Mechanism In Cyanobacteria Research Articles

Photosystem I: A Paradigm for Understanding Biological Environmental Adaptation Mechanisms in Cyanobacteria and Algae.

The process of oxygenic photosynthesis is primarily driven by two multiprotein complexes known as photosystem II (PSII) and photosystem I (PSI). PSII facilitates the light-induced reactions of water-splitting and plastoquinone reduction, while PSI functions as the light-driven plastocyanin-ferredoxin oxidoreductase. In contrast to the highly conserved structure of PSII among all oxygen-evolving photosynthetic organisms, the structures of PSI exhibit remarkable variations, especially for photosynthetic organisms that grow in special environments. In this review, we make a concise overview of the recent investigations of PSI from photosynthetic microorganisms including prokaryotic cyanobacteria and eukaryotic algae from the perspective of structural biology. All known PSI complexes contain a highly conserved heterodimeric core; however, their pigment compositions and peripheral light-harvesting proteins are substantially flexible. This structural plasticity of PSI reveals the dynamic adaptation to environmental changes for photosynthetic organisms.

Interactome Analysis of ClpX Reveals Its Regulatory Role in Metabolism and Photosynthesis in Cyanobacteria.

Protein homeostasis is essential for cyanobacteria to maintain proper cellular function under adverse and fluctuating conditions. The AAA+ superfamily of proteolytic complexes in cyanobacteria plays a critical role in this process, including ClpXP, which comprises a hexameric ATPase ClpX and a tetradecameric peptidase ClpP. Despite the physiological effects of ClpX on growth and photosynthesis, its potential substrates and underlying mechanisms in cyanobacteria remain unknown. In this study, we employed a streptavidin-biotin affinity pull-down assay coupled with label-free proteome quantitation to analyze the interactome of ClpX in the model cyanobacterium Synechocystis sp. PCC 6803 (hereafter Synechocystis). We identified 503 proteins as potential ClpX-binding targets, many of which had novel interactions. These ClpX-binding targets were found to be involved in various biological processes, with particular enrichment in metabolic processes and photosynthesis. Using protein-protein docking, GST pull-down, and biolayer interferometry assays, we confirmed the direct association of ClpX with the photosynthetic proteins, ferredoxin-NADP+ oxidoreductase (FNR) and phycocyanin subunit (CpcA). Subsequent functional investigations revealed that ClpX participates in the maintenance of FNR homeostasis and functionality in Synechocystis grown under different light conditions. Overall, our study provides a comprehensive understanding of the extensive functions regulated by ClpX in cyanobacteria to maintain protein homeostasis and adapt to environmental challenges.

Novel protein CcmS is required for stabilization of the assembly of β-carboxysome in Synechocystis sp. strain PCC 6803.

The carboxysome plays an essential role in the carbon concentration mechanism in cyanobacteria. Although significant progress has been made in the structural analysis of the carboxysome, little is still known about its biosynthesis. We identified slr1911, a gene encoding a protein of unknown function in cyanobacterium Synechocystis sp. Strain PCC 6803 (Syn6803), which we termed ccmS by screening a low CO2 -sensitive mutant. CcmS interacts with CcmK1 and CcmM. The former is a shell protein of the β-carboxysome and the latter is a crucial component of the β-carboxysome, which is responsible for aggregating RuBisCO and recruiting shell proteins. The deletion of ccmS lowers the accumulation and assembly of CcmK1, resulting in aberrant carboxysomes, suppressed photosynthetic capacities, and leads to a slow growth phenotype, especially under CO2 -limited conditions. These observations suggest that CcmS stabilizes the assembly of the β-carboxysome shell and likely connects the carboxysome core with the shell. Our results provide a molecular view of the role played by CcmS in the formation of the β-carboxysome and its function in Syn6803.

Singular adaptations in the carbon assimilation mechanism of the polyextremophile cyanobacterium Chroococcidiopsis thermalis

Cyanobacteria largely contribute to the biogeochemical carbon cycle fixing ~ 25% of the inorganic carbon on Earth. However, the carbon acquisition and assimilation mechanisms in Cyanobacteria are still underexplored regardless of being of great importance for shedding light on the origins of autotropism on Earth and providing new bioengineering tools for crop yield improvement. Here, we fully characterized these mechanisms from the polyextremophile cyanobacterium Chroococcidiopsis thermalis KOMAREK 1964/111 in comparison with the model cyanobacterial strain, Synechococcus sp. PCC6301. In particular, we analyzed the Rubisco kinetics along with the in vivo photosynthetic CO2 assimilation in response to external dissolved inorganic carbon, the effect of CO2 concentrating mechanism (CCM) inhibitors on net photosynthesis and the anatomical particularities of their carboxysomes when grown under either ambient air (0.04% CO2) or 2.5% CO2-enriched air. Our results show that Rubisco from C. thermalis possess the highest specificity factor and carboxylation efficiency ever reported for Cyanobacteria, which were accompanied by a highly effective CCM, concentrating CO2 around Rubisco more than 140-times the external CO2 levels, when grown under ambient CO2 conditions. Our findings provide new insights into the Rubisco kinetics of Cyanobacteria, suggesting that improved Sc/o values can still be compatible with a fast-catalyzing enzyme. The combination of Rubisco kinetics and CCM effectiveness in C. thermalis relative to other cyanobacterial species might indicate that the co-evolution between Rubisco and CCMs in Cyanobacteria is not as constrained as in other phylogenetic groups.

Progress on photosynthetic nitrogen assimilation and its regulatory mechanisms in cyanobacteria

水华蓝藻的生物学特性及其竞争优势、蓝藻水华的形成与维持机制等科学问题，一直是国内外研究的热点。氮素是诱发蓝藻水华暴发的重要营养盐，蓝藻对氮素的同化与其光合作用密切偶联。然而，水体中氮素存在多种形态，不同形态氮素对蓝藻生长和水华发生的影响具有显著差异。因此，了解蓝藻光合作用特征及其同化不同形态氮素的机制和策略，对深入理解蓝藻水华的发生机理具有重要意义。本文在蓝藻的光能捕获与激发能转移、光合电子传递、碳浓缩机制及CO₂同化等光合作用过程及其特征综述的基础上，对蓝藻摄取、同化5种主要氮素形态（NO₃^-、NO₂^-、NH₄⁺、尿素和N₂）的分子机制及其特征进行了解读，总结了蓝藻细胞光合碳、氮同化的耦合关系及调控机制；并指出了该领域的未来发展方向，以推动该方向的深入研究。;The biological characteristics and competitive predominance of cyanobacteria, as well as the formation and maintenance mechanism of cyanobacteria blooms, have aroused continuous interests among researchers. As an important nutrient for cyanobacterial growth, the assimilation of nitrogen is intimately coupled with the photosynthesis. However, nitrogen exists in various chemical forms in water, which affect the cyanobacterial growth and the formation of blooms in distinct ways. To delve into the formation mechanism of cyanobacterial blooms, it is important to understand the cyanobacterial photosynthetic feature as well as the mechanism and strategy by which the nitrogen of different forms are assimilated into cyanobacteria. This paper reviewed the processes and characteristics of photosynthesis in cyanobacteria, such as light energy capture and excitation energy transfer, primary photosynthetic reaction, CO₂ concentrating mechanism and assimilation. Then, it illustrated the transport and assimilation of different nitrogen forms (NO₃^-, NO₂^-, NH₄⁺, urea and N₂), the regulation of these processes, as well as the mechanisms by which cells coordinate and regulate the carbon/nitrogen metabolism. The paper also summarized the latest research advances in cyanobacterial blooms and suggested on the content and direction of further research.

The mechanism of nanoparticle toxicity to cyanobacteria

The demand for nanoparticles is increasing tremendously, and so is the risk of their foreseeable discharge into the environment. Nanoparticles contain a variety of features, including anti-microbial properties, and have been shown to have toxic effects on aquatic organisms previously. However, the causes of nanoparticle toxicity under environmental conditions are still unknown. Exposure to nanoparticles in the environment is unavoidable as nanomaterials are used more prevalent in our daily lives, and as a result, nanotoxicity research is gaining traction. To understand the impact of nanoparticle toxicity on aquatic biota, cyanobacteria (blue-green algae) are an ideal model system. The cyanobacteria play an important role in ecological balance, nutrient cycling, energy flow, biological nitrogen fixation, and environmental remediation, and their susceptibility to nanoparticles can help in making a wise strategy for the mitigation of possible nano-pollution. This article presents an analysis of recent research findings on the toxicological influences of nanoparticles on the growth rate, biochemical changes, ultra-structural changes as well as the nanoparticle toxicity mechanisms in cyanobacteria. The finding suggests that the shading effect, generation of reactive oxygen species, membrane damage and disintegration of pigments are the main reasons for nanoparticle toxicity to the cyanobacteria.

Chromatic Acclimation Processes and Their Relationships with Phycobiliprotein Complexes.

Chromatic acclimation (CA) is a widespread mechanism for optimizing the composition of phycobiliprotein complexes to maximize the cyanobacterial light capture efficiency. There are seven CA types, CA1-CA7, classified according to various photoregulatory pathways. Here, we use sequence analyses and bioinformatics to predict the presence of CA types according to three GAF (cGMP phosphodiesterase/adenylyl cyclase/FhlA)-containing photoreceptors, CcaS (cyanobacterial chromatic acclimation sensor), RcaE (regulator of chromatic adaptation), and RfpA (regulator for far-red photoacclimation). These photoreceptors were classified into three different phylogenetic groups leading different CA types in a diverse range of cyanobacteria. Combining with genomic information of phycobilisome compositions, the CA capabilities of various cyanobacteria were conjectured. Screening 65 accessible cyanobacterial genomes, we defined 19 cyanobacteria that have the capability to perform far-red light photoacclimation (FaRLiP) under the control of RfpA. Forty out of sixty-five cyanobacteria have the capability to perform green/red light photoacclimation, although they use different photoreceptors (RcaE and/or CcaS) and photoregulatory pathways. The reversible response of photoreceptors in CA regulation pathways trigged by changed light conditions reflects the flexibility of photoregulatory mechanisms in cyanobacteria and the putative independent evolutionary origin of photoacclimation types.

Transcriptomic Analysis of the Molecular Response Mechanism of Microcystis aeruginosa to Iron Limitation Stress

Iron is an essential micronutrient for cyanobacteria. It is involved in physiological activities such as photosynthesis, respiration, and the synthesis of pigments. The impact of iron limitation on planktonic algae growth occurs in surface oceans globally, as well as in freshwater ecosystems. However, the molecular and physiological effects and response mechanism of cyanobacteria under iron-limited conditions have not been reported in detail. In this study, the effects of iron limitation on the cell density, chlorophyll content, and photosynthetic activity of Microcystis aeruginosa were determined, and transcriptome sequencing was undertaken. In a severely iron-deficient environment, the cell density and chlorophyll-a content of M. aeruginosa were significantly lower than in the iron-rich group (a 55.42% and 83.51% reduction, respectively). Similarly, the photosynthetic efficiency of M. aeruginosa was also inhibited by iron deficiency, and the maximum photochemical efficiency (Fv/Fm) of the severe iron deficiency group was only 66.72% of the control group. The transcriptome results showed that to cope with the iron-deficient environment, most genes involved in iron absorption and transport in M. aeruginosa were up-regulated. In particular, the fur and perR genes that regulate the iron uptake regulatory protein (Fur) were both up-regulated. Due to the high demand for iron in the photosynthetic electron transport chain of M. aeruginosa, most photosynthesis-related genes were down-regulated, for example, petJ, which regulates iron-containing cytochrome c6. In contrast, most of the genes related to glycolysis and respiration were up-regulated. These changes in gene expression may be a survival strategy for M. aeruginosa to cope with a long-term iron-deficient environment. This study provides insights into the molecular response mechanism of M. aeruginosa under iron limitation stress.

A modified cyanobacteria prediction model based on cellular automata model using N and P concentration reverse data: a case study in Taihu Lake

The problem of algal bloom caused by eutrophication has attracted global attention. Many scholars have studied the problem associated with algae bloom, but few have carried out dynamic monitoring, instead focusing on the formation mechanism of cyanobacteria. For our study of the Taihu Lake in China, we used Moderate-Resolution Imaging Spectroradiometer (MODIS) and Landsat remote sensing image data from 2017 to establish a prediction model. First, we used MODIS data to retrieve the concentration of N, P, and chlorophyll a in water. Then, we applied the analytic hierarchy process (AHP) model to the inversion results to construct the diffusion potential index. Finally, we used C# to compile the cellular automata (CA) model. We found that the distribution of cyanobacteria predicted by our method was consistent with the algal bloom situation of Taihu Lake in 2017. The results showed that the method effectively predicts the dynamic transfer of cyanobacteria from outbreak to diffusion in a short period of time, which can help decision-makers monitor lake health.

Comprehending the effect of Salinity Stress and Tolerance Mechanisms in Cyanobacteria: A review

Comprehending the effect of Salinity Stress and Tolerance Mechanisms in Cyanobacteria: A review

Red/far-red light signals regulate the activity of the carbon-concentrating mechanism in cyanobacteria.

Desiccation-tolerant cyanobacteria can survive frequent hydration/dehydration cycles likely affecting inorganic carbon (Ci) levels. It was recently shown that red/far-red light serves as signal-preparing cells toward dehydration. Here, the effects of desiccation on Ci assimilation by Leptolyngbya ohadii isolated from Israel's Negev desert were investigated. Metabolomic investigations indicated a decline in ribulose-1,5-bisphosphate carboxylase/oxygenase carboxylation activity, and this was accelerated by far-red light. Far-red light negatively affected the Ci affinity of L. ohadii during desiccation and in liquid cultures. Similar effects were evident in the non-desiccation-tolerant cyanobacterium Synechocystis The Synechocystis Δcph1 mutant lacking the major phytochrome exhibited reduced photosynthetic Ci affinity when exposed to far-red light, whereas the mutant ΔsbtB lacking a Ci uptake inhibitory protein lost the far-red light inhibition. Collectively, these results suggest that red/far-red light perception likely via phytochromes regulates Ci uptake by cyanobacteria and that this mechanism contributes to desiccation tolerance in strains such as L. ohadii.

Nanoscale characteristics of conditioning film development on photobioreactor materials: influence on the initial adhesion and biofilm formation by a cyanobacterium

Adsorption of conditioning films on a solid surface is the first step in the development of biofilms. With the goal of understanding the preliminary adhesion mechanisms of cyanobacteria on photobioreactor (PBR) materials to prevent biofouling, the physical changes occurring on PBR materials were investigated during the initial adhesion and biofilm formation by Anabaena sp. PCC 7120, a cyanobacterium that is genetically modified to produce linalool. Atomic force microscopy (AFM) revealed that the conditioning film deposition was in the form of spike-like structures on all the materials except PVC. The average heights (in the range 9 − 16 nm) of the conditioning films deposited on glass, PMMA, PC and HDPE were 11 to 20 times higher than on PVC at 96 h. The time dependent change in thickness of conditioning films correlated well with Anabaena cell attachment to the PBR materials. The rapid and significant colonization of Anabaena on glass within 48 h was consistent with the increase in thickness of the conditioning film within this time period. Lack of the conditioning film spike structures and no change in thickness of the conditioning films with time on the PVC together with comparatively delayed cell attachment and conditioning-film protein deposition on this material, indicated that the nanoscale spike structures on the other PBR materials may be accelerating the cell attachment process but are not a prerequisite for cell attachment. These results suggest that PVC should be explored further as an antifouling material for photobioreactors. The thickness of the conditioning films on glass measured by a scratch and scan method was in good agreement with the thickness values measured by an adhesive tape method, indicating that both these methods can be used for fast and reliable AFM thickness determination of bacterial conditioning films.

Global Landscape of Native Protein Complexes in Synechocystis sp. PCC 6803

Synechocystis sp. PCC 6803 (hereafter: Synechocystis) is a model organism for studying photosynthesis, energy metabolism, and environmental stress. Although known as the first fully sequenced phototrophic organism, Synechocystis still has almost half of its proteome without functional annotations. In this study, by using co-fractionation coupled with liquid chromatography-tandem mass spectrometry (LC-MS/MS), we define 291 multi-protein complexes, encompassing 24,092 protein–protein interactions (PPIs) among 2062 distinct gene products. This information not only reveals the roles of photosynthesis in metabolism, cell motility, DNA repair, cell division, and other physiological processes, but also shows how protein functions vary from bacteria to higher plants due to changes in interaction partners. It also allows us to uncover the functions of hypothetical proteins, such as Sll0445, Sll0446, and Sll0447 involved in photosynthesis and cell motility, and Sll1334 involved in regulation of fatty acid biogenesis. Here we present the most extensive PPI data for Synechocystis so far, which provide critical insights into fundamental molecular mechanisms in cyanobacteria.

A Systematic Survey of the Light/Dark-dependent Protein Degradation Events in a Model Cyanobacterium

Light is essential for photosynthetic organisms and is involved in the regulation of protein synthesis and degradation. The significance of light-regulated protein degradation is exemplified by the well-established light-induced degradation and repair of the photosystem II reaction center D1 protein in higher plants and cyanobacteria. However, systematic studies of light-regulated protein degradation events in photosynthetic organisms are lacking. Thus, we conducted a large-scale survey of protein degradation under light or dark conditions in the model cyanobacterium Synechocystis sp. PCC 6803 (hereafter referred to as Synechocystis) using the isobaric labeling-based quantitative proteomics technique. The results revealed that 79 proteins showed light-regulated degradation, including proteins involved in photosystem II structure or function, quinone binding, and NADH dehydrogenase. Among these, 25 proteins were strongly dependent on light for degradation. Moreover, the light-dependent degradation of several proteins was sensitive to photosynthetic electron transport inhibitors (DCMU and DBMIB), suggesting that they are influenced by the redox state of the plastoquinone (PQ) pool. Together, our study comprehensively cataloged light-regulated protein degradation events, and the results serve as an important resource for future studies aimed at understanding light-regulated processes and protein quality control mechanisms in cyanobacteria.

Small but Smart: On the Diverse Role of Small Proteins in the Regulation of Cyanobacterial Metabolism.

Over the past few decades, bioengineered cyanobacteria have become a major focus of research for the production of energy carriers and high value chemical compounds. Besides improvements in cultivation routines and reactor technology, the integral understanding of the regulation of metabolic fluxes is the key to designing production strains that are able to compete with established industrial processes. In cyanobacteria, many enzymes and metabolic pathways are regulated differently compared to other bacteria. For instance, while glutamine synthetase in proteobacteria is mainly regulated by covalent enzyme modifications, the same enzyme in cyanobacteria is controlled by the interaction with unique small proteins. Other prominent examples, such as the small protein CP12 which controls the Calvin–Benson cycle, indicate that the regulation of enzymes and/or pathways via the attachment of small proteins might be a widespread mechanism in cyanobacteria. Accordingly, this review highlights the diverse role of small proteins in the control of cyanobacterial metabolism, focusing on well-studied examples as well as those most recently described. Moreover, it will discuss their potential to implement metabolic engineering strategies in order to make cyanobacteria more definable for biotechnological applications.

Cyanobacterial multi-copy chromosomes and their replication.

NGS: next-generation sequencing; Repli-seq: replication sequencing; BrdU: 5-bromo-2'-deoxyuridine; TK: thymidine kinase; GCSI: GC skew index; PET: photosynthetic electron transport; RET: respiration electron transport; Cyt b6f complex: cytochrome b6f complex; PQ: plastoquinone; PC: plastocyanin.

Fluorescence recovery protein: a powerful yet underexplored regulator of photoprotection in cyanobacteria†.

Cyanobacteria utilize an elegant photoprotection mechanism mediated by the photoactive Orange Carotenoid Protein (OCP), which upon binding dissipates excess energy from light-harvesting complexes, phycobilisomes. The OCP activity is efficiently regulated by its partner, the Fluorescence Recovery Protein (FRP). FRP accelerates OCP conversion to the resting state, thus counteracting the OCP-mediated photoprotection. Behind the deceptive simplicity of such regulation is hidden a multistep process involving dramatic conformational rearrangements in OCP and FRP, the details of which became clearer only a decade after the FRP discovery. Yet many questions regarding the functioning of FRP have remained controversial. In this review, we summarize the current knowledge and understanding of the FRP role in cyanobacterial photoprotection as well as its evolutionary history that presumably lies far beyond cyanobacteria.

Concurrent biomineralization of silver ions into Ag0 and AgxO by Leptolyngbya strain JSC-1 and the establishment of its axenic culture

Ionic silver is a potential hazard to aquatic life forms because of the increasing usage of silver based materials. The need for developing a sustainable and ecofriendly process to minimize the toxic effects of the free ions burden is now a scientific consensus. Therefore, we report the latest results in cyanobacterium Leptolyngbya JSC-1 investigating the tolerance towards toxic doses of silver, its extracellular biomineralization and silver nano-deposits formation inside the cells, and speculate about potential environmental impacts. In this study, scanning electron microscopy (SEM) and energy dispersive x-ray spectroscopy (EDS) analysis reveal the extracellular biomineralization of soluble silver (1–100 μM) into corresponding nanoparticles (50–100 nm in diameter) by JSC-1, while X-ray photoelectron spectroscopy (XPS) examination divulged the presence of both Ag+ and Ag0 in extracellularly biomineralized silver, depicting a mixture of both AgxO and elemental Ag. The scanning transmission electron microscopy (STEM), EDS and elemental mapping visualized the formation of intracellular silver nanoparticles. Moreover, this feature of silver tolerance in JSC-1 was further exploited and a novel protocol was developed for isolation and maintenance of axenic culture of this filamentous cyanobacterium. Consequently, this capability of silver biomineralization by JSC-1, both extra- and intra-cellularly might be useful for modeling the Ag resistance mechanism in cyanobacteria and also might be a sustainable alternative for heavy metals bioremediation in aquatic environments.

A Glimpse into the Sequence of Structural Changes in the Orange Carotenoid Protein Which Switch on the Photoprotection Mechanism in Cyanobacteria

Photoprotective mechanisms are key to the survival of photosynthetic organisms. In cyanobacteria, the Orange Carotenoid Protein (OCP) senses excess light and binds to the light-harvesting antenna, triggering the dissipation of captured light energy. Using time-resolved X-ray footprinting with mass spectrometry (XFMS), we traced the time-evolution of both the local and global structural changes in the OCP photoactivation and relaxation processes. Activation is accompanied by a fast decrease in the solvent accessibility around conserved carotenoid binding residues, and a slow increase in the solvent accessibility at the inter-domain interface. Accessibility changes in the relaxation process follow a reverse trend and, in addition, pass through a compact intermediate state. This study identified the driving factors for structural changes transmitted from the carotenoid binding pocket to the protein surface upon light activation of the OCP as well as the back-conversion process with unprecedented mechanistic detail. The physiological relevance of the kinetic mechanism is explained in terms of the mode of interaction between the Fluorescence Recovery Protein (FRP) and the OCP.

Fluorescence and Excited-State Conformational Dynamics of the Orange Carotenoid Protein.

The orange carotenoid protein (OCP) mediates nonphotochemical quenching (NPQ) mechanisms in cyanobacteria. A bound ketocarotenoid serves as a sensor of midvisible light intensity and as a quencher of phycocyanobilin excitons in the phycobilisome. The photochemical mechanism that triggers conversion of the protein from a resting, orange state (OCPO) to an active, red state (OCPR) after optical preparation of the S2 state of the carotenoid remains an open question. We report here that the fluorescence spectrum and quantum yield of the bound carotenoids in OCPO report important details of the motions that follow optical preparation of the S2 state. The fluorescence spectra from OCPO preparations containing 3'-hydroxyechinenone (3hECN) or canthaxanthin (CAN) are markedly mirror asymmetric with respect to the absorption line shape and more than an order of magnitude more intense than for carotenoids in solution. Further, 3hECN exhibits a narrower fluorescence line shape and a larger quantum yield than CAN because its excited-state motions are hindered by a hydrogen bonding interaction between the 3'-hydroxyl group on its β2 ring and Leu37 in the N-terminal domain. These results show that large-amplitude motions of the carotenoid's β2-cyclohexene ring and of the conjugated polyene backbone initiate photochemistry in OCPO.