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Coral-associated metagenomes from an Acropora pulchra colony

ABSTRACT: Raw metagenomic sequences from water samples collected around an Acropora pulchra colony (Tema’e Beach reef, Mo’orea)

PROVIDER: PRJEB54597 | ENA |

REPOSITORIES: ENA

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			Action	DRS
		Other
	ERR10020173_1.fastq.gz	Fastqsanger.gz
	ERR10020173_2.fastq.gz	Fastqsanger.gz
	ERR9929410_1.fastq.gz	Fastqsanger.gz
	ERR9929410_2.fastq.gz	Fastqsanger.gz

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Coral-associated planktonic 18S rRNA-gene sequences from an Acropora pulchra colony

Project description:Planktonic 18S rRNA gene sequences (V4 region) from water samples collected around an Acropora pulchra colony (Tema’e Beach reef, Mo’orea)

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Coral-associated planktonic 16S rRNA-gene sequences from an Acropora pulchra colony

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High natural gene expression variation in the reef-building coral Acropora millepora: Potential for acclimative and adaptive plasticity

Project description:This experiment assessed the natural gene expression variation present between colonies of the Indo-Pacific reef-building coral Acropora millepora, and additionally explored whether gene expression differed between two different intron haplotypes according to intron 4-500 in a carbonic anhydrase homolog. This study found no correspondence between host genotype and transcriptional state, but found significant intercolony variation, detecting 488 representing unique genes or 17% of the total genes analyzed. Such transcriptomic variation could be the basis upon which natural selection can act. Underlying variation could potentially allow reef corals to respond to different environments. Whether this source of variation and the genetic responses of corals and its symbionts will allow coral reefs to cope to the rapid pace of global change remains unknown. A. millepora colonies were brought to a common garden in the reef lagoon, i.e. under the same environmental conditions. This common garden combined with acclimatization removes environmental effects on the physiology of the coral colonies. For the comparison of the two intron haplotypes, we applied a multiple dye-swap microarray design for the two groups of coral colonies (N=3 per group) defined based on the two genotypes resolved with the use of intron 4-500 (Fig. 1). To also examine the intra-haplotype variation we added a loop design nested to the above multiple dye-swap design, where three samples per colony were included. Colonies 1, 2, and 3 are of intron 4-500 haplotype 1; colonies 4, 5, and 6 are haplotype 2.

2013-04-08 | E-GEOD-42684 | biostudies-arrayexpress

High natural gene expression variation in the reef-building coral Acropora millepora: Potential for acclimative and adaptive plasticity

2013-04-08 | GSE42684 | GEO

Acropora cf. pulchra

Project description:Population genomics for coral reef restoration - a case study of staghorn corals in Micronesia

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Mixed patterns of intergenerational DNA methylation inheritance in Acropora

Project description:For sessile organisms at high risk from climate change, phenotypic plasticity can be critical to rapid acclimation. Epigenetic markers like DNA methylation are hypothesized as mediators of plasticity; methylation is associated with the regulation of gene expression, can change in response to ecological cues, and is a proposed basis for the inheritance of acquired traits. Within reef-building corals, gene body methylation can change in response to ecological stressors. If coral DNA methylation is transmissible across generations, this could potentially facilitate rapid acclimation to environmental change. We investigated methylation heritability in Acropora, a stony reef-building coral. Two A. millepora and two A. selago adults were crossed, producing eight offspring crosses (four hybrid, two of each species). We used whole-genome bisulfite sequencing to identify methylated loci and allele-specific alignments to quantify per-locus inheritance. If methylation is heritable, differential methylation (DM) between the parents should equal DM between paired offspring alleles at a given locus. We found a mixture of heritable and non-heritable loci, with heritable portions ranging from 44% to 90% among crosses. Gene body methylation was more heritable than intergenic methylation, and most loci had a consistent degree of heritability between crosses (i.e., the deviation between parental and offspring DM were of similar magnitude and direction). Our results provide evidence that coral methylation can be inherited but that heritability is heterogenous throughout the genome. Future investigations into this heterogeneity and its phenotypic implications will be important to understanding the potential capability of intergenerational environmental acclimation in reef building corals."

2024-01-15 | GSE252970 | GEO

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