalized with a number of genes (within interval ±0.5 Mbp) that are exclusively distributed on chromosomes 1H, 2H, and 5H. The annotation of these genes in barley shows their roles in drought tolerance through encoding different transcription factors. The function of the identified genes during seed germination was also confirmed by the annotation of their counterparts in Arabidopsis. The current analyses show the power of the GWAS both for identifying putative candidate genes and for improving plant adaptive traits in barley.

Project description:In this study, we evaluated the allelopathic effects of essential oils (EOs) from six different plant species, namely, lavender (Lavandula angustifolia), hyssop (Hyssopus officinalis), English thyme (Thymus vulgaris), lovage (Levisticum officinale), costmary (Chrysanthemum balsamita), and cumin (Cuminum cyminum), on seed germination and seedling growth of barley (Hordeum vulgare) and wheat (Triticum aestivum). The main constituents of the EOs of L. angustifolia were 47.0% linalool acetate and 28.4% linalool; H. officinalis' main constituents were 39.8% cis-pinocamphone, 9.8% trans-pinocamphone, 11.4% β-pinene, and 7.5% β-phellandrene; T. vulgaris' were 38.2% para-cymene, 25.6% thymol, and 13.6% γ-terpinene; L. officinale's were 64.8% α-terpinyl acetate and 14.7% β-phellandrene; C. balsamita's were 43.7% camphor, 32.4% trans-thujone, and 11.6% camphene; C. cyminum's were 49.6% cumin aldehyde, 10.4% para-cymene, 11.6% α-terpinen-7-al, and 9.1% β-pinene. All six EOs exhibited an allelopathic effect and suppressed the seed germination and seedling development of wheat and barley; however, the concentrations that exhibited a suppressing effect were different among the plants. C. cyminum EO completely suppressed both barley and wheat germination at 10-, 30-, and 90-µL application rates, making it the most effective treatment among the tested EOs. C. balsamita's and H. officinalis' EOs at 30 and 90 µL application rates completely suppressed barley and wheat radicles per seed, radicle length (mm), seedling height (mm), and germination (%). L. angustifolia's EOs at 30- and 90-µL and T. vulgaris' EO at 90 µL application rates also completely suppressed barley and wheat radicles per seed, radicle length (mm), seedling height (mm), and germination (%). C. balsamita's, H. officinalis', L. angustifolia's, and T. vulgaris' EOs at a 10 µL application rate reduced barley radicle length, seedling height, and % germination relative to the control. Wheat seed germination % was completely suppressed by the application of L. angustifolia's and T. vulgaris' EOs at 30 and 90 µL, while T. vulgaris' EO at 10 µL rate reduced the germination relative to the control. Interestingly, C. balsamita and H. officinalis at 10 µL did not reduce wheat germination; however, they did reduce the number of radicles per seed, radicle length (mm), seedling height (mm), germination (%), and vigor index. Furthermore, L. officinale's EO reduced the measured indices (radicles per seed, radicle length, seedling height, and vigor index) at the 10, 30, and 90 µL application rates relative to the non-treated control; however, none of the application rates of L. officinale's EO had a suppression effect on wheat germination. This study demonstrated the allelopathic effects of the EOs of six different herbal plant species on seed germination of barley and winter wheat. The results can be utilized in the development of commercial products for controlling pre-harvest sprouting of wheat and barley. Further research is needed to verify the results under field conditions.

Dataset Information

MicroRNAs participate in gene expression regulation and phytohormone cross-talk in barley embryo during seed development and germination.

Publications

microRNAs participate in gene expression regulation and phytohormone cross-talk in barley embryo during seed development and germination.

Similar Datasets

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