Cellular injury evidenced by impedance technology and infrared microspectroscopy

Roux, Karlien Le; Prinsloo, Linda C.; Meyer, Debra

doi:10.1016/j.saa.2014.11.089

Cited by 9 publications

(8 citation statements)

References 59 publications

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“…Furthermore, in order to analyze the spectral changes in the nucleic acid portion in a quantitative way, we used the distinct peaks to fit this region with the corresponding bands as assigned in Table . The B-DNA band is mainly at 1084 cm –1 , while the signals at 930 cm –1 mainly stem from Z-DNA. ,,,, …”

Section: Resultsmentioning

confidence: 96%

“…Z-DNA can be clearly identified in a typical FTIR spectrum. The band at 930 cm –1 is specifically attributed to the Z-form DNA. ,,, The spectra also contain the phosphate symmetric stretching band at 1084 cm –1 . ,,, Based on the results of curve fitting analysis, the relative content of Z-DNA based on the 930 cm –1 peak of different group cells were calculated and the result is shown in Figure b. Strikingly, compared to the untreated sample, it can be seen that the content of Z-DNA reduced with BRG1/BRM knockdown in cells ( p < 0.01), while on the other hand, the content of Z-DNA increased significantly with BRG1/BRM overexpression ( p < 0.01).…”

Section: Resultsmentioning

confidence: 99%

“…As the essential ATPase subunit of the SWI/SNF chromatin remodeling complex, we expected that the change of BRG1/BRM expression would affect chromatin remodeling and DNA conformations. Several reports indicated that the BRG1-associated factors (BAFs) could facilitate Z-DNA conformation in cells. ,, Thus, we employed the tool FTIR spectroscopy, which can distinguish DNA secondary structures sensitively in the region of 875–1375 cm –1 , − to probe the conformational change of DNA. The results are shown in Figure (and Figure S6 for HeLa cells), with each spectrum representing the average result of 10 spectra of the cells.…”

Section: Resultsmentioning

confidence: 99%

“…The B-DNA band is mainly at 1084 cm −1 , while the signals at 930 cm −1 mainly stem from Z-DNA. 28,33,35,42,43 With the aforementioned peak recognition (Table 1 and Figure 4), the curve fitting analysis can proceed, and the decompositions of the DNA bands are shown in Figure 5a. Z-DNA can be clearly identified in a typical FTIR spectrum.…”

Section: ■ Results and Discussionmentioning

confidence: 99%

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Remodeling Chromatin Induces Z-DNA Conformation Detected through Fourier Transform Infrared Spectroscopy

Huang

Yao

et al. 2020

Anal. Chem.

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The SWI/SNF complex is a highly conserved chromatin remodeling complex and can hydrolyze ATP by its catalytic subunit BRG1 or BRM to reconstruct the chromatin. To investigate whether this ATP-dependent chromatin remodeling could affect the DNA conformation, we therefore regulated (knocked down or overexpressed) BRG1/BRM in the cells and applied Fourier transform infrared (FTIR) spectroscopy to probe DNA conformational changes. As a result, we found that BRG1/BRM was indeed associated with the DNA conformational changes, in which knockdown of BRG1/BRM reduced Z-DNA conformation, while overexpression of BRG1/BRM enhanced Z-DNA conformation. This Z-DNA conformational transformation was also verified using the Z-DNA-binding proteins. Therefore, this work has provided a direct analytical tool to probe Z-DNA transformation upon ATP-dependent chromatin remodeling.

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Section: Resultsmentioning

confidence: 96%

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: ■ Results and Discussionmentioning

confidence: 99%

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Remodeling Chromatin Induces Z-DNA Conformation Detected through Fourier Transform Infrared Spectroscopy

Huang

Yao

et al. 2020

Anal. Chem.

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“…On the other hand the TEM micrographs of sorted viable HeLa cells did not indicate any visible signs of the cells experiencing possible fatal stress and therefore the cells were prone to be more metabolically active due to the small amount of cellular stress (Barteneva et al, 2013;le Roux et al, 2015). Strong DNA signals are usually detected in metabolically active cells or in cells that are in late stages of apoptosis when the cell's DNA became fragmented.…”

Section: Discussionmentioning

confidence: 99%

Fourier Transform Infrared spectroscopy discloses different types of cell death in flow cytometrically sorted cells

Roux

Prinsloo

Meyer

2015

Toxicology in Vitro

Self Cite

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Fourier Transform Infrared (FTIR) spectroscopy is a label free methodology showing promise in characterizing different types of cell death. Cervical adenocarcinoma (HeLa) and African monkey kidney (Vero) cells were treated with a necrosis inducer (methanol), novel apoptotic inducers (diphenylphosphino gold (I) complexes) and positive control, auranofin.Following treatment, cells stained with annexin-V and propidium iodide were sorted using a Principal Component Analysis showed separation between the different types of cell death and the loadings plots indicated an increase in an additional band at 1623 cm -1 in dead cells.FTIR spectroscopy can be developed into an invaluable tool for the assessment of specific types of chemically induced cell death with notably different molecular signatures depending on whether the cells are cancerous and mechanism of cell death.

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Spectral features selection and classification of oil palm leaves infected by Basal stem rot (BSR) disease using dielectric spectroscopy

Khaled

Aziz

Bejo

et al. 2018

Computers and Electronics in Agriculture

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Basal stem rot (BSR) is a prominent plant disease caused by Ganoderma boninense fungus, which infects oil palm plantations leading to large economic losses in palm oil production. There is need for novel disease detection techniques that can be used to reduce the oil palm losses due to BSR. Thus, this paper investigated the feasibility of utilizing electrical properties such as impedance, capacitance, dielectric constant, and dissipation factor in early detection of BSR disease in oil palm tree. Leaf samples from different oil palm trees (healthy, mild, moderate, and severely-infected) were collected and measured using a solid test fixture (16451B, Keysight Technologies, Japan) connected to an impedance analyzer (4294A, Agilent Technologies, Japan) at a frequency range of 100 kHz-30 MHz with 300 spectral interval. Genetic algorithm (GA), random forest (RF), and support vector machine-feature selection (SVM-FS) were used to analyze the electrical properties of the dataset and the most significant frequencies were selected. Following the selection of significant frequencies, the features were evaluated using two classifiers, support vector machine (SVM) and artificial neural networks (ANN) to determine the overall and individual class classification accuracies. The selection model comparative feature analysis demonstrated that the best statistical indicators with overall accuracy (88.64%), kappa (0.8480) and low mean absolute error (0.1652) were obtained using significant frequencies produced by SVM-FS model. The results indicated that the SVM classifier shows better performance as compared to ANN classifier. The results also showed that the classes, features selection models, and the electrical properties were found to be significantly different (p < .1). The impedance values were highly classified by Ganoderma disease at different levels of severity with overall accuracies of more than 80%. Impedance can be considered as the best electrical properties that can be used to estimate the severity of BSR disease in oil palm using spectroscopy technique. As such, this study demonstrates the potentials of utilizing electrical properties for detection of Ganoderma diseases in oil palm.

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Cellular injury evidenced by impedance technology and infrared microspectroscopy

Cited by 9 publications

References 59 publications

Remodeling Chromatin Induces Z-DNA Conformation Detected through Fourier Transform Infrared Spectroscopy

Remodeling Chromatin Induces Z-DNA Conformation Detected through Fourier Transform Infrared Spectroscopy

Fourier Transform Infrared spectroscopy discloses different types of cell death in flow cytometrically sorted cells

Spectral features selection and classification of oil palm leaves infected by Basal stem rot (BSR) disease using dielectric spectroscopy

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