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Comment
. 2016 Aug 16:3:160063.
doi: 10.1038/sdata.2016.63.

Genome sequencing of a single tardigrade Hypsibius dujardini individual

Kazuharu Arakawa  1   2 , Yuki Yoshida  1   2 , Masaru Tomita  1   2
Affiliations
Comment

Genome sequencing of a single tardigrade Hypsibius dujardini individual

Kazuharu Arakawa et al. Sci Data. .

Abstract

Tardigrades are ubiquitous microscopic animals that play an important role in the study of metazoan phylogeny. Most terrestrial tardigrades can withstand extreme environments by entering an ametabolic desiccated state termed anhydrobiosis. Due to their small size and the non-axenic nature of laboratory cultures, molecular studies of tardigrades are prone to contamination. To minimize the possibility of microbial contaminations and to obtain high-quality genomic information, we have developed an ultra-low input library sequencing protocol to enable the genome sequencing of a single tardigrade Hypsibius dujardini individual. Here, we describe the details of our sequencing data and the ultra-low input library preparation methodologies.

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Conflict of interest statement

The authors declare no competing financial interests.

Figures

Figure 1
Figure 1. Comparison with existing assemblies and raw reads of H. dujardini.
The ultra-low input sequencing data described in this work showed greater genomic coverage, as represented by a higher mapping rate of UNC and Edinburgh reads to our assembly, than between that of UNC and Edinburgh. UNC mapped to our assembly at 84.72%, whereas 84.27% mapped to the Edinburgh assembly. Similarly, 77.10% of the Edinburgh reads mapped to our assembly, but only 73.95% mapped to UNC assembly. While the UNC and Edinburgh reads presumably contained 10~25% contamination, as suggested by the percentage of unmapped reads, 94.09 or 97.54% of the study reads mapped to the UNC or Edinburgh assemblies, respectively. These data indicated minimal contamination in our reads.
Figure 2
Figure 2. Transcriptome abundances of active and tun (in anhydrobiosis) adults in three biological replicates.
Percentage of mapped reads is shown beneath the heatmap.
Figure 3
Figure 3. Transcriptome abundances of juveniles (B1~B5) and eggs (E1E5) in the first 1~5 days after hatching or laying.
Sequences were obtained in three biological replicates except for B5, which only has two replicates. The percentage of mapped reads is shown beneath the heatmap, and samples with a mapping percentage greater than 50% are colored in red.
See this image and copyright information in PMC

Comment on

References

Data Citations

    1. Arakawa K., Yoshida Y., Tomita M. 2016. DDBJ Sequence Read Archive. DRA004455
    1. Arakawa K., Yoshida Y., Tomita M. 2016. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.t4k7h - DOI

References

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