Article
Biochemical Research Methods
Taiyu Chen, Yi Fang, Qiuyao Jiang, Gregory F. Dykes, Yongjun Lin, G. Dean Price, Benedict M. Long, Lu-Ning Liu
Summary: The carboxysome is an important prokaryotic organelle involved in carbon fixation. This study successfully engineered alpha-carboxysomes and found that incorporating certain components can enhance their CO2 fixation activities. Additionally, the structure of carboxysomes can be modified through different expression systems.
ACS SYNTHETIC BIOLOGY
(2022)
Review
Microbiology
Markus Sutter, Cheryl A. Kerfeld, Kathleen M. Scott
Summary: Carboxysomes are proteinaceous microcompartments responsible for a significant amount of CO2 fixation on Earth. They facilitate CO2 fixation by concentrating it in cells and converting HCO3- to CO2. The structural components and genetic context of atypical carboxysomes are described in this review.
FRONTIERS IN MICROBIOLOGY
(2022)
Review
Plant Sciences
Elena V. Kupriyanova, Natalia A. Pronina, Dmitry A. Los
Summary: This review summarizes recent advances in the study of intracellular accumulation of inorganic carbon (C-i) in microalgae and cyanobacteria, revealing the third CO2-concentrating mechanism (CCM) in addition to the known CCM schemes in CAM and C-4 higher plants. CCM enables efficient CO2 fixation in the reductive pentose phosphate (RPP) cycle by coordinating carbonic anhydrases and CO2/HCO3- uptake systems. It functions as an add-on to the RPP cycle and as an important regulatory link in the interaction of dark and light reactions of photosynthesis.
Article
Biology
Markus Sutter, Cheryl A. Kerfeld
Summary: Bacterial microcompartments (BMCs) are protein-based organelles with unique shell proteins and selective permeability. We have developed a webserver tool using HMM profiles to analyze and categorize BMCs, providing users with information and a reference database.
Review
Microbiology
Jessica M. Ochoa, Todd O. Yeates
Summary: Bacterial microcompartments are organelle-like structures composed entirely of proteins that enhance metabolic functions. Recent studies have highlighted nuanced variations in microcompartment shell proteins, showing how variation and specialization enable complex molecular machine construction. Engineering synthetic miniaturized microcompartment shells provides additional frameworks for dissecting principles of microcompartment structure and assembly.
CURRENT OPINION IN MICROBIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Lingaswamy Bantu, Suraj Chauhan, Afshan Srikumar, Yoshihisa Hirakawa, Iwane Suzuki, Martin Hagemann, Jogadhenu S. S. Prakash
Summary: A cAMP-dependent transcription factor, SyCRP1, is found to mediate the response to inorganic carbon (C-i) in Synechocystis. The mutant delta sycrp1 displays a slow-growth phenotype and reduced photosynthetic electron transport rate under limited CO2. The number of carboxysomes is significantly decreased in the mutant, consistent with its reduced photosynthetic activity. DNA microarray analysis reveals the upregulation of C-i transporter genes in the mutant. The membrane-localized SyCRP1 is released into the cytosol under sufficient CO2 or cAMP treatment. These findings suggest that SyCRP1 may be a regulator of the carbon concentrating mechanism by sensing C-i levels through cAMP signaling.
BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS
(2022)
Review
Microbiology
Matthew R. Melnicki, Markus Sutter, Cheryl A. Kerfeld
Summary: Bacterial microcompartments (BMCs) are self-assembling prokaryotic organelles that encapsulate enzymes within a polyhedral protein shell. The shells are composed of distinct domains forming pentagonal and hexagonal building blocks. Recent phylogenomic surveys have revealed specific structural features of BMCs' building blocks, suggesting distinct functional roles across diverse BMC families.
CURRENT OPINION IN MICROBIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Hui Sun, Ning Cui, Shu-Jing Han, Zhi-Peng Chen, Ling-Yun Xia, Yuxing Chen, Yong-Liang Jiang, Cong-Zhao Zhou
Summary: Carboxysome is a self-assembled microcompartment that sequesters enzymes inside a protein shell. The research suggests that CcmM and CcmN may act as adaptors to facilitate the recruitment of shell proteins and the assembly of intact beta-carboxysome.
Review
Environmental Sciences
Daniel A. Raba, Cheryl A. Kerfeld
Summary: The application of nanotechnology to plants, known as phytonanotechnology, has the potential to revolutionize plant research and agricultural production, improving crop yield and disease resistance.
ENVIRONMENTAL MICROBIOLOGY REPORTS
(2022)
Article
Multidisciplinary Sciences
Daniel S. Trettel, Chris Neale, Mingfei Zhao, S. Gnanakaran, C. Raul Gonzalez-Esquer
Summary: Bacterial microcompartments (BMCs) are protein organelles with an inner enzymatic core encased in a selectively permeable shell. It has been found that the properties of the shell affect ion permeability, which in turn influences the permeation rate of substrates.
SCIENTIFIC REPORTS
(2023)
Article
Microbiology
Yaqi Sun, Victoria M. Harman, James R. Johnson, Philip J. Brownridge, Taiyu Chen, Gregory F. Dykes, Yongjun Lin, Robert J. Beynon, Lu-Ning Liu
Summary: Carboxysomes are bacterial microcompartments that play a crucial role in carbon fixation. This study uncovers the composition and structural plasticity of the alpha-carboxysomes using quantitative mass spectrometry. The results provide insight into the assembly of carboxysomes and may aid in the design and reprogramming of carboxysomes for biotechnological applications.
Article
Chemistry, Multidisciplinary
Farzaneh Mohajerani, Evan Sayer, Christopher Neil, Koe Inlow, Michael F. Hagan
Summary: This article discusses the assembly process of protein shells around a complex, inspired by bacterial microcompartments. It predicts the relationships between shell size, amount of encapsulated cargo, and assembly pathways through interactions between scaffold proteins and cargo. The results have implications for synthetic biology efforts and shed light on how cells utilize self-assembly and liquid-liquid phase separation to organize their interiors.
Article
Biochemistry & Molecular Biology
Daniel S. Trettel, William Resager, Beatrix M. Ueberheide, Conor C. Jenkins, Wade C. Winkler
Summary: Bacterial microcompartments (BMCs) are structures found in bacteria that are used for various metabolic purposes. By using chemical probes, the structure of a native BMC was observed, revealing that the shell layer is more dynamic than previously thought. Analysis of cross-linking chemical probes showed a complex multivalent network among cargo proteins, supporting the idea that biomolecular condensation drives interactions between cargo and shell proteins before encapsulation.
Article
Microbiology
Rees Rillema, Y. Hoang, Joshua S. MacCready, Anthony G. Vecchiarelli
Summary: Research shows that improper distribution of carboxysomes in cyanobacteria can result in slower cell growth, cell elongation, asymmetric cell division, and elevated levels of cellular Rubisco. Additionally, even wild-type S. elongatus undergoes cell elongation and asymmetric cell division when grown at lower temperatures or switched from high to ambient CO2 conditions. This suggests that the McdAB system plays a crucial role in maintaining the carbon fixation efficiency of Rubisco in cyanobacteria.
Article
Multidisciplinary Sciences
Yoshihiko Furuike, Atsushi Mukaiyama, Shin-Ichi Koda, Damien Simon, Dongyan Ouyang, Kumiko Ito-Miwa, Shinji Saito, Eiki Yamashita, Taeko Nishiwaki-Ohkawa, Kazuki Terauchi, Takao Kondo, Shuji Akiyama
Summary: KaiC is a dual ATPase that drives the circadian clock system of cyanobacteria through the coordination of its N-terminal and C-terminal active sites. The activities of these two sites are regulated differently and their delicate interactions drive the assembly and disassembly cycle of KaiA and KaiB.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Biochemistry & Molecular Biology
Shenhui Lang, Marisa Cressatti, Kris E. Mendoza, Chelsea N. Coumoundouros, Samantha M. Plater, Doreen E. Culham, Matthew S. Kimber, Janet M. Wood
Article
Biochemistry & Molecular Biology
Jitae Kim, Matthew S. Kimber, Kenji Nishimura, Giulia Friso, Lance Schultz, Lalit Ponnala, Klaas J. van Wijk
Article
Microbiology
Elyse J. Roach, Charles Wroblewski, Laura Seidel, Alison M. Berezuk, Dyanne Brewer, Matthew S. Kimber, Cezar M. Khursigara
JOURNAL OF BACTERIOLOGY
(2016)
Article
Biochemistry & Molecular Biology
Evan Mann, Evan Mallette, Bradley R. Clarke, Matthew S. Kimber, Chris Whitfield
JOURNAL OF BIOLOGICAL CHEMISTRY
(2016)
Article
Biochemistry & Molecular Biology
Scott Mazurkewich, Ashley S. Brott, Matthew S. Kimber, Stephen Y. K. Seah
JOURNAL OF BIOLOGICAL CHEMISTRY
(2016)
Article
Biochemistry & Molecular Biology
Evan Mallette, Matthew S. Kimber
JOURNAL OF BIOLOGICAL CHEMISTRY
(2017)
Article
Multidisciplinary Sciences
Olga G. Ovchinnikova, Evan Mallette, Akihiko Koizumi, Todd L. Lowary, Matthew S. Kimber, Chris Whitfield
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2016)
Article
Biochemistry & Molecular Biology
Evan Mallette, Matthew S. Kimber
Article
Biochemistry & Molecular Biology
Patrick Ryan, Taylor J. B. Forrester, Charles Wroblewski, Tristan M. G. Kenney, Elena N. Kitova, John S. Klassen, Matthew S. Kimber
JOURNAL OF BIOLOGICAL CHEMISTRY
(2019)
Article
Biochemistry & Molecular Biology
Evan Mallette, Matthew S. Kimber
JOURNAL OF BIOLOGICAL CHEMISTRY
(2018)
Article
Biochemistry & Molecular Biology
Liam Doyle, Olga G. Ovchinnikova, Katharine Myler, Evan Mallette, Bo-Shun Huang, Todd L. Lowary, Matthew S. Kimber, Chris Whitfield
NATURE CHEMICAL BIOLOGY
(2019)
Article
Biochemistry & Molecular Biology
Rebecca Aggett, Evan Mallette, Stephanie E. Gilbert, Melody A. Vachon, Kurt L. Schroeter, Matthew S. Kimber, Stephen Y. K. Seah
JOURNAL OF BIOLOGICAL CHEMISTRY
(2019)
Article
Biochemistry & Molecular Biology
Bradley R. Clarke, Olga G. Ovchinnikova, Ryan P. Sweeney, Evelyn R. Kamski-Hennekam, Russel Gitalis, Evan Mallette, Steven D. Kelly, Todd L. Lowary, Matthew S. Kimber, Chris Whitfield
NATURE CHEMICAL BIOLOGY
(2020)
Article
Biochemistry & Molecular Biology
Alexander J. Stirling, Stephanie E. Gilbert, Megan Conner, Evan Mallette, Matthew S. Kimber, Stephen Y. K. Seah
Article
Biochemistry & Molecular Biology
Steven D. Kelly, Danielle M. Williams, Jeremy T. Nothof, Taeok Kim, Todd L. Lowary, Matthew S. Kimber, Chris Whitfield
Summary: Bacterial surface polysaccharides are synthesized by glycosyltransferases using sugar nucleotide or activated donors. This study identified dual-domain ribofuranosyltransferase proteins that catalyze a two-step reaction sequence for ribofuranose residues found in some polysaccharides. The discovery of these proteins provides insights into the synthesis and function of bacterial polysaccharides.
NATURE CHEMICAL BIOLOGY
(2022)