ArticleBMC genetics2014
How to interpret methylation sensitive amplified polymorphism (MSAP) profiles?
Article in BMC genetics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 66 papers.
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Who cites it
66 citing papers in PubMed, 178 citations in OpenAlex.
- Biophysics in the Czech Republic: 70th anniversary of the institute of biophysics.European biophysics journal : EBJ · 2025Review
- DNA Methylation-Associated Epigenetic Changes in Thermotolerance ofInternational journal of molecular sciences · 2025Article
- DNA Methylation Changes Reflect Aluminum Stress in Triticale and Epigenetic Control of the Trait.International journal of molecular sciences · 2025Article
- Genome-shock deletion of a hybrid lethality gene breaks a reproductive barrier and facilitates speciation inFrontiers in plant science · 2025Article
- Comparative epigenetic and genetic spatial structure in Mediterranean mountain plants: a multispecies study.Heredity · 2024Article
- Comparative restriction enzyme analysis of methylation (CREAM) reveals methylome variability within a clonalFrontiers in plant science · 2024Article
- Epigenetic Diversity Underlying Seasonal and Annual Variations in Brown Planthopper (BPH) Populations as Revealed by Methylation- sensitive Restriction Assay.Current genomics · 2023Article
- Exploring Genetic and Epigenetic Changes in Lingonberry Using Molecular Markers: Implications for Clonal Propagation.Current issues in molecular biology · 2023Article
- Exploring the crop epigenome: a comparison of DNA methylation profiling techniques.Frontiers in plant science · 2023Review
- The Effect of Mammalian Sex Hormones on Polymorphism and Genomic Instability in the Common Bean (Plants (Basel, Switzerland) · 2022Article
- Epigenetic and Physiological Responses to Varying Root-Zone Temperatures in Greenhouse Rocket.Genes · 2022Article
- Assessment of natural DNA methylation variation and its association with economically important traits in dolichos bean (Lablab purpureus L. Var. Lignosus) using AMP-PCR assay.Journal of applied genetics · 2021Article
- Understanding In Vitro Tissue Culture-Induced Variation Phenomenon in Microspore System.International journal of molecular sciences · 2021Review
- Differential DNA methylation and gene expression during development of reproductive and vegetative organs in Ilex species.Journal of plant research · 2021Article
- Apple Autotetraploids with Enhanced Resistance to Apple Scab (International journal of molecular sciences · 2021Article
- Article
- Tissue culture-induced DNA methylation in crop plants: a review.Molecular biology reports · 2021Review
- Current Advances in DNA Methylation Analysis Methods.BioMed research international · 2021Review
- Epigenetic Variability Among Saffron Crocus (Frontiers in plant science · 2021Article
- Application of the MSAP Technique to Evaluate Epigenetic Changes in Plant Conservation.International journal of molecular sciences · 2020Review
6 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundDNA methylation plays a key role in development, contributes to genome stability, and may also respond to external factors supporting adaptation and evolution. To connect different types of stimuli with particular biological processes, identifying genome regions with altered 5-methylcytosine distribution at a genome-wide scale is important. Many researchers are using the simple, reliable, and relatively inexpensive Methylation Sensitive Amplified Polymorphism (MSAP) method that is particularly useful in studies of epigenetic variation. However, electrophoretic patterns produced by the method are rather difficult to interpret, particularly when MspI and HpaII isoschizomers are used because these enzymes are methylation-sensitive, and any C within the CCGG recognition motif can be methylated in plant DNA.
resultsHere, we evaluate MSAP patterns with respect to current knowledge of the enzyme activities and the level and distribution of 5-methylcytosine in plant and vertebrate genomes. We discuss potential caveats related to complex MSAP patterns and provide clues regarding how to interpret them. We further show that addition of combined HpaII + MspI digestion would assist in the interpretation of the most controversial MSAP pattern represented by the signal in the HpaII but not in the MspI profile.
conclusionsWe recommend modification of the MSAP protocol that definitely discerns between putative hemimethylated mCCGG and internal CmCGG sites. We believe that our view and the simple improvement will assist in correct MSAP data interpretation.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.