Maize Cytolines Unmask Key Nuclear Genes That Are under the Control of Retrograde Signaling Pathways in Plants

Miclaus, Mihai; Bălăcescu, Ovidiu; Haş, Ioan; Bălăcescu, Loredana; Haş, V.; Şuteu, Dana; Neuenschwander, Samuel; Keller, Irene; Bruggmann, Rémy

doi:10.1093/gbe/evw245

Cited by 15 publications

(21 citation statements)

References 70 publications

(47 reference statements)

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“…Reciprocal-cross designs, where nucleotypes segregate in different plasmotypic backgrounds, have been used to identify plasmotypespecific quantitative trait loci Tang et al, 2014), but are limited to just two plasmotypes. A larger number of plasmotypes can be studied using backcross designs where plasmotypes are introgressed into different nuclear backgrounds (Dowling et al, 2007;Sambatti et al, 2008;Miclaus et al, 2016;Roux et al, 2016), but backcross approaches are lengthy and any undetected nuclear introgressions may confound the results.…”

Section: Introductory Paragraphmentioning

confidence: 99%

Reciprocal cybrids reveal how organellar genomes affect plant phenotypes

et al. 2020

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Section: Introductory Paragraphmentioning

confidence: 99%

Reciprocal cybrids reveal how organellar genomes affect plant phenotypes

et al. 2020

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“…Reciprocal-cross designs, where nucleotypes segregate in different plasmotypic backgrounds, have been used to identify plasmotype-specific quantitative trait loci (Joseph et al, 2013; Tang et al, 2014), but are limited to just two plasmotypes. A larger number of plasmotypes can be studied using backcross designs where plasmotypes are introgressed into different nuclear backgrounds (Dowling et al, 2007; Sambatti et al, 2008; Miclaus et al, 2016; Roux et al, 2016), but backcross approaches are lengthy and any undetected nuclear introgressions may confound the results.…”

Section: Introductory Paragraphmentioning

confidence: 99%

Reciprocal cybrids reveal how organellar genomes affect plant phenotypes

Flood

Theeuwen

Schneeberger

et al. 2018

Preprint

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27 28 29 30 2Introductory paragraph: 31 Assessing the impact of variation in chloroplast and mitochondrial DNA (collectively termed the 32 plasmotype) on plant phenotypes is challenging due to the difficulty in separating their effect from 33 nuclear derived variation (the nucleotype). Haploid inducer lines can be used as efficient plasmotype 34 donors to generate new plasmotype-nucleotype combinations (cybrids) (Ravi et al., 2014). We generated 35 a panel comprising all possible cybrids of seven Arabidopsis thaliana accessions and extensively 36 phenotyped these lines for 1859 phenotypes under stable and fluctuating conditions. We show that 37 natural variation in the plasmotype results in additive as well as epistatic effects across all phenotypic 38 categories. Plasmotypes which induce more additive phenotypic changes also cause more significant 39 epistatic effects, suggesting a possible common basis for both additive and epistatic effects. On average 40 epistatic interactions explained twice as much of the variance in phenotypes as additive plasmotype 41 effects. The impact of plasmotypic variation was also more pronounced under fluctuating and stressful 42 environmental conditions. Thus, the phenotypic impact of variation in plasmotypes is the outcome of 43 multilevel Nucleotype X Plasmotype X Environment interactions and, as such, the plasmotype is likely 44 to serve as a reservoir of variation which is only exposed under certain conditions. The production of 45 cybrids using haploid inducers is a quick and precise method for assessing the phenotypic effects of 46 natural variation in organellar genomes. It will facilitate efficient screening of unique nucleotype-47 plasmotype combinations to both improve our understanding of natural variation in nucleotype 48 plasmotype interactions and identify favourable combinations to improve plant performance. 49Chloroplasts and mitochondria play essential roles in metabolism, cellular homeostasis and 50 environmental sensing (Petrillo et al., 2014; Chan et al., 2016). Their genomes contain only a limited set 51 of genes whose functioning requires tight coordination with the nucleus through signaling pathways that 52 modulate nuclear and organellar gene expression (Petrillo et al., 2014; Kleine and Leister, 2016). 53 Plasmotype variation can be strongly additive, such as in the case of chloroplast encoded herbicide 54 tolerance (Flood et al., 2016), or can manifest in complex cytonuclear interactions as non-additive, non-55 linear effects (epistasis), such as found for secondary metabolites (Joseph et al., 2013). The phenotypic 56 consequences of epistasis can be detected when a plasmotype causes phenotypic effects in 57 combination with some, but not all nuclear backgrounds. Recent studies suggest that cytonuclear 58 epistasis is the main route through which variation in the plasmotype is expressed (Zeyl et al., 2005; 59 3 Montooth et al. , 2010; Joseph et al., 2013; Joseph et al., 2013; Tang et al., 2014; Roux et al., 2016; 60 Mossman et al., 2019) an...

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“…We calculated the 'per cent change' in mean shoaling index, calculated by dividing the difference between pre-and post-exposure periods by the pre-exposure value (i.e. [post-pre]/pre; Crane, Demuth, & Ferrari, 2017;Ferrari, Brown, Messier, & Chivers, 2009). Per cent change data were slightly right-skewed and did not fulfil parametric assumptions, so we applied a square-root transformation to the shoaling index data (preceded by the subtraction of the minimum value, so as to avoid producing imaginary numbers).…”

Section: Discussionmentioning

confidence: 99%

A novel alarm signal in aquatic prey: Familiar minnows coordinate group defences against predators through chemical disturbance cues

Bairos‐Novak

Ferrari

Chivers

2019

Journal of Animal Ecology

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Animal signalling systems outside the realm of human perception remain largely understudied. These systems consist of four main components: a signalling context, a voluntary signal, receiver responses and resulting fitness benefits to both the signaller and receiver(s). It is often most difficult to determine incidental cues from voluntary signals. One example is chemical disturbance cues released by aquatic prey during predator encounters that may serve to alert conspecifics of nearby risk and initiate tighter shoaling. We aimed to test whether disturbance cues are released incidentally (i.e. as a cue) or are produced voluntarily depending on a specific signalling context such as the audience surrounding the individual, and thus constitute a signal. We hypothesized that if receivers use disturbance cues to communicate risk among themselves, they would produce more (or more potent) disturbance cues when present in a group of conspecifics rather than when they are isolated (presence/absence of an audience) and use disturbance cues more when present alongside familiar rather than unfamiliar conspecifics (audience composition effect). We placed fathead minnows (Pimephales promelas) in groups with familiar fish, unfamiliar fish or as isolated individuals with no audience present, and then simulated a predator chase to evoke disturbance cues. We used bioassays with independent receivers to assess whether the disturbance cues produced differed depending on the signallers’ audience. We found evidence of voluntary signalling, as minnows responded to disturbance cues from groups of fish with tighter shoaling while disturbance cues from isolated minnows did not evoke a significant shoaling response (presence/absence audience effect). Receivers also increased shoaling, freezing and dashing more in response to disturbance cues from familiar groups compared to disturbance cues from unfamiliar groups or isolated minnows (audience composition effect). Together, these findings support our hypothesis that disturbance cues are used as an antipredator signal to initiate coordinated group defences among familiar conspecifics involving shoaling, freezing and dashing. This study represents the strongest evidence to date that chemicals released by aquatic prey upon disturbance by predators serve as voluntary signals rather than simply cues that prey have evolved to detect when assessing their risk of predation.

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Maize Cytolines Unmask Key Nuclear Genes That Are under the Control of Retrograde Signaling Pathways in Plants

Cited by 15 publications

References 70 publications

Reciprocal cybrids reveal how organellar genomes affect plant phenotypes

Reciprocal cybrids reveal how organellar genomes affect plant phenotypes

Reciprocal cybrids reveal how organellar genomes affect plant phenotypes

A novel alarm signal in aquatic prey: Familiar minnows coordinate group defences against predators through chemical disturbance cues

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