4.6 Article

Imaging Minimal Bacteria at the Nanoscale: a Reliable and Versatile Process to Perform Single-Molecule Localization Microscopy in Mycoplasmas

Related references

Note: Only part of the references are listed.
Article Biochemistry & Molecular Biology

Fundamental behaviors emerge from simulations of a living minimal cell

Zane R. Thornburg et al.

Summary: This study presents a whole-cell fully dynamical kinetic model (WCM) of JCVI-syn3A, a minimal cell, to investigate its behavior and provide insights into the principles of life for this microorganism. The model reveals the strategies employed by the cell to balance its metabolism, genetic processes, and growth, and analyzes the energy economy of various processes. Integration of experimental data in building the kinetic model allows for the prediction of mRNA half-lives, comparison with qPCR results, and observation of doubling behavior.
Article Biochemistry & Molecular Biology

Building Structural Models of a Whole Mycoplasma Cell

Martina Maritan et al.

Summary: Building structural models of entire cells presents a challenge that requires integration of multiple sources of biological data and enhanced computational modeling methods. The study presents 3D structural models of an entire Mycoplasma genitalium cell, combining experimental and homology-modeled structures to provide a structural representation for all proteins, DNA, and RNA molecules. The models establish a framework for further research and exploration of mesoscale properties, highlighting the importance of data gathering methodologies.

JOURNAL OF MOLECULAR BIOLOGY (2022)

Article Multidisciplinary Sciences

The mycoplasma surface proteins MIB and MIP promote the dissociation of the antibody-antigen interaction

Pierre Nottelet et al.

Summary: MIB and MIP are surface proteins in mycoplasmas that sequentially capture antibodies and cleave off their V-H domains. Through a mechanism called the "hug of death", these proteins twist the orientation of the V-L and V-H domains to disrupt the antigen binding site and promote the dissociation of the antibody-antigen complex, helping mycoplasmas evade immune responses.

SCIENCE ADVANCES (2021)

Article Chemistry, Multidisciplinary

Site-Specifically-Labeled Antibodies for Super-Resolution Microscopy Reveal In Situ Linkage Errors

Susanna M. Frueh et al.

Summary: In this study, a simple two-step protocol was developed to site-specifically attach reporters to IgG antibodies, and their performance in super-resolution microscopy techniques was evaluated. The results showed that errors from primary and secondary antibodies did not add up, and simulations revealed the main factors contributing to the errors.

ACS NANO (2021)

Article Microbiology

Functional Characterization of the Cell Division Gene Cluster of the Wall-less Bacterium Mycoplasma genitalium

Carlos Martinez-Torro et al.

Summary: The cell division gene cluster is non-essential for in vitro growth of the wall-less prokaryote Mycoplasma genitalium, with loss of the mraZ gene having a more detrimental effect on growth than deletion of ftsZ or the whole gene cluster. Transcriptional and proteomics analysis revealed upregulation of FtsZ in mraZ-deprived cells and in non-adherent cells of M. genitalium. Single cell analysis showed coordinated localization of FtsZ with the chromosome and terminal organelle throughout the cell cycle of M. genitalium, indicating a possible post-transcriptional regulatory role of the RNA methyltransferase MraW in FtsZ expression.

FRONTIERS IN MICROBIOLOGY (2021)

Article Multidisciplinary Sciences

Single-molecule localization microscopy

Mickael Lelek et al.

Summary: Single-molecule localization microscopy (SMLM) is a powerful imaging technique that allows imaging of biological structures at the molecular scale with improved spatial resolution. By computationally localizing individual fluorescent molecules, super-resolution images can be generated, and experimental considerations and computational processing methods are discussed.

NATURE REVIEWS METHODS PRIMERS (2021)

Review Biochemical Research Methods

About samples, giving examples: Optimized Single Molecule Localization Microscopy

Angelique Jimenez et al.

METHODS (2020)

Article Biochemical Research Methods

MINFLUX nanoscopy delivers 3D multicolor nanometer resolution in cells

Klaus C. Gwosch et al.

NATURE METHODS (2020)

Article Multidisciplinary Sciences

Identification and sequence analyses of the gliding machinery proteins from Mycoplasma mobile

Isil Tulum et al.

SCIENTIFIC REPORTS (2020)

Review Cell Biology

Quantitative Data Analysis in Single-Molecule Localization Microscopy

Yu-Le Wu et al.

TRENDS IN CELL BIOLOGY (2020)

Review Computer Science, Artificial Intelligence

A Review of Super-Resolution Single-Molecule Localization Microscopy Cluster Analysis and Quantification Methods

Ismail M. Khater et al.

PATTERNS (2020)

Article Biochemistry & Molecular Biology

PlotsOfDataA web app for visualizing data together with their summaries

Marten Postma et al.

PLOS BIOLOGY (2019)

Article Multidisciplinary Sciences

Random transposon insertion in the Mycoplasma hominis minimal genome

Fabien Rideau et al.

SCIENTIFIC REPORTS (2019)

Article Biochemical Research Methods

Expansion microscopy: principles and uses in biological research

Asmamaw T. Wassie et al.

NATURE METHODS (2019)

Article Biology

Essential metabolism for a minimal cell

Marian Breuer et al.

ELIFE (2019)

Article Infectious Diseases

Update on Mycoplasma hyopneumoniae infections in pigs: Knowledge gaps for improved disease control

D. Maes et al.

TRANSBOUNDARY AND EMERGING DISEASES (2018)

Review Chemistry, Multidisciplinary

MaxSynBio: Avenues Towards Creating Cells from the Bottom Up

Petra Schwille et al.

ANGEWANDTE CHEMIE-INTERNATIONAL EDITION (2018)

Editorial Material Biochemical Research Methods

Improving probes for super-resolution

Regan P. Moore et al.

NATURE METHODS (2018)

Review Biochemistry & Molecular Biology

The Growing and Glowing Toolbox of Fluorescent and Photoactive Proteins

Erik A. Rodriguez et al.

TRENDS IN BIOCHEMICAL SCIENCES (2017)

Review Chemistry, Multidisciplinary

Unraveling the Thousand Word Picture: An Introduction to Super-Resolution Data Analysis

Antony Lee et al.

CHEMICAL REVIEWS (2017)

Review Chemistry, Multidisciplinary

Single-Molecule Localization Microscopy in Eukaryotes

Markus Sauer et al.

CHEMICAL REVIEWS (2017)

Article Biochemical Research Methods

In-Yeast Engineering of a Bacterial Genome Using CRISPR/Cas9

Iason Tsarmpopoulos et al.

ACS SYNTHETIC BIOLOGY (2016)

Review Biochemical Research Methods

From single molecules to life: microscopy at the nanoscale

Bartosz Turkowyd et al.

ANALYTICAL AND BIOANALYTICAL CHEMISTRY (2016)

Article Biotechnology & Applied Microbiology

Development of fluorescence expression tools to study host-mycoplasma interactions and validation in two distant mycoplasma clades

Tiffany Bonnefois et al.

JOURNAL OF BIOTECHNOLOGY (2016)

Article Biochemistry & Molecular Biology

Impact of donor-recipient phylogenetic distance on bacterial genome transplantation

Fabien Labroussaa et al.

NUCLEIC ACIDS RESEARCH (2016)

Article Multidisciplinary Sciences

MIB-MIP is a mycoplasma system that captures and cleaves immunoglobulin G

Yonathan Arfi et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2016)

Article Multidisciplinary Sciences

Design and synthesis of a minimal bacterial genome

Clyde A. Hutchison et al.

SCIENCE (2016)

Article Multidisciplinary Sciences

GFP as a marker for transient gene transfer and expression in Mycoplasma hyorhinis

Hassan Z. A. Ishag et al.

SPRINGERPLUS (2016)

Review Infectious Diseases

Management of non-gonococcal urethritis

Harald Moi et al.

BMC INFECTIOUS DISEASES (2015)

Article Biochemistry & Molecular Biology

Defining a minimal cell: essentiality of small ORFs and ncRNAs in a genome-reduced bacterium

M. Lluch-Senar et al.

Molecular Systems Biology (2015)

Article Biochemical Research Methods

SR-Tesseler: a method to segment and quantify localization-based super-resolution microscopy data

Florian Levet et al.

NATURE METHODS (2015)

Article Microbiology

Systematic Structural Analyses of Attachment Organelle in Mycoplasma pneumoniae

Daisuke Nakane et al.

PLOS PATHOGENS (2015)

Review Chemistry, Analytical

Unveiling the Inner Workings of Live Bacteria Using Super-Resolution Microscopy

Hannah H. Tuson et al.

ANALYTICAL CHEMISTRY (2015)

Review Biophysics

Super-resolution Microscopy Approaches for Live Cell Imaging

Antoine G. Godin et al.

BIOPHYSICAL JOURNAL (2014)

Review Microbiology

Exploring bacterial cell biology with single-molecule tracking and super-resolution imaging

Andreas Gahlmann et al.

NATURE REVIEWS MICROBIOLOGY (2014)

Article Pediatrics

Treatment of Mycoplasma Pneumonia: A Systematic Review

Eric Biondi et al.

PEDIATRICS (2014)

Article Multidisciplinary Sciences

Characterization and development of photoactivatable fluorescent proteins for single-molecule-based superresolution imaging

Siyuan Wang et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)

Article Multidisciplinary Sciences

Biased Brownian stepping rotation of FoF1-ATP synthase driven by proton motive force

Rikiya Watanabe et al.

NATURE COMMUNICATIONS (2013)

Article Biochemistry & Molecular Biology

A Whole-Cell Computational Model Predicts Phenotype from Genotype

Jonathan R. Karr et al.

Article Biochemical Research Methods

A simple, versatile method for GFP-based super-resolution microscopy via nanobodies

Jonas Ries et al.

NATURE METHODS (2012)

Article Biochemical Research Methods

Rational design of true monomeric and bright photoactivatable fluorescent proteins

Mingshu Zhang et al.

NATURE METHODS (2012)

Article Optics

Wavelet analysis for single molecule localization microscopy

I. Izeddin et al.

OPTICS EXPRESS (2012)

Article Multidisciplinary Sciences

Specific Evolution of F1-Like ATPases in Mycoplasmas

Laure Beven et al.

PLOS ONE (2012)

Review Instruments & Instrumentation

Review of Super-Resolution Fluorescence Microscopy for Biology

Bonnie O. Leung et al.

APPLIED SPECTROSCOPY (2011)

Review Microbiology

Mycoplasma genitalium: from Chrysalis to Multicolored Butterfly

David Taylor-Robinson et al.

CLINICAL MICROBIOLOGY REVIEWS (2011)

Article Multidisciplinary Sciences

Core Proteome of the Minimal Cell: Comparative Proteomics of Three Mollicute Species

Gleb Y. Fisunov et al.

PLOS ONE (2011)

Review Cell Biology

Essence of life: essential genes of minimal genomes

Mario Juhas et al.

TRENDS IN CELL BIOLOGY (2011)

Review Biochemical Research Methods

Building the blueprint of life

Christopher S. Henry et al.

BIOTECHNOLOGY JOURNAL (2010)

Review Cell Biology

A guide to super-resolution fluorescence microscopy

Lothar Schermelleh et al.

JOURNAL OF CELL BIOLOGY (2010)

Article Biochemistry & Molecular Biology

Cell division in a minimal bacterium in the absence of ftsZ

Maria Lluch-Senar et al.

MOLECULAR MICROBIOLOGY (2010)

Article Biochemical Research Methods

Detection of Mycoplasma in cell cultures

Lesley Young et al.

NATURE PROTOCOLS (2010)

Article Microbiology

First report of a tetracycline-inducible gene expression system for mollicutes

Marc Breton et al.

MICROBIOLOGY-SGM (2010)

Article Multidisciplinary Sciences

Creation of a Bacterial Cell Controlled by a Chemically Synthesized Genome

Daniel G. Gibson et al.

SCIENCE (2010)

Article Biochemical Research Methods

Photoactivatable mCherry for high-resolution two-color fluorescence microscopy

Fedor V. Subach et al.

NATURE METHODS (2009)

Review Infectious Diseases

Mycoplasma pneumoniae -: an emerging extra-pulmonary pathogen

F. M. Sanchez-Vargas et al.

CLINICAL MICROBIOLOGY AND INFECTION (2008)

Article Multidisciplinary Sciences

Cytoskeletal jellyfish structure of Mycoplasma mobile

Daisuke Nakane et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2007)

Article Microbiology

Evolution of mollicutes:: down a bumpy road with twists and turns

Pascal Sirand-Pugnet et al.

RESEARCH IN MICROBIOLOGY (2007)

Article Multidisciplinary Sciences

Terminal organelle development in the cell wall-less bacterium Mycloplasma pneumoniae

Benjamin M. Hasselbring et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)

Article Biotechnology & Applied Microbiology

Engineering of a monomeric green-to-red photoactivatable fluorescent protein induced by blue light

NG Gurskaya et al.

NATURE BIOTECHNOLOGY (2006)

Article Microbiology

Synthesis of a small, cysteine-rich, 29 amino acids long peptide in Mycoplasma pneumoniae

CU Zimmerman et al.

FEMS MICROBIOLOGY LETTERS (2005)

Review Agriculture, Dairy & Animal Science

Mycoplasma gallisepticum:: Current and developing means to control the avian pathogen

JD Evans et al.

JOURNAL OF APPLIED POULTRY RESEARCH (2005)

Review Veterinary Sciences

Mycoplasma bovis: disease, diagnosis, and control

RAJ Nicholas et al.

RESEARCH IN VETERINARY SCIENCE (2003)

Article Multidisciplinary Sciences

Subunit rotation of ATP synthase embedded in membranes:: a or β subunit rotation relative to the c subunit ring

K Nishio et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2002)