Article
Biochemistry & Molecular Biology
Yan-Bao Lei, Hong-Xia Xia, Ke Chen, Andelka Plenkovic-Moraj, Wei Huang, Geng Sun
Summary: Mosses can grow under fluctuating light conditions due to the roles of FLVs and CEF in regulating photosynthesis, especially when exposed to temperature stress. The coordination between FLV activity and CEF under fluctuating light and temperature stress is crucial for the photosynthetic acclimation of different moss species. The mosses with different light requirements show distinct FLV activity and CEF levels, indicating a species-specific response to fluctuating light and temperature stress.
Article
Plant Sciences
Sarah E. Flannery, Federica Pastorelli, William H. J. Wood, C. Neil Hunter, Mark J. Dickman, Philip J. Jackson, Matthew P. Johnson
Summary: In this study, quantitative label-free proteomics was used to show that field-grown Arabidopsis plants exhibit characteristics of both low and high light acclimation strategies observed in laboratory-grown plants. This indicates that plants in natural conditions undergo specific adaptations at the proteome level to optimize photosynthesis efficiency and cope with environmental stresses.
Article
Plant Sciences
Sarah E. Flannery, Federica Pastorelli, Thomas Z. Emrich-Mills, Stuart A. Casson, C. Neil Hunter, Mark J. Dickman, Philip J. Jackson, Matthew P. Johnson
Summary: Plants adjust photosynthetic protein abundance to changing light intensity, but plants lacking STN7 gene still experience high PSII redox pressure in low light conditions.
Article
Plant Sciences
Sarah E. Flannery, Christopher Hepworth, William H. J. Wood, Federica Pastorelli, Christopher N. Hunter, Mark J. Dickman, Philip J. Jackson, Matthew P. Johnson
Summary: This study investigated the changes in thylakoid protein levels during long-term acclimation of Arabidopsis to different light intensities and found correlations with key photosynthetic parameters. High light promoted improved photosynthetic capacity and cyclic electron transport, while low light favored slowly reversible non-photochemical quenching. The data provide insights into how Arabidopsis tunes photosynthetic electron transfer and its regulation during developmental acclimation to light intensity.
Article
Plant Sciences
Gustaf E. Degen, Federica Pastorelli, Matthew P. Johnson
Summary: The production and consumption of ATP and NADPH in photosynthesis need to be carefully regulated. The PGR5 protein plays an important role in suppressing photosynthetic oscillations, and its absence leads to increased oscillatory behavior in Arabidopsis mutants.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Biotechnology & Applied Microbiology
Yoshinori Tsuji, George Kusi-Appiah, Noriko Kozai, Yuri Fukuda, Takashi Yamano, Hideya Fukuzawa
Summary: Microalgae utilize a CO2-concentrating mechanism (CCM) to overcome CO2-limiting stress in aquatic environments. Diverse mechanisms for Ci uptake have been suggested, with studies indicating the use of external carbonic anhydrases in certain diatoms like Chaetoceros gracilis. Low levels of Na+ may also play a role in supporting the CCM in CO2-limiting conditions. These findings provide insight into diatom CCM diversity and offer foundational information for optimizing culture conditions in industrial applications.
MARINE BIOTECHNOLOGY
(2021)
Article
Plant Sciences
Yuki Okegawa, Nozomi Sato, Rino Nakakura, Ryota Murai, Wataru Sakamoto, Ken Motohashi
Summary: Plants use various photoprotective mechanisms to cope with sudden increases in light intensity. Redox regulation by thioredoxin (Trx) systems is also involved in this process. However, the functions of x- and y-type Trxs in response to fluctuating light conditions are not well understood.
Article
Microbiology
Dorota Muth-Pawlak, Sanna Kreula, Peter J. Gollan, Tuomas Huokko, Yagut Allahverdiyeva, Eva-Mari Aro
Summary: This study analyzed the proteomes of photosynthetic cyanobacteria under different conditions and found differential expression of proteins related to photosynthesis and carbon metabolism. The study also discovered unique expression patterns under specific conditions and concluded that combining photosynthetic activity with high intracellular inorganic carbon conditions promotes excellent growth in the bacteria.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Multidisciplinary Sciences
Thomas Lacour, Jade Lariviere, Joannie Ferland, Philippe-Israel Morin, Pierre-Luc Grondin, Natalie Donaher, Amanda Cockshutt, Douglas A. Campbell, Marcel Babin
Summary: This study investigates the adaptation of an Arctic diatom to changes in light and temperature. The diatom showed high protein contents, low re-oxidation of newly fixed carbon, and the use of alternative electron pathways, which contribute to efficient growth under extreme environmental conditions.
Article
Forestry
Huixing Kang, Hajime Tomimatsu, Ting Zhu, Yixin Ma, Xiruo Wang, Yan Zhang, Yanhong Tang
Summary: The debate over whether tree leaves in shady environments have higher photosynthetic induction efficiency (IE) than those in sunny environments and how shade tolerance and light environment contribute to photosynthesis dynamics has long been ongoing. In this study, we investigated the photosynthetic responses of six tree species with different shade tolerance levels to simulated changes in light intensity. We found that species with higher relative shade tolerance (RST) had significantly higher IE. The impact of light environment on IE varied among different species, and a trade-off existed between IE and steady-state photosynthetic rates. These findings provide new insights into the adaptation strategy of understory seedlings in sunfleck environments.
Review
Plant Sciences
Xinyu Fu, Berkley J. Walker
Summary: Photorespiration plays an important role in maintaining photosynthetic carbon assimilation and energy balancing under dynamic light conditions. It is closely linked to the C-3 cycle and can help balance fluxes. Regulation of photorespiration is crucial for maintaining appropriate metabolic fluxes related to nitrogen and one-carbon metabolism under dynamic conditions.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Plant Sciences
E. Walter Helbling, Anastazia T. Banaszak, Macarena S. Valinas, Juan I. Vizzo, Virginia E. Villafane, Marco J. Cabrerizo
Summary: Browning and increased mixing speed have negative effects on phytoplankton productivity and photosynthetic efficiency, while acclimation to these conditions can lead to a more efficient photosynthetic community. However, the decreasing trend in carbon fixation with increased mixing speed cannot be reversed. These interactive effects may have significant implications for highly productive ecosystems such as the Southwest Atlantic Ocean.
Article
Plant Sciences
Kelsey R. Carter, Tana E. Wood, Sasha C. Reed, Kaylie M. Butts, Molly A. Cavaleri
Summary: Based on in situ leaf-level experimental warming, tropical tree species in Puerto Rico made adjustments in response to temperature increase, with upper canopy leaves showing less acclimation to warmer temperatures. This lack of adaptation in the upper canopy could lead to reduced CO2 uptake and weaken the overall carbon sink strength of the tropical forest.
PLANT CELL AND ENVIRONMENT
(2021)
Article
Biology
Sofie E. Voerman, Arvydas Ruseckas, Graham A. Turnbull, Ifor D. W. Samuel, Heidi L. Burdett
Summary: This study investigates the light harvesting mechanism and acclimatory response of the red coralline alga in the mesophotic zone. The results demonstrate that responsive light harvesting and functional acclimation are key to the success of red algae in this low light environment.
Article
Plant Sciences
Shun-Ling Tan, Jia-Lin Huang, Feng-Ping Zhang, Shi-Bao Zhang, Wei Huang
Summary: This study revealed that low-light phases significantly affect the extent of PSI photoinhibition in fluctuating light conditions, with a higher light intensity inducing a higher proton gradient across thylakoid membranes. The activation of cyclic electron flow (CEF) is finely regulated to optimize the balance between photoprotection and light use efficiency in fluctuating light environments. Additionally, CEF activation in high-light phases is highly dependent on the PSI reduction state.
ENVIRONMENTAL AND EXPERIMENTAL BOTANY
(2021)
Article
Plant Sciences
Helena A. Herrmann, Beth C. Dyson, Matthew A. E. Miller, Jean-Marc Schwartz, Giles N. Johnson
Summary: Photosynthesis is sensitive to environmental conditions, with the composition of the photosynthetic apparatus modulated in response to changes, a process known as photosynthetic acclimation. Mutant plants lacking FUM2 are unable to acclimate to cold temperatures. The distribution of photosynthetically fixed carbon to storage pools changes during acclimation to low temperature, with metabolic and proteomic data used to parameterize models that show how signals of chloroplast redox state may underlie photosynthetic acclimation to cold.
PLANT CELL AND ENVIRONMENT
(2021)
Article
Multidisciplinary Sciences
Fabian Morales-Polanco, Christian Bates, Jennifer Lui, Joseph Casson, Clara A. Solari, Mariavittoria Pizzinga, Gabriela Forte, Claire Griffin, Kirsten E. L. Garner, Harriet E. Burt, Hannah L. Dixon, Simon Hubbard, Paula Portela, Mark P. Ashe
Summary: Studies have shown that glycolytic mRNAs are localized to granules for active translation, which is critical for their localization and likely facilitates higher level organization and control of the glycolytic pathway. These granules, termed core fermentation (CoFe) granules, seem to function as translation factories for high-level coordinated enzyme synthesis necessary for a critical metabolic pathway.
Article
Cell Biology
Matiss Ozols, Alexander Eckersley, Kieran T. Mellody, Venkatesh Mallikarjun, Stacey Warwood, Ronan O'Cualain, David Knight, Rachel E. B. Watson, Christopher E. M. Griffiths, Joe Swift, Michael J. Sherratt
Summary: Peptide location fingerprinting is a proteomic analysis technique that can identify structural modification-associated differences in complex biological samples, such as photoaged and intrinsically aged skin proteomes. This technique has the potential for discovering new biomarker candidates in various pathways, and has been demonstrated to be effective in identifying biomarkers in ageing tendon using published MS data sets.
Article
Plant Sciences
Mohd Fauzihan Karim, Giles N. Johnson
Summary: The dynamic acclimation of photosynthesis is crucial for enhancing a plant's fitness under varying light conditions. Plants lacking GPT2 show increased susceptibility to oxidative stress due to defective acclimation to changes in light intensity.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Genetics & Heredity
Charlie F. Rowlands, Algy Taylor, Gillian Rice, Nicola Whiffin, Hildegard Nikki Hall, William G. Newman, Graeme C. M. Black, Raymond T. O'Keefe, Simon Hubbard, Andrew G. L. Douglas, Diana Baralle, Tracy A. Briggs, Jamie M. Ellingford
Summary: Variable gene expression levels between tissues complicate the use of RNA sequencing for delineating genomic variants impact. A gene and tissue-specific metric, MRSD, overcomes limitations of using expression values alone, estimating the required sequencing depth to achieve desired coverage. Fibroblasts are identified as the optimal RNA source using MRSD, demonstrating its utility in functional assessment of splicing aberrations, particularly in Mendelian genetic disorders context.
AMERICAN JOURNAL OF HUMAN GENETICS
(2022)
Article
Plant Sciences
Helena A. Saunders, Pablo Calzadilla, Jean-Marc Schwartz, Giles N. Johnson
Summary: The accumulation of fumarate, catalyzed by the fumarase isoform FUM2, is necessary for photosynthetic acclimation in Arabidopsis. Using the Failure Mode and Effect Analysis (FMEA) technique, researchers have identified fumarate as a low-risk metabolite and malate as a high-risk metabolite that can cause system instability. FUM2 is suggested to provide a fail-safe mechanism to control malate concentration and maintain stability in a changing environment.
JOURNAL OF EXPERIMENTAL BOTANY
(2022)
Article
Biochemistry & Molecular Biology
Christopher J. Kershaw, Michael G. Nelson, Jennifer Lui, Christian P. Bates, Martin D. Jennings, Simon J. Hubbard, Mark P. Ashe, Chris M. Grant
Summary: This study systematically determined the protein and mRNA composition of P-bodies and stress granules before and after nutrient stress, revealing the existence of high molecular weight complexes as potential seeds for mature condensates. Shared proteins and RNA components between these biological condensates were identified, highlighting a complex interaction profile during their maturation process. The interaction networks represent a tunable response to stress, showcasing previously unrecognized condensate heterogeneity.
Article
Marine & Freshwater Biology
John Paul Kennedy, Giles N. Johnson, Richard F. Preziosi, Jennifer K. Rowntree
Summary: Neotropical black mangrove is expanding poleward in Atlantic Florida, USA, with evidence of greater cold tolerance within range margin populations. Genetic basis of these shifts remains unknown. Field experiments and measurements in a 2-year greenhouse common garden show that range margin populations have higher survivorship, quicker establishment, and lower stress under winter temperatures compared to range core populations. These differences in phenotypic traits suggest genetic basis for enhanced adaptation and potential for further expansion.
Article
Biology
Robert A. Crawford, Mark P. Ashe, Simon J. Hubbard, Graham D. Pavitt
Summary: Translation regulation is an important cellular response to changing external conditions. This study identified RNA-binding proteins (RBPs) involved in translational control using polysome profiling and mass spectrometry. The results revealed previously under-appreciated RBPs and their roles in response to oxidative stress and amino acid starvation.
Article
Multidisciplinary Sciences
Mathias Walzer, David Garcia-Seisdedos, Ananth Prakash, Paul Brack, Peter Crowther, Robert L. Graham, Nancy George, Suhaib Mohammed, Pablo Moreno, Irene Papatheodorou, Simon J. Hubbard, Juan Antonio Vizcaino
Summary: This study introduces a re-analysis pipeline for public SWATH-MS datasets, which includes automated workflows and statistical analysis, and integrates the results into the Expression Atlas resource. By reanalysing 10 public DIA datasets, the robustness of the pipeline was validated, and the final results were integrated into Expression Atlas.
Review
Biochemistry & Molecular Biology
Declan R. Creamer, Simon J. Hubbard, Mark P. Ashe, Chris M. Grant
Summary: Eukaryotic cells have developed a complex circuitry of signalling molecules to monitor changes in their environments. The cAMP/PKA pathway is an important glucose sensing circuit in yeast, and PKA activity regulates various processes in yeast growth. However, the molecular basis of PKA signalling specificity is poorly understood.
Article
Biochemistry & Molecular Biology
Kwan Ting Kan, Michael G. Nelson, Chris M. Grant, Simon J. Hubbard, Hui Lu
Summary: Yme1 is a multifunctional protein that plays important roles in maintaining mitochondrial protein homeostasis and regulating biogenesis and function of mitochondrial proteins. This study shows that YME1 deletion affects yeast growth, chronological life span, mitochondrial protein homeostasis and function. It also reveals that Yme1 plays a key role in longevity and is important for maintaining the level and function of mitochondrial oxidative phosphorylation complexes.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemical Research Methods
Martin Rusilowicz, David W. Newman, Declan R. Creamer, James Johnson, Kareena Adair, Victoria M. Harman, Chris M. Grant, Robert J. Beynon, Simon J. Hubbard
Summary: Protein quantitation via mass spectrometry requires the use of peptide proxies, and accurate quantitation often relies on the addition of an external standard. AlacatDesigner is a tool that assists in selecting suitable peptide candidates for recombinant protein standards. It considers factors such as target protein, existing databases, literature occurrence, potential post-translational modifications, and ionization potential within the mass spectrometer.
JOURNAL OF PROTEOME RESEARCH
(2023)
Review
Biochemistry & Molecular Biology
Armida Gjindali, Giles N. Johnson
Summary: Plants undergo developmental acclimation to optimize their metabolism in response to the conditions they experience, but they also dynamically acclimate their existing leaves in sustained changing conditions. This process usually takes several days. This review focuses on the responses of the photosynthetic apparatus to light and temperature, discussing the changes occurring in the chloroplast and the known and unknown processes underlying acclimation, as well as identifying potential regulators of acclimation.
BIOCHEMICAL SOCIETY TRANSACTIONS
(2023)
Article
Multidisciplinary Sciences
Jack Llewellyn, Venkatesh Mallikarjun, Ellen Appleton, Maria Osipova, Hamish T. J. Gilbert, Stephen M. Richardson, Simon J. Hubbard, Joe Swift
Summary: Cells respond to stress by producing chaperone proteins to maintain protein function, but aging leads to a disruption of protein balance and the formation of disease-related protein aggregates. Understanding the molecular causes of this proteostasis deterioration is important for disease interventions and cell health maintenance in regenerative medicine strategies.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)