Microbial life associated with low‐temperature alteration of ultramafic rocks in the Leka ophiolite complex

Water–rock interactions in ultramafic lithosphere generate reduced chemical species such as hydrogen that can fuel subsurface microbial communities. Sampling of this environment is expensive and technically demanding. However, highly accessible, uplifted oceanic lithospheres emplaced onto continental margins (ophiolites) are potential model systems for studies of the subsurface biosphere in ultramafic rocks. Here, we describe a microbiological investigation of partially serpentinized dunite from the Leka ophiolite (Norway). We analysed samples of mineral coatings on subsurface fracture surfaces from different depths (10–160 cm) and groundwater from a 50‐m‐deep borehole that penetrates several major fracture zones in the rock. The samples are suggested to represent subsurface habitats ranging from highly anaerobic to aerobic conditions. Water from a surface pond was analysed for comparison. To explore the microbial diversity and to make assessments about potential metabolisms, the samples were analysed by microscopy, construction of small subunit ribosomal RNA gene clone libraries, culturing and quantitative‐PCR. Different microbial communities were observed in the groundwater, the fracture‐coating material and the surface water, indicating that distinct microbial ecosystems exist in the rock. Close relatives of hydrogen‐oxidizing Hydrogenophaga dominated (30% of the bacterial clones) in the oxic groundwater, indicating that microbial communities in ultramafic rocks at Leka could partially be driven by H₂ produced by low‐temperature water–rock reactions. Heterotrophic organisms, including close relatives of hydrocarbon degraders possibly feeding on products from Fischer–Tropsch‐type reactions, dominated in the fracture‐coating material. Putative hydrogen‐, ammonia‐, manganese‐ and iron‐oxidizers were also detected in fracture coatings and the groundwater. The microbial communities reflect the existence of different subsurface redox conditions generated by differences in fracture size and distribution, and mixing of fluids. The particularly dense microbial communities in the shallow fracture coatings seem to be fuelled by both photosynthesis and oxidation of reduced chemical species produced by water–rock reactions.     

Long-term nitrate removal in a stream riparian zone

The long-term capacity of riparian zones in regulating groundwater nitrate fluxes is not well understood. This study analyses patterns of nitrate removal for the period 1994–2012 at two sites in a river floodplain that have received high groundwater nitrate loading from a large upland aquifer for over 32 years. During the study, mean NO₃ ^?–N concentrations entering the riparian zone varied between 20–30 and 30–42 mg/L at the upstream and downstream sites respectively, but did not show any clear inter-annual trend. A permeable sand layer in the riparian zone is underlain by a regional aquitard at a depth of 5–6 m and 4 m at the upstream site and downstream site respectively. Denitrification resulted in a decline in nitrate concentrations as lateral groundwater flow in the sand layer interacted with buried peat and channel bar deposits that range up to 3 m in depth at both riparian sites. This interaction was greater at the downstream site where the organic deposits extend down to <1 m from the aquitard in some locations. At the upstream site nitrate removal efficiency in the sand layer, at depths of 3–4 m ~20 m from the river bank, declined from 68 % in 1996–1998 to 42 % in 2009–2012. A smaller decline from 92 to 82 % occurred in the sand layer 10 m from the river bank during the study. In contrast, no clear pattern of change was evident at the downstream site where a nitrate removal efficiency of 98–100 % occurred at the river bank in most years between 1994 and 2012. These data suggest that the long-term nitrate removal performance of some riparian zones may decline if carbon availability for denitrification becomes limited as a result of variations in the quantity, quality and location of subsurface organic deposits that interact with deeper groundwater flowpaths.     

Mesophotic communities of the insular shelf at Tutuila, American Samoa

An investigation into the insular shelf and submerged banks surrounding Tutuila, American Samoa, was conducted using a towed camera system. Surveys confirmed the presence of zooxanthellate scleractinian coral communities at mesophotic depths (30–110 m). Quantification of video data, separated into 10-m-depth intervals, yielded a vertical, landward-to-seaward and horizontal distribution of benthic assemblages. Hard substrata composed a majority of bottom cover in shallow water, whereas unconsolidated sediments dominated the deep insular shelf and outer reef slopes. Scleractinian coral cover was highest atop mid-shelf patch reefs and on the submerged bank tops in depths of 30–50 m. Macroalgal cover was highest near shore and on reef slopes approaching the bank tops at 50–60 m. Percent cover of scleractinian coral colony morphology revealed a number of trends. Encrusting corals belonging to the genus Montipora were most abundant at shallow depths with cover gradually decreasing as depth increased. Massive corals, such as Porites spp., displayed a similar trend. Percent cover values of plate-like corals formed a normal distribution, with the highest cover observed in the 60–70 m depth range. Shallow plate-like corals belonged mostly to the genus Acropora and appeared to be significantly prevalent on the northeastern and eastern banks. Deeper plate-like corals on the reef slopes were dominated by Leptoseris, Pachyseris, or Montipora genera. Branching coral cover was high in the 80–110 m depth range. Columnar and free-living corals were also occasionally observed from 40–70 m.     

Watershed-Scale Fungal Community Characterization along a pH Gradient in a Subsurface Environment Cocontaminated with Uranium and Nitrate

The objective of this study was to characterize fungal communities in a subsurface environment cocontaminated with uranium and nitrate at the watershed scale and to determine the potential contribution of fungi to contaminant transformation (nitrate attenuation). The abundance, distribution, and diversity of fungi in subsurface groundwater samples were determined using quantitative and semiquantitative molecular techniques, including quantitative PCR of eukaryotic small-subunit rRNA genes and pyrosequencing of fungal internal transcribed spacer (ITS) regions. Potential bacterial and fungal denitrification was assessed in sediment-groundwater slurries amended with antimicrobial compounds and in fungal pure cultures isolated from the subsurface. Our results demonstrate that subsurface fungal communities are dominated by members of the phylum Ascomycota, and a pronounced shift in fungal community composition occurs across the groundwater pH gradient at the field site, with lower diversity observed under acidic (pH <4.5) conditions. Fungal isolates recovered from subsurface sediments, including cultures of the genus Coniochaeta, which were detected in abundance in pyrosequence libraries of site groundwater samples, were shown to reduce nitrate to nitrous oxide. Denitrifying fungal isolates recovered from the site were classified and found to be distributed broadly within the phylum Ascomycota and within a single genus of the Basidiomycota. Potential denitrification rate assays with sediment-groundwater slurries showed the potential for subsurface fungi to reduce nitrate to nitrous oxide under in situ acidic pH conditions.     

Methanogenic and Sulphate-Reducing Microbial Communities in Deep Groundwater of Crystalline Rock Fractures in Olkiluoto,Finland

The long-term safety of final disposal of spent nuclear fuel in the deep geosphere is dependent on stability of biogeochemical conditions at the disposal site. Microbial processes, such as sulphate reduction and methanogenesis, may have profound effects on site biogeochemistry. In this study, sulphate-reducing bacteria and methane-producing archaea were investigated at depths ranging from 68 to 545 m in crystalline rock fractures at an intended spent nuclear fuel disposal site in Olkiluoto, Finland. Denaturing gradient gel electrophoresis detected diverse sulphate-reducing bacterial communities in all samples. Although the number of dsrB gene copies was below 10³ copies ml^?1 in all analyzed samples according to real-time quantitative PCR, their abundance was highest in samples that had the highest sulphate concentrations. Several distinct mcrA gene fragments were also recovered from most of the analyzed samples by cloning, although the number of methanogens was lower than that of sulphate-reducing bacteria when measured by mcrA-targeted quantitative PCR. The detected gene fragments were most closely related to sequences obtained from aquatic and deep subsurface environments. Results imply that sulphate reduction, methanogenesis, and anaerobic methane oxidation may all take place in the Olkiluoto deep geobiosphere.     

The Variation of Microbial Communities in a Depth Profile of Peat in the Gahai Lake Wetland Natural Conservation Area

The Gahai Lake wetland natural conservation area in northwestern China includes peatland that has been accumulating over hundreds of years and is seldom disturbed by industry. Bacteria and archaea in peat soil, which is a reservoir for carbon and water, may influence its ecological function. The objective of this study was to obtain a clearer understanding of peat microbial ecology and its relationship to the environmental conditions of this area. Hence, the microbial community of the peatland ecosystem was investigated by sequencing bacterial and archaeal DNA extracted from samples collected at different peat depths. Results showed that in all samples the dominant bacterial phyla were Proteobacteria (relative abundance 0.39 ± 0.12) and Chloroflexi (0.16 ± 0.09), while the dominant archaeal phyla were Miscellaneous Crenarchaeotic Group (MCG) (0.62 ± 0.21) and Euryarchaeota (0.27 ± 0.16). The diversity and microbial community structure at deeper depths (90 and 120 cm below the peat surface) significantly differ from that at shallower depths (10, 30 and 50 cm deep). In contrast to the shallow layers, the deeper layers became more abundant in the bacterial phyla Chloroflexi, Bacteroidetes, Atribacteria, Aminicenantes, Chlorobi, TA06, Caldiserica and Spirochaetae; and in the archaeal phyla MCG and Miscellaneous Euryarchaeotic Group (MEG). This study revealed a significant shift in microbial community in peat between 50 cm and 90 cm deep, as probably influenced by the oxygen supply at different depths. Furthermore, new insights into the microbial taxa were obtained, thus providing a baseline for future studies of this peat ecosystem.     

Dissolved oxygen and dissolved inorganic carbon stable isotope composition and concentration fluxes across several shallow floodplain aquifers and in a diffusion experiment

Recent studies have documented the occurrence of dissolved molecular oxygen (DO) in shallow groundwater that is isotopically lighter than can be explained by atmospheric gas exchange or by biogeochemical reactions that consume ¹⁶O¹⁶O faster than ¹⁶O¹⁸O. In the present study, spatial gradients in the isotopic composition of DO (δ¹⁸O-DO) and dissolved inorganic carbon (δ¹³C-DIC) were measured in three shallow floodplain aquifers: (1) the Nyack aquifer, of the Middle Fork of the Flathead River in northwest Montana; (2) the Silver Bow Creek floodplain in southwest Montana; and (3) the Umatilla River floodplain in northeast Oregon. The field data show general trends of increasing DIC concentration, decreasing δ¹³C-DIC, and decreasing DO concentration with increase in groundwater path length. These trends are consistent with consumption of DO and production of DIC by microbial respiration. Although the expected trend of an increase in δ¹⁸O-DO with increase in path length was found at an area adjacent to hyporheic recharge at the Nyack floodplain, the majority of groundwater samples collected at Nyack and from the other sites distal to recharge zones had anomalously low δ¹⁸O-DO values well below 24.2 ‰, the value corresponding to atmospheric isotopic equilibrium. At the Nyack site, ³H-³He dates were used to estimate groundwater travel time: all groundwater samples with apparent age >1 year had δ¹⁸O-DO<24.2 ‰. Previously it has been suggested that diffusion of O₂ could be a viable mechanism to explain the existence of isotopically light DO in shallow groundwater. To test this hypothesis, laboratory experiments were conducted to measure the isotopic fractionation of O₂ as it diffuses from air across a simulated capillary fringe (made from a floating layer of foam beads) into a stirred, initially anoxic, water column. As expected, ¹⁶O¹⁶O diffused faster than ¹⁶O¹⁸O, and the magnitude of isotope fractionation associated with diffusion increased with a decrease in temperature. Fractionation factors (α) calculated from these diffusion experiments were 1.0030 at 15–19 °C and 1.0048 at 8 °C. The combined field and laboratory data suggest that diffusion is an important mechanism to maintain aerobic conditions in shallow groundwater systems, allowing microbial respiration to continue at long distances (km scale) from the source of groundwater recharge.     

Microbial Response to Organic Matter Enrichment in the Oligotrophic Levantine Basin (Eastern Mediterranean)

The response of a deep-water benthic microbial community to organic matter (OM) enrichment was studied in the unexplored region of the SW Cretan margin (E. Mediterranean). A food pulse of 0.5 g C m^?2 was simulated by adding ¹³C-labelled diatoms to sediment cores retrieved from 1079 m depth. The diatom addition resulted in a significant increase in the sediment community oxygen consumption (SCOC). After 6 days, ～50 mg C m^?2 of the added material was processed by the microbial community. The major carbon sink was respiration, which accounted for ～96% of the total processed material. The carbon uptake rate (12 mg C m^?2 d^?1) was considerably lower than previously published values in the E. Mediterranean at similar depths. The microbial community in our study site is distinct, as revealed by the unusually high presence of branched phospholipid fatty acids (PLFA). Previous studies have revealed that the slope under investigation may act as a conduit of OM from the shallow shelf to the deep basins, resulting in the prevalence of relatively refractory OM at mid-slope depths. We postulate that sedimentary processes affect the amount of bioavailable sedimentary OM and consequently the structure and physiological state of bacterial community in our study site. The distinct microbial community composition at our station compared to more stable adjacent slopes could explain the limited response of the microbial community to the addition of labile OM. Supplemental materials are available for this article. Go to the publisher's online edition of Geomicrobiology Journal to view the free supplemental file.     

Are mesophotic coral ecosystems distinct communities and can they serve as refugia for shallow reefs?

We analyzed an extensive dataset of over 9000 benthic and suprabenthic species found throughout the Gulf of Mexico (GoMx) to assess whether mesophotic coral ecosystems represent distinct assemblages and evaluate their potential to serve as refugia for shallow reef communities. We assessed community structure of the overall benthic community from 0 to 300 m via non-metric multidimensional scaling (NMDS) of species presence across depth bands. We used the Jaccard index of similarity to calculate the proportion of shared species between adjacent depth bands, measure species turnover with depth, and assess taxonomic overlap between shallow reefs versus progressively deeper depth bands. NMDS ordinations showed that the traditionally defined mesophotic range (30–150 m) as a whole is not a distinct community. In contrast, taxonomically distinct communities, determined by hierarchical clustering, were found at 0–70, 60–120, 110–200, and 190–300 m. Clustering highlighted an important separation in the benthic community at ~60 m, which was especially important for actinopterygian fishes. Species turnover between adjacent depths decreased with depth for all taxa combined and individual taxa, with peaks at ~60, 90–120, and 190–200 m. Fishes showed lower turnover from shallow to upper mesophotic depths (0–50 m) than all taxa combined, a substantial peak at 60 m, followed by a precipitous and continued decline in turnover thereafter. Taxonomic overlap between shallow (0–20 m) and progressively deeper zones declined steadily with depth in all taxa and individual taxa, suggesting that mid- and lower mesophotic habitats have less (but not inconsequential) potential to serve as refugia (60–150 m, 15–25% overlap with shallow habitats) than upper mesophotic zones (30–60 m, 30–45% overlap with shallow habitats) for all taxa combined. We conclude that the traditional mesophotic zone is home to three ecological communities in the GoMx, one that is confluent with shallow reefs, a distinct mesophotic assemblage spanning 60–120 m, and a third that extends onto the outer continental shelf.     

Size distribution of the amphipod Paramoera walkeri (Stebbing) along a depth gradient in Antarctica

Body weight distributions of the amphipod Paramoera walkeri colonizing litter-bags at different depths (2, 5, and 10 m) in Terra Nova Bay were compared. This species dominated the vagile benthic community and was found nearly alone at the shallow sites. At the deepest site it co-occurred with two smaller benthic species (the gastropod Laevilitorina antarctica and the isopod Munna antarctica) but still accounted for most of the animal biomass (80.2%). The frequency size-class distributions of the three dominant species were sharply distinct in a condition of stable coexistence. The total biomass was inversely related to the abundance of animals and diminished with increasing depth. Both species and size-class diversities were higher in deep water which offered a more diversified and favourable habitat than shallow water. At the shallow sites only the large size classes of P. walkeri were present. Differences in the mean individual ash content between samples support the hypothesis that different size individuals of P. walkeri segregated along the depth gradient on the basis of their metabolic requirements and the related ability to exploit sub-optimal environments.     

The water balance and water sources of a Eucalyptus plantation over shallow saline groundwater

Eucalypt plantations have been trialled in recent years as a control measure for shallow groundwater associated with secondary salinity. Uncertainty still remains as to the potential growth and water use of these plantations; these relate mainly to the problems associated with drought stress and accumulated solutes in the root zone resulting from saline groundwater uptake. This study investigates the water balance and identifies water sources of a 21 year old unirrigated Eucalyptus grandis W. Hill ex Maiden (flooded or rose gum) and E. camaldulensis Dehnh. (river red gum) plantation over shallow saline groundwater in the Shepparton Irrigation Region of northern Victoria, Australia. Water sources used by the plantation were identified using a monthly water balance approach, together with investigations of stable isotopes of water (deuterium and oxygen-18), soil water and chloride. We found these trees to be heavily reliant on rainwater, and derive approximately 15% of their transpiration requirements from saline (10,000 mg l^?1) groundwater at the capillary fringe. Rainfall at the site is relatively low (465 mm year^?1 on average) and groundwater uptake provides a stable water source that leads to a slight extension of the growing period of these trees. There is little potential for recharge, with subsurface water moving into the groundwater depression created by tree water uptake.     

Movement of plankton through lake-stream systems

1. River plankton are often assumed to come from upstream lakes, but the factors controlling the movement of plankton between lakes and rivers into outflow streams are unclear. We tested the possibility that the physical structure of the littoral zone near the lake outlet (depth, presence of macrophytes) and diurnal differences in plankton composition at the lake surface influence the movement of plankton from the lake into the stream and determine their persistence downstream. 2. Zooplankton and phytoplankton biomass, community composition and mean body size were compared between two deep lakes without macrophytes at the lake edge and two shallow lakes with macrophytes at the lake edge. Samples were collected day and night on three dates, in the lake centre, in the littoral zone adjacent to the lake outlet, at the outlet and at two sites downstream in Algonquin Park, Ontario, Canada. 3. The morphology of lake edges clearly affects the movement of lake zooplankton into outlet streams. Outlets draining deeper littoral zones had higher zooplankton biomass than shallow littoral outlets (P < 0.0001), but these differences disappeared within 50 m downstream of the lake. There was no difference in mean zooplankton body size among lake outlets or between littoral and outlet samples. However, shallow littoral zones were dominated by cyclopoid copepods and deeper littoral zones were dominated by Bosmina longirostris. In contrast, phytoplankton biomass entering the outlet was similar to that found within the lake and did not vary with lake outlet morphology. These effects were consistent across several sampling weeks and were not affected by surface zooplankton biomass changes associated with diurnal vertical migration in the lake centre. 4. A comparison with published river zooplankton data suggests that zooplankton are rapidly eliminated from shallow outlet streams (≤1 m deep) but persist in most deeper outlet rivers (≥2 m deep). Because the depth of an outlet river determines downstream zooplankton community development, the contribution of lakes to river plankton communities may be influenced by the location of each lake within the drainage basin. These findings suggest that lake and outflow physical structure influences connection strength between spatially successive habitats.     

Influence of the surface microlayer on nutrients,chlorophyll and algal diversity of a small eutrophic bog pond

Nutrients, chlorophyll, phaeophytin and algal abundances were investigated in the surface microlayer and at subsurface depths in a small eutrophic bog pond. Nutrient levels were consistently higher in the microlayer while algal abundance was sometimes higher but sometimes lower in the microlayer than at near subsurface depths. Algal diversity values were strongly influenced by the depth of flagellate blooms, and in contrast to previous studies, diversity in the microlayer was higher than at near subsurface depths. These results are discussed in terms of weather parameters, affinity of algal species for the surface and differences between microlayer ecology in shallow and deep water systems.     

Sulphate-controlled Diversity of Subterranean Microbial Communities over Depth in Deep Groundwater with Opposing Gradients of Sulphate and Methane

The groundwater system in Olkiluoto, Finland, is stratified with a mixing layer at a depth of approximately 300 m between sulphate-rich, methane-poor and sulphate-poor, methane-rich groundwaters. New sequence library data obtained by 454 pyrotag sequencing of the v4v6 16S rDNA region indicated that sulphate-reducing bacteria (SRB) dominated the mixing layer while SRB could not be detected in the deep sulphate-poor groundwater samples. With the indispensable support of the sequence data, it could be demonstrated that sulphate was the only component needed to trigger a very large community transition in deep sulphate-poor, methane-rich groundwater from a non-sulphate-reducing community comprising Hydrogenophaga, Pseudomonas, Thiobacillus, Fusibacter, and Lutibacter to a sulphate-reducing community with Desulfobacula, Desulfovibrio, Desufobulbaceae, Desulfobacterium, Desulfosporosinus, and Desulfotignum. Experiments with biofilms and planktonic microorganisms in flow cells under in situ conditions confirmed that adding sulphate to the sulphate-poor groundwater generated growth of cultivable SRB and detectable SRB-related sequences. It was also found that the 16S rDNA diversity of the biofilms was conserved over 103 d and that there was great similarity in diversity between the microorganisms in the biofilms and in the flowing groundwater. This work demonstrates that the presence/absence of only one geochemical parameter, i.e., sulphate, in the groundwater significantly influenced the diversity of the investigated subterranean microbial community.     

THE IMPORTANCE OF SHALLOW SEDIMENTS IN THE RECRUITMENT OF ANABAENA AND APHANIZOMENON (CYANOPHYCEAE)1

Recruitment of Anabaena and Aphanizomenon from the sediments to the water column was investigated in shallow (1–2 m) and deep (6–7 m) areas of Lake Limmaren, central Sweden. Recruitment traps attached to the bottom were sampled weekly throughout the summer season (June through September). A comparison between the two sites shows that the largest part of the recruited cells originated from the shallow site, although recruitment occurred at all depths in the lake. There were also differences between the species, regarding the site as well as the timing of the recruitment. The contribution of the inoculum to the pelagic population was calculated to vary between 0.003% and 0.05% for the different species. From these results we conclude that shallow sediments are more important than deep ones for the recruitment and that the inoculum in Lake Limmaren is small but may still be an important factor in the population dynamics.     

Environmental filtering and neutral processes shape octocoral community assembly in the deep sea

The ecological and evolutionary processes that interact to shape community structure are poorly studied in the largest environment on earth, the deep sea. Phylogenetic data and morphological traits of octocorals were coupled with environmental factors to test hypotheses of community assembly in the deep (250–2500 m) Gulf of Mexico. We found lineage turnover at a depth of 800–1200 m, with isidids and chrysogorgiids at deeper depths and a diversity of species from across the phylogeny occupying shallower depths. Traits, including axis type, polyp shape, and polyp retraction, differed among species occupying the shallowest (250–800 m) and deepest (1200–2500 m) depths. Results also indicated that octocoral species sort along an environmental gradient of depth. Closely related octocoral species sorted into different depth strata on the upper to middle slope, likely due to barriers imposed by water masses followed by adaptive divergence. Within any given depth zone down to 2000 m, the phylogenetic relatedness of co-existing octocorals was random, indicating that stochastic processes, such as recruitment, also shape community structure. At depths >2000 m, octocorals were more closely related than expected by chance due to the diversification of chrysogorgiids and isidids, which retain conserved traits that impart survival at deeper and/or colder depths. Polyp density, size, and inter-polyp distance were significantly correlated with depth, particularly in plexaurids and isidids, highlighting trait lability across depth and supporting that environmental gradients influence octocoral morphology. Our community phylogenetics approach indicates that both environmental filtering and neutral processes shape community assembly in the deep sea.     

Spatial and temporal dynamics of the microbial community in the Hanford unconfined aquifer

Pyrosequencing analysis of 16S rRNA genes was used to study temporal dynamics of groundwater bacteria and archaea over 10 months within three well clusters separated by ∼30 m and located 250 m from the Columbia River on the Hanford Site, WA. Each cluster contained three wells screened at different depths ranging from 10 to 17 m that differed in hydraulic conductivities. Representative samples were selected for analyses of prokaryotic 16S and eukaryotic 18S rRNA gene copy numbers. Temporal changes in community composition occurred in all nine wells over the 10-month sampling period. However, there were particularly strong effects near the top of the water table when the seasonal rise in the Columbia River caused river water intrusion at the top of the aquifer. The occurrence and disappearance of some microbial assemblages (such as Actinobacteria ACK-M1) were correlated with river water intrusion. This seasonal impact on microbial community structure was greater in the shallow saturated zone than deeper zone in the aquifer. Spatial and temporal patterns for several 16S rRNA gene operational taxonomic units associated with particular physiological functions (for example, methane oxidizers and metal reducers) suggests dynamic changes in fluxes of electron donors and acceptors over an annual cycle. In addition, temporal dynamics in eukaryotic 18S rRNA gene copies and the dominance of protozoa in 18S clone libraries suggest that bacterial community dynamics could be affected not only by the physical and chemical environment but also by top-down biological control.     

Mesophotic depths as refuge areas for fishery-targeted species on coral reefs

Coral reefs are subjected to unprecedented levels of disturbance with population growth and climate change combining to reduce standing coral cover and stocks of reef fishes. Most of the damage is concentrated in shallow waters (<30 m deep) where humans can comfortably operate and where physical disturbances are most disruptive to marine organisms. Yet coral reefs can extend to depths exceeding 100 m, potentially offering refuge from the threats facing shallower reefs. We deployed baited remote underwater stereo-video systems (stereo-BRUVs) at depths of 10–90 m around the southern Mariana Islands to investigate whether fish species targeted by fishing in the shallows may be accruing benefits from being at depth. We show that biomass, abundance and species richness of fishery-targeted species increased from shallow reef areas to a depth of 60 m, whereas at greater depths, a lack of live coral habitat corresponded to lower numbers of fish. The majority of targeted species were found to have distributions that ranged from shallow depths (10 m) to depths of at least 70 m, emphasising that habitat, not depth, is the limiting factor in their vertical distribution. While the gradient of abundance and biomass versus depth was steepest for predatory species, the first species usually targeted by fishing, we also found that fishery-targeted herbivores prevailed in similar biomass and species richness to 60 m. Compared to shallow marine protected areas, there was clearly greater biomass of fishery-targeted species accrued in mesophotic depths. Particularly some species typically harvested by depth-limited fishing methods (e.g., spearfishing), such as the endangered humphead wrasse Cheilinus undulatus, were found in greater abundance on deeper reefs. We conclude that mesophotic depths provide essential fish habitat and refuge for fishery-targeted species, representing crucial zones for fishery management and research into the resilience of disturbed coral reef ecosystems.     

Denitrification in deep subsurface sediments

Dissimilatory nitrate reduction (denitrification) in subsurface sediments by indigenous microflora was investigated in samples obtained over a range of depths from 0 to 289 m. Denitrifying activity in sediment samples retrieved from similar stratigraphic horizons at four different sites was determined by measuring the accumulation of N₂O using the acetylene blockage technique. Denitrification was detected in unamended samples which received only prereduced deionized water at almost all depths in all sediments sampled. The surface sediments showed the highest denitrification activity. In the deeper sediments, denitrifying activity was much higher in saturated sandy samples and lower or absent in drier clay samples. Addition of nitrate enhanced denitrification activity in all samples from below the water table down to the maximum depth sampled (289 m), while addition of a carbon (succinate) source in general had no stimulatory effect. These results show that denitrifying microorganisms were present in all of the deep subsurface sediments tested in this study. Furthermore, these results suggest that adequate supplies of metabolizable organic carbon were available to support denitrifying activity. However, denitrification may be limited by inadequate supplies of nitrate in the sediments.