Tag: genomes

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CLOCKS IN ALGAE.
Biochemistry. 2014 Nov 7;
Authors: Noordally ZB, Millar A
Abstract
As major contributors to global oxygen levels and producers of fatty acids, carotenoid, sterols an…

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Microsatellite abundance across the Anthozoa and Hydrozoa in the phylum Cnidaria.
BMC Genomics. 2014 Oct 27;15(1):939
Authors: Ruiz-Ramos DV, Baums IB
Abstract
BACKGROUND: Microsate…

Unfolding the secrets of coral-algal symbiosis.

ISME J. 2014 Oct 24;

Authors: Rosic N, Ling EY, Chan CK, Lee HC, Kaniewska P, Edwards D, Dove S, Hoegh-Guldberg O

Abstract
Dinoflagellates from the genus Symbiodinium form a mutualistic symbiotic relationship with reef-building corals. Here we applied massively parallel Illumina sequencing to assess genetic similarity and diversity among four phylogenetically diverse dinoflagellate clades (A, B, C and D) that are commonly associated with corals. We obtained more than 30 000 predicted genes for each Symbiodinium clade, with a majority of the aligned transcripts corresponding to sequence data sets of symbiotic dinoflagellates and <2% of sequences having bacterial or other foreign origin. We report 1053 genes, orthologous among four Symbiodinium clades, that share a high level of sequence identity to known proteins from the SwissProt (SP) database. Approximately 80% of the transcripts aligning to the 1053 SP genes were unique to Symbiodinium species and did not align to other dinoflagellates and unrelated eukaryotic transcriptomes/genomes. Six pathways were common to all four Symbiodinium clades including the phosphatidylinositol signaling system and inositol phosphate metabolism pathways. The list of Symbiodinium transcripts common to all four clades included conserved genes such as heat shock proteins (Hsp70 and Hsp90), calmodulin, actin and tubulin, several ribosomal, photosynthetic and cytochrome genes and chloroplast-based heme-containing cytochrome P450, involved in the biosynthesis of xanthophylls. Antioxidant genes, which are important in stress responses, were also preserved, as were a number of calcium-dependent and calcium/calmodulin-dependent protein kinases that may play a role in the establishment of symbiosis. Our findings disclose new knowledge about the genetic uniqueness of symbiotic dinoflagellates and provide a list of homologous genes important for the foundation of coral-algal symbiosis.The ISME Journal advance online publication, 24 October 2014; doi:10.1038/ismej.2014.182.

PMID: 25343511 [PubMed – as supplied by publisher]

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Separate Introns Gained within Short and Long Soluble Peridinin-Chlorophyll a-Protein Genes during Radiation of Symbiodinium (Dinophyceae) Clade A and B Lineages.
PLoS One. 2014;9(10):e110608
Author…

RNA sequencing and de novo assembly of the digestive gland transcriptome in Mytilus galloprovincialis fed with toxinogenic and non-toxic strains of Alexandrium minutum.
BMC Res Notes. 2014 Oct 14;7(1):722
Authors: …

Gene expression and molecular evolution of sxtA4 in a saxitoxin producing dinoflagellate Alexandrium catenella.
Toxicon. 2014 Oct 6;
Authors: Wiese M, Murray SA, Alvin A, Neilan BA
Abstract
Dinoflag…

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Connecting alveolate cell biology with trophic ecology in the marine plankton using the ciliate Favella as a model.
FEMS Microbiol Ecol. 2014 Jul 19;
Authors: Echevarria ML, Wolfe GV, Strom SL, Tay…

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Are Niemann-Pick type C proteins key players in cnidarian-dinoflagellate endosymbioses?

Mol Ecol. 2014 Sep;23(18):4527-40

Authors: Dani V, Ganot P, Priouzeau F, Furla P, Sabourault C

Abstract
The symbiotic interaction between cnidarians, such as corals and sea anemones, and the unicellular algae Symbiodinium is regulated by yet poorly understood cellular mechanisms, despite the ecological importance of coral reefs. These mechanisms, including host-symbiont recognition and metabolic exchange, control symbiosis stability under normal conditions, but also lead to symbiosis breakdown (bleaching) during stress. This study describes the repertoire of the sterol-trafficking proteins Niemann-Pick type C (NPC1 and NPC2) in the symbiotic sea anemone Anemonia viridis. We found one NPC1 gene in contrast to the two genes (NPC1 and NPC1L1) present in vertebrate genomes. While only one NPC2 gene is present in many metazoans, this gene has been duplicated in cnidarians, and we detected four NPC2 genes in A. viridis. However, only one gene (AvNPC2-d) was upregulated in symbiotic relative to aposymbiotic sea anemones and displayed higher expression in the gastrodermis (symbiont-containing tissue) than in the epidermis. We performed immunolabelling experiments on tentacle cross sections and demonstrated that the AvNPC2-d protein was closely associated with symbiosomes. In addition, AvNPC1 and AvNPC2-d gene expression was strongly downregulated during stress. These data suggest that AvNPC2-d is involved in both the stability and dysfunction of cnidarian-dinoflagellate symbioses.

PMID: 25066219 [PubMed – in process]

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Assessing Symbiodinium diversity in scleractinian corals via next-generation sequencing-based genotyping of the ITS2 rDNA region.
Mol Ecol. 2014 Sep;23(17):4418-33
Authors: Arif C, Daniels C, Bayer…

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A genomic approach to coral-dinoflagellate symbiosis: studies of Acropora digitifera and Symbiodinium minutum.
Front Microbiol. 2014;5:336
Authors: Shinzato C, Mungpakdee S, Satoh N, Shoguchi E
…