Evaluation of three-dimensional gel electrophoresis to improve quantitative profiling of complex proteomes

PROTEOMICS ◽  
2013 ◽  
Vol 13 (14) ◽  
pp. 2077-2082 ◽  
Author(s):  
Bertrand Colignon ◽  
Martine Raes ◽  
Marc Dieu ◽  
Edouard Delaive ◽  
Sergio Mauro
Keyword(s):  
Gel Electrophoresis ◽  
Three Dimensional ◽  
Quantitative Profiling

scholarly journals Development of a highly sensitive three-dimensional gel electrophoresis method for characterization of monoclonal protein heterogeneity

2013 ◽  
Vol 438 (2) ◽  
pp. 117-123 ◽  
Author(s):  
Keiichi Nakano ◽  
Shogo Tamura ◽  
Kohei Otuka ◽  
Noriyasu Niizeki ◽  
Masahiko Shigemura ◽  
...  
Keyword(s):  
Gel Electrophoresis ◽  
Three Dimensional ◽  
Monoclonal Protein ◽  
Highly Sensitive ◽  
Electrophoresis Method

Quantitative profiling and dynamics of mRNA modifications in Escherichia coli

2021 ◽  
Author(s):  
Dimitar Plamenov Petrov ◽  
Steffen Kaiser ◽  
Stefanie Kaiser ◽  
Kirsten Jung
Keyword(s):  
Mass Spectrometry ◽  
Escherichia Coli ◽  
Stationary Phase ◽  
Exponential Growth ◽  
Gel Electrophoresis ◽  
E Coli ◽  
Physiological Processes ◽  
Mrna Methylation ◽  
Important Regulator ◽  
Quantitative Profiling

mRNA methylation is an important regulator of many physiological processes in eukaryotes but has not been studied in depth in prokaryotes. In contrast to the large number of eukaryotic mRNA modifications that have been described, N6-methyladenosine (m6A) is the only modification of bacterial mRNA identified to date. Here, we used a gel electrophoresis-based RNA separation method and quantitatively analyzed the mRNA-specific modification profile of Escherichia coli using mass spectrometry. In addition to m6A, we provide evidence for the presence of 7-methylguanosine (m7G), and we found first hints for 5-methylcytidine (m5C), N6,N6-dimethyladenosine (m6,6A), 1-methylguanosine (m1G), 5-methyluridine (m5U), and pseudouridine (Ψ) in the mRNA of E. coli, which implies that E. coli has a complex mRNA modification pattern. Furthermore, we observed changes in the abundance of some mRNA modifications during the transition of E. coli from the exponential growth to the stationary phase as well as upon exposure to stress. This study reveals a previously underestimated level of regulation between transcription and translation in bacteria.

scholarly journals Population-scale three-dimensional reconstruction and quantitative profiling of microglia arbors

2015 ◽  
Vol 31 (13) ◽  
pp. 2190-2198 ◽  
Author(s):  
Murad Megjhani ◽  
Nicolas Rey-Villamizar ◽  
Amine Merouane ◽  
Yanbin Lu ◽  
Amit Mukherjee ◽  
...  
Keyword(s):  
Three Dimensional ◽  
Three Dimensional Reconstruction ◽  
Dimensional Reconstruction ◽  
Population Scale ◽  
Quantitative Profiling

scholarly journals TeraVR Empowers Precise Reconstruction of Complete 3-D Neuronal Morphology in the Whole Brain

2019 ◽  
Author(s):  
Yimin Wang ◽  
Qi Li ◽  
Lijuan Liu ◽  
Zhi Zhou ◽  
Yun Wang ◽  
...  
Keyword(s):  
Virtual Reality ◽  
Open Source ◽  
Three Dimensional ◽  
Neuronal Morphology ◽  
Imaging Data ◽  
Cell Type ◽  
Neuron Morphology ◽  
Whole Brain ◽  
Annotation System ◽  
Quantitative Profiling

AbstractNeuron morphology is recognized as a key determinant of cell type, yet the quantitative profiling of a mammalian neuron’s complete three-dimensional (3-D) morphology remains arduous when the neuron has complex arborization and long projection. Whole-brain reconstruction of neuron morphology is even more challenging as it involves processing tens of teravoxels of imaging data. Validating such reconstructions is extremely laborious. We developed TeraVR, an open-source virtual reality annotation system, to address these challenges. TeraVR integrates immersive and collaborative 3-D visualization, interaction, and hierarchical streaming of teravoxel-scale images. Using TeraVR, we produced precise 3-D full morphology of long-projecting neurons in whole mouse brains and developed a collaborative workflow for highly accurate neuronal reconstruction.

scholarly journals Quantitative profiling and dynamics of mRNA modifications in Escherichia coli

2021 ◽  
Author(s):  
Dimitar Plamenov Petrov ◽  
Steffen Kaiser ◽  
Stefanie Kaiser ◽  
Kirsten Jung
Keyword(s):  
Mass Spectrometry ◽  
Escherichia Coli ◽  
Stationary Phase ◽  
Exponential Growth ◽  
Gel Electrophoresis ◽  
E Coli ◽  
Physiological Processes ◽  
Mrna Methylation ◽  
Important Regulator ◽  
Quantitative Profiling

mRNA methylation is an important regulator of many physiological processes in eukaryotes but has not been studied in depth in prokaryotes. In contrast to the large number of eukaryotic mRNA modifications that have been described, N6-methyladenosine (m6A) is the only modification of bacterial mRNA identified to date. Here, we used a gel electrophoresis-based RNA separation method and quantitatively analyzed the mRNA-specific modification profile of Escherichia coli using mass spectrometry. In addition to m6A, we provide evidence for the presence of 7-methylguanosine (m7G), and we found first hints for 5-methylcytidine (m5C), N6,N6-dimethyladenosine (m6,6A), 1-methylguanosine (m1G), 5-methyluridine (m5U), and pseudouridine (Ψ) in the mRNA of E. coli, which implies that E. coli has a complex mRNA modification pattern. Furthermore, we observed changes in the abundance of some mRNA modifications during the transition of E. coli from the exponential growth to the stationary phase as well as upon exposure to stress. This study reveals a previously underestimated level of regulation between transcription and translation in bacteria.

Sign in / Sign up

Export Citation Format

Share Document