Metagenomes of 'Bathymodiolus' childressi gill tissues
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB19882 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| ERR2193920_1.fastq.gz | Fastqsanger.gz | |||
| ERR2193920_2.fastq.gz | Fastqsanger.gz | |||
| ERR2195675_1.fastq.gz | Fastqsanger.gz | |||
| ERR2195675_2.fastq.gz | Fastqsanger.gz | |||
| ERR2195676_1.fastq.gz | Fastqsanger.gz |
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Project description:Transcriptomic study of the association between 'Bathymodiolus' childressi deep sea mussel and its bacterial symbionts.
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Project description:Colonization of deep-sea hydrothermal vents by invertebrates was made efficient through their adaptation to a symbiotic lifestyle with chemosynthetic bacteria, the primary producers of these ecosystems. Anatomical adaptations such as the establishment of specialized cells or organs have been evidenced in numerous deep-sea invertebrates. However, very few studies detailed global inter-dependencies between host and symbionts in these ecosystems. In this study, we proposed to describe, using a proteo-transcriptomic approach, the effects of symbionts on the deep-sea mussel Bathymodiolus azoricus’ molecular biology. We induced an in situ depletion of symbionts and compared the proteo-transcriptome of the gills of mussels in three conditions: symbiotic mussels (natural population), symbiont-depleted mussels and aposymbiotic mussels
2019-02-13 | GSE124699 | GEO
Project description:Genomic study of the association between Bathymodiolus azoricus deep sea mussel and its bacterial symbionts.
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Project description:“Bathymodiolus” childressi is a species of deep-sea mussels found predominantly in the Gulf of Mexico harbouring a methane oxidizing symbiont (MOX). Ca. Endonucleobacter is a gammaproteobacterial intranuclear parasite that infects the ciliated edge cells of the deep-sea mussel “B.” childressi. After a single Ca. Endonucleobacter cell invades the host nucleus, it proliferates massively, increasing the volume of the nucleus up to 50 fold. It is hypothesized that intranuclear parasites use host chromatin as a nutritional source, however, this would lead to a destabilization of the replication niche. The aim of this study was to investigate how Ca. Endonucleobacter thrives in the nucleus and how it affects the host cell using various “-omics' ' approaches. In addition to protein identification we generated a high quality genome draft for Ca. Endonucleobacter using a hybrid assembly pipeline (PacBio + Illumina reads). We annotated this high quality genome draft and used it as a reference to identify the proteins responsible for the molecular interaction between Ca. Endonucleobacter and its host cell. The 12 specimens of “B.” childressi analyzed in this study were collected during five dives from the Mississippi Canyon site (MC853, 28º07’ N; -089º08’ W) and the Green Canyon site (GC234, 27º45’ N; -091º13’ W) at a water depth of 1,070 and 540 m, respectively. The mussels were selected according to their degree of Ca. Endonucleobacter infection. According to this criterion, the “B.” childressi specimens were divided into two conditions: 8 were classified as “infected”, while 4 were classified as “non-infected” (negative control). For each specimen, we prepare microdissected ciliated edge samples in triplicates.
2025-01-13 | PXD020317 | Pride
Project description:Bathymodiolus mussels inhabiting deep-sea hydrothermal vents harbor bacterial symbionts in their gills, which support the animals’ diet. While the basic mechanisms of energy generation and CO2 fixation that drive these symbioses are largely established, details of molecular interactions between the symbiotic partners and adaptations to their respective habitats remain unknown. In this study, we therefore comparatively examined the genomes and proteomes of two Bathymodiolus hosts and their respective symbionts from different geographical locations. Two mussel species were proteomically compared: i) B. thermophilus mussel containing sulfur-oxidizing symbiont from the east pacific rise. thermophilus and ii) B. azoricus containing thiotrophic and methanotrophic symbionts from the mid-atlantic ridge. Symbionts (for both species) and host components (for B. azoricus) were selectively enriched using a multi-step centrifugation procedure. Enriched host and symbiont fractions along with unenriched gill foot tissue were subject to in-depth semi-quantitative proteomic analyses using the orbitrap and velos mass spectrometers. Proteins were quantified based on their spectral counts using the normalized spectral abundance factor (NSAF) method. We identified common strategies of metabolic interactions that provide mutual nutritional support between host and symbionts, such as the detoxification of ambient sulfide by the Bathymodiolus host, which provides a stable thiosulfate reservoir for the thiotrophic symbionts, and a putative amino acid cycling mechanism that could supply the host with symbiont-derived amino acids. A suite of genes and proteins putatively related to virulence or defense functions was particularly abundant in the B. thermophilus symbiont, compared to its symbiont relatives, and may pose a host species-specific adaptation. Our results reveal both, a high degree of integration between the symbiotic partners, and great potential to adapt to the prevailing environment, which facilitate the holobiont’s survival in its hydrothermal vent habitat.
2019-11-08 | PXD011639 | Pride
Project description:Bathymodiolus childressi is a species of deep-sea mussels found predominantly in the Gulf of Mexico. It colonizes cold seeps such as brine pool and oil seeps. The success of these animals in such environment is thought to be due to the symbiotic association of the mussel host with several species of bacteria. The aim of this study is to understand the role of the different partners involved in the symbiotic system using various “-omics” approaches. In addition to protein identification we used the mass spectrometry data generated and submitted with this project to derive the stable carbon isotope ratios for the different members of the symbiosis using the direct Protein-SIF method. The respective isotope pattern file and SIF computation files are included with this submission.
2020-02-27 | PXD008089 | Pride
Project description:The project was designed to explore biological rhythms in the hydrothermal vent mussel Bathymodiolus azoricus. The experiment provides the first high-resolution temporal transcriptomes of an hydrothermal species, both in situ and in the laboratory. For each condition, 5 mussels were sampled every 2h 4min for 24h 48min.
2020-06-12 | E-MTAB-8451 | biostudies-arrayexpress
Project description:Bathymodiolus azoricus is a deep-sea mussel found in the hydrothermal vent fields of the Mid-Atlantic Ridge. It lives in symbiosis with sulfur- and methane-oxidizing γ-proteobacteria within its gills. In our study, we aimed to understand the metabolic and physiological interconnections between the symbiotic partners. For this purpose, symbionts and host were physically separated using density gradient centrifugation. This procedure yielded a symbiont-enriched gradient pellet fraction and a supernatant fraction enriched in host components. The cytosolic and membrane-associated proteome of both these fractions along with whole gill and foot tissue of the mussel were then investigated through 1D-PAGE LC-MS/MS. Proteins were quantified based on their spectral counts using the NSAF method. For efficient identification, sequences from evolutionarily related endosymbiotic and free-living bacteria and from bivalve host relatives were compiled into a comprehensive protein database. A total of 3178 host and symbiont proteins were identified from all samples.
2016-10-06 | PXD004061 | Pride
Project description:Transcriptome analysis of deep-sea mussel Bathymodiolus japonicus during mussel rearing
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Project description:comparative transcriptomic analysis of deep-sea mussels (Bathymodiolus manusensis, Bathymodiolus platifrons) and their relative costal mussel (Modiolus kurilensis )
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