Isolation and expression analysis of four HD-ZIP III family genes targeted by microRNA166 in peach

Zhang, C H; Zhang, B B; J, R; Yu, Mingliang; Guo, Shaoyu; Guo, Lei

doi:10.4238/2015.october.29.37

Cited by 10 publications

(4 citation statements)

References 38 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In Arabidopsis thaliana, the HD-ZIP III family includes five genes, ATHB8, ATHB15, phavoluta (PHV), phabulosa (PHB), and revoluta (REV), which determine and direct the differentiation and maintenance of stem apex meristem cells, the apical meristem, vascular bundle development, and organ polarity [8,9]. An analysis of the expression of the HD-ZIP III genes PpHB14, PpHB15, PpHB8, and PpREV in peach (Prunus persica) tissue revealed that they are regulated by miR166 during fruit development [10]. As plant-specific transcription factors (TFs), the HD-ZIP III TFs regulate plant development and auxin-related gene expression [11,12].…”

Section: Introductionmentioning

confidence: 99%

Examination of the Transcriptional Response to LaMIR166a Overexpression in Larix kaempferi (Lamb.) Carr

Fan

et al. 2021

Biology

View full text Add to dashboard Cite

The study of somatic embryogenesis can provide insight into early plant development. We previously obtained LaMIR166a-overexpressing embryonic cell lines of Larix kaempferi (Lamb.) Carr. To further elucidate the molecular mechanisms associated with miR166 in this species, the transcriptional profiles of wild-type (WT) and three LaMIR166a-overexpressing transgenic cell lines were subjected to RNA sequencing using the Illumina NovaSeq 6000 system. In total, 203,256 unigenes were generated using Trinity de novo assembly, and 2467 differentially expressed genes were obtained by comparing transgenic and WT lines. In addition, we analyzed the cleaved degree of LaMIR166a target genes LaHDZ31–34 in different transgenic cell lines by detecting the expression pattern of LaHdZ31–34, and their cleaved degree in transgenic cell lines was higher than that in WT. The downstream genes of LaHDZ31–34 were identified using Pearson correlation coefficients. Yeast one-hybrid and dual-luciferase report assays revealed that the transcription factors LaHDZ31–34 could bind to the promoters of LaPAP, LaPP1, LaZFP5, and LaPHO1. This is the first report of gene expression changes caused by LaMIR166a overexpression in Japanese larch. These findings lay a foundation for future studies on the regulatory mechanism of miR166.

show abstract

Section: Introductionmentioning

confidence: 99%

Examination of the Transcriptional Response to LaMIR166a Overexpression in Larix kaempferi (Lamb.) Carr

Fan

et al. 2021

Biology

View full text Add to dashboard Cite

show abstract

“…For example, there are 21 miR166s in soybean, 17 in Populus trichocarpa , 9 in Arabidopsis thaliana , 13 in maize, rice, and Physcomitrella patens according to miRBase database (Release 21, June 2014). The miR166s in multigene family were found to be highly conserved to target HD-ZIP III family genes such as REVOLUTA ( REV ), PHABULOSA ( PHB ), PHAVOLUTA ( PHV ), CORONA ( CNA ) and ATHB8 in a broad range of plant species, indicating that they might exhibit high degree of functional redundancy [ 20 – 23 ]. Nevertheless, emerging evidences indicate that functional specialization exists in miR166 family.…”

Section: Introductionmentioning

confidence: 99%

Conservation and diversification of the miR166 family in soybean and potential roles of newly identified miR166s

Xu-yan

Xie

et al. 2017

BMC Plant Biol

View full text Add to dashboard Cite

BackgroundmicroRNA166 (miR166) is a highly conserved family of miRNAs implicated in a wide range of cellular and physiological processes in plants. miR166 family generally comprises multiple miR166 members in plants, which might exhibit functional redundancy and specificity. The soybean miR166 family consists of 21 members according to the miRBase database. However, the evolutionary conservation and functional diversification of miR166 family members in soybean remain poorly understood.ResultsWe identified five novel miR166s in soybean by data mining approach, thus enlarging the size of miR166 family from 21 to 26 members. Phylogenetic analyses of the 26 miR166s and their precursors indicated that soybean miR166 family exhibited both evolutionary conservation and diversification, and ten pairs of miR166 precursors with high sequence identity were individually grouped into a discrete clade in the phylogenetic tree. The analysis of genomic organization and evolution of MIR166 gene family revealed that eight segmental duplications and four tandem duplications might occur during evolution of the miR166 family in soybean. The cis-elements in promoters of MIR166 family genes and their putative targets pointed to their possible contributions to the functional conservation and diversification. The targets of soybean miR166s were predicted, and the cleavage of ATHB14-LIKE transcript was experimentally validated by RACE PCR. Further, the expression patterns of the five newly identified MIR166s and 12 target genes were examined during seed development and in response to abiotic stresses, which provided important clues for dissecting their functions and isoform specificity.ConclusionThis study enlarged the size of soybean miR166 family from 21 to 26 members, and the 26 soybean miR166s exhibited evolutionary conservation and diversification. These findings have laid a foundation for elucidating functional conservation and diversification of miR166 family members, especially during seed development or under abiotic stresses.Electronic supplementary materialThe online version of this article (doi:10.1186/s12870-017-0983-9) contains supplementary material, which is available to authorized users.

show abstract

“…reported that miR165/166 showed the powerful functions in modulating auxin signaling and stress responses in Arabidopsis 16 , and displayed severe defects in the vegetative and reproductive stage. Members of the HD-Zip ( homeodomain-leucine zipper ) and Hox9 were the target genes of miR166, and the HD-Zip has been shown to regulate leaf shape development in Arabidopsis 35 , while Hox9 was found to play a role in wheat grain development 7 . Here, transgenic STTM165/166 plants showed significantly reduced seed number and sterile siliques in Arabidopsis, suggesting that miR166 plays vital roles in grain development and might be a useful evidence to improve inferior grain size in wheat.…”

Section: Discussionmentioning

confidence: 99%

“…VPE1 was found to be required for efficient glutelin processing in rice 37 , while ARF played a vital role in the IAA pathway in plant development 38 . As a member of the HD-ZIP family, the PHB gene was shown to mainly regulate leaf shape development and responses to abiotic stresses in Arabidopsis 16 , 35 . LEA gene, which is regulated by miR164 and miR1892, plays a key role in embryogenesis development and resistance to stress 39 .…”

Section: Discussionmentioning

confidence: 99%

High-throughput sequencing revealed that microRNAs were involved in the development of superior and inferior grains in bread wheat

Wang¹,

Shi²,

Yang³

et al. 2018

Sci Rep

View full text Add to dashboard Cite

High-throughput sequencing was employed to investigate the expression of miRNAs and their target genes in superior and inferior seeds of Aikang 58. Small RNA sequencing revealed 620 conserved and 64 novel miRNAs in superior grains, and 623 conserved and 66 novel miRNAs in inferior grains. Among these, 97 known miRNAs, and eight novel miRNAs showed differential expression between the superior and inferior seeds. Degradome sequencing revealed at least 140 candidate target genes associated with 35 miRNA families during the development of superior and inferior seeds. GO and KEGG pathway analysis showed that the differentially expressed miRNAs, both conserved and novel, were likely involved in hormone production, carbohydrate metabolic pathways, and cell division. We validated eight known and four novel grain development-related miRNAs and their target genes by quantitative real-time polymerase chain reaction to ensure the reliability of small RNA and degradome-seq results. Of these, miR160 and miR165/166 were knocked down in Arabidopsis using short-tandem target mimic (STTM160 and STTM165/166) technology, which confirmed their roles in seed development. Specifically, STTM160 showed significantly smaller grain size, lower grain weight, shorter siliques length, shorter plant height, and more serrated leaves, whereas STTM165/166 showed decreased seed number, disabled siliques, and curled upward leaves.

show abstract

Isolation and expression analysis of four HD-ZIP III family genes targeted by microRNA166 in peach

Cited by 10 publications

References 38 publications

Examination of the Transcriptional Response to LaMIR166a Overexpression in Larix kaempferi (Lamb.) Carr

Examination of the Transcriptional Response to LaMIR166a Overexpression in Larix kaempferi (Lamb.) Carr

Conservation and diversification of the miR166 family in soybean and potential roles of newly identified miR166s

High-throughput sequencing revealed that microRNAs were involved in the development of superior and inferior grains in bread wheat

Contact Info

Product

Resources

About