Deep Vents Research Articles

Morphological evidence of an explosive eruption event in October 2023 at Sofu Seamount in the Izu-Bonin Arc

Sofu Seamount is one of the poorly studied submarine edifices in the Izu-Bonin Arc. There is no known historical record of volcanic activity, thus its eruptive history and volcanic features are completely unknown. However, on October 9, 2023, at least 14 T-phases originating near Sofu Seamount were observed. An 80 km-long raft of floating pumice was observed off Sofu Seamount on October 20. These spatially and temporally coherent observations indicate that an eruption occurred from a deep seafloor vent somewhere near Sofu Seamount. In order to investigate the origin of this submarine eruption, we collected new bathymetric data in 2024 and compared it with older bathymetric data collected in 2022, 2007 and 1987. The bathymetric comparison revealed evidence for explosive eruptions at Sofu Seamount between 2022 and 2024. During this time, a crater, 1.6 km wide and 400 m deep, was formed at the pre-existing central cone on the western part of Sofu Seamount, whose pre-eruption summit depth was 737 m. The maximum negative depth change was 451 m and a volume of 430 × 106 m3 was removed due to the crater formation. A dome-like structure, 1 km wide and 100 m high was constructed northeast of the crater, part of which collapsed as a result of the crater formation. The volcanic products were transported over 6 km downslope and emplaced on the adjacent seafloor where positive depth changes up to 75 m were observed. Landslides also occurred around the crater. The largest slide on the northern flank formed a slide scar that is 3.8 km long and 1 km wide. Here, the maximum negative depth change was 148 m and 140 × 106 m3 of material was removed. The slide materials were deposited downslope where positive depth changes up to 61 m were observed. Considering the occurrence of the earthquake swarm on October 2–8, 2023 and T-phase swarm on October 9, the timing of the eruption can be constrained within October 2023.An analysis of volcanic and tectonic morphology reveals a distinct tectonic influence on volcanism at Sofu Seamount. Sofu Seamount is located in a back-arc rift zone where the N–S trending Torishima and Sofu Rifts have formed. The new bathymetric data showed that the rifts have an asymmetric structure and can be divided into two segments, which are identified here as inner and outer rifts. The inner rifts are bounded by steeper fault scarps that have experienced more subsidence than the outer rifts. The western part of Sofu Seamount, where the eruption occurred, is located within the inner rifts, and is heavily dissected by rifting-related normal faults, while the eastern part is located outward of the inner rifts and is not dissected by faults. The October earthquake swarm was more concentrated in the area of the inner rifts and some large earthquakes showed normal fault focal mechanisms with a tension axis approximately in E–W direction. Our morphological observations combined with recent seismic events show that the inner rifts are the currently active tectonic structures and young volcanism at Sofu Seamount is controlled by the back-arc rifting of the Izu-Bonin Arc.

Thermotogota diversity and distribution patterns revealed in Auka and JaichMaa 'ja 'ag hydrothermal vent fields in the Pescadero Basin, Gulf of California.

Discovering new deep hydrothermal vent systems is one of the biggest challenges in ocean exploration. They are a unique window to elucidate the physical, geochemical, and biological processes that occur on the seafloor and are involved in the evolution of life on Earth. In this study, we present a molecular analysis of the microbial composition within the newly discovered hydrothermal vent field, JaichMaa 'ja 'ag, situated in the Southern Pescadero Basin within the Gulf of California. During the cruise expedition FK181031 in 2018, 33 sediment cores were collected from various sites within the Pescadero vent fields and processed for 16S rRNA amplicon sequence variants (ASVs) and geochemical analysis. Correlative analysis of the chemical composition of hydrothermal pore fluids and microbial abundances identified several sediment-associated phyla, including Thermotogota, that appear to be enriched in sediment horizons impacted by hydrothermal fluid flow. Comparative analysis of Thermotogota with the previously explored Auka hydrothermal vent field situated 2 km away displayed broad similarity between the two locations, although at finer scales (e.g., ASV level), there were notable differences that point to core-to-core and site-level factors revealing distinct patterns of distribution and abundance within these two sediment-hosted hydrothermal vent fields. These patterns are intricately linked to the specific physical and geochemical conditions defining each vent, illuminating the complexity of this unique deep ocean chemosynthetic ecosystem.

Deep seafloor hydrothermal vent communities buried by volcanic ash from the 2022 Hunga eruption

Mass mortality of marine animals due to volcanic ash deposition is present in the fossil record but has rarely been documented in real time. Here, using remotely-operated vehicle video footage and analysis of ash collected at the seafloor, we describe the devastating effect of the record-breaking 2022 Hunga submarine volcanic eruption on endangered and vulnerable snail and mussel species that previously thrived at nearby deep-sea hydrothermal vents. In contrast to grazing, scavenging, filter-feeding, and predatory vent taxa, we observed mass mortality, likely due to smothering during burial by thick ash deposits, of the foundation species, which rely on symbiotic chemosynthetic bacteria for the bulk of their nutrition. This is important for our broad understanding of the natural disturbance of marine ecosystems by volcanic eruptions and for predicting the effects of anthropogenic disturbance, like deep-sea mining, on these unique seafloor habitats.

Archaeal communities at gas-venting shallow basins in the northern Gulf of California (Wagner and Consag basins)

Deep-sea vents microorganisms have been well characterized with defined typical taxonomic groups, principally composed of archaea, while shallow hydrothermal vents are considered to host a different community with bacteria as predominant prokaryotes. This work focuses on two shallow basins in the northern Gulf of California: Wagner and Consag basins which show evidence of early stages of rifting processes and host numerous submarine vents with intense gas discharge. The exploratory study of archaea and bacteria in six sediment samples from the shallow vents in those basins (average depths of 100 m), demonstrate that similar archaea phyla inhabit these vents. The phylum Thermoproteota with Nitrosopumilus as the most abundant genera in five sites. However, in the sample with the highest temperature, the phylum Asgardarchaeota was predominant, and also the occurrence of archaeal lineages typical of deep sea vents like Nanoarchaeota, Thermoproteota, Euryarchaeota, and members from phylum Asgardarchaeota, were identified. This work is the first report of the presence of a typically deep vent community of archaea in this shallow vent environment.

Non-Covalent Interactions between dUTP C5-Substituents and DNA Polymerase Decrease PCR Efficiency.

The approach based on molecular modeling was developed to study dNTP derivatives characterized by new polymerase-specific properties. For this purpose, the relative efficiency of PCR amplification with modified dUTPs was studied using Taq, Tth, Pfu, Vent, Deep Vent, Vent (exo-), and Deep Vent (exo-) DNA polymerases. The efficiency of PCR amplification with modified dUTPs was compared with the results of molecular modeling using the known 3D structures of KlenTaq polymerase-DNA-dNTP complexes. The dUTPs were C5-modified with bulky functional groups (the Cy5 dye analogs) or lighter aromatic groups. Comparing the experimental data and the results of molecular modeling revealed the decrease in PCR efficiency in the presence of modified dUTPs with an increase in the number of non-covalent bonds between the substituents and the DNA polymerase (about 15% decrease per one extra non-covalent bond). Generalization of the revealed patterns to all the studied polymerases of the A and B families is discussed herein. The number of non-covalent bonds between the substituents and polymerase amino acid residues is proposed to be a potentially variable parameter for regulating enzyme activity.

A molluscan class struggle: exploring the surprisingly uneven distribution of chemosymbiosis among two major mollusk groups

Many bivalves and gastropods from marine reducing environments such as deep ocean hydrothermal vents and seeps host chemosynthetic bacteria in a nutritional symbiosis. Despite their functional similarities, the distribution of chemosymbiosis in these two mollusk classes is surprisingly uneven: the number of bivalve species known to host chemosynthetic symbionts is more than twenty times that of gastropods, and chemosymbiotic bivalves are reported from a far greater diversity of marine habitats. Here we explore the potential drivers for this trend, including but not limited to physiological differences, habitat characteristics, and sampling bias. Sampling bias likely contributes to the magnitude of the observed discrepancy, but we posit that the phenomenon itself reveals how intrinsic (e.g. morphology) and extrinsic (e.g. organic matter availability) factors might have shaped the distribution of extant gastropod and bivalve associations. These observations also serve as an impetus for increasing investigation into gastropods and other mollusks from chemically reducing environments to better understand the evolution and ecology of chemosymbiosis among molluscan hosts.

Methanol in the RNA world: An astrochemical perspective

The role and relevance of methanol in the origin and structure of the RNA world is discussed. Methanol is a pivotal, renewable, and regenerable source from which almost all chemical materials, simple or complex, can be accessed. Olefins and carbonyl compounds, amines and amino acids, peptides and polypeptides, and the molecular building blocks in the initial stages of the biological evolution to life’s origin are obtained through methanol as a source material by its chemical transformation. The formation of methanol, whether in stellar and interstellar media, in deep sea-bottom hot hydrothermal vents or from geothermal sources, results from CO2 hydrogenation. It is the basic reaction, setting the stage for the formation of fundamental “organic” building blocks for the formation of simple prebiotic cells to subsequent biological evolution to cells. The important observation of many organics– hydrocarbons and ions including the large expanse of methane and methanol in the interstellar medium and stellar peripheries is a clear indication of “stellar reductive processes” and ensuing reactions shedding light on the probable significant role of extraterrestrial methanol as the basic source material toward a multi-step transformation into complex life molecules such as RNA.

Bioelectric Fields at the Beginnings of Life.

The consensus on the origins of life is that it involved organization of prebiotic chemicals according to the underlying principles of thermodynamics to dissipate energy derived from photochemical and/or geochemical sources. Leading theories tend to be chemistry-centric, revolving around either metabolism or information-containing polymers first. However, experimental data also suggest that bioelectricity and quantum effects play an important role in biology, which might suggest that a further factor is required to explain how life began. Intriguingly, in the early part of 20th century, the concept of the "morphogenetic field" was proposed by Gurwitsch to explain how the shape of an organism was determined, while a role for quantum mechanics in biology was suggested by Bohr and Schrödinger, among others. This raises the question as to the potential of these phenomena, especially bioelectric fields, to have been involved in the origin of life. It points to the possibility that as bioelectricity is universally prevalent in biological systems today, it represents a more complex echo of an electromagnetic skeleton which helped shape life into being. It could be argued that as a flow of ions creates an electric field, this could have been pivotal in the formation of an energy dissipating structure, for instance, in deep sea thermal vents. Moreover, a field theory might also hint at the potential involvement of nontrivial quantum effects in life. Not only might this perspective help indicate the origins of morphogenetic fields, but also perhaps suggest where life may have started, and whether metabolism or information came first. It might also help to provide an insight into aging, cancer, consciousness, and, perhaps, how we might identify life beyond our planet. In short, when thinking about life, not only do we have to consider the accepted chemistry, but also the fields that must also shape it. In effect, to fully understand life, as well as the yin of accepted particle-based chemistry, there is a yang of field-based interaction and an ethereal skeleton.

Adaptation of thermophilic enzymes from an ancestral reductive TCA cycle for carbon fixation in plants

The reductive TCA cycle (rTCA) is one of 5 carbon‐fixing cycles in prokaryotes other than the Calvin‐Benson cycle ubiquitous in plants. Adaptation of these cycles to biofuel crops is one strategy for reducing the greenhouse gas CO2 and simultaneously increasing crop yields. A minimal 5‐enzyme synthetic rTCA cycle was designed at NCSU utilizing 2 unique enzymes to carboxylate and reduce 2‐oxoglutarate to isocitrate. The enzymes are derived from an evolutionarily primitive configuration of the rTCA cycle that persists in the order Aquificales in hot springs and deep ocean thermal vents. Two strategies are being pursued to engineer mesophilic forms of these enzymes: 1) reducing the temperature of activity of the Aquificales enzymes, and 2) modifying the substrate specificity of homologous mesophilic enzymes. The first enzyme, 2‐oxoglutarate carboxylase (OGC), is a member of the biotin‐dependent carboxylase family homologous to pyruvate carboxylase. Biotin‐dependent carboxylases are multi‐subunit complexes. So far, we have identified the temperature‐dependent steps of the biotin carboxylase domain of OGC and predicted mutations to reduce the temperature of activity based on the crystal structure. Phylogenetic analysis suggests that OGC and pyruvate carboxylase diverged prior to Aquificales evolution. An ancestral promiscuous enzyme has been proposed to carboxylate both pyruvate and 2‐oxoglutarate. Ancestral enzymes are being reconstructed from phylogenetic analyses to switch the substrate specificity of mesophilic pyruvate carboxylase to carboxylate 2‐oxoglutarate. The second enzyme, oxalosuccinate reductase (OSR), is homologous with isocitrate dehydrogenase. In fact, isocitrate dehydrogenase has replaced OGC/OSR in most organisms utilizing the rTCA cycle. Isocitrate dehydrogenase favors the oxidative decarboxylase of isocitrate in the TCA cycle, while OGC/OSR favors the reductive cycle. OSR is an ancestral, non‐decarboxylating isocitrate dehydrogenase. We propose to engineer a mesophilic OSR by mutating isocitrate dehydrogenase to inhibit decarboxylation, based on phylogenic and structural studies of OSR. Ultimately engineering a mesophilic OGC/OSR will be utilized to increase carbon capture in seed oil crops like Camelina sativa that are carbon limited. Oil from Camelina seeds can be converted to jet fuels.

Logarithmic spiral solutions of the Kopell-Howard lambda-omega reaction-diffusion equations.

Our investigation of logarithmic spirals is motivated by disparate experimental results: (i) the discovery of logarithmic spiral shaped precipitate formation in chemical garden experiments. Understanding precipitate formation in chemical gardens is important since analogous precipitates form in deep ocean hydrothermal vents, where conditions may be compatible with the emergence of life. (ii) The discovery that logarithmic spiral shaped waves of spreading depression can spontaneously form and cause macular degeneration in hypoglycemic chick retina. The role of reaction-diffusion mechanisms in spiral formation in these diverse experimental settings is poorly understood. To gain insight, we use the topological shooting to prove the existence of 0-bump stationary logarithmic spiral solutions, and rotating logarithmic spiral wave solutions, of the Kopell-Howard lambda-omega reaction-diffusion model.

Molecular adaptations of psychrophilic serine proteases

Extremophiles thrive in hostile habitats like deep ocean hydrothermal vents, Arctic tundra, and methane pools; the efficient characterization of extremophilic proteins and the molecular adaptations that help them survive in these environments will continue to play a profound role in refining industrial processes. Toward this end, we have taken an in silico approach to studying the molecular adaptations present in psychrophilic serine proteases, a class of enzymes whose targeted degradation of proteins has medical, research, and industrial applications.

Simple harpacticoid composition observed at deep hydrothermal vent sites on sea knoll calderas in the North-west Pacific

AbstractDirivultid copepods (Siphonostomatoida), one of the most successful meiobenthic organisms found at deep-sea hydrothermal vents, have been the focus of most previous ecological studies among meiofauna in these habitats. The ecology of Harpacticoida, a major benthic copepod group in typical deep-sea floor, however, is not well understood in terms of variations in community structure and controlling factors at venting sites. The spatial heterogeneities in benthic harpacticoid composition and their association with environmental parameters were investigated at hydrothermal vent chimney structures in the calderas of three neighbouring sea knolls (Bayonnaise Knoll, Myojin Knoll and Myojin-sho Caldera) in the western North Pacific. While a previous study had reported the distribution of dirivultids was strongly associated with spatial differences in stable carbon isotopic signatures (δ13C) of organic matter in the detritus on active chimneys in the field, multivariate analyses detected no significant corelation between the parameter and harpacticoid composition in this study. Instead, high associations of the harpacticoid composition with differences in water depth and total organic carbon (TOC) concentration were detected. Ectinosomatidae dominated at vent sites with lower TOC values in the shallowest Bayonnaise Knoll, while they were less prevalent at deeper vent fields in the other knolls, where Miraciidae was the most abundant family. This study indicated the availability of vent chemoautotrophic carbon is not a primary factor controlling the composition of harpacticoids even in the habitats on the hydrothermal vents, but instead by the food amount, regardless of its resources (including marine snow from the sea surface), in the study area.

Mononucleotide repeat expansions with non-natural polymerase substrates

Replicative strand slippage is a biological phenomenon, ubiquitous among different organisms. However, slippage events are also relevant to non-natural replication models utilizing synthetic polymerase substrates. Strand slippage may notably affect the outcome of the primer extension reaction with repetitive templates in the presence of non-natural nucleoside triphosphates. In the current paper, we studied the ability of Taq, Vent (exo-), and Deep Vent (exo-) polymerases to produce truncated, full size, or expanded modified strands utilizing non-natural 2′-deoxyuridine nucleotide analogues and different variants of the homopolymer template. Our data suggest that the slippage of the primer strand is dependent on the duplex fluttering, incorporation efficiency for a particular polymerase-dNTP pair, rate of non-templated base addition, and presence of competing nucleotides.

Mixotrophic chemosynthesis in a deep-sea anemone from hydrothermal vents in the Pescadero Basin, Gulf of California

BackgroundNumerous deep-sea invertebrates, at both hydrothermal vents and methane seeps, have formed symbiotic associations with internal chemosynthetic bacteria in order to harness inorganic energy sources typically unavailable to animals. Despite success in nearly all marine habitats and their well-known associations with photosynthetic symbionts, Cnidaria remain one of the only phyla present in the deep-sea without a clearly documented example of dependence on chemosynthetic symbionts.ResultsA new chemosynthetic symbiosis between the sea anemone Ostiactis pearseae and intracellular bacteria was discovered at ~ 3700 m deep hydrothermal vents in the southern Pescadero Basin, Gulf of California. Unlike most sea anemones observed from chemically reduced habitats, this species was observed in and amongst vigorously venting fluids, side-by-side with the chemosynthetic tubeworm Oasisia aff. alvinae. Individuals of O. pearseae displayed carbon, nitrogen, and sulfur tissue isotope values suggestive of a nutritional strategy distinct from the suspension feeding or prey capture conventionally employed by sea anemones. Molecular and microscopic evidence confirmed the presence of intracellular SUP05-related bacteria housed in the tentacle epidermis of O. pearseae specimens collected from 5 hydrothermally active structures within two vent fields ~ 2 km apart. SUP05 bacteria (Thioglobaceae) dominated the O. pearseae bacterial community, but were not recovered from other nearby anemones, and were generally rare in the surrounding water. Further, the specific Ostiactis-associated SUP05 phylotypes were not detected in the environment, indicating a specific association. Two unusual candidate bacterial phyla (the OD1 and BD1-5 groups) appear to associate exclusively with O. pearseae and may play a role in symbiont sulfur cycling.ConclusionThe Cnidarian Ostiactis pearseae maintains a physical and nutritional alliance with chemosynthetic bacteria. The mixotrophic nature of this symbiosis is consistent with what is known about other cnidarians and the SUP05 bacterial group, in that they both form dynamic relationships to succeed in nature. The advantages gained by appropriating metabolic and structural resources from each other presumably contribute to their striking abundance in the Pescadero Basin, at the deepest known hydrothermal vents in the Pacific Ocean.

Towards a modification of a regulatory framework aiming at bunker oil spill prevention from ships – A design aspect of bunker tanks vents location guided by CFD simulations

Although accidental bunker oil spills at seaway are relatively rare events, they can be pose real threat to the natural marine environment. One of the reasons for the bunker spill to occur is a design failure; one of the ways it can demonstrate is an improper location or height of vent heads, leading to a bunker oil discharge during heavy rolling, due to sloshing phenomenon.Design of a ship and her systems is guided by various formal conventions and ensuing requirements by classification societies, as a result of past experience and background knowledge. Nevertheless, the requirements are not always fully effective and up to date. An example of such situation is an accidental spill from a deep bunker tank, that has been arranged and designed according to the valid rules and regulations, however not accounting for dynamic physical phenomena that when occur lead to discharging the fuel through the vent. Therefore, the contemporary regulation of vent arrangement for some specific bunker tanks design options seems insufficient and requires scientific insight.To this end, we propose science-based regulatory framework modification. This is done through examining the location of the deep tank vent with regard to dynamics of the oil sloshing phenomenon, adopting CFD-based approach that is suitable for the purpose of onboard tank design. Moreover, an experimental validation of numerical simulations outcome is presented which makes the study credible.The proposed approach is both scientifically valid and practically feasible. Some CFD simulations of liquid sloshing need to be carried out for certain bunker tank design options. The additional burden at the design stage is not significantly time consuming thus remains justified, especially nowadays when CFD has become an industrial standard in some branches.The proposed solution attempts to improve the contemporary regulations in the area of bunker oil overflow prevention, reducing the negative impact of maritime transportation on the environmental safety.

Submarine Hydrothermal Discharge and Fluxes of Dissolved Fe and Mn, and He Isotopes at Brothers Volcano Based on Radium Isotopes

Hydrothermal venting is an important transfer process of energy and elements between the Earth’s solid material and the oceans. Compared to mid-ocean-ridge hydrothermal vent fields, those at intra-oceanic island arcs are typically in shallower water depth and have a more variable geochemical fluid composition. Biologically essential trace elements (such as Fe and Mn) are generally elevated in fluids of both deep and shallow hydrothermal vent fields, while vents at shallower water depth influence the photic zone more directly and thus are potentially more relevant for marine primary productivity. However, fluid flux estimations of island arc hydrothermal systems into the surrounding water column are scarce. This study (I) presents a method based on short-lived radium isotopes to estimate submarine hydrothermal discharge (SHD), (II) applies this method at Brothers volcano in the southern Kermadec arc, located northeast of New Zealand, and (III) gives dissolved Fe, Mn and He isotope flux estimates for the Earth´s longest intra-oceanic island arc, the Kermadec arc. The comparison between measured inert He isotope concentrations in the plume with calculated concentrations based on Ra isotopes matched reasonably well, which supports the use of a Ra-based discharge model. Overall, this study represents a novel approach to assess fluid and thus trace element fluxes from one hydrothermal vent field, which can be applied in future studies on various hydrothermal systems to improve geochemical models of element cycling in the ocean.

Geological and Thermal Control of the Hydrothermal System in Northern Yellowstone Lake: Inferences From High‐Resolution Magnetic Surveys

AbstractA multiscale magnetic survey of the northern basin of Yellowstone Lake was undertaken in 2016 as part of the Hydrothermal Dynamics of Yellowstone Lake Project (HD‐YLAKE)—a broad research effort to characterize the cause‐and‐effect relationships between geologic and environmental processes and hydrothermal activity on the lake floor. The magnetic survey includes lake surface, regional aeromagnetic, and near‐bottom autonomous underwater vehicle (AUV) data. The study reveals a strong contrast between the northeastern lake basin, characterized by a regional magnetic low punctuated by stronger local magnetic lows, many of which host hydrothermal vent activity, and the northwestern lake basin with higher‐amplitude magnetic anomalies and no obvious hydrothermal activity or punctuated magnetic lows. The boundary between these two regions is marked by a steep gradient in heat flow and magnetic values, likely reflecting a significant structure within the currently active ~20‐km‐long Eagle Bay‐Lake Hotel fault zone that may be related to the ~2.08‐Ma Huckleberry Ridge caldera rim. Modeling suggests that the broad northeastern magnetic low reflects both a shallower Curie isotherm and widespread hydrothermal activity that has demagnetized the rock. Along the western lake shoreline are sinuous‐shaped, high‐amplitude magnetic anomaly highs, interpreted as lava flow fronts of upper units of the West Thumb rhyolite. The AUV magnetic survey shows decreased magnetization at the periphery of the active Deep Hole hydrothermal vent. We postulate that lower magnetization in the outer zone results from enhanced hydrothermal alteration of rhyolite by hydrothermal condensates while the vapor‐dominated center of the vent is less altered.

Exploring brain diversity in crustaceans: sensory systems of deep vent shrimps

Abstract The current report focuses on shrimps from deep hydrothermal vents of the Mid-Atlantic Ridge that live in an environment characterized by high hydrostatic pressure, lack of sunlight, and with hot and potentially toxic emissions of black smoker vents. Malacostracan crustaceans display a large diversity of lifestyles and life histories and a rich repertoire of complex behavioral patterns including sophisticated social interactions. These aspects promote this taxon as an interesting group of organisms for those neurobiologists interested in evolutionary transformation of brain structures and evolutionary diversification of neuronal circuits. Here, we explore how analyzing the nervous system of crustacean species from extreme habitats can provide deeper insights into the functional adaptations that drive the diversification of crustacean brain structure.

Sex ratio of Stygiopontius senokuchiae (Dirivultidae, Copepoda), an endemic copepod species at deep hydrothermal vent sites, is biased to males

Stygiopontius copepods (Dirivultidae, Siphonostomatoida, Crustacea) are among the most successful meiobenthic organisms at deep-sea hydrothermal vents. Most of their ecology is not yet known, including the spatiotemporal differences in their sex ratios and their controlling factors. We investigated spatial variation in the sex ratio of adult Stygiopontius senokuchiae and its association with environmental parameters, including food quality at hydrothermal vent chimney structures in the calderas of three neighboring sea knolls (Bayonnaise Knoll, Myojin Knoll, and Myojin-sho Caldera) in the western North Pacific Ocean. Their sex ratio was significantly biased to males from 1:1, which was different from some of the other Stygiopontius species. The ratios did not show a significant correlation with the density of total adults. While previous studies have shown that the abundance of S. senokuchiae is positively associated with δ13C values of detritus on active chimneys, multivariate analyses in this study did not detect any significant association between their sex ratio and any investigated parameters including δ13C. These findings suggest that neither population density nor chemoautotrophic food availability drives the sexual difference in the spatial distribution around vents among the adults of the species.

PCR incorporation of dUMPs modified with aromatic hydrocarbon substituents of different hydrophilicities: Synthesis of C5-modified dUTPs and PCR studies using Taq, Tth, Vent (exo-) and Deep Vent (exo-) polymerases.

Deoxyuridine triphosphate derivatives (dUTPs) modified at the C5 position of the pyrimidine ring with various aromatic hydrocarbon substituents of different hydrophilicities have been synthesized. The aromatic hydrocarbon substituents were attached to dUTPs via a CHCHCH2NHCOCH2 linker. The efficiency of the PCR incorporation of modified dUMPs using Taq, Tth, Vent (exo-) and Deep Vent (exo-) polymerases and a model DNA template containing one, two and three adjacent adenine nucleotides at three different sites within the sequence was investigated. For all the polymerases used, the yield of the modified PCR product was significantly increased with increasing hydrophilicity of the aromatic hydrocarbon substituent. In particular, for the above polymerases, the efficiency of the incorporation of dUMPs modified with the most hydrophilic of the studied aromatic hydrocarbon substituents, a 4-hydroxyphenyl residue, was 60-85% of the efficiency of dTMP incorporation. At the same time, the relative efficiencies of the incorporation of dUMPs modified with 2-, 4-methoxyphenyl, phenyl and 4-nitrophenyl substituents ranged from 20 to 50% and were 2-18% for the 1-naphthalene and 4-biphenyl groups, which were the most hydrophobic of the studied aromatic hydrocarbon substituents.