Cargando…

Conditional GWAS of non-CG transposon methylation in Arabidopsis thaliana reveals major polymorphisms in five genes

Genome-wide association studies (GWAS) have revealed that the striking natural variation for DNA CHH-methylation (mCHH; H is A, T, or C) of transposons has oligogenic architecture involving major alleles at a handful of known methylation regulators. Here we use a conditional GWAS approach to show th...

Descripción completa

Detalles Bibliográficos
Autores principales:	Sasaki, Eriko, Gunis, Joanna, Reichardt-Gomez, Ilka, Nizhynska, Viktoria, Nordborg, Magnus
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Public Library of Science 2022
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9491579/ https://www.ncbi.nlm.nih.gov/pubmed/36084135 http://dx.doi.org/10.1371/journal.pgen.1010345

Ejemplares similares

Locally adaptive temperature response of vegetative growth in Arabidopsis thaliana
por: Clauw, Pieter, et al.
Publicado: (2022)

On the causes of gene-body methylation variation in Arabidopsis thaliana
por: Pisupati, Rahul, et al.
Publicado: (2023)

Metabolome plasticity in 241 Arabidopsis thaliana accessions reveals evolutionary cold adaptation processes
por: Weiszmann, Jakob, et al.
Publicado: (2023)

Unstable Inheritance of 45S rRNA Genes in Arabidopsis thaliana
por: Rabanal, Fernando A., et al.
Publicado: (2017)

The AraGWAS Catalog: a curated and standardized Arabidopsis thaliana GWAS catalog
por: Togninalli, Matteo, et al.
Publicado: (2018)

Common alleles of CMT2 and NRPE1 are major determinants of CHH methylation variation in Arabidopsis thaliana
por: Sasaki, Eriko, et al.
Publicado: (2019)

Multiple alleles at a single locus control seed dormancy in Swedish Arabidopsis
por: Kerdaffrec, Envel, et al.
Publicado: (2016)

Verification of Arabidopsis stock collections using SNPmatch, a tool for genotyping high-plexed samples
por: Pisupati, Rahul, et al.
Publicado: (2017)

"Missing" G x E Variation Controls Flowering Time in Arabidopsis thaliana
por: Sasaki, Eriko, et al.
Publicado: (2015)

Analysis and visualization of Arabidopsis thaliana GWAS using web 2.0 technologies
por: Huang, Yu S., et al.
Publicado: (2011)

GWAS with Heterogeneous Data: Estimating the Fraction of Phenotypic Variation Mediated by Gene Expression Data
por: Sasaki, Eriko, et al.
Publicado: (2018)

Epistatic and allelic interactions control expression of ribosomal RNA gene clusters in Arabidopsis thaliana
por: Rabanal, Fernando A., et al.
Publicado: (2017)

AraPheno and the AraGWAS Catalog 2020: a major database update including RNA-Seq and knockout mutation data for Arabidopsis thaliana
por: Togninalli, Matteo, et al.
Publicado: (2020)

Gradual evolution of allopolyploidy in Arabidopsis suecica
por: Burns, Robin, et al.
Publicado: (2021)

The maternal environment interacts with genetic variation in regulating seed dormancy in Swedish Arabidopsis thaliana
por: Kerdaffrec, Envel, et al.
Publicado: (2017)

Keeping It Local: Evidence for Positive Selection in Swedish Arabidopsis thaliana
por: Huber, Christian D., et al.
Publicado: (2014)

Transposon age and non-CG methylation
por: Wang, Zhengming, et al.
Publicado: (2020)

The Pattern of Polymorphism in Arabidopsis thaliana
por: Nordborg, Magnus, et al.
Publicado: (2005)

AraPheno: a public database for Arabidopsis thaliana phenotypes
por: Seren, Ümit, et al.
Publicado: (2017)

Genome Sequencing Reveals the Origin of the Allotetraploid Arabidopsis suecica
por: Novikova, Polina Yu., et al.
Publicado: (2017)

Natural allelic variation underlying a major fitness tradeoff in Arabidopsis thaliana
por: Todesco, Marco, et al.
Publicado: (2010)

On the post-glacial spread of human commensal Arabidopsis thaliana
por: Lee, Cheng-Ruei, et al.
Publicado: (2017)

Linkage and Association Mapping of Arabidopsis thaliana Flowering Time in Nature
por: Brachi, Benjamin, et al.
Publicado: (2010)

Limited Contribution of DNA Methylation Variation to Expression Regulation in Arabidopsis thaliana
por: Meng, Dazhe, et al.
Publicado: (2016)

Generation of a luciferase-based reporter for CHH and CG DNA methylation in Arabidopsis thaliana
por: Dinh, Thanh Theresa, et al.
Publicado: (2013)

Long noncoding RNAs contribute to DNA damage resistance in Arabidopsis thaliana
por: Durut, Nathalie, et al.
Publicado: (2023)

Patterns of Polymorphism at the Self-Incompatibility Locus in 1,083 Arabidopsis thaliana Genomes
por: Tsuchimatsu, Takashi, et al.
Publicado: (2017)

The Scale of Population Structure in Arabidopsis thaliana
por: Platt, Alexander, et al.
Publicado: (2010)

CRISPR-based targeting of DNA methylation in Arabidopsis thaliana by a bacterial CG-specific DNA methyltransferase
por: Ghoshal, Basudev, et al.
Publicado: (2021)

Canalization of genome-wide transcriptional activity in Arabidopsis thaliana accessions by MET1-dependent CG methylation
por: Srikant, Thanvi, et al.
Publicado: (2022)

Genome-wide association study of Arabidopsis thaliana's leaf microbial community
por: Horton, Matthew W., et al.
Publicado: (2014)

PoolHap: Inferring Haplotype Frequencies from Pooled Samples by Next Generation Sequencing
por: Long, Quan, et al.
Publicado: (2011)

Adaptive reduction of male gamete number in the selfing plant Arabidopsis thaliana
por: Tsuchimatsu, Takashi, et al.
Publicado: (2020)

Nucleosomes and DNA methylation shape meiotic DSB frequency in Arabidopsis thaliana transposons and gene regulatory regions
por: Choi, Kyuha, et al.
Publicado: (2018)

Stochastic gene expression in Arabidopsis thaliana
por: Araújo, Ilka Schultheiß, et al.
Publicado: (2017)

Co-Variation between Seed Dormancy, Growth Rate and Flowering Time Changes with Latitude in Arabidopsis thaliana
por: Debieu, Marilyne, et al.
Publicado: (2013)

The roles of non-CG methylation in Arabidopsis
por: Stroud, Hume, et al.
Publicado: (2013)

Long-read direct RNA sequencing reveals epigenetic regulation of chimeric gene-transposon transcripts in Arabidopsis thaliana
por: Berthelier, Jérémy, et al.
Publicado: (2023)

Transposons Hidden in Arabidopsis thaliana Genome Assembly Gaps and Mobilization of Non-Autonomous LTR Retrotransposons Unravelled by Nanotei Pipeline
por: Kirov, Ilya, et al.
Publicado: (2021)

Multiple FLC haplotypes defined by independent cis-regulatory variation underpin life history diversity in Arabidopsis thaliana
por: Li, Peijin, et al.
Publicado: (2014)

Cannot write session to /tmp/vufind_sessions/sess_q0svj45hsie9i6m8f8gm76qfdn