How Our Other Genome Controls Our Epi-Genome

Celluzzi, Antonella; Masotti, Andrea

doi:10.1016/j.tim.2016.05.005

Cited by 66 publications

(53 citation statements)

References 61 publications

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“…For instance, STnc440 , STnc470 , STnc3750 , and IsrH are highly expressed in the Salmonella Containing Vacuole (Srikumar et al, 2015) but not specifically enriched in/on OMVs from SPI-2ind. A proportion of small RNAs originating from E. coli OMVs has been successfully aligned with the human genome in a way resembling eukaryotes’ long non-coding RNAs, which could also be the case in Salmonella with potential implications in host–pathogen communication (Celluzzi and Masotti, 2016). The interplay between the levels of regulatory sRNAs and their mRNA targets, together with their concomitant association to OMVs, would be an interesting point to look at in future work in order to be able to understand why given sRNAs are released via OMVs.…”

Section: Discussionmentioning

confidence: 99%

The RNA Complement of Outer Membrane Vesicles From Salmonella enterica Serovar Typhimurium Under Distinct Culture Conditions

et al. 2018

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Bacterial outer membrane vesicles (OMVs), as well as OMV-associated small RNAs, have been demonstrated to play a role in host–pathogen interactions. The presence of larger RNA transcripts in OMVs has been less studied and their potential role in host–pathogen interactions remains largely unknown. Here we analyze RNA from OMVs secreted by Salmonella enterica serovar Typhimurium (S. Typhimurium) cultured under different conditions, which mimic host–pathogen interactions. S. Typhimurium was grown to exponential and stationary growth phases in minimal growth control medium (phosphate-carbon-nitrogen, PCN), as well as in acidic and phosphate-depleted PCN, comparable to the macrophage environment and inducing therefore the expression of Salmonella pathogenicity island 2 (SPI-2) genes. Moreover, Salmonella pathogenicity island 1 (SPI-1), which is required for virulence during the intestinal phase of infection, was induced by culturing S. Typhimurium to the stationary phase in Lysogeny Broth (LB). For each condition, we identified OMV-associated RNAs that are enriched in the extracellular environment relative to the intracellular space. All RNA classes could be observed, but a vast majority of rRNA was exported in all conditions in variable proportions with a notable decrease in LB SPI-1 inducing media. Several mRNAs and ncRNAs were specifically enriched in/on OMVs dependent on the growth conditions. Important to note is that some RNAs showed identical read coverage profiles intracellularly and extracellularly, whereas distinct coverage patterns were observed for other transcripts, suggesting a specific processing or degradation. Moreover, PCR experiments confirmed that distinct RNAs were present in or on OMVs as full-length transcripts (IsrB-1/2; IsrA; ffs; SsrS; CsrC; pSLT035; 10Sa; rnpB; STM0277; sseB; STM0972; STM2606), whereas others seemed to be rather present in a processed or degraded form. Finally, we show by a digestion protection assay that OMVs are able to prevent enzymatic degradation of given full-length transcripts (SsrS, CsrC, 10Sa, and rnpB). In summary, we show that OMV-associated RNA is clearly different in distinct culture conditions and that at least a fraction of the extracellular RNA is associated as a full-length transcripts with OMVs, indicating that some RNAs are protected by OMVs and thereby leaving open the possibility that those might be functionally active.

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Section: Discussionmentioning

confidence: 99%

The RNA Complement of Outer Membrane Vesicles From Salmonella enterica Serovar Typhimurium Under Distinct Culture Conditions

et al. 2018

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“…Both genetic and epigenetic processes contribute to high phenotypic plasticity and rapid evolution in bacteria 90 . In addition, bacterial pathogens and mutualists are known to induce alterations in host epigenomes, leading to potentially long-lasting imprinting effects that provide a form of plasticity to their hosts 91 . Importantly, although all these examples illustrate how bacteria could, in principle, contribute to plastic responses of the holobiont and generally improve its function, direct experimental evidence of this is lacking, highlighting this area as a research priority 17 .…”

Section: Potential Involvement Of Microbes In Coral Acclimatizationmentioning

confidence: 99%

Rapid adaptive responses to climate change in corals

et al. 2017

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“…In turn, microbiota influences nutrient uptake and epithelial resilience and drives the conversion of food components and fibers into metabolites that epigenetically regulate host gene expression. Of note, a cross-talk between human and gut microbiota through fecal miR has been recently highlighted (Celluzzi and Masotti, 2016). Overall we can envisage that each individual is placed in a complex inter-kingdom communication network that contributes to maintain homeostasis.…”

Section: Resultsmentioning

confidence: 99%

Linking Diet to Colorectal Cancer: The Emerging Role of MicroRNA in the Communication between Plant and Animal Kingdoms

et al. 2017

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Environmental and lifestyle factors, including diet and nutritional habits have been strongly linked to colorectal cancer (CRC). Of note, unhealthy dietary habits leading to adiposity represent a main risk factor for CRC and are associated with a chronic low-grade inflammatory status. Inflammation is a hallmark of almost every type of cancer and can be modulated by several food compounds exhibiting either protective or promoting effects. However, in spite of an extensive research, the underlying mechanisms by which dietary patterns or bioactive food components may influence tumor onset and outcome have not been fully clarified yet. Growing evidence indicates that diet, combining beneficial substances and potentially harmful ingredients, has an impact on the expression of key regulators of gene expression such as the non-coding RNA (ncRNA). Since the expression of these molecules is deranged in chronic inflammation and cancer, modulating their expression may strongly influence the cancer phenotype and outcomes. In addition, the recently acquired knowledge on the existence of intricate inter-kingdom communication networks, is opening new avenues for a deeper understanding of the intimate relationships linking diet to CRC. In this novel scenario, diet-modulated ncRNA may represent key actors in the interaction between plant and animal kingdoms, capable of influencing disease onset and outcome. In this review, we will summarize the studies demonstrating a link between bioactive food components, including food-derived, microbiota-processed, secondary metabolites, and host ncRNA. We will focus on microRNA, highlighting how this plant/animal inter-kingdom cross-talk may have an impact on CRC establishment and progression.

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How Our Other Genome Controls Our Epi-Genome

Cited by 66 publications

References 61 publications

The RNA Complement of Outer Membrane Vesicles From Salmonella enterica Serovar Typhimurium Under Distinct Culture Conditions

The RNA Complement of Outer Membrane Vesicles From Salmonella enterica Serovar Typhimurium Under Distinct Culture Conditions

Rapid adaptive responses to climate change in corals

Linking Diet to Colorectal Cancer: The Emerging Role of MicroRNA in the Communication between Plant and Animal Kingdoms

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