Published July 14, 2021 | Version v1
Dataset Open

Data from: Inheritance of DNA methylation differences in the mangrove Rhizophora mangle

Authors/Creators

  • 1. epartment of Integrative Biology, University of South Florida, 4202 E. Fowler Ave, Tampa, 33620, Florida, USA
  • 2. Department of Evolutionary Ecology, CSIC, Estación Biológica de Doñana, Sevilla, 41092, Spain
  • 3. MWSchmid GmbH, Möhrlistrasse 25, Zurich, 8006, Switzerland
  • 4. Diretoria de Pesquisas, Instituto de Pesquisas, Jardim Botânico do Rio de Janeiro, Rua Pacheco Leão, 915, Rio de Janeiro/RJ, CEP 22460-030, Brazil
  • 5. Agroscope, Route de Duillier 50, Nyon, 1260, Switzerland
  • 6. Department of Integrative Biology, University of South Florida, 4202 E. Fowler Ave, Tampa, 33620, Florida, USA
  • 7. Department of Biology and Program in Environmental Studies, Wesleyan University, Middletown, 06459, Connecticut, USA, 0000-0002-9951-0013
  • 8. Department of Experimental Plant Ecology, Radboud University, Nijmegen, 6500 GL, The Netherlands
  • 9. Department of Biology, Georgia Southern University, Armstrong Campus, Savannah, 31419, Georgia, USA
  • 10. Plant Evolutionary Ecology, University of Tübingen, Institute of Evolution & Ecology, Tübingen, 72076, Germany

Description

This record contains supplementary information for the article "Inheritance of DNA methylation differences in the mangrove Rhizophora mangle" published in Evolution&Development. It contains the barcodes (barcodes.txt), the reference contigs (contigs.fasta.gz), the annotation of the reference contigs (mergedAnnot.csv.gz), the SNPs (snps.vcf.gz), the methylation data (methylation.txt.gz), and the experimental design (design.txt). All data are unfiltered. Short reads are available on SRA (PRJNA746695). Note that demultiplexing of the pooled reads (SRX11452376) will fail because the barcodes are already removed and the header information is lost during SRA submission. Instead, use the pre-demultiplexed reads that are as well linked to PRJNA746695.


 

Table S13 (TableS13_DSSwithGeneAnnotation.offspringFams.csv.gz):

Differential cytosine methylation between families using the mother data set. The first three columns fragment number ("chr"), the position within the fragment ("pos"), and the sequence context ("context"). Columns with the pattern FDR_<X>_vs_<Y> contain false discovery rates of a test comparing population X with population Y. Average DNA methylation levels for each population are given in the columns "AC", "FD", "HI", "UTB", "WB", and "WI". The remaining columns contain the annotation of the fragment, for example whether it matches to a gene and if yes, the gene name ID and description are provided.

Files

barcodes.txt

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