MSCProfiler: a single cell image processing workflow to investigate mesenchymal stem cell heterogeneity
In this study, the authors describe MSCProfiler, an image analysis pipeline developed using CellProfiler software. This workflow can extract geometrical and texture features such as shape, size, eccentricity and entropy, along with intensity values of the surface markers from multiple single cell images obtained using imaging flow cytometry. This screening pipeline can be used to analyze geometrical and texture features of all types of MSCs across different passages hallmarked by enhanced feature extraction potential from brightfield and fluorescent images of the cells.PMID:37916466 | DOI:10.2144/btn-2023-0048 (Source: BioTechniques)
Source: BioTechniques - November 2, 2023 Category: Biotechnology Authors: Ayona Gupta Safia Kousar Shaik Lakshmi Balasubramanian Uttara Chakraborty Source Type: research
Simple, fast and inexpensive hot sodium hydroxide and tris DNA extraction method for genotyping tomato and melon seeds
Biotechniques. 2023 Nov 2. doi: 10.2144/btn-2023-0054. Online ahead of print.ABSTRACTSeed commerce is a highly profitable global market. Most commercialized seeds are hybrid seeds originating from a controlled cross between two selected parental lines. The market value of hybrid seeds depends on their hybrid genetic purity. DNA molecular markers are a reliable and widespread tool to genotype plant materials; however, DNA extraction from seeds is challenging, often laborious and expensive. With the ultimate goal of creating a tomato and melon hybrid seeds purity test, various challenges arise. To overcome these problems and...
Source: BioTechniques - November 2, 2023 Category: Biotechnology Authors: Yolanda Garc ía-Abolafio Francisco Villanueva Mar ía Urrutia Source Type: research
MSCProfiler: a single cell image processing workflow to investigate mesenchymal stem cell heterogeneity
In this study, the authors describe MSCProfiler, an image analysis pipeline developed using CellProfiler software. This workflow can extract geometrical and texture features such as shape, size, eccentricity and entropy, along with intensity values of the surface markers from multiple single cell images obtained using imaging flow cytometry. This screening pipeline can be used to analyze geometrical and texture features of all types of MSCs across different passages hallmarked by enhanced feature extraction potential from brightfield and fluorescent images of the cells.PMID:37916466 | DOI:10.2144/btn-2023-0048 (Source: BioTechniques)
Source: BioTechniques - November 2, 2023 Category: Biotechnology Authors: Ayona Gupta Safia Kousar Shaik Lakshmi Balasubramanian Uttara Chakraborty Source Type: research
Simple, fast and inexpensive hot sodium hydroxide and tris DNA extraction method for genotyping tomato and melon seeds
Biotechniques. 2023 Nov 2. doi: 10.2144/btn-2023-0054. Online ahead of print.ABSTRACTSeed commerce is a highly profitable global market. Most commercialized seeds are hybrid seeds originating from a controlled cross between two selected parental lines. The market value of hybrid seeds depends on their hybrid genetic purity. DNA molecular markers are a reliable and widespread tool to genotype plant materials; however, DNA extraction from seeds is challenging, often laborious and expensive. With the ultimate goal of creating a tomato and melon hybrid seeds purity test, various challenges arise. To overcome these problems and...
Source: BioTechniques - November 2, 2023 Category: Biotechnology Authors: Yolanda Garc ía-Abolafio Francisco Villanueva Mar ía Urrutia Source Type: research
MSCProfiler: a single cell image processing workflow to investigate mesenchymal stem cell heterogeneity
In this study, the authors describe MSCProfiler, an image analysis pipeline developed using CellProfiler software. This workflow can extract geometrical and texture features such as shape, size, eccentricity and entropy, along with intensity values of the surface markers from multiple single cell images obtained using imaging flow cytometry. This screening pipeline can be used to analyze geometrical and texture features of all types of MSCs across different passages hallmarked by enhanced feature extraction potential from brightfield and fluorescent images of the cells.PMID:37916466 | DOI:10.2144/btn-2023-0048 (Source: BioTechniques)
Source: BioTechniques - November 2, 2023 Category: Biotechnology Authors: Ayona Gupta Safia Kousar Shaik Lakshmi Balasubramanian Uttara Chakraborty Source Type: research
A simple and rapid method for isolating high-quality RNA from kenaf with high polysaccharide and polyphenol contents
Biotechniques. 2023 Oct 26. doi: 10.2144/btn-2023-0077. Online ahead of print.ABSTRACTThe extraction of high-quality RNA from kenaf is essential for genetic and molecular biology research. However, the presence of high levels of polysaccharide and polyphenol compounds in kenaf poses challenges for RNA isolation. We proposed a simplified, time-saving and cost-effective method for isolating high quantities of RNA from various kenaf tissues. This method exhibited superior efficiency in RNA isolation compared with the conventional cetyltrimethylammonium bromide method and demonstrated greater adaptability to different samples ...
Source: BioTechniques - October 26, 2023 Category: Biotechnology Authors: Xiaofang Liao Yanhong Zhao Hongwei Li Wenhuan Hou Xingfu Tang Ruiyang Zhou Source Type: research
An easy method for quantification of anaerobic and microaerobic gene expression with fluorescent reporter proteins
In this study, the authors highlight the errors incurred by using fluorescent proteins under limited oxygenation by comparing standard fluorescence-based reporter gene assays to quantitative real-time PCR data in the study of a complex oxygen-regulated gene network. Furthermore, a solution to perform quantification of anaerobic and microaerobic gene expression with fluorescent reporter proteins using a microplate reader with an oxygen control system and applying pulses of full oxygenation before fluorescence measurements is provided.PMID:37880975 | DOI:10.2144/btn-2023-0064 (Source: BioTechniques)
Source: BioTechniques - October 26, 2023 Category: Biotechnology Authors: Lucas Pedraz Eduard Torrents Source Type: research
A simple, sensitive and colorimetric assay for < em > Pseudomonas aeruginosa < /em > infection analysis
Biotechniques. 2023 Oct 26. doi: 10.2144/btn-2023-0030. Online ahead of print.ABSTRACTSkin and soft tissue infections caused by Pseudomonas aeruginosa are common acquired diseases in postpartum care. Many methods have been developed in recent years for detecting P. aeruginosa, but they are criticized for the drawbacks of labor-intensiveness, complicated operation and high cost. Here, a simple, sensitive and colorimetric assay for P. aeruginosa detection is described. The approach displays a green color for positive samples and colorless for target-free samples. The approach exhibits a wide detection range and a low limit o...
Source: BioTechniques - October 26, 2023 Category: Biotechnology Authors: Jie Liu Dan Lu Junyuan Wang Source Type: research
A simple and rapid method for isolating high-quality RNA from kenaf with high polysaccharide and polyphenol contents
Biotechniques. 2023 Oct 26. doi: 10.2144/btn-2023-0077. Online ahead of print.ABSTRACTThe extraction of high-quality RNA from kenaf is essential for genetic and molecular biology research. However, the presence of high levels of polysaccharide and polyphenol compounds in kenaf poses challenges for RNA isolation. We proposed a simplified, time-saving and cost-effective method for isolating high quantities of RNA from various kenaf tissues. This method exhibited superior efficiency in RNA isolation compared with the conventional cetyltrimethylammonium bromide method and demonstrated greater adaptability to different samples ...
Source: BioTechniques - October 26, 2023 Category: Biotechnology Authors: Xiaofang Liao Yanhong Zhao Hongwei Li Wenhuan Hou Xingfu Tang Ruiyang Zhou Source Type: research
An easy method for quantification of anaerobic and microaerobic gene expression with fluorescent reporter proteins
In this study, the authors highlight the errors incurred by using fluorescent proteins under limited oxygenation by comparing standard fluorescence-based reporter gene assays to quantitative real-time PCR data in the study of a complex oxygen-regulated gene network. Furthermore, a solution to perform quantification of anaerobic and microaerobic gene expression with fluorescent reporter proteins using a microplate reader with an oxygen control system and applying pulses of full oxygenation before fluorescence measurements is provided.PMID:37880975 | DOI:10.2144/btn-2023-0064 (Source: BioTechniques)
Source: BioTechniques - October 26, 2023 Category: Biotechnology Authors: Lucas Pedraz Eduard Torrents Source Type: research
A simple, sensitive and colorimetric assay for < em > Pseudomonas aeruginosa < /em > infection analysis
Biotechniques. 2023 Oct 26. doi: 10.2144/btn-2023-0030. Online ahead of print.ABSTRACTSkin and soft tissue infections caused by Pseudomonas aeruginosa are common acquired diseases in postpartum care. Many methods have been developed in recent years for detecting P. aeruginosa, but they are criticized for the drawbacks of labor-intensiveness, complicated operation and high cost. Here, a simple, sensitive and colorimetric assay for P. aeruginosa detection is described. The approach displays a green color for positive samples and colorless for target-free samples. The approach exhibits a wide detection range and a low limit o...
Source: BioTechniques - October 26, 2023 Category: Biotechnology Authors: Jie Liu Dan Lu Junyuan Wang Source Type: research
A simple and rapid method for isolating high-quality RNA from kenaf with high polysaccharide and polyphenol contents
Biotechniques. 2023 Oct 26. doi: 10.2144/btn-2023-0077. Online ahead of print.ABSTRACTThe extraction of high-quality RNA from kenaf is essential for genetic and molecular biology research. However, the presence of high levels of polysaccharide and polyphenol compounds in kenaf poses challenges for RNA isolation. We proposed a simplified, time-saving and cost-effective method for isolating high quantities of RNA from various kenaf tissues. This method exhibited superior efficiency in RNA isolation compared with the conventional cetyltrimethylammonium bromide method and demonstrated greater adaptability to different samples ...
Source: BioTechniques - October 26, 2023 Category: Biotechnology Authors: Xiaofang Liao Yanhong Zhao Hongwei Li Wenhuan Hou Xingfu Tang Ruiyang Zhou Source Type: research
An easy method for quantification of anaerobic and microaerobic gene expression with fluorescent reporter proteins
In this study, the authors highlight the errors incurred by using fluorescent proteins under limited oxygenation by comparing standard fluorescence-based reporter gene assays to quantitative real-time PCR data in the study of a complex oxygen-regulated gene network. Furthermore, a solution to perform quantification of anaerobic and microaerobic gene expression with fluorescent reporter proteins using a microplate reader with an oxygen control system and applying pulses of full oxygenation before fluorescence measurements is provided.PMID:37880975 | DOI:10.2144/btn-2023-0064 (Source: BioTechniques)
Source: BioTechniques - October 26, 2023 Category: Biotechnology Authors: Lucas Pedraz Eduard Torrents Source Type: research
A simple, sensitive and colorimetric assay for < em > Pseudomonas aeruginosa < /em > infection analysis
Biotechniques. 2023 Oct 26. doi: 10.2144/btn-2023-0030. Online ahead of print.ABSTRACTSkin and soft tissue infections caused by Pseudomonas aeruginosa are common acquired diseases in postpartum care. Many methods have been developed in recent years for detecting P. aeruginosa, but they are criticized for the drawbacks of labor-intensiveness, complicated operation and high cost. Here, a simple, sensitive and colorimetric assay for P. aeruginosa detection is described. The approach displays a green color for positive samples and colorless for target-free samples. The approach exhibits a wide detection range and a low limit o...
Source: BioTechniques - October 26, 2023 Category: Biotechnology Authors: Jie Liu Dan Lu Junyuan Wang Source Type: research
A simple and rapid method for isolating high-quality RNA from kenaf with high polysaccharide and polyphenol contents
Biotechniques. 2023 Oct 26. doi: 10.2144/btn-2023-0077. Online ahead of print.ABSTRACTThe extraction of high-quality RNA from kenaf is essential for genetic and molecular biology research. However, the presence of high levels of polysaccharide and polyphenol compounds in kenaf poses challenges for RNA isolation. We proposed a simplified, time-saving and cost-effective method for isolating high quantities of RNA from various kenaf tissues. This method exhibited superior efficiency in RNA isolation compared with the conventional cetyltrimethylammonium bromide method and demonstrated greater adaptability to different samples ...
Source: BioTechniques - October 26, 2023 Category: Biotechnology Authors: Xiaofang Liao Yanhong Zhao Hongwei Li Wenhuan Hou Xingfu Tang Ruiyang Zhou Source Type: research
