A<i>micro<scp>RNA</scp></i>allele that emerged prior to apple domestication may underlie fruit size evolution

Yao, Jia‐Long; Xu, Juan; Cornille, Amandine; Tomes, Sumathi; Karunairetnam, Sakuntala; Luo, Zhiwei; Bassett, H.; Whitworth, Claire; Rees‐George, J.; Ranatunga, C.; Snirc, Alodie; Crowhurst, Ross N.; Silva, Nihal De; Warren, Ben; Deng, Cecilia; Kumar, Satish; Chagné, David; Bus, Vincent G. M.; Volz, Richard K.; Rikkerink, Erik H. A.; Gardiner, Susan E.; Giraud, Tatiana; MacDiarmid, Robin M.; Gleave, Andrew P.

doi:10.1111/tpj.13021

Cited by 93 publications

(108 citation statements)

References 56 publications

(90 reference statements)

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“…Studies comparing cultivated rice with wild rice ( Oryza rufipogon ) found positively selected miRNAs and target genes in cultivated rice, suggesting that miRNAs were involved in or even drove rice domestication [39,40]. Another study suggested that a loss-of-function mutation in MIR172p improved fruit size during apple domestication [41]. …”

Section: Functional Divergence Of Mirnasmentioning

confidence: 99%

The evolution of microRNAs in plants

Cui

You

Chen

2017

Current Opinion in Plant Biology

132

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MicroRNAs (miRNAs) are a central player in post-transcriptional regulation of gene expression and are involved in numerous biological processes in eukaryotes. Knowledge of the origins and divergence of miRNAs paves the way for a better understanding of the complexity of the regulatory networks that they participate in. The biogenesis, degradation, and regulatory activities of miRNAs are relatively better understood, but the evolutionary history of miRNAs still needs more exploration. Inverted duplication of target genes, random hairpin sequences and small transposable elements constitute three main models that explain the origination of miRNA genes (MIR). Both inter- and intra-species divergence of miRNAs exhibits functional adaptation and adaptation to changing environments in evolution. Here we summarize recent progress in studies on the evolution of MIR and related genes.

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Section: Functional Divergence Of Mirnasmentioning

confidence: 99%

The evolution of microRNAs in plants

Cui

You

Chen

2017

Current Opinion in Plant Biology

132

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“…Plant species have multiple MIR172 genes that can produce conserved mature miR172 sequences in different tissues and at different developmental stages. [1][2][3] The mature miR172 sequences target mRNA of a subfamily of APETALA2 (AP2) genes by sequence complementation and repress expression by inhibiting translation or initiating degradation of the target mRNA. [4][5][6][7] As members of the AP2 subfamily have different temporal and spatial expression patterns 3,8,9 and interact with different proteins, 10 the MIR172 gene family potentionally can affect many aspects of plant development.…”

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confidence: 99%

How microRNA172 affects fruit growth in different species is dependent on fruit type

Yao

Tomes

et al. 2016

Plant Signaling & Behavior

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microRNA172 (miR172) expression has been shown to have a positive effect on Arabidopsis fruit (siliques) growth. In contrast, over-expression of miR172 has a negative influence on fruit growth in apple, resulting in a dramatic reduction in fruit size. This negative influence is supported by the results of analyzing a transposable element (TE) insertional allele of a MIR172 gene that has reduced expression of the miRNA and is associated with an increase in fruit size. Arabidopsis siliques are a dry fruit derived from ovary tissues, whereas apple is a fleshy pome fruit derived mostly from hypanthium tissues. A model has been developed to explain the contrasting impact of miR172 expression in these two plant species based on the differences in their fruit structure. Transgenic apple plants with extremely high levels of miR172 overexpression produced flowers consisting of carpel tissues only, which failed to produce fruit. By comparison, in tomato, a fleshy berry fruit derived from the ovary, high level over-expression of the same miR172 resulted in carpel-only flowers which developed into parthenocarpic fruit. These results further indicate that the influence of miR172 on fruit growth in different plant species depends on its fruit type.

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“…Because of this central role in the regulation of development, it was proposed that miRNAs might be good targets for the development of tools to improve crop productivity (Yao et al, 2015;Tang and Chu, 2017;Xu et al, 2018). In plants, miRNA-encoding genes are transcribed as primary transcripts harboring a fold back structure that is processed by DICER-LIKE 1 (DCL1).…”

Section: Introductionmentioning

confidence: 99%

Dynamic architecture and regulatory implications of the miRNA network underlying the response to stress in melon

Sanz-Carbonell

Marques

Martínez

et al. 2019

Preprint

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miRNAs are small RNAs that regulate mRNAs at both transcriptional and posttranscriptional level. In plants, miRNAs are involved in the regulation of different processes including development and stress-response. Elucidating how stressresponsive miRNAs are regulated is key to understand the global response to stress but also to develop efficient biotechnological tools that could help to cope with stress. Here, we describe a computational approach based on sRNA sequencing, transcript quantification and degradome data to analyze the accumulation, function and structural organization of melon miRNAs reactivated under seven biotic and abiotic stress conditions at two and four days post-treatment. Our pipeline allowed us to identify fourteen stress-responsive miRNAs (including evolutionary conserved such as miR156, miR166, miR172, miR319, miR398, miR399, miR894 and miR408) at both analyzed times. According to our analysis miRNAs were categorized in three groups showing a broad-, intermediate-or narrow-response range. miRNAs reactive to a broad range of environmental cues appear as central components in the stress-response network. The strictly coordinated response of miR398 and miR408 (broad response-range) to the seven stress treatments during the period analyzed here reinforces this notion. Although both, the amplitude and diversity of the miRNA-related response to stress changes during the exposition time, the architecture of the miRNA-network is conserved. This organization of miRNA response to stress is also conserved in rice and soybean supporting the conservation of miRNA-network organization in other crops. Overall, our work sheds light into how miRNA networks in plants organize and function during stress.3

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AmicroRNAallele that emerged prior to apple domestication may underlie fruit size evolution

Cited by 93 publications

References 56 publications

The evolution of microRNAs in plants

The evolution of microRNAs in plants

How microRNA172 affects fruit growth in different species is dependent on fruit type

Dynamic architecture and regulatory implications of the miRNA network underlying the response to stress in melon

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