Article
Biochemistry & Molecular Biology
H. Doerpholz, S. Subramanian, A. Zouni, F. Lisdat
Summary: In this study, photobioelectrodes based on a ferredoxin-modified photosystem I (PSI-Fd) from Thermosynechococcus vestitus were prepared and characterized. The direct electron transfer between PSI-Fd and the electrode was investigated. The results showed that the modified PSI-Fd photobioelectrode had a lower photocurrent and a lower onset potential of the cathodic photocurrent compared to native PSI, mainly due to the different adsorption behavior of the PSI-Fd construct onto the 3D ITO electrode. However, the overall behavior was similar to PSI. First experiments demonstrated the usage of the PSI-Fd photobioelectrode for enzyme-driven NADPH generation.
BIOELECTROCHEMISTRY
(2023)
Article
Biochemistry & Molecular Biology
Hitesh Medipally, Marvin Mann, Carsten Koetting, Willem J. H. van Berkel, Marc M. Nowaczyk
Summary: Photosynthetic organisms use light for the regeneration of NADPH. In this study, a clickable fusion system was established to regenerate NADPH with PSI-Fd and PSI-Fd-FNR. Immunity protein 7 was fused to the PSI-PsaE subunit, and colicin DNase E7 fusion chimeras of Fd and FNR were expressed. The complexes showed the ability to regenerate NADPH, demonstrating the applicability of this strategy.
Article
Microbiology
Wanwipa Ittarat, Takeshi Sato, Masaharu Kitashima, Hidehiro Sakurai, Kazuhito Inoue, Daisuke Seo
Summary: Through studying the oxidoreductases in the genome of the green sulfur bacterium, it was found that rubredoxin (Rd) and a putative flavodiiron protein (FDP) may participate in the reduction of dioxygen, and the ferredoxin-NAD(P)(+) oxidoreductase (FNR) can promote the reduction of Rd.
ARCHIVES OF MICROBIOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Takashi Iyanagi
Summary: This article compares the roles of FNR-Fd and FNR-Fld complex pairs in plants with the diflavin reductase (FAD-FMN) family and discusses the evolutionary aspects of NAD(P)H-dependent multi-domain electron transfer systems.
Article
Biochemistry & Molecular Biology
Miho Ohnishi, Shu Maekawa, Shinya Wada, Kentaro Ifuku, Chikahiro Miyake
Summary: In this study, the activity of ferredoxin (Fd)-dependent cyclic electron flow (Fd-CEF) around photosystem I (PSI) in intact leaves of Arabidopsis thaliana was investigated. The oxidation rate of Fd reduced by PSI (vFd) and photosynthetic linear electron flow activity were measured simultaneously under actinic light illumination. The results showed that vFd exhibited a curved response to the photosynthetic linear electron flow activity, with a linear relationship at lower flow activity and a sharp increase at higher flow activity, indicating the presence of excess vFd resulting from electron flow over photosynthetic linear electron flow. Furthermore, the excess vFd was also observed in NAD(P)H dehydrogenase-deficient mutants.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Yutaro Chikuma, Masayuki Miyata, Young-Ho Lee, Toshiharu Hase, Yoko Kimata-Ariga
Summary: This study investigated the molecular mechanism of negative cooperativity between FNR and Fd in plants, caused by the allosteric binding of NADP(H) on FNR. It identified a salt bridge between Asp60 of Fd and Lys33 of FNR as crucial for this negative cooperativity. Site-specific mutants of FdD60 and FNRK33 confirmed the involvement of this salt bridge in downregulating the interaction between FNR and Fd by NADPH.
BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Paula Monchietti, Arleth S. Lopez Rivero, Eduardo A. Ceccarelli, Daniela L. Catalano-Dupuy
Summary: FNRs are ubiquitous flavoenzymes involved in redox metabolisms, catalyzing electron transfer between NADP(H) and ferredoxin or flavodoxin. Plant-type FNRs are divided into plastidic and bacterial classes, with plastidic FNRs showing higher turnover numbers. Research on bacterial FNRs revealed a new model of NADP(+) binding and catalysis, highlighting its essential role in redox homeostasis.
Article
Microbiology
Neil T. Miller, Ghada Ajlani, Robert L. Burnap
Summary: Ferredoxin:NADP-oxidoreductase (FNR) plays a crucial role in photosynthetic electron transfer and respiration. The cyanobacterium Synechocystis sp. PCC6803 possesses two isoforms of FNR: FNRL and FNRS. The study found that under stressful conditions, the FNRS isoform contributes to increased cyclic electron flow and proton pumping.
Article
Biochemistry & Molecular Biology
Yoko Kimata-Ariga, Karen Fukuta, Masayuki Miyata
Summary: In the chloroplast stroma, changes in pH affect the electron transfer activity between ferredoxin-NADP(+) reductase (FNR) and ferredoxin (Fd) isoproteins in maize leaves. Increasing pH leads to increased activity between FNR and photosynthetic-type Fd (Fd1), while activity with nonphotosynthetic type Fd (Fd3) decreases. The His78 amino acid residue in Fd1 plays a regulatory role in its interaction with FNR, as demonstrated by mutation studies.
BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY
(2022)
Review
Plant Sciences
Serena Schwenkert, Alisdair R. Fernie, Peter Geigenberger, Dario Leister, Torsten Moehlmann, Belen Naranjo, H. Ekkehard Neuhaus
Summary: Changes in chloroplast metabolism play a critical role in the comprehensive cellular response to challenging environments, starting with rapid modifications of processes in the thylakoid membrane, followed by changes in the stroma and transport activities across the chloroplast envelope. Understanding the characteristics of the 'modulators' involved is essential for enhancing plant stress tolerance and developing targeted breeding strategies.
TRENDS IN PLANT SCIENCE
(2022)
Article
Biology
Manuela Kramer, Melvin Rodriguez-Heredia, Francesco Saccon, Laura Mosebach, Manuel Twachtmann, Anja Krieger-Liszkay, Chris Duffy, Robert J. Knell, Giovanni Finazzi, Guy Thomas Hanke
Summary: This study demonstrates the membrane association of FNR and its distribution depending on interaction with specific tether proteins. There is a correlation between FNR's interaction with different proteins and the activity of alternative photosynthetic electron transport pathways, supporting a role for FNR location in regulating photosynthetic electron flow during the transition from dark to light.
Article
Biophysics
Stanislav D. Zakharov, Sergei Savikhin, Yuko Misumi, Genji Kurisu, William A. Cramer
Summary: This study confirms the absence of a significant interaction between FNR and the b(6)f complex through thermodynamic analysis. It also provides a precedent for considering protein-detergent interactions in ITC analyses.
BIOPHYSICAL JOURNAL
(2022)
Article
Plant Sciences
Hazar Balti, Mejda Abassi, Karl-Josef Dietz, Vijay Kumar
Summary: In this study, three different Eucalyptus ecotypes with potential differential salt sensitivity were compared, with Eucalyptus loxophleba showing efficient K+-Na+ balance and a more dynamic range of redox changes in photosynthetic electron transport chain components.
Article
Biochemistry & Molecular Biology
Thomas Oliver, Patricia Sanchez-Baracaldo, Anthony W. Larkum, A. William Rutherford, Tanai Cardona
Summary: This study compares the core antenna subunit duplication in photosystem II with early events in the history of life, providing additional evidence supporting the premise that water oxidation originated closer to the origin of life and bioenergetics than previously thought.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS
(2021)
Article
Chemistry, Multidisciplinary
Yuxi Lin, So-Hyeon Park, Eugene Bok, Yunseok Heo, Seong-Bin Yang, Yoon-Sun Yi, Jun-Hyuck Lee, Donghyun Seo, Eunae Jo, Sungsu Lim, Yun Kyung Kim, Jozsef Kardos, Kyoung-Seok Ryu, Jaekwang Kim, Jooho Park, Young-Ho Lee
Summary: This study synthesized a novel amphiphilic sub-nanosized material, RR-BA, which showed specific binding to α SN through electrostatic interactions and induced amyloid fibrillation. RR-BA had no noticeable effect on the amyloid formation of K18 and Aβ42 due to weak and non-specific interactions.
Article
Multidisciplinary Sciences
Richard G. Dorrell, Adrien Villain, Benoit Perez-Lamarque, Guillemette Audren de Kerdrel, Giselle McCallum, Andrew K. Watson, Ouardia Ait-Mohamed, Adriana Alberti, Erwann Corre, Kyle R. Frischkorn, Juan J. Pierella Karlusich, Eric Pelletier, Helene Morlon, Chris Bowler, Guillaume Blanc
Summary: Horizontal gene transfer is an important source of genetic novelty in eukaryotic genomes, particularly in ochrophytes like diatoms. Bacterial HGTs have been identified as the predominant source of recently arrived genes in diatoms, enriching genes encoding secreted proteins and contributing to their evolution. The study provides insights into the frequency, sources, and functional contributions of HGT in algal evolution.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Microbiology
Eva Kotabova, Ronald Malych, Juan Jose Pierella Karlusich, Elena Kazamia, Meri Eichner, Jan Mach, Emmanuel Lesuisse, Chris Bowler, Ondrej Prasil, Robert Sutak
Summary: The study investigated the importance of iron availability in the productivity of the ocean, focusing on the adaptation mechanisms of marine phytoplankton B. natans to iron scarcity. It identified key proteins involved in iron metabolism and revealed insights into phytoplankton responses to changing iron environments through large-scale data analysis.
Article
Plant Sciences
Juan Jose Pierella Karlusich, Chris Bowler, Haimanti Biswas
Summary: Marine diatoms efficiently sequester atmospheric CO2 to the ocean interior through the biological carbon pump, primarily relying on physical CO2 concentration mechanisms. Tara Oceans expeditions provided insights into the genetic and transcriptional flexibility of diatoms under natural CO2 variability across different environments. The distribution of enzymes related to CO2 concentration in diatoms varied in different size fractions, suggesting the influence of biophysical mechanisms in natural diatom communities.
FRONTIERS IN PLANT SCIENCE
(2021)
Correction
Ecology
Tom O. Delmont, Juan Jose Pierella Karlusich, Iva Veseli, Jessika Fuessel, A. Murat Eren, Rachel A. Foster, Chris Bowler, Patrick Wincker, Eric Pelletier
Article
Ecology
Tom O. Delmont, Juan Jose Pierella Karlusich, Iva Veseli, Jessika Fuessel, A. Murat Eren, Rachel A. Foster, Chris Bowler, Patrick Wincker, Eric Pelletier
Summary: The study utilized metagenomic data from various oceans to identify new marine diazotrophs, expanding the known diversity of nitrogen fixers in the ocean. These diazotrophs include cyanobacterial and heterotrophic bacterial populations, highlighting their importance in the marine nitrogen balance.
Article
Biochemistry & Molecular Biology
Juan Jose Pierella Karlusich, Eric Pelletier, Lucie Zinger, Fabien Lombard, Adriana Zingone, Sebastien Colin, Josep M. Gasol, Richard G. Dorrell, Nicolas Henry, Eleonora Scalco, Silvia G. Acinas, Patrick Wincker, Colomban de Vargas, Chris Bowler
Summary: Phytoplankton, accounting for over 45% of global primary production, play a significant role in aquatic food webs and the Earth System. However, current genetic surveys using PCR amplification of rRNA genes have limitations. This study introduces a PCR-free method targeting the photosynthetic gene psbO, showing improved correlations with flow cytometry and microscopy and providing new insights into the ecology of phytoplankton communities.
MOLECULAR ECOLOGY RESOURCES
(2023)
Article
Biochemistry & Molecular Biology
Rocio C. Arce, Nestor Carrillo, Juan J. Pierella Karlusich
Summary: This study analyzed the transcriptomes of solanaceous plants and investigated the impact of chloroplast redox status on nuclear transcriptional responses during normal growth and stress. The results showed that the expression of flavodoxin and stress influenced the expression of genes related to ROS. By constructing a large-scale interaction network, transcription factors related to ROS and stress responses were identified. Additionally, the study discovered specific cis-elements in the promoters of genes associated with flavodoxin, suggesting a priming effect before stress manifestation.
PLANT MOLECULAR BIOLOGY
(2022)
Article
Ecology
Antoine Regimbeau, Marko Budinich, Abdelhalim Larhlimi, Juan Jose Pierella Karlusich, Olivier Aumont, Laurent Memery, Chris Bowler, Damien Eveillard
Summary: This study proposes a new conceptual niche called metabolic niche, which resumes the whole metabolic capabilities of an organism, and explores the key genes essential for the metabolic niche through statistical analysis.
Article
Environmental Sciences
Juan Jose Pierella Karlusich, Fabien Lombard, Jean-Olivier Irisson, Chris Bowler, Rachel A. Foster
Summary: This article introduces the major challenges in characterizing plankton communities and the methods of high throughput imaging and nucleic acid sequencing. High throughput imaging enables rapid enumeration and estimation of biomass of plankton, as well as providing valuable phenotypic information. Machine learning classifiers also play an important role in classifying marine plankton images in a time efficient way. However, there is still a need for more training datasets of manually annotated images. The article also describes a publicly available web application, EcoTaxa, which offers tools for the rapid validation of plankton. Furthermore, the article discusses the impact of citizen science programs, unmanned autonomous platforms, and sequencing and digitalization of historical plankton samples on the field.
FRONTIERS IN MARINE SCIENCE
(2022)
Review
Microbiology
Andre Abreu, Etienne Bourgois, Adam Gristwood, Romain Trouble, Silvia G. Acinas, Peer Bork, Emmanuel Boss, Chris Bowler, Marko Budinich, Samuel Chaffron, Colomban de Vargas, Tom O. Delmont, Damien Eveillard, Lionel Guidi, Daniele Iudicone, Stephanie Kandels, Helene Morlon, Fabien Lombard, Rainer Pepperkok, Juan Jose Pierella Karlusich, Gwenael Piganeau, Antoine Regimbeau, Guilhem Sommeria-Klein, Lars Stemmann, Matthew B. Sullivan, Shinichi Sunagawa, Patrick Wincker, Olivier Zablocki, Detlev Arendt, Josipa Bilic, Robert Finn, Edith Heard, Brendan Rouse, Jessica Vamathevan, Raffaella Casotti, Ibon Cancio, Michael Cunliffe, Anne Emmanuelle Kervella, Wiebe H. C. F. Kooistra, Matthias Obst, Nicolas Pade, Deborah M. Power, Ioulia Santi, Tatiana Margo Tsagaraki, Jan Vanaverbeke
Summary: Studying the ocean microbiome is crucial for ocean governance, addressing climate change and pollution, and achieving multiple Sustainable Development Goals. Microbes play essential roles in marine ecology, participating in nutrient cycles, carbon dioxide removal, and supporting marine food webs. Technological advances have allowed for a better understanding of the taxonomic and functional diversity of the global ocean microbiome. Understanding and protecting the ocean microbiome can contribute to addressing environmental and societal challenges.
NATURE MICROBIOLOGY
(2022)
Article
Biology
Richard G. Dorrell, Alan Kuo, Zoltan Fussy, Elisabeth H. Richardson, Asaf Salamov, Nikola Zarevski, Nastasia J. Freyria, Federico M. Ibarbalz, Jerry Jenkins, Juan Jose Pierella Karlusich, Andrei Stecca Steindorff, Robyn E. Edgar, Lori Handley, Kathleen Lail, Anna Lipzen, Vincent Lombard, John McFarlane, Charlotte Nef, Anna M. G. Novak Vanclova, Yi Peng, Chris Plott, Marianne Potvin, Fabio Rocha Jimenez Vieira, Kerrie Barry, Colomban de Vargas, Bernard Henrissat, Eric Pelletier, Jeremy Schmutz, Patrick Wincker, Joel B. Dacks, Chris Bowler, Igor Grigoriev, Connie Lovejoy
Summary: Microbial communities in the world ocean are influenced by oceanic circulation, resulting in distinct marine biomes. This study sequenced microalgae lineages isolated from Arctic waters and sea ice to investigate their evolution and adaptive mechanisms. The findings suggest that Arctic microalgae may have evolved separately from algae in the global ocean, and horizontal gene transfer played a role in their adaptation to the Arctic environment.
LIFE SCIENCE ALLIANCE
(2022)
Review
Biochemistry & Molecular Biology
Meri Eichner, Keisuke Inomura, Juan Jose Pierella Karlusich, Yeala Shaked
Summary: This review explores the benefits and disadvantages of colony formation in the N2-fixing cyanobacterium Trichodesmium, and examines its effects on physical, chemical, and biological factors at different scales. The authors argue that Trichodesmium's ecological success is closely linked to its colonial lifestyle, and propose that the dynamics of colony formation are key to the resilience of Trichodesmium and other colony formers in a changing environment.
TRENDS IN MICROBIOLOGY
(2023)
Article
Microbiology
Keisuke Inomura, Juan Jose Pierella Karlusich, Stephanie Dutkiewicz, Curtis Deutsch, Paul J. Harrison, Chris Bowler
Summary: This study addresses the long-standing issue of the fast growth of diatoms. Diatoms, which are phytoplankton with silica frustules, dominate in polar and upwelling regions as the world's most productive microorganisms. Their high growth rates are supported by their reduced carbon requirements and low energetic costs for silica frustule production.
MICROBIOLOGY SPECTRUM
(2023)
Letter
Plant Sciences
Mariana Demarchi, Rocio C. Arce, Mabel Campi, Juan J. Pierella Karlusich, Mohammad-Reza Hajirezaei, Michael Melzer, Anabella F. Lodeyro, Raquel L. Chan, Nestor Carrillo
Article
Ecology
Janaina Rigonato, Marko Budinich, Alejandro Murillo, Manoela Brandao, Juan J. Pierella Karlusich, Yawouvi Dodji Soviadan, Ann Gregory, Hisashi Endo, Florian Kokoszka, Dean Vik, Nicolas Henry, Paul Fremont, Karine Labadie, Ahmed Zayed, Celine Dimier, Marc B. Picheral, Sarah Searson, Julie Poulain, Stefanie Kandels, Stephane Pesant, Eric Karsenti, Tara Oceans Coordinators, Peer Bork, Chris Bowler, Colomban de Vargas, Damien Eveillard, Marion Gehlen, Daniele Iudicone, Fabien Lombard, Hiroyuki Ogata, Lars Stemmann, Matthew B. Sullivan, Shinichi Sunagawa, Patrick Wincker, Samuel Chaffron, Olivier Jaillon
Summary: This study conducted comparative analyses of plankton communities in the mesopelagic zone and identified nine distinct types of intermediate water masses that correlate with variation in community composition. Oxygen, NO3-, and particle flux were found to be the main drivers of these communities. Additionally, novel taxonomic signatures were discovered in the oxygen minimum zone (OMZ). The study further elucidates the interplay between environmental factors and the compositional features of plankton communities in the mesopelagic zone.
ISME COMMUNICATIONS
(2023)