scholarly journals Automated and customizable quantitative image analysis of whole Caenorhabditis elegans germlines

Genetics ◽  
2021 ◽  
Author(s):  
Erik Toraason ◽  
Victoria L Adler ◽  
Nicole A Kurhanewicz ◽  
Acadia DiNardo ◽  
Adam M Saunders ◽  
...  
Keyword(s):  
Image Analysis ◽  
Caenorhabditis Elegans ◽  
Germ Cell ◽  
Meiotic Prophase ◽  
Quantitative Image Analysis ◽  
Dna Breaks ◽  
C Elegans ◽  
Quantitative Image ◽  
Cytological Features ◽  
Single Nucleus

Abstract Arranged in a spatial-temporal gradient for germ cell development, the adult germline of Caenorhabditis elegans is an excellent system for understanding the generation, differentiation, function, and maintenance of germ cells. Imaging whole C. elegans germlines along the distal-proximal axis enables powerful cytological analyses of germ cell nuclei as they progress from the pre-meiotic tip through all the stages of meiotic prophase I. To enable high-content image analysis of whole C. elegans gonads, we developed a custom algorithm and pipelines to function with image processing software that enables: (1) quantification of cytological features at single nucleus resolution from immunofluorescence images; and (2) assessment of these individual nuclei based on their position within the germline. We show the capability of our quantitative image analysis approach by analyzing multiple cytological features of meiotic nuclei in whole C. elegans germlines. First, we quantify double-strand DNA breaks (DSBs) per nucleus by analyzing DNA-associated foci of the recombinase RAD-51 at single-nucleus resolution in the context of whole germline progression. Second, we quantify the DSBs that are licensed for crossover repair by analyzing foci of MSH-5 and COSA-1 when they associate with the synaptonemal complex during meiotic prophase progression. Finally, we quantify P-granule composition across the whole germline by analyzing the colocalization of PGL-1 and ZNFX-1 foci. Our image analysis pipeline is an adaptable and useful method for researchers spanning multiple fields using the C. elegans germline as a model system.

scholarly journals Automated and customizable quantitative image analysis of whole C. elegans germlines

2020 ◽  
Author(s):  
Erik Toraason ◽  
Victoria L. Adler ◽  
Nicole A. Kurhanewicz ◽  
Acadia DiNardo ◽  
Adam M. Saunders ◽  
...  
Keyword(s):  
Image Analysis ◽  
Germ Cell ◽  
Meiotic Prophase ◽  
Quantitative Image Analysis ◽  
Cell Nuclei ◽  
Dna Breaks ◽  
C Elegans ◽  
Quantitative Image ◽  
Cytological Features ◽  
Single Nucleus

AbstractArranged in a spatial-temporal gradient for germ cell development, the adult germline of Caenorhabditis elegans is an excellent system for understanding the generation, differentiation, function, and maintenance of germ cells. Imaging whole C. elegans germlines along the distal-proximal axis enables powerful cytological analyses of germ cell nuclei as they progress from the pre-meiotic tip through all the stages of meiotic prophase I. To enable high-throughput image analysis of whole C. elegans gonads, we developed a custom algorithm and pipelines to function with image processing software that enables: 1) quantification of cytological features at single nucleus resolution from immunofluorescence images; and, 2) assessment of these individual nuclei based on their position within the germline. We demonstrate the capability of our quantitative image analysis approach by analyzing multiple cytological features of meiotic nuclei in whole C. elegans germlines. First, we quantify double strand DNA breaks (DSBs) per nucleus by analyzing DNA-associated foci of the recombinase RAD-51 at the single-nucleus resolution in the context of whole germline progression. Second, we quantify the DSBs that are licensed for crossover repair by analyzing foci of MSH-5 and COSA-1 when they associate with the synaptonemal complex during meiotic prophase progression. Finally, we quantify P-granule composition across the whole germline by analyzing the colocalization of PGL-1 and ZNFX-1 foci. Our image analysis pipeline is an adaptable and useful method for researchers spanning multiple fields utilizing the C. elegans germline as a model system.

scholarly journals Quantitative Image Analysis Reveals Distinct Structural Transitions during Aging in Caenorhabditis elegans Tissues

PLoS ONE ◽  
2008 ◽  
Vol 3 (7) ◽  
pp. e2821 ◽  
Author(s):  
Josiah Johnston ◽  
Wendy B. Iser ◽  
David K. Chow ◽  
Ilya G. Goldberg ◽  
Catherine A. Wolkow
Keyword(s):  
Image Analysis ◽  
Caenorhabditis Elegans ◽  
Quantitative Image Analysis ◽  
Structural Transitions ◽  
Quantitative Image

Digital image acquisition, processing, and analysis in a polymer microscopy laboratory

1994 ◽  
Vol 52 ◽  
pp. 454-455
Author(s):  
Vinod K. Berry ◽  
Xiao Zhang
Keyword(s):  
United States ◽  
Image Analysis ◽  
Digital Image ◽  
Image Acquisition ◽  
Image Transmission ◽  
The United States ◽  
Quantitative Image Analysis ◽  
Quantitative Image

In recent years it became apparent that we needed to improve productivity and efficiency in the Microscopy Laboratories in GE Plastics. It was realized that digital image acquisition, archiving, processing, analysis, and transmission over a network would be the best way to achieve this goal. Also, the capabilities of quantitative image analysis, image transmission etc. available with this approach would help us to increase our efficiency. Although the advantages of digital image acquisition, processing, archiving, etc. have been described and are being practiced in many SEM, laboratories, they have not been generally applied in microscopy laboratories (TEM, Optical, SEM and others) and impact on increased productivity has not been yet exploited as well.In order to attain our objective we have acquired a SEMICAPS imaging workstation for each of the GE Plastic sites in the United States. We have integrated the workstation with the microscopes and their peripherals as shown in Figure 1.

scholarly journals Quantitative image analysis of microbial communities with BiofilmQ

2021 ◽  
Author(s):  
Raimo Hartmann ◽  
Hannah Jeckel ◽  
Eric Jelli ◽  
Praveen K. Singh ◽  
Sanika Vaidya ◽  
...  
Keyword(s):  
Image Analysis ◽  
Microbial Communities ◽  
Dimensional Space ◽  
Three Dimensional ◽  
Software Tool ◽  
Image Cytometry ◽  
Quantitative Image Analysis ◽  
Space And Time ◽  
Quantitative Image ◽  
Three Dimensional Space

AbstractBiofilms are microbial communities that represent a highly abundant form of microbial life on Earth. Inside biofilms, phenotypic and genotypic variations occur in three-dimensional space and time; microscopy and quantitative image analysis are therefore crucial for elucidating their functions. Here, we present BiofilmQ—a comprehensive image cytometry software tool for the automated and high-throughput quantification, analysis and visualization of numerous biofilm-internal and whole-biofilm properties in three-dimensional space and time.

Quantitative Image Analysis of Nuclear Chromatin Distribution for Cytological Diagnosis

2011 ◽  
Vol 55 (5) ◽  
pp. 455-459 ◽  
Author(s):  
Ryotaro Jingu ◽  
Masafumi Ohki ◽  
Sumiko Watanabe ◽  
Sadafumi Tamiya ◽  
Setsuo Sugishima ◽  
...  
Keyword(s):  
Image Analysis ◽  
Quantitative Image Analysis ◽  
Cytological Diagnosis ◽  
Nuclear Chromatin ◽  
Quantitative Image
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