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| Status |
Public on Oct 11, 2018 |
| Title |
Genome-wide mapping and functional analysis of DNA methylation in clonal invasive crayfish [RNA-seq] |
| Organisms |
Procambarus fallax; Procambarus virginalis |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
The marbled crayfish (Procambarus virginalis) is a unique freshwater crayfish characterized by genetic uniformity, phenotypic variability, and substantial invasive potential. As invasion into different habitats occurs in the absence of genetic variation, epigenetic mechanisms have been suggested to mediate phenotypic adaptation. However, epigenetic regulation has not been analyzed in this organism yet. Here we show that the recently published P. virginalis draft genome sequence encodes a conserved DNA methylation system. Whole-genome bisulfite sequencing of multiple replicates and different tissues revealed a methylation pattern that is characterized by gene body methylation of housekeeping genes. Interestingly, this pattern was largely tissue-invariant, suggesting a function that is unrelated to cell-fate specification. Indeed, integrative analysis of RNA-seq datasets showed that gene body methylation correlated with stable gene expression, while unmethylated genes often showed a high degree of inter-individual expression variation. Our findings thus establish the methylome of an emerging model organism and suggest that methylation-dependent regulation of gene expression variability may facilitate the phenotypic adaptation and invasive spread of this animal.
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| Overall design |
RNA-seq data of different tissues (hepatopancreas, abdominal musculature) from 6 different P. virginalis individuals and 2 different P. fallax individuals
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| Contributor(s) |
Gatzmann F, Falckenhayn C, Gutekunst J, Hanna K, Raddatz G, Carneiro VC, Lyko F |
| Citation(s) |
30286795 |
| |
| Submission date |
Mar 27, 2018 |
| Last update date |
Jan 10, 2019 |
| Contact name |
Fanny Gatzmann |
| E-mail(s) |
f.gatzmann@dkfz.de
|
| Organization name |
DKFZ
|
| Department |
A130 Epigenetics
|
| Street address |
Im Neuenheimer Feld 580
|
| City |
Heidelberg |
| ZIP/Postal code |
69120 |
| Country |
Germany |
| |
|
| Platforms (2) |
| GPL22798 |
Illumina HiSeq 2000 (Procambarus fallax) |
| GPL24771 |
Illumina HiSeq 2000 (Procambarus virginalis) |
|
| Samples (9)
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| This SubSeries is part of SuperSeries: |
| GSE112411 |
Genome-wide mapping and functional analysis of DNA methylation in clonal invasive crayfish |
|
| Relations |
| BioProject |
PRJNA447898 |
| SRA |
SRP136678 |
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