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. 2023 Apr 22:48:109171.
doi: 10.1016/j.dib.2023.109171. eCollection 2023 Jun.

Genomic and 16S metabarcoding data of Holothuria tubulosa Gmelin, 1791

Maria Kyritsi  1 , George Tsiolas  1 , Sofia Michailidou  1 , Konstantinos Koukaras  1 , Anagnostis Argiriou  1   2
Affiliations

Genomic and 16S metabarcoding data of Holothuria tubulosa Gmelin, 1791

Maria Kyritsi et al. Data Brief. .

Abstract

Holothuria tubulosa Gmelin, 1791 is an edible sea cucumber species widespread in the Mediterranean Sea with ecological and increasing economic importance. Genome data of holothurian species is limited and the availability of genomic data resources is crucial in understanding their biology and adaptability mechanisms. This dataset presents the raw genome sequence data of H. tubulosa sequenced on an Illumina NextSeq 2000 platform. Genome size estimation was performed based on k-mer frequency approach. Additionally, the bacterial microbiome in the stomach and intestine of H. tubulosa collected from the Strymonian Gulf (North Aegean Sea, Greece) through 16S rRNA amplicon metabarcoding sequencing is reported. Sequencing was performed on an Illumina MiSeq platform. Analysis was conducted using the QIIME2 software package, the DADA2 algorithm and a trained classifier for taxonomy assignment. The datasets presented in this work serve as valuable resources for a comprehensive investigation of H. tubulosa at the genome level and for comparative genomics and echinoderms gut microbial studies.

Keywords: 16S rRNA; Echinoderms; Gastrointestinal tract microbiome; Holothuria tubulosa; Illumina; Metagenomics; Sea cucumber; Whole genome sequencing.

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Conflict of interest statement

The authors declare that they have no known competing financial interests or personal relationships which have or could be perceived to have influenced the work reported in this article.

Figures

Fig 1
Fig. 1
Plot of k-mer spectra and model fitting of the Holothuria tubulosa Gmelin, 1791 genome.
Fig 2
Fig. 2
Alpha diversity indices (Observed ASVs, Shannon, Simpson, and Inverse Simpson) calculated for each digestive tract compartment.
Fig 3
Fig. 3
Principal Coordinates Analysis (PCoA) plot of gastrointestinal tract samples based on bacterial microbiome composition. The first two principal coordinates captured 55.1% of the total variation.
Fig 4
Fig. 4
Barplots depicting the percentage of relative abundances of the bacterial microbiome composition for the ten most abundant Phyla.
Fig 5
Fig. 5
Family level heatmaps of the percent relative abundances in each sample. The number in each box represents the percentage of aggregated ASVs of each Family.
See this image and copyright information in PMC

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