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Diatom communities associated with loggerhead sea turtles

ABSTRACT: loggerhead sea turtle carapace and skin diatom rbcL marker gene NGS sequencing

PROVIDER: PRJEB51297 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR9127150_1.fastq.gz	Fastqsanger.gz
	ERR9127150_2.fastq.gz	Fastqsanger.gz
	ERR9127145_1.fastq.gz	Fastqsanger.gz
	ERR9127145_2.fastq.gz	Fastqsanger.gz
	ERR9127146_1.fastq.gz	Fastqsanger.gz

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Diatom communities associated with loggerhead sea turtles

Project description:rbcL marker gene NGS sequencing of diatom communities on loggerhead sea turtle carapace and skin

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Geographical variation in the diatom communities associated with loggerhead sea turtles (Caretta caretta).

Project description:Epizoic diatoms form an important part of micro-epibiota of marine vertebrates such as whales and sea turtles. The present study explores and compares the diversity and biogeography of diatom communities growing on the skin and shell of loggerhead sea turtles (Caretta caretta) from four different localities: Adriatic Sea (Croatia), Ionian Sea (Greece), South Africa and Florida Bay (USA) using both light and scanning electron microscopy. We observed almost 400 diatom taxa belonging to more than 100 genera. Diatom communities from Greece and Croatia showed the highest similarity and were statistically different from those recorded from South Africa and Florida. Part of this variation could be attributed to differences in sampling techniques; however, we believe that geography had an important role. In general, contrary to several previous observations from sea turtles, the presumably exclusively epizoic diatoms contributed less than common benthic taxa to the total diatom flora, which might have been related to the loggerhead feeding behavior. Moreover, skin samples differed from carapace samples in having a distinct diatom composition with a higher proportion of the putative true epizoonts. Our results indicate that epizoic diatom communities differ according to loggerhead geographical location and substrate (skin vs. carapace). The relative abundances of common benthic diatoms and putative exclusive epizoic taxa may inform about sea turtle habitat use or behavior though detailed comparisons among different host species have yet to be performed.

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Phytoplankton community composition and gene expression involved in carbon and nitrogen assimilation

Project description:A functional gene microarray was developed and used to investigate phytoplankton community composition and gene expression in the English Channel. Genes encoding the CO2 fixation enzyme RuBisCO (rbcL) and the nitrate assimilation enzyme nitrate reductase (NR) representing several major groups of phytoplankton were included as oligonucleotide probes on the 'phytoarray'. Five major groups of eukaryotic phytoplankton that possess the Type 1D rbcL gene were detected, both in terms of presence (DNA) and activity (rbcL gene expression). Changes in relative signal intensity among the Type 1D rbcL probes indicated a shift from diatom dominance in the spring bloom to dominance by haptophytes and flagellates later in the summer. Because of the limitations of a smaller database, NR probes detected fewer groups, but due to the greater diversity among known NR sequences, NR probes provided higher phylogenetic resolution than did rbcL probes, and identified two uncultivated diatom phylotypes as the most abundant (DNA) and active (NR gene expression) in field samples. Unidentified chlorophytes and the diatom Phaeodactylum tricornutum were detected at both the DNA and cDNA (gene expression) levels. The reproducibility of the array was evaluated in several ways and future directions for further improvement of probe development and sensitivity are outlined. The phytoarray provides a relatively high resolution, high throughput approach to assessing phytoplankton community composition in marine environments. Keywords: seawater natural assemblages, functional gene expression

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Sequencing of a Listeria monocytogenes strain isolated from a loggerhead sea turtle

Project description:Sequencing of a Listeria monocytogenes strain isolated from a loggerhead sea turtle

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