Kyritsi M et al. (2023), Genomic and 16S metabarcoding data of Holothuri...

ECB-ART-51418

Data Brief 2023 Jun 01;48:109171. doi: 10.1016/j.dib.2023.109171.

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

Kyritsi M , Tsiolas G , Michailidou S , Koukaras K , Argiriou A .

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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.

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References [+] :

Bokulich, Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2's q2-feature-classifier plugin. 2018, Pubmed

	Fig. 1. Plot of k-mer spectra and model fitting of the Holothuria tubulosa Gmelin, 1791 genome.
	Fig. 2. Alpha diversity indices (Observed ASVs, Shannon, Simpson, and Inverse Simpson) calculated for each digestive tract compartment.
	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. Barplots depicting the percentage of relative abundances of the bacterial microbiome composition for the ten most abundant Phyla.
	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.