Psychrobacter species enrichment as potential microplastic degrader and the putative biodegradation mechanism in Shenzhen Bay sediment, China.

Microplastic (MP) pollution has emerged as a pressing environmental concern due to its ubiquity and longevity. Biodegradation of MPs has garnered significant attention in combatting global MP contamination. This study focused on MPs within sediments near the sewage outlet of Shenzhen Bay. The objective was to elucidate the microbial communities in sediments with varying MPs, particularly those with high MP loads, and to identify microorganisms associated with MP degradation. The results revealed varying MP abundance, ranging from 211 to 4140 items kg-1 dry weight (d. w.), with the highest concentration observed near the outfall. Metagenomic analysis confirmed the enrichment of Psychrobacter species in sediments with high MP content. Psychrobacter accounted for ∼16.71% of the total bacterial community and 41.71% of hydrocarbon degrading bacteria at the S3 site, exhibiting a higher abundance than at other sampling sites. Psychrobacter contributed significantly to bacterial function at S3, as evidenced by the Kyoto Encyclopedia of Genes and Genomes pathway and enzyme analysis. Notably, 28 enzymes involved in MP biodegradation were identified, predominantly comprising oxidoreductases, hydrolases, transferases, ligases, lyases, and isomerases. We propose a putative mechanism for MP biodegradation, involving the breakdown of long-chain plastic polymers and subsequent oxidation of short-chain oligomers, ultimately leading to thorough mineralization.

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.

A Comprehensive Analysis of the Fowleria variegata (Valenciennes, 1832) Mitochondrial Genome and Its Phylogenetic Implications within the Family Apogonidae.

Controversies surrounding the phylogenetic relationships within the family Apogonidae have persisted due to the limited molecular data, obscuring the evolution of these diverse tropical marine fishes. This study presents the first complete mitochondrial genome of Fowleria variegata, a previously unrepresented genus, using high-throughput Illumina sequencing. Through a comparative mitogenomic analysis, F. variegate was shown to exhibit a typical genome architecture and composition, including 13 protein-coding, 22 tRNA and 2 rRNA genes and a control region, consistent with studies of other Apogonidae species. Nearly all protein-coding genes started with ATG, while stop codons TAA/TAG/T were observed, along with evidence of strong functional constraints imposed via purifying selection. Phylogenetic reconstruction based on maximum likelihood and Bayesian approaches provided robust evidence that F. variegata forms a basal lineage closely related to P. trimaculatus within Apogonidae, offering novel perspectives into the molecular evolution of this family. By generating new mitogenomic resources and evolutionary insights, this study makes important headway in elucidating the phylogenetic relationships and mitogenomic characteristics of Apogonidae fishes. The findings provide critical groundwork for future investigations into the drivers of diversification, speciation patterns, and adaptive radiation underlying the extensive ecological diversity and biological success of these marine fishes using phylogenomics and population genomics approaches.

Assessment of microplastic contamination in an eastern Pacific tuna (Katsuwonus pelamis) and evaluation of its health risk implication through molecular docking and metabolomics studies.

This work investigated microplastic (MP) pollution in a commercially-important tuna species Katsuwonus pelamis (K. pelamis) from the Eastern Pacific and health implications. 125 MPs were extracted from gills, esophagus, stomachs, intestinal tracts, and muscle of K. pelamis. MPs in the esophagus was the highest, ∼7.6 times higher than that in the gill. Polyester and polyethylene terephthalate (PET) were dominant. Molecular docking implied that PET stabilized the complex via forming 4 new hydrogen bonds that interacted with Arg83, Gln246, Thr267, and Gly268, given that PET can enter glycerol kinase protein active pocket. Metabonomic results suggested that Glycerol 3-phosphate up expressed 1.66 more times that of control groups with no MPs in the muscle. This confirmed that MPs would lie in the glycerol kinase protein active pocket, which triggered menace to K. pelamis. The results provided insights into suggested the potential influence of MPs on the sustainability of fisheries and seafood safety.

Identification of quorum sensing-regulated Vibrio fortis as potential pathogenic bacteria for coral bleaching and the effects on the microbial shift.

Coastal pollution, global warming, ocean acidification, and other reasons lead to the imbalance of the coral reef ecosystem, resulting in the increasingly serious problem of coral degradation. Coral bleaching is often accompanied by structural abnormalities of coral symbiotic microbiota, among which Vibrio is highly concerned. In this study, Vibrio fortis S10-1 (MCCC 1H00104), isolated from sea cucumber, was used for the bacterial infection on coral Seriatopora guttatus and Pocillopora damicornis. The infection of S10-1 led to coral bleaching and a significant reduction of photosynthetic function in coral holobiont, and the pathogenicity of V. fortis was regulated by quorum sensing. Meanwhile, Vibrio infection also caused a shift of coral symbiotic microbial community, with significantly increased abundant Proteobacteria and Actinobacteria and significantly reduced abundant Firmicutes; on genus level, the abundance of Bacillus decreased significantly and the abundance of Rhodococcus, Ralstonia, and Burkholderia-Caballeronia-Paraburkholderia increased significantly; S10-1 infection also significantly impacted the water quality in the micro-ecosystem. In contrast, S10-1 infection showed less effect on the microbial community of the live stone, which reflected that the microbes in the epiphytic environment of the live stone might have a stronger ability of self-regulation; the algal symbionts mainly consisted of Cladocopium sp. and showed no significant effect by the Vibrio infection. This study verified that V. fortis is the primary pathogenic bacterium causing coral bleaching, revealed changes in the microbial community caused by its infection, provided strong evidence for the "bacterial bleaching" hypothesis, and provided an experimental experience for the exploration of the interaction mechanism among microbial communities, especially coral-associated Vibrio in the coral ecosystem, and potential probiotic strategy or QS regulation on further coral disease control.

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.

Aureimonas mangrovi sp. nov., a marine alphaproteobacterium isolated from mangrove sediment in Thailand.

Two bacterial strains, designated as 1-4-3T and 1-4-4, were isolated from a mangrove sediment cultured with coastal seawater. The cells were Gram-stain-negative, motile, short, rod-shaped bacteria with flagella. Growth occurred at 4-37 °C, pH 7.0-9.0, and 0-7% NaCl. The predominant fatty acids of the novel strains were C18 : 1 ω7c, C19 : 0 cyclo ω8c, C18 : 0, and C16 : 0. A phylogenetic analysis based on 16S rRNA gene sequences and whole genome phylogeny analysis based on distance matrix revealed an affiliation between the two strains and the genus Aureimonas, with closest sequence similarity to A. populi 4M3-2T (96.41 and 96.64% similarity, respectively) and A. glaciistagni (96.01 and 96.23% similarity, respectively). The DNA G+C content of strain 1-4-3T was 66.80 mol%. Strain 1-4-3T displayed low DNA-DNA relatedness to A. populi 4M3-2T, with an average nucleotide identity value of 77.47 % and digital DNA-DNA hybridization value of 22.83 %. Genotypic, chemotaxonomic, and phenotypic data indicate that strains 1-4-3T and 1-4-4 represent a novel species of the genus Aureimonas, for which we propose the name Aureimonas mangrovi sp. nov. The type strain is 1-4-3T (=LMG 31693T=CGMCC 1.18507T).

Patterns of Relative and Quantitative Abundances of Marine Bacteria in Surface Waters of the Subtropical Northwest Pacific Ocean Estimated With High-Throughput Quantification Sequencing.

Bacteria play a pivotal role in shaping ecosystems and contributing to elemental cycling and energy flow in the oceans. However, few studies have focused on bacteria at a trans-basin scale, and studies across the subtropical Northwest Pacific Ocean (NWPO), one of the largest biomes on Earth, have been especially lacking. Although the recently developed high-throughput quantitative sequencing methodology can simultaneously provide information on relative abundance, quantitative abundance, and taxonomic affiliations, it has not been thoroughly evaluated. We collected surface seawater samples for high-throughput, quantitative sequencing of 16S rRNA genes on a transect across the subtropical NWPO to elucidate the distribution of bacterial taxa, patterns of their community structure, and the factors that are potentially important regulators of that structure. We used the quantitative and relative abundances of bacterial taxa to test hypotheses related to their ecology. Total 16S rRNA gene copies ranged from 1.86 × 108 to 1.14 × 109 copies L-1. Bacterial communities were distributed in distinct geographical patterns with spatially adjacent stations clustered together. Spatial considerations may be more important determinants of bacterial community structures than measured environmental variables. The quantitative and relative abundances of bacterial communities exhibited similar distribution patterns and potentially important determinants at the whole-community level, but inner-community connections and correlations with variables differed at subgroup levels. This study advanced understanding of the community structure and distribution patterns of marine bacteria as well as some potentially important determinants thereof in a subtropical oligotrophic ocean system. Results highlighted the importance of considering both the quantitative and relative abundances of members of marine bacterial communities.

Nitratireductor aestuarii sp. nov., a marine alphaproteobacterium isolated from an estuary.

Two bacterial strains, 2-2-12-1T and 2-2-12-2, were isolated from the estuary of the Jiulong River, south-east China. Cells were Gram-stain-negative, non-motile, short rods without flagella. Growth occurred at 25-45 °C, at pH 5.0-9.0 and with 0.5-2 % (w/v) NaCl. The bacteria were unable to reduce nitrate. The predominant fatty acids were C19 : 0 cyclo ω9c and C18 : 1ω7c. Phylogenetic analysis based on 16S rRNA gene sequences showed that both strains belong to the genus Nitratireductor, family Phyllobacteriaceae, class Alphaproteobacteria. Their closest neighbours were 'Nitratireductor lucknowense' DSM 24322 (96.3 and 96.5 % similarity, respectively) and Nitratireductor pacificus MCCC 1A01024T (96.2 and 96.3 % similarity, respectively). The DNA G+C contents of the two strains were 56.7 mol%. DNA-DNA hybridization between strain 2-2-12-1T and the two most closely related type strains revealed 57.3 and 52.3 % relatedness, respectively. Evidence from genotypic, chemotaxonomic and phenotypic data indicated that strains 2-2-12-1T and 2-2-12-2 represent a novel species of the genus Nitratireductor, for which the name Nitratireductor aestuarii sp. nov. is proposed. The type strain is 2-2-12-1T (=LMG 29090T=CGMCC 1.15320T).

Inhibition effect of zinc in wastewater on the N2O emission from coastal loam soils.

The effects of zinc (Zn) on nitrous oxide (N2O) fluxes from coastal loam soil and the abundances of soil nitrifier and denitrifier were studied in a tidal microcosm receiving livestock wastewater with different Zn levels. Soil N2O emission significantly increased due to discharge of wastewater rich in ammonia (NH4+-N) while the continuous measurements of gas flux showed a durative reduction in N2O flux by high Zn input (40mgL-1) during the low tide period. Soil inorganic nitrogen concentrations increased at the end of the experiment and even more soil NH4+-N was measured in the high-Zn-level treatment, indicating an inhibition of ammonia oxidation by Zn input. Quantitative PCR of soil amoA, narG and nirK genes encoding ammonia monooxygenase, nitrate reductase and nitrite reductase, respectively, showed that the microbial abundances involved in these metabolisms were neither affected by wastewater discharge nor Zn contamination.

Contamination of sulfonamide antibiotics and sulfamethazine-resistant bacteria in the downstream and estuarine areas of Jiulong River in Southeast China.

Surface water samples from downstream and estuarine areas of Jiulong River were collected in August 2011 and May 2012 for detecting sulfonamide antibiotic residues and isolating sulfamethazine-resistant bacteria. Sulfamethazine was detected in all samples in May 2012 at an average concentration of 78.3 ng L(-1), which was the highest among the nine sulfonamide antibiotics determined. Sulfamethazine-resistant bacteria (SRB) were screened using antibiotic-containing agar plates. The SRB average abundance in the samples was 3.69 × 10(4) and 2.17 × 10(3) CFUs mL(-1) in August 2011 and May 2012, respectively, and was positively correlated to sulfamethazine concentration in May 2012. The 16S rRNA gene sequencing of all the 121 SRB isolates revealed high diversity. Furthermore, the SRB isolates exhibited multidrug resistance, with 48.7% showing resistance to at least three antibiotics. The abundance and persistence of highly diverse SRB and their multidrug resistance are likely to demonstrate the transferable pressure from coastal environments on public health.

Effects of microcystins on and toxin degradation by Poterioochromonas sp.

A Chrysophyceae species, Poterioochromonas sp., was isolated from Microcystis cultures. This species can efficiently prey on Microcystis and can grow faster phagotrophically than autotrophically. The growth of Poterioochromonas sp. was stimulated in the presence of microcystin-LR and microcystin-RR (in concentrations ranging from 0.1 to 4 mg/L). The growth rate of Poterioochromonas was 4-5 times higher than the control, indicating the toxins serve as growth stimuli for this organism. A subculture of toxin-treated cells, however, showed low cellular viability, suggesting that growth enhancement by microcystins was not a normal process. The antioxidant enzymatic activity of Poterioochromonas sp. was screened for toxicology analysis. Glutathione, malondialdehyde, and superoxide dismutase (SOD) content was up-regulated within 8 h of exposure to microcystin-LR (500 microg/L). A high level of SOD activity during exposure to the toxin indicated that SOD was involved in decreasing oxidative stress caused by microcystin-LR. Simultaneously with growth, Poterioochromonas was able to degrade microcystin-LR even, at a toxin concentration of 4 mg/L. This putative degradation mechanism in Poterioochromonas is explored further and discussed in this article. Our findings may shed light on understanding the role of Poterioochromonas in the aquatic ecosystem, in particular, as a grazer of toxic cyanobacteria and a biodegrader for microcystins.

Chronic toxicity and responses of several important enzymes in Daphnia magna on exposure to sublethal microcystin-LR.

In the current study, the toxicological mechanisms of microcystin-LR and its disadvantageous effects on Daphnia magna were examined. Survival rate, number of newborn, activity of several important enzymes [glutathione S-transferase (GST), lactate dehydrogenase (LDH), phosphatases, and glutathione], accumulated microcystins, and ultrastructural changes in different organs of Daphnia were monitored over the course of 21-day chronic tests. The results indicated that low concentrations of dissolved microcystin had no harmful effect on Daphnia. On the contrary, stimulatory effects were detected. In the presence of toxin at high dosage and for long-term exposure, GST and glutathione levels decreased significantly. The decreased enzyme activity in the antioxidant system probably was caused by detoxification reactions with toxins. And these processes of detoxification at the beginning of chronic tests may enable phosphatases in Daphnia magna to withstand inhibition by the toxins. At the same time, we also found that the LDH activity in test animals increased with exposure to microcystin-LR, indicating that adverse effects occurred in Daphnia. With microcystin given at a higher dosage or for a longer exposure, the effect on Daphnia magna was fatal. In the meantime, microcystin began to accumulate in Daphnia magna, and phosphatase activity started to be inhibited. From the ultrastructure results of cells in D. magna, we obtained new information: the alimentary canal may be the target organ affected by exposure of microcystins to D. magna. The results of the current study also suggested that the oxidative damage and PPI (protein phosphatase inhibition) mechanisms of vertebrates also are adapted to Daphnia.