MiR393 and miR390 synergistically regulate lateral root growth in rice under different conditions

Lu, Yunqing; Feng, Zhen; Liu, Xuanyu; Bian, Liying; Xie, Hui; Zhang, Changlun; Mysore, Kirankumar S.; Liang, Jiansheng

doi:10.1186/s12870-018-1488-x

Cited by 52 publications

(37 citation statements)

References 51 publications

(83 reference statements)

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“…Similarly, miR156, miR6030, miR400, miR393, miR172 and miR171 were predicted to target eight genes (Supplementary Table 5). These miRNAs were reported previously in several studies to regulate gene expression in plants during biotic and abiotic stress [57][58][59][60].…”

Section: Sclerotinia Sclerotiorum Infectionsupporting

confidence: 59%

Combined degradome and replicated small RNA sequencing identifiesBrassica napussmall RNAs responsive to infection by a necrotrophic pathogen

Regmi

Newman

Kamphuis

et al. 2020

Preprint

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BackgroundSmall RNAs are short non-coding RNAs that are key gene regulators controlling various biological processes in eukaryotes. Plants may regulate discrete sets of sRNAs in response to pathogen attack. Sclerotinia sclerotiorum is an economically important pathogen affecting hundreds of plant species, including the economically important oilseed Brassica napus. However, there are limited studies on how regulation of sRNAs occurs in the S. sclerotiorum and B. napus pathosystem.ResultsWe identified different classes of sRNAs from B. napus by high throughput sequencing of replicated mock and infected samples at 24 hours post-inoculation (HPI). Overall, 3,999 sRNA loci were highly expressed, of which 730 were significantly upregulated during infection. Degradome sequencing identified numerous likely sRNA targets that were enriched for immunity-related GO terms, including those related to jasmonic acid signalling, during infection. A total of 73 conserved miRNA families were identified in our dataset. Degradome sequencing identified 434 unique cleaved mRNA products from these miRNAs, of which 50 were unique to the infected library. A novel miR1885-triggered disease resistance gene-derived secondary sRNA locus was identified and verified with degradome sequencing. We also experimentally validated silencing of a plant immunity related ethylene response factor gene by a novel sRNA using 5’-RACE.ConclusionsThe findings in this study expand the framework for understanding the molecular mechanisms of the S. sclerotiorum and B. napus pathosystem at the sRNA level.

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Section: Sclerotinia Sclerotiorum Infectionsupporting

confidence: 59%

Combined degradome and replicated small RNA sequencing identifiesBrassica napussmall RNAs responsive to infection by a necrotrophic pathogen

Regmi

Newman

Kamphuis

et al. 2020

Preprint

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“…The voucher specimen of this material has not been deposited in a publicly available herbarium yet. The conditions for normal growth of the control plants and transgenic plants were performed as described by Lu et al [28].…”

Section: Plant Materials and Growth Conditionsmentioning

confidence: 99%

“…Salt stress, UV light stress, pathogen (Magnaporthe grisea) stress, drought stress, and abscisic acid (ABA) treatment, were performed as described previously [28]. For gibberellin (GA) treatment, the whole 2-week-old seedlings were incubated into N6 liquid solution containing 50 μM GA 3 and 0.02% Tween 20.…”

Section: Stress and Hormone Treatmentsmentioning

confidence: 99%

“…For quantitative RT-PCR analysis of OsGRF1 (Gene ID: Os02g0776900), OsGIF1 (Gene ID: Os03g52320), cycOs1 (Gene ID: Os04g0563700) and cycOs2 (Gene ID: Os06g0726800), 2 μg of total RNA was reversely transcribed in a total volume of 20 μL with 0.5 mg oligo (dT)15, 0.75 mM dNTPs, 10 mM DTT, and 100 U SuperScript II RNase H2 reverse transcriptase (Invitrogen). The reaction volume for PCR was 20 μL with 1 μL of the RT reactions [28]. The primers for quantitative RT-PCR are listed as the following: OsGRF1, FW: 5′-TGATCTTTCAAAAGAGGACGACG-3′, RV: 5′-TGGTGGTGATCGGGAGGTCGTT-3′; OsGIF1, FW: 5′-GCAGCAGCAGCAGGCGGCGGC-3′, RV: 5′-TGCCCTTGAGGTACTCCCCGT-3′; cycOs1: FW: 5′-GTGTTCTAGGATGATGGTAGA-3′, RV: 5′-GTTGTAACCTCCTGCTCCTGACT-3′, cycOs2: FW: 5′-CATGAGAAGGTTCCTCAAGGCT-3′, RV: 5′-TGGTGCACTGAGCAGTGTAGA-3′; 30 cycles for PCR was performed and the expression levels of the samples were normalized by OsUbiquitin gene (Forward: 5′-AACCAGCTGAGGCCCAAGA-3′, Reverse: 5′-AAC-CAGTCCATGAACCCGG-3′).…”

Section: Quantitative Rt-pcrmentioning

confidence: 99%

“…OsGIF1, FW: 5′-GCAGCAGCAGCAGGCGGCGGC-3′; RV: 5′-TGCCCTTGAGGTACTCCCCGT-3′). The process was performed as described previously [28].…”

Section: Northern-blot Analysismentioning

confidence: 99%

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Coordination between GROWTH-REGULATING FACTOR1 and GRF-INTERACTING FACTOR1 plays a key role in regulating leaf growth in rice

Meng

Zeng

et al. 2020

BMC Plant Biol

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Background: The interactions between Growth-regulating factors (GRFs) and GRF-Interacting Factors (GIFs) have been well demonstrated but it remains unclear whether different combinations of GRF and GIF play distinctive roles in the pathway downstream of the complex. Results: Here we showed that OsGRF1 and OsGIF1 synergistically regulate leaf growth in rice. The expression of OsGIF1 emerged in all tissues with much higher level while that of OsGRF1 appeared preferentially only in the stem tips containing shoot apical meristem (SAM) and younger leaves containing leaf primordium. Overexpression of an OsmiR396-resistant version of mOsGRF1 resulted in expanded leaves due to increased cell proliferation while knockdown of OsGRF1 displayed an opposite phenotype. Overexpression of OsGIF1 did not exhibit new phenotype while knockdown lines displayed pleiotropic growth defects including shrunken leaves. The crossed lines of mOsGRF1 overexpression and OsGIF1 knockdown still exhibited shrunk leaves, indicating that OsGIF1 is indispensable in leaf growth regulated by OsGRF1. The expression of OsGRF1 could be upregulated by gibberellins (GAs) and downregulated by various stresses while that of OsGIF1 could not. Conclusion: Our results suggest that OsGIF1 is in an excessive expression in various tissues and play roles in various aspects of growth while OsGRF1 may specifically involve in leaf growth through titrating OsGIF1. Both internal and external conditions impacting leaf growth are likely via way of regulating the expression of OsGRF1.

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microRNA390 modulates Nicotiana attenuata's tolerance response to Manduca sexta herbivory

et al. 2021

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miR390 is a highly conserved miRNA in plant lineages known to function in growth and development processes, such as lateral root development, and in responses to salt and metal stress. In the ecological model species, Nicotiana attenuata , miR390's biological function remains unknown, which we explore here with a gain‐of‐function analysis with plants over‐expressing (OE‐) N. attenuata miR390 (Na‐miR390) in glasshouse and natural environments. OEmiR390 plants showed normal developmental processes, including lateral root formation or reproductive output, in plants grown under standard conditions in the glasshouse. OEmiR390 plants did not have dramatically altered interactions with arbuscular mycorrhizal fungi (AMF), Fusarium pathogens, or herbivores. However, Na‐miR390 regulated the plant's tolerance of herbivory. Caterpillar feeding elicits the accumulation of a suite of phytohormones, including auxin and jasmonates, which further regulate host‐tolerance. The increase in Na‐miR390 abundance reduces the accumulation of auxin but does not influence levels of other phytohormones including jasmonates (JA, JA‐Ile), salicylic acid (SA), and abscisic acid (ABA). Na‐miR390 overexpression reduces reproductive output, quantified as capsule production, when plants are attacked by herbivores. Exogenous auxin treatments of herbivore‐attacked plants restored capsule production to wild‐type levels. During herbivory, Na‐miR390 transcript abundances are increased; its overexpression reduces the abundances of auxin biosynthesizing YUCCA and ARF (mainly ARF4 ) transcripts during herbivory. Furthermore, the accumulation of auxin‐regulated phenolamide secondary metabolites (caffeoylputrescine, dicaffeoylspermidine) is also reduced. In N. attenuata , miR390 functions in modulating tolerance responses of herbivore‐attacked plants.

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MiR393 and miR390 synergistically regulate lateral root growth in rice under different conditions

Cited by 52 publications

References 51 publications

Combined degradome and replicated small RNA sequencing identifiesBrassica napussmall RNAs responsive to infection by a necrotrophic pathogen

Combined degradome and replicated small RNA sequencing identifiesBrassica napussmall RNAs responsive to infection by a necrotrophic pathogen

Coordination between GROWTH-REGULATING FACTOR1 and GRF-INTERACTING FACTOR1 plays a key role in regulating leaf growth in rice

microRNA390 modulates Nicotiana attenuata's tolerance response to Manduca sexta herbivory

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