An assay for the cytosine methylation level in the eukaryotic DNA CCWGG sequence is proposed. The method is based on the ability of DNA methylase BstNI to methylate DNA containing in a CCWGG site a nonmodified or 5-methylated cytosine to yield N4-methyl- or N4,5'-dimethylcytosine, respectively.
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mSphere
January 2024
Kusuma School of Biological Sciences, Indian Institute of Technology Delhi, New Delhi, India.
Emergence and spread of the hypervirulent pathotype of have significantly increased infection rates in community as well as healthcare settings. There is an increasing interest to identify discriminating features between classical (cKp) and hypervirulent (hvKp) to facilitate our understanding of the rapid emergence and dissemination of the hypervirulent pathotype. Here, we sought to identify unique epigenetic signatures of hvKp pathotype that differ from its classical counterpart using single-base resolution methylome analysis of native DNA sequencing on the Oxford Nanopore Technologies platform.
View Article and Find Full Text PDFAnimals (Basel)
November 2023
Liaoning Provincial Key Laboratory of Northern Aquatic Germplasm Resources and Genetics and Breeding, Dalian Ocean University, Dalian 116023, China.
The industry has expanded significantly, but no research has focused on determining the age of during farming. Correctly estimating the age of can provide a decision-making basis for the breeding process and data for the protection of aquatic germplasm resources. DNA methylation levels in the body wall of Apostichopus japonicus at 4 months, 1 year, 2 years, and 3 years old were determined using MethylRAD-Seq, and differentially methylated genes were screened.
View Article and Find Full Text PDFLife (Basel)
June 2022
Fisheries Research Institute, Wuhan Academy of Agricultural Sciences, Wuhan 430207, China.
DNA methylation has been found to be involved in sex determination and differentiation in many aquaculture species. The Ussuri catfish () is a popular aquaculture fish in China with high economic value in which male-biased sex dimorphism was observed in terms of body size and body weight. In this study, DNA methylation-sensitive RAD sequencing (Methyl-RAD) was used to explore the epigenetic difference between adult male and female samples in brain and gonad tissues.
View Article and Find Full Text PDFPlants (Basel)
April 2022
Faculty of Agronomy, Jilin Agricultural University, Changchun 130118, China.
Heterosis is an important biological phenomenon and is widely applied to increase agricultural productivity. However, the underlying molecular mechanisms of heterosis are still unclear. Here we constructed three combinations of reciprocal hybrids of soybean, and subsequently used MethylRAD-seq to detect CCGG and CCWGG (W = A or T) methylation in the whole genome of these hybrids and their parents at the middle development period of contemporary seed.
View Article and Find Full Text PDFGenomics Proteomics Bioinformatics
April 2022
State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, China. Electronic address:
Klebsiella pneumoniae (K. pneumoniae) is an important pathogen that can cause severe hospital- and community-acquired infections. To systematically investigate its methylation features, we determined the whole-genome sequences of 14 K.
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