Transcriptome information of the Arctic green sea urchin and its use in environmental monitoring

Rhee, Jae-Sung; Kim, Bomi; Choi, Beom-Soon; Choi, Ik‐Young; Park, Hyun; Ahn, In-Young; Lee, Jae‐Seong

doi:10.1007/s00300-014-1507-9

Cited by 4 publications

(4 citation statements)

References 69 publications

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“…The entire expressed gene set during S. purpuratus sea urchin embryos development was measured, showing complex patterns of expression (Tu et al 2014). The transcriptomic approach could also be very useful in environmental monitoring, as was reported on the Arctic green sea urchin (Rhee et al 2014).…”

Section: Discussionmentioning

confidence: 95%

Autophagy as a defense strategy against stress: focus on Paracentrotus lividus sea urchin embryos exposed to cadmium

Chiarelli

Martino

Agnello

et al. 2016

Cell Stress and Chaperones

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Autophagy is used by organisms as a defense strategy to face environmental stress. This mechanism has been described as one of the most important intracellular pathways responsible for the degradation and recycling of proteins and organelles. It can act as a cell survival mechanism if the cellular damage is not too extensive or as a cell death mechanism if the damage/stress is irreversible; in the latter case, it can operate as an independent pathway or together with the apoptotic one. In this review, we discuss the autophagic process activated in several aquatic organisms exposed to different types of environmental stressors, focusing on the sea urchin embryo, a suitable system recently included into the guidelines for the use and interpretation of assays to monitor autophagy. After cadmium (Cd) exposure, a heavy metal recognized as an environmental toxicant, the sea urchin embryo is able to adopt different defense mechanisms, in a hierarchical way. Among these, autophagy is one of the main responses activated to preserve the developmental program. Finally, we discuss the interplay between autophagy and apoptosis in the sea urchin embryo, a temporal and functional choice that depends on the intensity of stress conditions.

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Section: Discussionmentioning

confidence: 95%

Autophagy as a defense strategy against stress: focus on Paracentrotus lividus sea urchin embryos exposed to cadmium

Chiarelli

Martino

Agnello

et al. 2016

Cell Stress and Chaperones

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“…) , partial transcriptomic information of two Antarctic sea urchins (Rhee et al . ; Dilly et al . ), and the transcriptome from roe and coelomocytes of the commercial species Evechinus chloroticus from New Zealand (Gillard et al .…”

Section: Introductionmentioning

confidence: 99%

“…In this study, we have used next-generation sequencing technologies to generate transcriptomic resources that will be used as base knowledge for further studies on thermal tolerance, adaptation and responses to environmental stress in A. lixula. This is particularly relevant since, to date, only genomic and transcriptomic information of sea urchins of the order Camarodonta are available, such as the genome of Strongylocentrotus purpuratus (Sodergren et al 2006), a transcriptome of the same species (Tu et al 2014), partial transcriptomic information of two Antarctic sea urchins (Rhee et al 2014;Dilly et al 2015), and the transcriptome from roe and coelomocytes of the commercial species Evechinus chloroticus from New Zealand (Gillard et al 2014). Our study therefore provides the first transcriptomic information of a species of the order Arbacioida, evolutionary distant to Camarodonta on the basis of both molecular and morphological features (Smith 1988;Smitha & Krohb 2013).…”

Section: Introductionmentioning

confidence: 99%

Characterization of the transcriptome and gene expression of four different tissues in the ecologically relevant sea urchin Arbacia lixula using RNA‐seq

Pérez‐Portela

Turon

Riesgo

2015

Molecular Ecology Resources

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The sea urchin Arbacia lixula is a keystone species in Mediterranean ecosystems that drive landscape changes in littoral communities. However, genomic information available for the whole order Arbacioida is very limited. Using RNA-seq techniques, we have characterized the transcriptome of four different tissue types in A. lixula: the 'somatic' tissues (coelomocytes and digestive tissue) and the 'reproductive' tissues (ovary and testis), from two replicated cDNA libraries for each sample. Additionally, we performed a de novo assembly to build the 'reference' transcriptome, pooling reads of the four tissues, to analyse the differential expression (DE) in pairwise comparisons between tissues. The complete de novo assembly yielded 186,084 transcripts, with a sequence size limit of 100 nt, being 31% of them spliced isoforms. Approximately 21% of the transcripts had blast hits against proteins of metazoans (E < 10(-5) ), being less than 2.2% functionally annotated. Between coelomocytes and digestive, 30,794 transcripts showed DE (~11.8% of them with blast hit), and 19,567 transcripts did so between testis and ovary (~28.5% of them with blast hit). Major GO-term categories upregulated in somatic tissues were those related to muscle contraction and energy generation in digestive, and lipid metabolism associated with immune response in coelomocytes. Between reproductive tissues, the major upregulated GO categories were related to energy generation in testis, and negative regulation of nucleotide metabolism in ovary. We particularly screened for a collection of target genes in each tissue because of their relevance for further studies on evolution and adaptation of echinoids.

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“…A 7 day depuration decreased single strand breaks in PFOS and PFNA-exposed mussels, but not chromosomal breaks or apoptosis. Rhee et al (2014) (2014) In general, SOD and CAT activity increased and GPx and ascorbate peroxidase activity decreased, with P.…”

Section: Personal Care Productsmentioning

confidence: 99%

Effects of Pollution on Marine Organisms

Mearns

Reish

Oshida

et al. 2015

Water Environment Research

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This review covers selected 2014 articles on the biological effects of pollutants and human physical disturbances on marine and estuarine plants, animals, ecosystems and habitats. The review, based largely on journal articles, covers field and laboratory measurement activities (bioaccumulation of contaminants, field assessment surveys, toxicity testing and biomarkers) as well as pollution issues of current interest including endocrine disrupters, emerging contaminants, wastewater discharges, dredging and disposal, etc. Special emphasis is placed on effects of oil spills and marine debris due in part to the 2010 Deepwater Horizon oil blowout in the Gulf of Mexico and the 2011 Japanese tsunami. Several topical areas reviewed in the past (ballast water and ocean acidification) were dropped this year. The focus of this review is on effects, not pollutant fate and transport. There is considerable overlap across subject areas (e.g.some bioaccumulation papers may be cited in other topical categories). Please use keyword searching of the text to locate related but distributed papers. Use this review only as a guide and please consult the original papers before citing them.

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Transcriptome information of the Arctic green sea urchin and its use in environmental monitoring

Cited by 4 publications

References 69 publications

Autophagy as a defense strategy against stress: focus on Paracentrotus lividus sea urchin embryos exposed to cadmium

Autophagy as a defense strategy against stress: focus on Paracentrotus lividus sea urchin embryos exposed to cadmium

Characterization of the transcriptome and gene expression of four different tissues in the ecologically relevant sea urchin Arbacia lixula using RNA‐seq

Effects of Pollution on Marine Organisms

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