Usefulness of current sgRNA design guidelines and in vitro cleavage assays for plant CRISPR/Cas genome editing: a case targeting the polyphenol oxidase gene family in eggplant (Solanum melongena L.)
Transgenic Res. 2023 Oct 24. doi: 10.1007/s11248-023-00371-9. Online ahead of print.ABSTRACTThe advent of genome editing platforms such as the CRISPR/Cas9 system ushers an unprecedented speed in the development of new crop varieties that can withstand the agricultural challenges of the 21st century. The CRISPR/Cas9 system depends on the specificity of engineered single guide RNAs (sgRNAs). However, sgRNA design in plants can be challenging due to the multitude of design tools to choose from, many of which use guidelines that are based on animal experiments yet allow the use of plant genomes. Upon choosing sgRNAs, it is als...
Source: Transgenic Research - October 24, 2023 Category: Genetics & Stem Cells Authors: Mark Gabriel S Sagarbarria John Albert M Caraan Angelo John G Layos Source Type: research
Usefulness of current sgRNA design guidelines and in vitro cleavage assays for plant CRISPR/Cas genome editing: a case targeting the polyphenol oxidase gene family in eggplant (Solanum melongena L.)
Transgenic Res. 2023 Oct 24. doi: 10.1007/s11248-023-00371-9. Online ahead of print.ABSTRACTThe advent of genome editing platforms such as the CRISPR/Cas9 system ushers an unprecedented speed in the development of new crop varieties that can withstand the agricultural challenges of the 21st century. The CRISPR/Cas9 system depends on the specificity of engineered single guide RNAs (sgRNAs). However, sgRNA design in plants can be challenging due to the multitude of design tools to choose from, many of which use guidelines that are based on animal experiments yet allow the use of plant genomes. Upon choosing sgRNAs, it is als...
Source: Transgenic Research - October 24, 2023 Category: Genetics & Stem Cells Authors: Mark Gabriel S Sagarbarria John Albert M Caraan Angelo John G Layos Source Type: research
Usefulness of current sgRNA design guidelines and in vitro cleavage assays for plant CRISPR/Cas genome editing: a case targeting the polyphenol oxidase gene family in eggplant (Solanum melongena L.)
Transgenic Res. 2023 Oct 24. doi: 10.1007/s11248-023-00371-9. Online ahead of print.ABSTRACTThe advent of genome editing platforms such as the CRISPR/Cas9 system ushers an unprecedented speed in the development of new crop varieties that can withstand the agricultural challenges of the 21st century. The CRISPR/Cas9 system depends on the specificity of engineered single guide RNAs (sgRNAs). However, sgRNA design in plants can be challenging due to the multitude of design tools to choose from, many of which use guidelines that are based on animal experiments yet allow the use of plant genomes. Upon choosing sgRNAs, it is als...
Source: Transgenic Research - October 24, 2023 Category: Genetics & Stem Cells Authors: Mark Gabriel S Sagarbarria John Albert M Caraan Angelo John G Layos Source Type: research
Usefulness of current sgRNA design guidelines and in vitro cleavage assays for plant CRISPR/Cas genome editing: a case targeting the polyphenol oxidase gene family in eggplant (Solanum melongena L.)
Transgenic Res. 2023 Oct 24. doi: 10.1007/s11248-023-00371-9. Online ahead of print.ABSTRACTThe advent of genome editing platforms such as the CRISPR/Cas9 system ushers an unprecedented speed in the development of new crop varieties that can withstand the agricultural challenges of the 21st century. The CRISPR/Cas9 system depends on the specificity of engineered single guide RNAs (sgRNAs). However, sgRNA design in plants can be challenging due to the multitude of design tools to choose from, many of which use guidelines that are based on animal experiments yet allow the use of plant genomes. Upon choosing sgRNAs, it is als...
Source: Transgenic Research - October 24, 2023 Category: Genetics & Stem Cells Authors: Mark Gabriel S Sagarbarria John Albert M Caraan Angelo John G Layos Source Type: research
Characterization of Pseudomonas capsici strains from pepper and tomato
Disease outbreaks of bacterial leaf spot and blight of pepper and tomato often occur in both transplant- and field-production systems worldwide. In some cases, the outbreaks are caused by novel bacterial species. Characterization of these novel bacterial species are critical in developing diagnostic assays and identifying management options for pathogen monitoring and sustainable production, respectively. We characterized strains belonging to novel Pseudomonas species that are responsible for outbreaks in pepper and tomato both in transplant-houses and in production fields in Georgia, USA. Phylogenomic analyses and whole g...
Source: Frontiers in Microbiology - October 11, 2023 Category: Microbiology Source Type: research
< em > Sphingobium agri < /em > sp. nov., isolated from rhizospheric soil of eggplant
Int J Syst Evol Microbiol. 2023 Oct;73(10). doi: 10.1099/ijsem.0.006074.ABSTRACTA Gram-stain-negative, aerobic, short rod-shaped and motile bacterial strain, designated MAH-33T, was isolated from rhizospheric soil of eggplant. The colonies were observed to be yellow-coloured, smooth, spherical and 0.1-0.3 mm in diameter when grown on TSA agar medium for 2 days. Strain MAH-33T was found to be able to grow at 10-40 °C, at pH 5.0-10.0 and at 0-3.0 % NaCl (w/v). The strain was found to be positive for both oxidase and catalase tests. The strain was positive for hydrolysis of tyrosine and aesculin. According to the 16S rRNA ge...
Source: International Journal of Systematic and Evolutionary Microbiology - October 3, 2023 Category: Microbiology Authors: Md Amdadul Huq Sun-Young Lee BoKyung Moon Juncai Ma Muhammad Zubair Siddiqi Sathiyaraj Srinivasan Md Shahedur Rahman Shahina Akter Source Type: research
< em > Sphingobium agri < /em > sp. nov., isolated from rhizospheric soil of eggplant
Int J Syst Evol Microbiol. 2023 Oct;73(10). doi: 10.1099/ijsem.0.006074.ABSTRACTA Gram-stain-negative, aerobic, short rod-shaped and motile bacterial strain, designated MAH-33T, was isolated from rhizospheric soil of eggplant. The colonies were observed to be yellow-coloured, smooth, spherical and 0.1-0.3 mm in diameter when grown on TSA agar medium for 2 days. Strain MAH-33T was found to be able to grow at 10-40 °C, at pH 5.0-10.0 and at 0-3.0 % NaCl (w/v). The strain was found to be positive for both oxidase and catalase tests. The strain was positive for hydrolysis of tyrosine and aesculin. According to the 16S rRNA ge...
Source: International Journal of Systematic and Evolutionary Microbiology - October 3, 2023 Category: Microbiology Authors: Md Amdadul Huq Sun-Young Lee BoKyung Moon Juncai Ma Muhammad Zubair Siddiqi Sathiyaraj Srinivasan Md Shahedur Rahman Shahina Akter Source Type: research
Genes, Vol. 14, Pages 1665: Genome-Wide Identification and Expression Analysis of Respiratory Burst Oxidase Homolog (RBOH) Gene Family in Eggplant (Solanum melongena L.) under Abiotic and Biotic Stress
This study provides a theoretical foundation for understanding the functions of SmRBOHs in eggplant. (Source: Genes)
Source: Genes - August 23, 2023 Category: Genetics & Stem Cells Authors: Lihui Du Zheng Jiang Yadong Zhou Lei Shen Jie He Xin Xia Longhao Zhang Xu Yang Tags: Article Source Type: research
Amendments to Indian biodiversity laws could open doors to exploitation
Legal experts and environmental campaigners say a bill passed last week by India’s Parliament could magnify commercial exploitation of the country’s ecosystems and harm the communities that depend on them.
The amendments to the landmark 2002 Biological Diversity Act streamline the approval processes for commercial use of India’s trees, plants, and other biological resources—as well as traditional knowledge based on those resources—making it easier for companies to patent and sell them as products. The legislation also decriminalizes violations of the act.
“They have spoiled it,” says Giridhar Kinh...
Source: Science of Aging Knowledge Environment - August 11, 2023 Category: Geriatrics Source Type: research
A physical map of traits of agronomic importance based on potato and tomato genome sequences
Potato, tomato, pepper, and eggplant are worldwide important crop and vegetable species of the Solanaceae family. Molecular linkage maps of these plants have been constructed and used to map qualitative and quantitative traits of agronomic importance. This research has been undertaken with the vision to identify the molecular basis of agronomic characters on the one hand, and on the other hand, to assist the selection of improved varieties in breeding programs by providing DNA-based markers that are diagnostic for specific agronomic characters. Since 2011, whole genome sequences of tomato and potato became available in pub...
Source: Frontiers in Genetics - July 25, 2023 Category: Genetics & Stem Cells Source Type: research
Part II: Impedance-based DNA biosensor for detection of isolated strains of phytopathogen Ralstonia solanacearum
Bioelectrochemistry. 2023 Jun 30;153:108500. doi: 10.1016/j.bioelechem.2023.108500. Online ahead of print.ABSTRACTIn Part I, we demonstrated the complete development of a label-free, ultra-low sample volume requiring DNA-based biosensor to detect Ralstonia solanacearum, an aerobic non-spore-forming, Gram-negative, plant pathogenic bacterium, using non-faradaic electrochemical impedance spectroscopy (nf-EIS). We also presented the sensor's sensitivity, specificity, and electrochemical stability. In this article, we highlight the specificity study of the developed DNA-based impedimetric biosensor to detect various strains of...
Source: Bioelectrochemistry - July 3, 2023 Category: Biochemistry Authors: Rhea Patel Madhuri Vinchurkar Aatha Mohin Shaikh Rajul Patkar Andrea Adami Flavio Giacomozzi Raman Ramesh Bidhan Pramanick Leandro Lorenzelli Maryam Shojaei Baghini Source Type: research
Part II: Impedance-based DNA biosensor for detection of isolated strains of phytopathogen Ralstonia solanacearum
Bioelectrochemistry. 2023 Jun 30;153:108500. doi: 10.1016/j.bioelechem.2023.108500. Online ahead of print.ABSTRACTIn Part I, we demonstrated the complete development of a label-free, ultra-low sample volume requiring DNA-based biosensor to detect Ralstonia solanacearum, an aerobic non-spore-forming, Gram-negative, plant pathogenic bacterium, using non-faradaic electrochemical impedance spectroscopy (nf-EIS). We also presented the sensor's sensitivity, specificity, and electrochemical stability. In this article, we highlight the specificity study of the developed DNA-based impedimetric biosensor to detect various strains of...
Source: Bioelectrochemistry - July 3, 2023 Category: Biochemistry Authors: Rhea Patel Madhuri Vinchurkar Aatha Mohin Shaikh Rajul Patkar Andrea Adami Flavio Giacomozzi Raman Ramesh Bidhan Pramanick Leandro Lorenzelli Maryam Shojaei Baghini Source Type: research
Part II: Impedance-based DNA biosensor for detection of isolated strains of phytopathogen Ralstonia solanacearum
Bioelectrochemistry. 2023 Jun 30;153:108500. doi: 10.1016/j.bioelechem.2023.108500. Online ahead of print.ABSTRACTIn Part I, we demonstrated the complete development of a label-free, ultra-low sample volume requiring DNA-based biosensor to detect Ralstonia solanacearum, an aerobic non-spore-forming, Gram-negative, plant pathogenic bacterium, using non-faradaic electrochemical impedance spectroscopy (nf-EIS). We also presented the sensor's sensitivity, specificity, and electrochemical stability. In this article, we highlight the specificity study of the developed DNA-based impedimetric biosensor to detect various strains of...
Source: Bioelectrochemistry - July 3, 2023 Category: Biochemistry Authors: Rhea Patel Madhuri Vinchurkar Aatha Mohin Shaikh Rajul Patkar Andrea Adami Flavio Giacomozzi Raman Ramesh Bidhan Pramanick Leandro Lorenzelli Maryam Shojaei Baghini Source Type: research
Molecules, Vol. 28, Pages 4957: The Therapeutic Value of Solanum Steroidal (Glyco)Alkaloids: A 10-Year Comprehensive Review
oudreault
Steroidal (glycol)alkaloids S(G)As are secondary metabolites made of a nitrogen-containing steroidal skeleton linked to a (poly)saccharide, naturally occurring in the members of the Solanaceae and Liliaceae plant families. The genus Solanum is familiar to all of us as a food source (tomato, potato, eggplant), but a few populations have also made it part of their ethnobotany for their medicinal properties. The recent development of the isolation, purification and analysis techniques have shed light on the structural diversity among the SGAs family, thus attracting scientists to investigate their various pharma...
Source: Molecules - June 23, 2023 Category: Chemistry Authors: Julien A. Delbrouck Michael Desgagn é Christian Comeau Kamal Bouarab Fran çois Malouin Pierre-Luc Boudreault Tags: Review Source Type: research
< em > Pseudomonas solani < /em > sp. nov. isolated from the rhizosphere of eggplant in Japan
Int J Syst Evol Microbiol. 2023 Jun;73(6). doi: 10.1099/ijsem.0.005942.ABSTRACTThe search for bacteria that can be used as biocontrol agents to control crop diseases yielded a promising candidate, Sm006T, which was isolated from the rhizosphere of eggplant (Solanum melongena) growing in a field in Aichi Prefecture, Japan, in 2006. The cells were Gram-stain-negative, aerobic, non-spore-forming, rod-shaped and motile with one polar flagellum. The results of homology searches and phylogenetic analyses based on the 16S rRNA gene sequence indicated that Sm006T represents a member of the genus Pseudomonas. The genomic DNA G+C co...
Source: International Journal of Systematic and Evolutionary Microbiology - June 22, 2023 Category: Microbiology Authors: Hiroyuki Sawada Kasumi Takeuchi Nobutaka Someya Tomohiro Morohoshi Mamoru Satou Source Type: research
