Escherichia coli noncoding RNAs can affect gene expression and physiology of Caenorhabditis elegans

Liu, Huijie; Wang, Xueren; Wang, Horng-Dar; Wu, Jinjing; Ren, Jun; Meng, Lingfeng; Wu, Qingfa; Dong, Hui; Wu, Jing; Kao, Tzu-Yu; Ge, Qian; Wu, Zheng-Xing; Yuh, Chiou-Hwa; Ge, Shengfang

doi:10.1038/ncomms2071

Cited by 133 publications

(115 citation statements)

References 32 publications

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“…At the same time, there is evidence that eRNAi might function in processes other than antiviral defense in C. elegans. It has been demonstrated that Escherichia coli noncoding RNAs OxyS and DsrA can regulate gene expression and physiological condition of C. elegans, and this points to the potential for a broader ecological role eRNAi may have (Liu et al 2012). In addition to viral sources, plant tissues possess several mechanisms to produce long dsRNA and represent a rich source of natural dsRNAs and as such, could provide regulatory input to responsive species that consume them.…”

Section: Introductionmentioning

confidence: 99%

Environmental RNAi in herbivorous insects

Ivashuta

Zhang

Wiggins

et al. 2015

RNA

110

132

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Environmental RNAi (eRNAi) is a sequence-specific regulation of endogenous gene expression in a receptive organism by exogenous double-stranded RNA (dsRNA). Although demonstrated under artificial dietary conditions and via transgenic plant presentations in several herbivorous insects, the magnitude and consequence of exogenous dsRNA uptake and the role of eRNAi remains unknown under natural insect living conditions. Our analysis of coleopteran insects sensitive to eRNAi fed on wild-type plants revealed uptake of plant endogenous long dsRNAs, but not small RNAs. Subsequently, the dsRNAs were processed into 21 nt siRNAs by insects and accumulated in high quantities in insect cells. No accumulation of host plantderived siRNAs was observed in lepidopteran larvae that are recalcitrant to eRNAi. Stability of ingested dsRNA in coleopteran larval gut followed by uptake and transport from the gut to distal tissues appeared to be enabling factors for eRNAi. Although a relatively large number of distinct coleopteran insect-processed plant-derived siRNAs had sequence complementarity to insect transcripts, the vast majority of the siRNAs were present in relatively low abundance, and RNA-seq analysis did not detect a significant effect of plant-derived siRNAs on insect transcriptome. In summary, we observed a broad genome-wide uptake of plant endogenous dsRNA and subsequent processing of ingested dsRNA into 21 nt siRNAs in eRNAi-sensitive insects under natural feeding conditions. In addition to dsRNA stability in gut lumen and uptake, dosage of siRNAs targeting a given insect transcript is likely an important factor in order to achieve measurable eRNAi-based regulation in eRNAi-competent insects that lack an apparent silencing amplification mechanism.

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Section: Introductionmentioning

confidence: 99%

Environmental RNAi in herbivorous insects

Ivashuta

Zhang

Wiggins

et al. 2015

RNA

110

132

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“…The first group to examine this found uptake, and an impact on gene expression, of 2 Escherichia coli endogenous noncoding RNAs in ingesting C. elegans. 35 However, some evidence contradicting this finding has been reported. 36 In a different study, Zhang et al found no evidence of miRNAs in a number of invertebrates including pea aphid and silkworm and no uptake of miRNAs in feeding experiments with the corn rootworm.…”

Section: Introductionmentioning

confidence: 47%

Uptake and impact of natural diet-derived small RNA in invertebrates: Implications for ecology and agriculture

Chan

Snow

2016

RNA Biology

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The putative transfer and gene regulatory activities of diet-derived small RNAs (sRNAs) in ingesting animals are still debated. The existence of natural uptake of diet-derived sRNA by invertebrate species could have significant implication for our understanding of ecological relationships and could synergize with efforts to use RNA interference (RNAi) technology in agriculture. Here, we synthesize information gathered from studies in invertebrates using natural or artificial dietary delivery of sRNA and from studies of sRNA in vertebrate animals and plants to review our current understanding of uptake and impact of natural dietderived sRNA on invertebrates. Our understanding has been influenced and sometimes confounded by the diversity of invertebrates and ingested plants studied, our limited insights into how gene expression may be modulated by dietary sRNAs at the mechanistic level, and the paucity of studies focusing directly on natural uptake of sRNA. As such, we suggest 2 strategies to investigate this phenomenon more comprehensively and thus facilitate the realization of its potentially broad impact on ecology and agriculture in the future.

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“…Time‐resolved imaging was carried out by employing Caenorhabditis elegans , which is an important model system for biological research in many fields, including genomics, cell biology, and neuroscience 24. First, the autofluorescence of a wild‐type N2 worm was investigated in the absence of TPEEu ( Figures 4 A–C).…”

Section: Resultsmentioning

confidence: 99%

Enabling the Triplet of Tetraphenylethene to Sensitize the Excited State of Europium(III) for Protein Detection and Time‐Resolved Luminescence Imaging

et al. 2016

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A tetraphenylethene (TPE) group that exhibits aggregation‐induced emission is incorporated into the ligand of a Eu(III) complex (TPEEu) to sensitize the excited state of Eu(III). In steady‐state measurements, TPEEu exhibits weak luminescence when dissolved in aqueous solutions even at a high concentration level, but emits strong fluorescence of TPE and phosphorescence of Eu(III) upon binding with bovine serum albumin. With a delay time of 0.05 ms and a gate time of 1.0 ms in time‐resolved measurements, only phosphorescent emission of Eu(III) is observed with a high on/off ratio. Moreover, this probe is successfully used in time‐resolved luminescence imaging to eliminate the background signal from biological autofluorescence without a washing process. This work provides a general strategy in designing Ln(III) complexes for detecting a broad range of biological molecules.

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Escherichia coli noncoding RNAs can affect gene expression and physiology of Caenorhabditis elegans

Cited by 133 publications

References 32 publications

Environmental RNAi in herbivorous insects

Environmental RNAi in herbivorous insects

Uptake and impact of natural diet-derived small RNA in invertebrates: Implications for ecology and agriculture

Enabling the Triplet of Tetraphenylethene to Sensitize the Excited State of Europium(III) for Protein Detection and Time‐Resolved Luminescence Imaging

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