scholarly journals Occurrence and recent long-distance dispersal of deep-sea hydrothermal vent shrimps

2005 ◽  
Vol 2 (2) ◽  
pp. 257-260 ◽  
Author(s):  
Gaku Tokuda ◽  
Akinori Yamada ◽  
Kazuma Nakano ◽  
Nao Arita ◽  
Hideo Yamasaki
Keyword(s):  
Deep Sea ◽  
Hydrothermal Vent ◽  
Hydrothermal Vents ◽  
Okinawa Trough ◽  
Rrna Gene ◽  
Cold Seeps ◽  
Long Distance Dispersal ◽  
High Concentration ◽  
Long Distance ◽  
The Okinawa Trough

Deep-sea hydrothermal vents and methane seeps are extreme environments that have a high concentration of hydrogen sulphide. However, abundant unique invertebrates including shrimps of the family Bresiliidae have been found in such environments. The bresiliid shrimps are believed to have radiated in the Miocene (less than 20 Myr); however, the period when and the mechanisms by which they dispersed across the hydrothermal vents and cold seeps in oceans worldwide have not been clarified. In the present study, we collected the deep-sea blind shrimp Alvinocaris longirostris from the hydrothermal vent site in the Okinawa Trough and carried out the first investigation of the 18S rRNA gene of a bresiliid shrimp. The phylogenetic analysis revealed that the bresiliid shrimp is situated at an intermediate lineage within the infraorder Caridea and shows monophyly with palaemonid shrimps, which live in shallow sea and freshwater. Furthermore, the mitochondrial cytochrome oxidase I ( COI ) gene sequences were analysed to determine the phylogenetic relationship with known bresiliid shrimps. A. longirostris of the Okinawa Trough had two haplotypes of the COI gene, one of which was identical to the Alvinocaris sp. of the cold seeps in Sagami Bay. These results indicate that a long-distance dispersal of A. longirostris occurred possibly within the last 100 000 years.

scholarly journals Draft Genome Sequence of Exiguobacterium sp. HVEsp1, a Thermophilic Bacterium Isolated from a Deep-Sea Hydrothermal Vent in the Okinawa Trough

2017 ◽  
Vol 5 (17) ◽  
Author(s):  
Chen Chen ◽  
Li Sun
Keyword(s):  
Genome Sequence ◽  
Deep Sea ◽  
Hydrothermal Vent ◽  
Hydrothermal Vents ◽  
Sequence Data ◽  
Okinawa Trough ◽  
Draft Genome ◽  
Thermophilic Bacterium ◽  
Draft Genome Sequence ◽  
The Okinawa Trough

ABSTRACT We report here the draft genome sequence of Exiguobacterium sp. HVEsp1, a thermophilic bacterium isolated from a deep-sea hydrothermal vent. The estimated genome size of this strain is 2,838,499 bp with a G+C content of 48.2%. The genome sequence data provide valuable information that will facilitate studies on the adaptation mechanisms of bacteria living in deep-sea hydrothermal vents.

scholarly journals Population connectivity of the crab Gandalfus yunohana (Takeda, Hashimoto & Ohta, 2000) (Decapoda: Brachyura: Bythograeidae) from deep-sea hydrothermal vents in the northwestern Pacific

2020 ◽  
Vol 40 (5) ◽  
pp. 556-562
Author(s):  
Hiromi K Watanabe ◽  
Chong Chen ◽  
Shigeaki Kojima ◽  
Shogo Kato ◽  
Hiroyuki Yamamoto
Keyword(s):  
Deep Sea ◽  
Hydrothermal Vents ◽  
Okinawa Trough ◽  
Coi Gene ◽  
Genetic Connectivity ◽  
Reverse Direction ◽  
Northwestern Pacific ◽  
Brachyuran Crab ◽  
The Okinawa Trough ◽  
Mariana Arc

Abstract Genetic connectivity provides a basis for evaluating the resilience of animal communities by elucidating gene flow and serves as a proxy for realized dispersal through planktonic larval dispersal, settlement, and reproductive success. Gandalfus yunohana (Takeda, Hashimoto & Ohta, 2000) is a brachyuran crab endemic to deep-sea hydrothermal vents in the northwestern Pacific. Although an iconic and often dominant species, the connectivity among its populations is yet to be examined. We obtained barcoding sequences of the mitochondrial COI gene of G. yunohana from four vent fields including two on the Izu Arc, one on the northern Mariana Arc, and one in the Okinawa Trough. Genetic diversity of populations on the Izu and northern Mariana arcs were similar and shared the dominant haplotypes, showing no genetic subdivision regardless of the habitat depth. The Okinawa Trough population, for which only one specimen was available, was not genetically different from specimens from the Izu/Mariana arc populations. Estimation of the number of immigrants among populations suggests that the migration from north to south is higher than in the reverse direction. Our results resonate with previous laboratory-culture experiments, suggesting a high dispersal capability for G. yunohana. Visual observations and sampling, however, suggest that G. yunohana is exceedingly rare in the Okinawa Trough. This perhaps results from a lack of sufficient larval supply from the Izu-Bonin-Mariana Arc vents, and there may not be a reproductive population in the Okinawa Trough.

New ways for research and development using a deep-sea hydrothermal vent system in the Okinawa Trough

2015 ◽  
Author(s):  
Tomokazu Saruhashi ◽  
Masanori Kyo ◽  
Ikuo Sawada ◽  
Takahiro Yokoyama ◽  
Noriaki Sakurai ◽  
...  
Keyword(s):  
Research And Development ◽  
Deep Sea ◽  
Hydrothermal Vent ◽  
Okinawa Trough ◽  
The Okinawa Trough

scholarly journals Combining Multiple Markers in Environmental DNA Metabarcoding to Assess Deep-Sea Benthic Biodiversity

2021 ◽  
Vol 8 ◽  
Author(s):  
Jun Liu ◽  
Haibin Zhang
Keyword(s):  
Deep Sea ◽  
Okinawa Trough ◽  
Environmental Dna ◽  
Rrna Gene ◽  
28S Rrna ◽  
Eukaryotic Diversity ◽  
The Okinawa Trough ◽  
Marine Diversity ◽  
Deep Sea Sediments ◽  
Reference Databases

Environmental DNA (eDNA) metabarcoding is an emerging tool to estimate diversity by combining DNA from the environmental samples and the high-throughput sequencing. Despite its wide use in estimating eukaryotic diversity, many factors may bias the results. Maker choice and reference databases are among the key issues in metabarcoding analyses. In the present study, we compared the performance of a novel 28S rRNA gene marker designed in this study and two commonly used 18S rRNA gene markers (V1-2 and V9) in estimating the eukaryotic diversity in the deep-sea sediments. The metabarcoding analyses based on the sediment surveys of the Okinawa Trough found that more eukaryotic taxa were discovered by 18S V9 than 28S and 18S V1-2, and that 18S V9 also performed better in metazoan recovery than the other two markers. Although a broad range of taxa were detected by the three metabarcoding markers, only a small proportion of taxa were shared between them even at the phylum level. The non-metric multidimensional scaling (NMDS) analysis also supported that communities detected by the three markers were distinct from each other. In addition, different communities were resolved by different reference databases (NCBI nt vs. SILVA) for the two 18S markers. Combining the three markers, annelids were found to be the most abundant (44.9%) and diverse [179 operational taxonomic units (OTUs)] metazoan group in the sediments of the Okinawa Trough. Therefore, multiple independent markers are recommended to be used in metabarcoding analyses during marine diversity surveys, especially for the poorly understood deep-sea sediments.

scholarly journals Microbial Eukaryotes Associated With Sediments in Deep-Sea Cold Seeps

2021 ◽  
Vol 12 ◽  
Author(s):  
Yue Zhang ◽  
Ning Huang ◽  
Minxiao Wang ◽  
Hongbin Liu ◽  
Hongmei Jing
Keyword(s):  
Deep Sea ◽  
Hydrothermal Vents ◽  
High Throughput Sequencing ◽  
Northern South China Sea ◽  
Extreme Environments ◽  
Operational Taxonomic Unit ◽  
Trophic Relationships ◽  
Rrna Gene ◽  
Cold Seeps ◽  
Microbial Eukaryotes

Microbial eukaryotes are key components of the marine food web, but their distribution in deep-sea chemosynthetic ecosystems has not been well studied. Here, high-throughput sequencing of the 18S rRNA gene and network analysis were applied to investigate the diversity, distribution and potential relationships between microbial eukaryotes in samples collected from two cold seeps and one trough in the northern South China Sea. SAR (i.e., Stramenopiles, Alveolata, and Rhizaria) was the predominant group in all the samples, and it was highly affiliated to genotypes with potential symbiotic and parasitic strategies identified from other deep-sea extreme environments (e.g., oxygen deficient zones, bathypelagic waters, and hydrothermal vents). Our findings indicated that specialized lineages of deep-sea microbial eukaryotes exist in chemosynthetic cold seeps, where microbial eukaryotes affiliated with parasitic/symbiotic taxa were prevalent in the community. The biogeographic pattern of the total community was best represented by the intermediate operational taxonomic unit (OTU) category, whose relative abundance ranged 0.01–1% within a sample, and the communities of the two cold seeps were distinct from the trough, which suggests that geographical proximity has no critical impact on the distribution of deep-sea microbial eukaryotes. Overall, this study has laid the foundations for future investigations regarding the ecological function and in situ trophic relationships of microbial eukaryotes in deep-sea ecosystems.

scholarly journals Genomic Insights Into Chemosynthetic Symbiosis in a Deep-Sea Hydrothermal Vent Mussel

2022 ◽  
Author(s):  
Kai Zhang ◽  
Yao Xiao ◽  
Jin Sun ◽  
Ting Xu ◽  
Kun Zhou ◽  
...  
Keyword(s):  
Deep Sea ◽  
Hydrothermal Vent ◽  
Hydrothermal Vents ◽  
Molecular Mechanisms ◽  
Gene Families ◽  
Functional Differentiation ◽  
Cold Seeps ◽  
Proteomic Approach ◽  
Immune Related Genes ◽  
Self Protection

Abstract Background Symbiosis with chemosynthetic bacteria has allowed many invertebrates to flourish in ‘extreme’ deep-sea chemosynthesis-based ecosystems, such as hydrothermal vents and cold seeps. Bathymodioline mussels are considered as models of deep-sea animal-bacteria symbiosis, but the diversity of molecular mechanisms governing host-symbiont interactions remains understudied owing to the lack of hologenomes. In this study, we adopted a total hologenome approach in sequencing the hydrothermal vent mussel Bathymodiolus marisindicus and the endosymbiont genomes combined with a transcriptomic and proteomic approach that explore the mechanisms of symbiosis. Results Here, we provide the first coupled mussel-endosymbiont genome assembly. Comparative genome analysis revealed that both Bathymodiolus marisindicus and its endosymbiont reshape their genomes through the expansion of gene families, likely due to chemosymbiotic adaptation. Functional differentiation of host immune-related genes and attributes of symbiont self-protection that likely facilitate the establishment of endosymbiosis. Hologenomic analyses offer new evidence that metabolic complementarity between the host and endosymbionts enables the host to compensate for its inability to synthesize some essential nutrients, and two pathways (digestion of symbionts and molecular leakage of symbionts) that can supply the host with symbiontderived nutrients. Results also showed that bacteriocin and abundant toxins of symbiont may contribute to the defense of the B. marisindicus holobiont. Moreover, an exceptionally large number of anti-virus systems were identified in the B. marisindicus symbiont, which likely work synergistically to efficiently protect their hosts from phage infection, indicating virus-bacteria interactions in intracellular environments of a deepsea vent mussel. Conclusions Our study provides novel insights into the mechanisms of symbiosis enabling deep-sea mussels to successfully colonize the special hydrothermal vent habitats.

scholarly journals Potential Interactions between Clade SUP05 Sulfur-Oxidizing Bacteria and Phages in Hydrothermal Vent Sponges

2019 ◽  
Vol 85 (22) ◽  
Author(s):  
Kun Zhou ◽  
Rui Zhang ◽  
Jin Sun ◽  
Weipeng Zhang ◽  
Ren-Mao Tian ◽  
...  
Keyword(s):  
Deep Sea ◽  
Hydrothermal Vent ◽  
Hydrothermal Vents ◽  
Okinawa Trough ◽  
Sulfur Metabolism ◽  
Extreme Environments ◽  
Metagenomic Sequence ◽  
Sulfur Oxidizing ◽  
Biological Entities ◽  
Sulfur Oxidizing Bacteria

ABSTRACT In deep-sea hydrothermal vent environments, sulfur-oxidizing bacteria belonging to the clade SUP05 are crucial symbionts of invertebrate animals. Marine viruses, as the most abundant biological entities in the ocean, play essential roles in regulating the sulfur metabolism of the SUP05 bacteria. To date, vent sponge-associated SUP05 and their phages have not been well documented. The current study analyzed microbiomes of Haplosclerida sponges from hydrothermal vents in the Okinawa Trough and recovered the dominant SUP05 genome, designated VS-SUP05. Phylogenetic analysis showed that VS-SUP05 was closely related to endosymbiotic SUP05 strains from mussels living in deep-sea hydrothermal vent fields. Homology and metabolic pathway comparisons against free-living and symbiotic SUP05 strains revealed that the VS-SUP05 genome shared many features with the deep-sea mussel symbionts. Supporting a potentially symbiotic lifestyle, the VS-SUP05 genome contained genes involved in the synthesis of essential amino acids and cofactors that are desired by the host. Analysis of sponge-associated viral sequences revealed putative VS-SUP05 phages, all of which were double-stranded viruses belonging to the families Myoviridae, Siphoviridae, Podoviridae, and Microviridae. Among the phage sequences, one contig contained metabolic genes (iscR, iscS, and iscU) involved in iron-sulfur cluster formation. Interestingly, genome sequence comparison revealed horizontal transfer of the iscS gene among phages, VS-SUP05, and other symbiotic SUP05 strains, indicating an interaction between marine phages and SUP05 symbionts. Overall, our findings confirm the presence of SUP05 bacteria and their phages in sponges from deep-sea vents and imply a beneficial interaction that allows adaptation of the host sponge to the hydrothermal vent environment. IMPORTANCE Chemosynthetic SUP05 bacteria dominate the microbial communities of deep-sea hydrothermal vents around the world, SUP05 bacteria utilize reduced chemical compounds in vent fluids and commonly form symbioses with invertebrate organisms. This symbiotic relationship could be key to adapting to such unique and extreme environments. Viruses are the most abundant biological entities on the planet and have been identified in hydrothermal vent environments. However, their interactions with the symbiotic microbes of the SUP05 clade, along with their role in the symbiotic system, remain unclear. Here, using metagenomic sequence-based analyses, we determined that bacteriophages may support metabolism in SUP05 bacteria and play a role in the sponge-associated symbiosis system in hydrothermal vent environments.

First columbellid species (Gastropoda: Buccinoidea) from deep-sea hydrothermal vents, discovered in Okinawa Trough, Japan

Zootaxa ◽  
2017 ◽  
Vol 4363 (4) ◽  
pp. 592
Author(s):  
CHONG CHEN ◽  
HIROMI KAYAMA WATANABE ◽  
JUAN FRANCISCO ARAYA
Keyword(s):  
New Species ◽  
Deep Sea ◽  
Hydrothermal Vent ◽  
Hydrothermal Vents ◽  
Okinawa Trough ◽  
First Record ◽  
Hydrothermal Field ◽  
Molluscan Diversity ◽  
Chemosynthetic Ecosystems ◽  
A New Species

The molluscan diversity of deep-sea chemosynthetic ecosystems in Japan has been in general well documented with about 80 described species, of which over half are gastropods (Sasaki et al. 2005; Fujikura et al. 2012; Sasaki et al. 2016). Recently, however, a number of novel hydrothermal vent sites were discovered in the area using multibeam echo-sounding (Nakamura et al. 2015), providing opportunities for new discoveries. As a part of ongoing studies documenting the biodiversity of such sites, we present the first record of Columbellidae from hydrothermal vents, with a new species recovered from Natsu and Aki sites, in the Iheya North hydrothermal field (for map and background on the vent field see Nakamura et al. 2015). 

Corralling of larvae in the deep sea

2001 ◽  
Vol 81 (5) ◽  
pp. 823-826 ◽  
Author(s):  
Cindy Lee Van Dover ◽  
Cheryl D. Jenkins ◽  
Mary Turnipseed
Keyword(s):  
Deep Sea ◽  
Hydrothermal Vent ◽  
Long Distance Dispersal ◽  
Long Distance ◽  
Frequency Distributions ◽  
Sources And Sinks ◽  
Size Frequency ◽  
Large Numbers ◽  
Local Sources ◽  
Sampling In Space

Large numbers of small individuals (pediveligers and juveniles <5 mm) are routinely recorded in size–frequency distributions of mussel samples collected from deep-sea chemosynthetic environments. If recruitment of invertebrates to deep-sea hydrothermal vent sites were via long-distance dispersal, as is typically assumed, one would expect recruitment ‘events’ recorded in size–frequency distributions to be difficult to detect, due to loss of larvae in an open system over large distances. If one imposes mesoscale oceanographic phenomena that minimize dilution of larvae (such as eddies shed from hydrothermal vent plumes) and episodic spawning, expression of this mesoscale corralling at the level of population structure would likely be limited to discrete records of recruitment events encountered serendipitously during haphazard sampling in space and time. The ubiquity of large numbers of post-larvae in mussel samples from a number of disparate sites is likely not serendipitous, but instead may reflect the importance of local sources and sinks of propagules in maintenance of mussel populations.

Sign in / Sign up

Export Citation Format

Share Document