DNA Barcoding of Scavenging Amphipod Communities at Active and Inactive Hydrothermal Vents in the Indian Ocean

Hydrothermal vent areas have drawn increasing interest since they were discovered in 1977. Because of chemoautotrophic bacteria, they possess high abundances of vent endemic species as well as many non-vent species around the fields. During the survey conducted by the Bundesanstalt für Geowissenschaften und Rohstoffe (Federal Institute for Geosciences and Natural Resources, BGR) to identify inactive polymetallic sulfide deposits along Central and Southeast Indian Ridges, the INDEX project studied the scavenging amphipod community at three newly discovered hydrothermal fields. A sample consisting of 463 representatives of Amphipoda (Malacostraca: Crustacea) was collected by means of baited traps in active and inactive vents of three different sites and subsequently studied by both morphological and genetic methods. Molecular methods included the analysis of two mitochondrial (cytochrome c oxidase subunit I [COI] and 16S rRNA) and one nuclear (18S rRNA) genes. By six delimitation methods, 22 molecular operational taxonomic units (MOTUs) belonging to 12 genera and 10 families were defined. The existence of potential species complexes was noted for the representatives of the genus Paralicella. The inactive site, where 19 species were found, showed higher species richness than did the active one, where only 10 taxa were recorded. Seven genera, Ambasiopsis, Cleonardo, Eurythenes, Parandania, Pseudonesimus, Tectovalopsis, and Valettiopsis, were observed only at inactive sites, whereas Haptocallisoma, was collected exclusively at active ones. The species Abyssorchomene distinctus (Birstein and Vinogradov, 1960), Hirondellea brevicaudata Chevreux, 1910, and Hirondellea guyoti Barnard and Ingram, 1990, have been previously reported from vent sites in the Atlantic or Pacific oceans. The present study provides the first report of Eurythenes magellanicus (H. Milne Edwards, 1848) and five other already described species in the Indian Ocean. The addition of 356 sequences strongly increases the number of amphipod barcodes in reference databases and provides for the first time COI barcodes for Cleonardo neuvillei Chevreux, 1908, Haptocallisoma abyssi (Oldevig, 1959), Hirondellea guyoti, Tectovalopsis fusilus Barnard and Ingram, 1990, and the genera Haptocallisoma, Pseudonesimus, and Valettiopsis.

Metagenomic and metatranscriptomic analyses reveal minor-yet-crucial roles of gut microbiome in deep-sea hydrothermal vent snail

Background Marine animals often exhibit complex symbiotic relationship with gut microbes to attain better use of the available resources. Many animals endemic to deep-sea chemosynthetic ecosystems host chemoautotrophic bacteria endocellularly, and they are thought to rely entirely on these symbionts for energy and nutrition. Numerous investigations have been conducted on the interdependence between these animal hosts and their chemoautotrophic symbionts. The provannid snail Alviniconcha marisindica from the Indian Ocean hydrothermal vent fields hosts a Campylobacterial endosymbiont in its gill. Unlike many other chemosymbiotic animals, the gut of A. marisindica is reduced but remains functional; yet the contribution of gut microbiomes and their interactions with the host remain poorly characterised. Results Metagenomic and metatranscriptomic analyses showed that the gut microbiome of A. marisindica plays key nutritional and metabolic roles. The composition and relative abundance of gut microbiota of A. marisindica were different from those of snails that do not depend on endosymbiosis. The relative abundance of microbial taxa was similar amongst three individuals of A. marisindica with significant inter-taxa correlations. These correlations suggest the potential for interactions between taxa that may influence community assembly and stability. Functional profiles of the gut microbiome revealed thousands of additional genes that assist in the use of vent-supplied inorganic compounds (autotrophic energy source), digest host-ingested organics (carbon source), and recycle the metabolic waste of the host. In addition, members of five taxonomic classes have the potential to form slime capsules to protect themselves from the host immune system, thereby contributing to homeostasis. Gut microbial ecology and its interplay with the host thus contribute to the nutritional and metabolic demands of A. marisindica. Conclusions The findings advance the understanding of how deep-sea chemosymbiotic animals use available resources through contributions from gut microbiota. Gut microbiota may be critical in the survival of invertebrate hosts with autotrophic endosymbionts in extreme environments.

The polar night shift: seasonal dynamics and drivers of Arctic Ocean microbiomes revealed by autonomous sampling

The Arctic Ocean features extreme seasonal differences in daylight, temperature, ice cover, and mixed layer depth. However, the diversity and ecology of microbes across these contrasting environmental conditions remain enigmatic. Here, using autonomous samplers and sensors deployed at two mooring sites, we portray an annual cycle of microbial diversity, nutrient concentrations and physical oceanography in the major hydrographic regimes of the Fram Strait. The ice-free West Spitsbergen Current displayed a marked separation into a productive summer (dominated by diatoms and carbohydrate-degrading bacteria) and regenerative winter state (dominated by heterotrophic Syndiniales, radiolarians, chemoautotrophic bacteria, and archaea). The autumn post-bloom with maximal nutrient depletion featured Coscinodiscophyceae, Rhodobacteraceae (e.g. Amylibacter) and the SAR116 clade. Winter replenishment of nitrate, silicate and phosphate, linked to vertical mixing and a unique microbiome that included Magnetospiraceae and Dadabacteriales, fueled the following phytoplankton bloom. The spring-summer succession of Phaeocystis, Grammonema and Thalassiosira coincided with ephemeral peaks of Aurantivirga, Formosa, Polaribacter and NS lineages, indicating metabolic relationships. In the East Greenland Current, deeper sampling depth, ice cover and polar water masses concurred with weaker seasonality and a stronger heterotrophic signature. The ice-related winter microbiome comprised Bacillaria, Naviculales, Polarella, Chrysophyceae and Flavobacterium ASVs. Low ice cover and advection of Atlantic Water coincided with diminished abundances of chemoautotrophic bacteria while others such as Phaeocystis increased, suggesting that Atlantification alters microbiome structure and eventually the biological carbon pump. These insights promote the understanding of microbial seasonality and polar night ecology in the Arctic Ocean, a region severely affected by climate change.

Spektrometria masowa i analiza izotopowa biomarkerów frakcji nasyconej

GC-IRMS analysis extends and confirms (or not) the interpretation based on the results of GC-MS analyses. For example, it is very useful in determining the sedimentation environment of organic matter. GC-MS analysis of biomarkers and the results are reliable, but only GC-IRMS studies can confirm it. In this study, the origin of BNH (28,30-bisnorhopane from chemoautotrophic bacteria) and origin of higher carotenoids and their derivatives from Chlorobiaceae or Chromotiaceae bacteria were confirmed through isotopic analyzes. Biomarkers were analyzed using the GC-IRMS and EA-IRMS apparatus. The obtained chromatograms from the IRMS analyses were compared with the archival GC-MS analyses for the same samples in order to identify individual chemical compounds. In addition to the existing methodology of sample preparation for analyses, a non-standard method was also used, consisting in the separation of n-alkanes from branched hydrocarbons. The repeatability of the method was determined on the GC-IRMS and the values of δ13C for selected biomarkers from the saturated fraction were determined. It was found that samples with low biomarker content are not suitable for analysis. On the other hand, too high concentration of the analyte causes an increase of the chromatogram baseline and worse separation of the peaks, which is also a problem. For the crude oils the δ13C values were initially determined for the biomarkers of the saturated fraction from the hopanes group: bisnorhopane (BNH), oleanane, C29 norhopane, C30 hopane, moretane and the C31-C35 homohopane series. Relatively small differences in δ13C values were found between BNH/hopanes and BNH/crude oils, which suggests the same source of origin for all biomarkers (including BNH). Determining biomarkers in the aromatic fraction using the GC-IRMS method was not successful. In the future, a special methodology for preparing samples for carbon isotopic analyses of aromatic fraction will be required.

The Polar Night Shift: Annual Dynamics and Drivers of Microbial Community Structure in the Arctic Ocean

Change is a constant in the Arctic Ocean, with extreme seasonal differences in daylight, ice cover and temperature. The biodiversity and ecology of marine microbes across these extremes remain poorly understood. Here, using an array of autonomous samplers and sensors, we portray an annual cycle of microbial biodiversity, nutrient budgets and oceanography in the major biomes of the Fram Strait. In the ice-free West Spitsbergen Current, community turnover followed the solar cycle, with distinct separation of a productive summer state dominated by diatoms and carbohydrate-degrading bacteria, and a regenerative winter state dominated by heterotrophic Syndiniales, radiolarians, chemoautotrophic bacteria and archaea. Winter mixing of the water column replenishing nitrate, phosphate and silicate, and the onset of light were the major turning points. The summer succession of Phaeocystis, Grammonema and Thalassiosira coincided with ephemeral peaks of Formosa, Polaribacter and NS clades, indicating metabolic relationships between phytoplankton and bacteria. In the East Greenland Current, ice cover and greater sampling depth coincided with weaker seasonality, featuring weaker bloom/decay events and an ice-related winter microbiome. Low ice cover and advection of Atlantic Water coincided with diminished abundances of chemoautotrophic bacteria while Phaeocystis and Flavobacteriaceae increased, suggesting that Atlantification alters phytoplankton diversity and the biological carbon pump. Our findings promote the understanding of microbial seasonality in Arctic waters, illustrating the ecological importance of the polar night and providing an essential baseline of microbial dynamics in a region severely affected by climate change.

A potential suite of climate markers of long-chain n-alkanes and alkenones preserved in the top sediments from the Pacific sector of the Southern Ocean

Investigating organic compounds in marine sediments can potentially unlock a wealth of new information in these climate archives. Here, we present pilot study results of organic geochemical features of long-chain n-alkanes and alkenones and individual carbon isotope ratios of long-chain n-alkanes from a newly collected, approximately 8 m long, located in the far reaches of the Pacific sector of the Southern Ocean. We analyzed a suite of organic compounds in the core. The results show abundant long-chain n-alkanes (C29–C35) with predominant odd-over-even carbon preference, suggesting an origin of terrestrial higher plant waxes via long-range transport of dust, possibly from Australia and New Zealand. The δ13C values of the C31n-alkane range from −29.4 to −24.8‰, in which the higher δ13C values suggest more contributions from C4 plant waxes. In the analysis, we found that the mid-chain n-alkanes (C23–C25) have a small odd-over-even carbon preference, indicating that they were derived from marine non-diatom pelagic phytoplankton and microalgae and terrestrial sources. Furthermore, the C26 and C28 with lower δ13C values (~−34‰) indicate an origin from marine chemoautotrophic bacteria. We found that the abundances of tetra-unsaturated alkenones (C37:4) in this Southern Ocean sediment core ranges from 11 to 37%, perhaps a marker of low sea surface temperature (SST). The results of this study strongly indicate that the δ13C values of long-chain n-alkanes and $$ {U}_{37}^{\mathrm{k}} $$ U 37 k index are potentially useful to reconstruct the detailed history of C3/C4 plants and SST change in the higher latitudes of the Southern Ocean.

Annelids in Extreme Aquatic Environments: Diversity, Adaptations and Evolution

We review the variety of morphological, physiological and behavioral modifications that annelids have acquired to cope with environments either unsuitable for, or on the limits of, survival for most animals. We focus on polychaetes (excluding sipunculans and echiurans) and clitellates (oligochaetes and leeches) and source information mostly from the primary literature. We identified many modifications common to both polychaetes and clitellates, and others that are specific to one or the other group. For example, certain land-adapted polychaetes show reduction in nuchal organs, epidermal ciliation and receptor cells, and other coastal polychaetes use adhesive glands and glue-reinforced tubes to maintain position in surf zones, while oligochaetes, with their simple body plans, appear to be ‘pre-adapted’ to life underground. Modifications common to both groups include the ability to construct protective cocoons, make cryoprotective substances such as antifreeze and heat shock proteins, develop gills, transform their bodies into a home for symbiotic chemoautotrophic bacteria, metabolize contaminants, and display avoidance behaviors. Convergent evolution in both directions has enabled annelids to transition from salt water to freshwater, sea to land via beaches, freshwater to soil, and surface water to subterranean water. A superficially simple worm-like body and a mostly benthic/burrowing lifestyle has facilitated radiation into every conceivable environment, making annelids among the most common and diverse animal groups on the planet.

A potential suite of climate markers of long-chain n-alkanes and alkenones preserved in the top sediments from the Pacific sector of the Southern Ocean

Investigating organic compounds in marine sediments can potentially unlock a wealth of new information in these climate archives. Here we present pilot study results of organic geochemical features of long-chain n-alkanes and alkenones and individual carbon isotope ratios of long-chain n-alkanes from a newly collected, approximately 8-meter long, located in the far reaches of the Pacific sector of the Southern Ocean. We analyzed a suite of organic compounds in the core. The results show abundant long-chain n-alkanes (C29-C35) with predominant odd-over-even carbon preference, suggesting an origin of terrestrial higher plant waxes via long-range transport of dust, possibly from Australia and New Zealand. The δ13C values of the C31 n-alkane range from -29.4 to -24.8‰, in which the higher δ13C values suggest more contributions from C4 plant waxes. In the analysis, we found that the mid-chain n-alkanes (C23-C25) have a small odd-over-even carbon preference, indicating that they were derived from marine non-diatom pelagic phytoplankton and microalgae and terrestrial sources. Furthermore, the C26 and C28 with lower δ13C values (~ -34‰) indicate an origin from marine chemoautotrophic bacteria. We found that the abundances of tetra-unsaturated alkenones (C37:4) in this Southern Ocean sediment core ranges from 11-37%, perhaps a marker of low sea surface temperature (SST). The results of this study strongly indicate that the δ13C values of long-chain n-alkanes and index are potentially useful to reconstruct the detailed history of C3/C4 plants and SST change in the higher latitudes of the Southern Ocean.

Rimicaris exoculata: biology and ecology of a shrimp from deep-sea hydrothermal vents associated with ectosymbiotic bacteria

Rimicaris exoculata, the ‘blind shrimp,’ is the most abundant species living on active hydrothermal edifices at deep-sea vents of the Mid-Atlantic Ridge. Its unusually enlarged branchial chamber houses a dense ectosymbiotic community of chemoautotrophic bacteria. Long debated, shrimp nutrition has been proven to be a kind of osmotrophy, whereby small organic molecules produced by the symbionts pass through the integument of the shrimp directly into the circulatory system, rather than through the digestive system. The broad phylogenetic and metabolic diversity of this epibiotic community suggests a highly flexible and adjustable microbial consortium, adapted to the chemically contrasting environments inhabited by the shrimp. To cope with the highly fluctuating oxygen and temperature conditions of its habitat, R. exoculata possesses hemocyanin with a strong oxygen affinity, and has developed both molecular and behavioral responses to heat stresses. If R. exoculata is able to detect very dim light or chemical compounds emitted by vents, the relatively small visual and olfactory areas in the brain, along with the disproportionately enlarged higher centers, argue for a significant involvement of navigational skills using learning and place memory to orient itself within its aphotic environment. This shrimp undergoes unconventional larval development, with a primary lecithotrophic stage followed by an extended planktotrophic period, allowing a huge potential for dispersion. In light of mining licenses posing a threat for deep-sea environments, this species is a model still to be studied to better understand life in extreme deep-sea ecosystems at the global scale of an ocean.

A Potential Suite of Climate Markers of Long-Chain n-Alkanes and Alkenones Preserved in the top Sediments from the Pacific Sector of the Southern Ocean

Investigation of organic compounds in marine sediments can potentially unlock a wealth of new information in these overlooked climate archives. Here we present pilot study results of organic geochemical features of long-chain n-alkanes and alkenones and individual carbon isotope ratios of long-chain n-alkanes from a newly collected, approximately 8-meter long, Pleistocene age sediment core, located in the far reaches of the Pacific sector of the Southern Ocean. We initially analyzed a suite of organic compounds in the core, and the results show abundant long-chain n-alkanes (C29-C35) with predominant odd-over-even carbon preference, which suggests an origin of terrestrial higher plant waxes via long range transport of dust, possibly from Australia and New Zealand. The δ13C values of the C31 n-alkane range from -29.4 to -24.8‰, in which the higher δ13C values suggest more contributions from C4 plants waxes. In the analysis, we found that the mid-chain n-alkanes (C23-C25) have small odd-over-even carbon preference, suggesting that they were derived from marine non-diatom pelagic phytoplankton and microalgae, and terrestrial sources. Furthermore, the C26 and C28 with lower δ13C values (~ -34‰) indicate an origin from marine chemoautotrophic bacteria. We found that the abundances of tetra-unsaturated alkenones (C37:4) in this Southern Ocean sediment core ranges from 11-37%, perhaps a marker of low sea surface temperature (SST). The results of this study strongly indicate that the δ13C values of long-chain n-alkanes and index are potentially useful to reconstruct detailed history of C3/C4 plants and SST change in the higher latitudes of the Southern Ocean.