Environmental viromes reveal the global distribution signatures of deep-sea DNA viruses.

INTRODUCTION: Viruses are abundant and ecologically significant in marine ecosystems. However, the virome of deep-sea sediments is not extensively investigated. OBJECTIVES: To explore the distribution pattern of deep-sea viruses on a global scale, the viromes of DNA viruses isolated from 138 sediments of 5 deep-sea ecosystems were characterized. METHODS: The viral particles were purified from each sediment sample. Then the viral DNAs were extracted and subjected to viral metagenomic analysis. RESULTS: Here, we constructed a global deep-sea environmental virome dataset by analyzing the viral DNA of 138 sediment samples. A total of 347,737 viral operational taxonomic units (vOTUs) were identified, of which 84.94% were hitherto unknown, indicating that deep sea was a reservoir of novel DNA viruses. Furthermore, circular viral genome analysis revealed 98,581 complete genomes. The classified vOTUs included eukaryotic (44.55%) and prokaryotic (25.75%) viruses, and were taxonomically assigned to 63 viral families. The composition and abundance of the deep-sea sediment viromes were dependent on the deep-sea ecosystem as opposed to geographical region. Further analysis revealed that the viral community differentiation in different deep-sea ecosystems was driven by the virus-mediated energy metabolism. CONCLUSION: Our findings showed that deep-sea ecosystems are a reservoir of novel DNA viruses and the viral community is shaped by the environmental characteristics of deep-sea ecosystems, thus presenting critical information for determining the ecological significance of viruses in global deep-sea ecosystems.

Ecotoxicology of Polymetallic Nodule Seabed Mining: The Effects of Cobalt and Nickel on Phytoplankton Growth and Pigment Concentration.

In order to improve the understanding of the environmental impacts of polymetallic nodule mining, ecotoxicological studies were conducted on the growth of model phytoplankton species Skeletonema costatum and Prorocentrum donghaiense using cobalt and nickel. This study evaluated various physiological and ecological indicators, such as cell proliferation, chlorophyll a, pigments, total protein, and antioxidant enzyme markers. The results show that the introduction of low amounts of cobalt or nickel increased the growth rate of phytoplankton. The phytoplankton benefited from low concentrations of cobalt and nickel stress. The increased protein levels and decreased activity of antioxidant enzymes considerably impacted physiological responses during the promotion of cell abundance. High concentrations of cobalt or nickel resulted in decreased light-absorbing pigments, increased photoprotective pigments, an inactive chlorophyll content, decreased total proteins, and maximal antioxidant enzyme activity in phytoplankton. Throughout the experiment, both the phytoplankton protein and enzyme activity declined with prolonged stress, and the cells underwent age-induced damage. Thus, seabed mining's repercussions on phytoplankton could result in both short-term growth promotion and long-term damage. These consequences depend on the impurity concentrations infiltrating the water, their duration, and the organism's physiological responses.

Latitudinal and meridional patterns of picophytoplankton variability are contrastingly associated with Ekman pumping and the warm pool in the tropical western Pacific.

Marine picophytoplankton plays a major role in marine cycling and energy conversion, and its effects on the carbon cycle and global climate change have been well documented. In this study, we investigated the response of picophytoplankton across a broad range of physicochemical conditions in two distinct regions of the tropical western Pacific. Our analysis considered the abundance, carbon biomass, size fraction, distribution, and regulatory factors of the picophytoplankton community, which included the cyanobacteria Prochlorococcus and Synechococcus, and small eukaryotic phytoplankton (picoeukaryotes). The first region was a latitudinal transect along the equator (142-163° E, 0° N), characterized by stratified oligotrophic conditions. The second region was a meridional transect (143° E, 0-22° N) known for its high-nutrient and low-chlorophyll (HNLC) conditions. Results showed that picophytoplankton contributed >80% of the chlorophyll a (Chl a), and was mainly distributed above 100 m. Prochlorococcus was the dominant organism in terms of cell abundance and estimated carbon biomass in both latitudinal and meridional transects, followed by Synechococcus and picoeukaryotes. In the warm pool, Prochlorococcus was primarily distributed below the isothermal layer, with the maximum subsurface abundance forming below it. The maximum Synechococcus abundance was restricted to the west-warm pool, due to the high temperature, and the second-highest Synechococcus abundance was associated with frontal interaction between the east-warm pool and the westward advance of Middle East Pacific water. In contrast, picoeukaryotes formed a maximum subsurface abundance corresponding to the subsurface Chl a maximum. In the mixed HNLC waters, the cell abundance and biomass of the three picophytoplankton groups were slightly lower than those in the warm pool. Due to a cyclonic eddy, the contours of the maximum subsurface Prochlorococcus abundance were uplifted, evidently with a lower value than the surrounding water. Synechococcus abundance varied greatly in patches, forming a weakly high subsurface peak when the isothermal layer rose to the near-surface (<50 m). The subsurface maximum picoeukaryote abundance was also highly consistent with that of the subsurface Chl a maximum. Correlation analysis and generalized additive models of environmental factors showed that nutrient availability had a two-faceted role in regulating the spatial patterns of picophytoplankton in diverse latitudinal and meridional environments. We concluded through regression that temperature and light irradiance were the key determinants of picophytoplankton variability in the tropical western Pacific. This study provides insights into the changing picophytoplankton community structure with potential future changing hydroclimatic force.

Simulation Experiment of Environmental Impact of Deep-Sea Mining: Response of Phytoplankton Community to Polymetallic Nodules and Sediment Enrichment in Surface Water.

In this paper, simulation experiments were conducted to study the response of phytoplankton biomass and community composition to the influence of polymetallic nodules and sediment at four stations in the western Pacific in 2021. Chlorophyll a, pico-phytoplankton cell abundance, and metal concentration were measured before and after 24 h of deck incubation. The results show that there were three different patterns of response, namely, restrained, stimulated, and unaffected patterns. The restrained pattern appeared in the filtered treatments at station Incub.01, and the stimulated pattern appeared in the unfiltered treatments at station Incub.02. The response of the phytoplankton was not detectable at stations Incub.03 and 04. Regardless, positive and negative responses were found in the dominant pico-phytoplankton group-Prochlorococcus-and with slight variation in Synechococcus. The concentration of manganese varied among the treatments compared to that of iron and other metals. The factors affecting the growth of the phytoplankton in this study were metal concentrations and turbidity. The phytoplankton biomass baseline may also have played an important role: the lower the biomass, the higher the growth rate. This study proved that deep-sea polymetallic nodule mining will have a specific impact on surface phytoplankton biomass, but turbidity and particle retention time could be important factors in mitigating the extent of the impact.

A new eyeless species of Nereis (Annelida, Nereididae) from deep-sea sediments of the northern South China Sea.

A variety of nereidid species have been reported from the South China Sea, although little is known about the deep-sea species in this area. Recently, two specimens belonging to a novel nereidid polychaete were collected from a sedimentary habitat during an environmental survey to a deep-sea basin where cold seeps occur. This new species, Nereistricirrata sp. nov., is described herein, based on morphological and molecular analyses. The most noteworthy feature is the absence of eyes on the prostomium; it can be distinguished from other eyeless Nereis species by the arrangement of conical paragnaths on the pharynx, the nature of homogomph falcigers and the shape of notopodial lobes in posterior chaetigers. The reconstructed phylogenetic tree, using concatenated sequences of mtCOI, 16S, and 18S rRNA, showed that all Nereis species included in this study form a monophyletic clade with full support. The mtCOI-based interspecific comparisons revealed a high genetic divergence (23.1%-37.3% K2P) from four-eyed Nereis species with the available sequences. This is the first record of an eyeless Nereis species in the South China Sea.

Characteristics of phytoplankton communities and their biomass variation in a gas hydrate drilling area in the northern South China Sea.

We analyzed the data obtained from field observations on a gas hydrate drilling area in Dongsha of northern South China Sea (SCS) in middle May (before drilling) and early October (after drilling) in 2013. The variation in the phytoplankton communities and biomass as well as the impacts of environmental factors including dissolved methane was studied. Results indicated that the gas hydrate drilling area in Dongsha, SCS exhibited a typical low-nutrients low-chlorophyll a (LNLC) environment accompanied with low phytoplankton abundance. A total of 103 taxa belonging to 52 genera of 5 classes were identified, with diatoms and dinoflagellates dominating the community. Both phytoplankton abundance and chlorophyll a (Chl a) were highest at the subsurface maximum layer. The subsurface chlorophyll maximum (SCM) before and after drilling were stabilized at 75 m (0.30 ±â€¯0.06 mg/m3 and 0.51 ±â€¯0.29 mg/m3, respectively), while the subsurface maximum of abundance after drilling went deeper to 75 m (604.17 ±â€¯313.22 cells/L) from the surface (707.14 ±â€¯243.98 cells/L) before drilling. After drilling, phosphate and Chl a increased significantly, but no significant differences were observed on abundance. Dominant species of diatoms were basically constant with dinoflagellates becoming more apparent in higher occurrence and abundance, while Cyanophyta was diverse after drilling. Redundancy analysis (RDA) and Spearman's correlation analysis both indicated that temperature, pH and phosphates were major factors causing fluctuation in phytoplankton community structure, while dissolved methane had non-significant impact directly. We clearly found both abundance and Chl a increased in particular water layers (between 50 and 75 m) and at stations (DS06, DS08 and DS15) where dissolved methane concentrations were also abnormally high. This study appeared to partly coincide with the findings of natural oil seeps in the Gulf of Mexico, which assumed that the turbulence from the natural oil and gas leaking zone could raise the bottom water through the rising bubbles and bring cold nutrient rich waters to the thermocline from the deep seeps. This plume-generated upwelling could then fuel a bottom-up effect on the photosynthetic species in the upper pelagic waters within the euphotic zone.

Records of Naididae and Lumbriculidae (Clitellata) from Tibet, China, with description of a new species of Nais.

The Tibetan Plateau is considered to have a unique fauna of fish and invertebrates. However, little taxonomic work has been conducted on the aquatic Oligochaeta of Tibet, China. Based on the surveys of rivers and lakes in this region between 2010 and 2011, we recorded 25 species of oligochaetes belonging to 2 families and 15 genera. This paper provides an overview of the species composition of different waterbodies, the description of one new species, Nais longidentata sp. n., and re-descriptions of four previously described species. Hitherto, 30 species of aquatic oligochaetes have been recorded from Tibet. The oligochaete fauna is similar to that of the Holarctic, but has several endemic elements.

Limnodrilus simplex sp. nov. (Oligochaeta: Naididae: Tubificinae) from Changjiang River, China.

Limnodrilus simplex sp. nov. (Oligochaeta: Naididae: Tubificinae) is described based on a single specimen from the mainstream of the Changjiang River near Anqing City, Anhui Province, China. The new species is assigned to Limnodrilus by the presence of long vasa deferentia, spindle-shaped atria with long ejaculatory ducts, large prostate glands, and thick cylindrical penial sheaths. It differs from its congeners in having simple-pointed chaetae and cuticularized penial sheaths without hoods. Limnodrilus simplex is closer to L. paramblysetus and L. amblysetus in possessing penial sheaths with relatively low length/maximum width ratio.