The Dark Recovery Rate in the Photocycle of the Bacterial Photoreceptor YtvA Is Affected by the Cellular Environment and by Hydration

Pennacchietti, Francesca; Abbruzzetti, Stefania; Losi, Aba; Mandalari, Carmen; Bedotti, Roberta; Viappiani, Cristiano; Zanacchi, Francesca Cella; Diaspro, Alberto; Gärtner, Wolfgang

doi:10.1371/journal.pone.0107489

Cited by 19 publications

(30 citation statements)

References 43 publications

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“…The recovery kinetics of the photocycle in YtvA has been measured to understand the molecular basis for the propagation of photosignals in light-sensing proteins. 32,38,39 The dark regeneration kinetics of YtvA-LOV from the lightactivated state to the dark-ground state was known to be slower than the value of the full-length YtvA protein in the previous work. 30 Raffelberg et al suggested that the mutations of hydrogen-bond network residues (N94S, N94A, and Q123N) accelerated the recovery kinetics.…”

Section: Fluorescence Spectroscopymentioning

confidence: 92%

A critical element of the light‐induced quaternary structural changes in YtvA‐LOV

et al. 2015

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YtvA, a photosensory LOV (light-oxygen-voltage) protein from Bacillus subtilis, exists as a dimer that previously appeared to undergo surprisingly small structural changes after light illumination compared with other light-sensing proteins. However, we now report that light induces significant structural perturbations in a series of YtvA-LOV domain derivatives in which the Ja helix has been truncated or replaced. Results from native gel analysis showed significant mobility changes in these derivatives after light illumination; YtvA-LOV without the Ja helix dimerized in the dark state but existed as a monomer in the light state. The absence of the Ja helix also affected the dark regeneration kinetics and the stability of the flavin mononucleotide (FMN) binding to its binding site. Our results demonstrate an alternative way of photo-induced signal propagation that leads to a bigger functional response through dimer/monomer conversions of the YtvA-LOV than the local disruption of Ja helix in the As-LOV domain.

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Section: Fluorescence Spectroscopymentioning

confidence: 92%

A critical element of the light‐induced quaternary structural changes in YtvA‐LOV

et al. 2015

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“…It carries a LOV (light, oxygen and voltage) domain and a STAS (sulphate transporters and antisigma‐factor antagonists) domain and binds FMN (flavin mononucleotide) as a chromophore. Its cycle of activation by light/recovery is also tuned to the environment by features such as hydration (Pennacchietti et al ., 2014). Sensing light is a way for cells to tell immediately where they are located.…”

Section: Bacillus Subtilis In 2017mentioning

confidence: 99%

Bacillus subtilis, the model Gram‐positive bacterium: 20 years of annotation refinement

Borriss

Danchin

Harwood

et al. 2017

Microbial Biotechnology

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SummaryGenome annotation is, nowadays, performed via automatic pipelines that cannot discriminate between right and wrong annotations. Given their importance in increasing the accuracy of the genome annotations of other organisms, it is critical that the annotations of model organisms reflect the current annotation gold standard. The genome of Bacillus subtilis strain 168 was sequenced twenty years ago. Using a combination of inductive, deductive and abductive reasoning, we present a unique, manually curated annotation, essentially based on experimental data. This reveals how this bacterium lives in a plant niche, while carrying a paleome operating system common to Firmicutes and Tenericutes. Dozens of new genomic objects and an extensive literature survey have been included for the sequence available at the INSDC (AccNum AL009126.3). We also propose an extension to Demerec's nomenclature rules that will help investigators connect to this type of curated annotation via the use of common gene names.

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“…The dark adapted state LOV 450 , brightly fluorescent with Φ F ca. 0.2–0.3 can be switched by BL (blue arrow) to generate the covalent FMN‐Cys adduct LOV 390 that thermally recovers (black arrow) to LOV 450 on a highly variable time‐scale (from seconds to days at room temperature, depending on the specific protein and on the microenvironment) . Formation of LOV 390 normally occurs via the decay of a flavin triplet state (not shown), possibly involving a flavin‐cys radical pair .…”

Section: Introductionmentioning

confidence: 99%

“…Some details of the photochemical events still remain to be clarified, e.g. the involvement of a flavin radical species , as well as factors that control the dynamics of the photocycle in vitro and in vivo .…”

Section: Introductionmentioning

confidence: 99%

“…In this manuscript, we will summarize our current knowledge in this rapidly developing field that is changing our understanding of how prokaryotic organisms perceive their environment. The photocycle of LOV proteins and molecular aspects of light‐to‐signal transduction have recently been reviewed , and will not be dealt with in detail here, with the exception of some most recent or peculiar aspects that are relevant to function and evolution.…”

Section: Introductionmentioning

confidence: 99%

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The Evolution and Functional Role of Flavin‐based Prokaryotic Photoreceptors

Losi

Mandalari

Gärtner

2015

Photochem & Photobiology

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Flavin-based photoreceptor proteins of the LOV (light, oxygen and voltage) superfamily are ubiquitous and appear to be essential blue-light sensing systems not only in plants, algae and fungi, but also in prokaryotes, where they are represented in more than 10% of known species. Despite their broad occurrence, only in few cases LOV proteins have been correlated with important phenomena such as bacterial infectivity, selective growth patterns or/and stress responses; nevertheless these few known roles are helping us understand the multiple ways by which prokaryotes can exploit these soluble blue-light photoreceptors. Given the large number of sequences now deposited in databases, it becomes meaningful to define a signature for bona fide LOV domains, a procedure that facilitates identification of proteins with new properties and phylogenetic analysis. The latter clearly evidences that a class of LOV proteins from alpha-proteobacteria is the closest prokaryotic relative of eukaryotic LOV domains, whereas cyanobacterial sequences cluster with the archaeal and the other bacterial LOV domains. Distance trees built for LOV domains suggest complex evolutionary patterns, possibly involving multiple horizontal gene transfer events. Based on available data, the in vivo relevance and evolution of prokaryotic LOV is discussed.

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The Dark Recovery Rate in the Photocycle of the Bacterial Photoreceptor YtvA Is Affected by the Cellular Environment and by Hydration

Cited by 19 publications

References 43 publications

A critical element of the light‐induced quaternary structural changes in YtvA‐LOV

A critical element of the light‐induced quaternary structural changes in YtvA‐LOV

Bacillus subtilis, the model Gram‐positive bacterium: 20 years of annotation refinement

The Evolution and Functional Role of Flavin‐based Prokaryotic Photoreceptors

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