Symbiotic virus-bacteria interactions in biological treatment of coking wastewater manipulating bacterial physiological activities.

Biological treatment is commonly used in coking wastewater (CWW) treatment. Prokaryotic microbial communities in CWW treatment have been comprehensively studied. However, viruses, as the critical microorganisms affecting microbial processes and thus engineering parameters, still remain poorly understood in CWW treatment context. Employing viromics sequencing, the composition and function of the viral community in CWW treatment were discovered, revealing novel viral communities and key auxiliary metabolic functions. Caudovirales appeared to be the predominant viral order in the oxic-hydrolytic-oxic (OHO) CWW treatment combination, showing relative abundances of 62.47 %, 56.64 % and 92.20 % in bioreactors O1, H and O2, respectively. At the family level, Myoviridae, Podoviridae and Siphoviridae mainly prevailed in bioreactors O1 and H while Phycodnaviridae dominated in O2. A total of 56.23-92.24% of novel viral contigs defied family-level characterization in this distinct CWW habitat. The virus-host prediction results revealed most viruses infecting the specific functional taxa Pseudomonas, Acidovorax and Thauera in the entire OHO combination, demonstrating the viruses affecting bacterial physiology and pollutants removal from CWW. Viral auxiliary metabolic genes (AMGs) were screened, revealing their involvement in the metabolism of contaminants and toxicity tolerance. In the bioreactor O1, AMGs were enriched in detoxification and phosphorus ingestion, where glutathione S-transferase (GSTs) and beta-ketoadipyl CoA thiolase (fadA) participated in biodegradation of polycyclic aromatic hydrocarbons and phenols, respectively. In the bioreactors H and O2, the AMGs focused on cell division and epicyte formation of the hosts, where GDPmannose 4,6-dehydratase (gmd) related to lipopolysaccharides biosynthesis was considered to play an important role in the growth of nitrifiers. The diversities of viruses and AMGs decreased along the CWW treatment process, pointing to a reinforced virus-host adaptive strategy in stressful operation environments. In this study, the symbiotic virus-bacteria interaction patterns were proposed with a theoretical basis for promoting CWW biological treatment efficiency. The findings filled the gaps in the virus-bacteria interactions at the full-scale CWW treatment and provided great value for understanding the mechanism of biological toxicity and sludge activity in industrial wastewater treatment.

Integrative analyses identify opportunistic pathogens of patients with lower respiratory tract infections based on metagenomic next-generation sequencing.

Lower respiratory tract infections (LRTIs) represent some of the most globally prevalent and detrimental diseases. Metagenomic next-generation sequencing (mNGS) technology has effectively addressed the requirement for the diagnosis of clinical infectious diseases. This study aimed at identifying and classifying opportunistic pathogens from the respiratory tract-colonizing microflora in LRTI patients using data acquired from mNGS analyses. A retrospective study was performed employing the mNGS data pertaining to the respiratory samples derived from 394 LRTIs patients. Linear discriminant analysis effect size (LEfSe) analysis was conducted to discern the discriminant bacteria. Receiver operating characteristic curves (ROC) were established to demonstrate discriminant bacterial behavior to distinguish colonization from infection. A total of 443 discriminant bacteria were identified and segregated into three cohorts contingent upon their correlation profiles, detection frequency, and relative abundance in order to distinguish pathogens from colonizing microflora. Among them, 119 emerging opportunistic pathogens (cohort 2) occupied an average area under the curve (AUC) of 0.976 for exhibiting the most prominent predictability in distinguishing colonization from infection, 39 were colonizing bacteria (cohort 1, 0.961), and 285 were rare opportunistic pathogens (cohort 3, 0.887). The LTRIs patients appeared modular in the form of cohorts depicting complex microbial co-occurrence networks, reduced diversity, and a high degree of antagonistic interactions in the respiratory tract microbiome. The study findings indicate that therapeutic interventions should target interaction networks rather than individual microbes, providing an innovative perspective for comprehending and combating respiratory infections. Conclusively, this study reports a profile of LRTIs-associated bacterial colonization and opportunistic pathogens in a relatively large-scale cohort, which might serve as a reference panel for the interpretation of mNGS results in clinical practice.

PB-LKS: a python package for predicting phage-bacteria interaction through local K-mer strategy.

Bacteriophages can help the treatment of bacterial infections yet require in-silico models to deal with the great genetic diversity between phages and bacteria. Despite the tolerable prediction performance, the application scope of current approaches is limited to the prediction at the species level, which cannot accurately predict the relationship of phages across strain mutants. This has hindered the development of phage therapeutics based on the prediction of phage-bacteria relationships. In this paper, we present, PB-LKS, to predict the phage-bacteria interaction based on local K-mer strategy with higher performance and wider applicability. The utility of PB-LKS is rigorously validated through (i) large-scale historical screening, (ii) case study at the class level and (iii) in vitro simulation of bacterial antiphage resistance at the strain mutant level. The PB-LKS approach could outperform the current state-of-the-art methods and illustrate potential clinical utility in pre-optimized phage therapy design.

Unraveling the underlying mechanism of interactions between astaxanthin geometrical isomers and bovine serum albumin.

The health benefits of astaxanthin (AST) are related to its geometric isomers. Generally, functional activity is realized by the interactions between active substances and transporters. Hereto, bovine serum albumin (BSA), as a model-binding protein and transporter, is able to recognize and transport isomers of active substances through binding with them. However, differences in the binding mechanism of isomers to BSA may affect the functional activities of isomers through the "binding-transport-activity" chain reaction. Thus, this study sought to elucidate the interactions between AST geometrical isomers and BSA using multi-spectroscopy, surface plasmon resonance and molecular docking. The results showed that Z-AST displayed more interacting amino acid residues and lower thermodynamic parameters than all-E-AST. Meanwhile, the order of binding affinity to BSA was 13Z-AST (1.56 × 10-7 M) > 9Z-AST (2.70 × 10-7 M) > all-E-AST (4.01 × 10-7 M), indicating that Z-AST possessed stronger binding ability to BSA. Moreover, AST isomers were located at the junction between subdomains ⅡA and ⅢA of BSA, and showed the same interaction forces (hydrogen bond and van der Waals force) as well as kinetic processes (slow combination, slow dissociation). These interaction parameters provide valuable insights into their pharmacokinetics in vivo, and it was of great significance to explain the potential differences among AST isomers in functional activities.

Astaxanthin Isomers: A Comprehensive Review of Isomerization Methods and Analytic Techniques.

The presence of multiple conjugated double bonds and chiral carbon atoms endows astaxanthin with geometric and optical isomers, and these isomers widely exist in biological sources, food processing, and in vivo absorption. However, there remains no systematic summary of astaxanthin isomers regarding isomerization methods and analytic techniques. To address this need, this Review focuses on a comprehensive analysis of Z-isomerization methods of astaxanthin, including solvent system, catalyst, and heat treatment. Comparatively, high-efficiency and health-friendly methods are more conducive to put into practical use, such as food-grade solvents and food-component catalysts. In addition, we outline the recent advances in analysis techniques of astaxanthin isomers, as well as the structural characteristics reflected by various methods (e.g., HPLC, NMR, FTIR, and RS). Furthermore, we summarized the related research on the safety evaluation of astaxanthin isomers. Finally, future trends and barriers in Z-transformation and analysis of astaxanthin isomers are also discussed.

[Effects of Exogenous Plant Hormone Spraying on the Phytoremediation by Bidens pilosa L. in Cadmium-contaminated Soil].

To explore the effect of exogenous plant hormone spraying on the absorption of heavy metals by hyperaccumulated plants, Bidens pilosa L. was selected as the tested plant owing to the large biomass, short growth cycle, and high accumulation efficiency. Here, the effect of foliar spraying 6-benzylaminopurine (6-BA), salicylic acid (SA), and 24-epi-brassinosteroid (24-EBR) on the remediation of cadmium (Cd)-contaminated soil by B. pilosa L. was examined. The results showed:① the efficiency of the remediation in Cd-contaminated soil by B. pilosa L. was effectively enhanced after the spraying of all three kinds of exogenous plant hormones with appropriate concentrations. The spraying of the three exogenous plant hormones could promote the cadmium concentration in the leaves of B. pilosa L. to increase by 4.21%, 31.79%, and 14.89%; promote the translocation factor (TF) to increase by 9.67%, 18.83%, and 17.85%; promote the phytoextraction rates (PR) to increase by 15.36%, 32.33%, and 64.38%, respectively. ② The growth of B. pilosa L. was significantly promoted after the spraying of the three kinds of exogenous plant hormones with appropriate concentrations. The spraying of the three exogenous plant hormones could promote plant growth under cadmium stress, and the dry weight of the plant root, stem, and leaf was increased by 37.53%, 74.50%, and 104.02%, respectively. ③ The photosynthesis of B. pilosa L. was significantly enhanced after the spraying of the three kinds of exogenous plant hormones with appropriate concentrations. The chlorophyll concentration of the plant was significantly increased after foliar spraying with plant hormones, and the concentration of chlorophyll a was increased by 79.31%, 92.27%, and 51.12%; the photochemical quenching coefficient (qP) was increased by 11.32%, 89.16%, and 78.43%; and the non-photochemical quenching coefficient (NPQ) was increased by 51.71%, 241.12%, and 27.85%, respectively, after foliar spraying with appropriate concentrations of 6-BA, SA, and 24-EBR. ④ The antioxidant capacity of B. pilosa L. was significantly strengthened after the spraying of the three kinds of exogenous plant hormones with appropriate concentrations. The malondialdehyde (MDA) concentration of the plant was reduced by 62.41%, 68.67%, and 46.76% after the application of 6-BA, SA, and 24-EBR, respectively. Meanwhile, superoxide dismutase (SOD) was increased by 68.33%, 10.28%, and 6.17%, and catalase (CAT) was increased by 31.43%, 37.87%, and 37.31%, respectively. Generally, the spraying of exogenous 6-BA, SA, and 24-EBR with the appropriate concentration under Cd stress could significantly increase the biomass of B. pilosa L. and promote the accumulation of heavy metals in the plant, improve the photosynthetic ability of the plant, reduce the oxidative damage of the plant under heavy metal stress, enhance the antioxidant capacity, and improve the absorption and tolerance of plants to Cd. It also could promote the transfer of Cd from roots to shoots, improve the phytoextraction rates of Cd from the plant, and effectively strengthen the phytoremediation efficiency. Among them, 30 mg·L-1 SA foliar spraying had the best effect.

Astaxanthin reduces fat storage in a fat-6/fat-7 dependent manner determined using high fat Caenorhabditis elegans.

Although astaxanthin has been shown to have high potential for weight loss, the specific action site and signal pathway generally cannot be confirmed in other animal models. This prevents us from finding therapeutic targets. Hence, we further illuminated its efficacy and specific action sites by using Caenorhabditis elegans (C. elegans). In this study, 60 µM astaxanthin supplementation reduced overall fat deposition and triglyceride levels by 21.47% and 22.00% (p < 0.01). The content of large lipid droplets was reversed after astaxanthin treatment, and the ratio of oleic acid/stearic acid (C18:1Δ9/C18:0) decreased significantly, which were essential substrates for triglyceride biosynthesis. In addition, astaxanthin prevented obesity caused by excessive energy accumulation and insufficient energy consumption. Furthermore, the above effects were induced by sbp-1/mdt-15 and insulin/insulin-like growth factor pathways, and finally co-regulated the specific site-fat-6 and fat-7 down-regulation. These results provided insight into therapeutic targets for future astaxanthin as a nutritional health product to relieve obesity.

A novel peptide derived from Haematococcus pluvialis residue exhibits anti-aging activity in Caenorhabditis elegans via the insulin/IGF-1 signaling pathway.

To explore the value of Haematococcus pluvialis (H. pluvialis) residue remaining after astaxanthin extraction and being discarded uneconomically, in our previous study, we discovered a novel peptide (HPp) as a potential bioactive component. However, the possible anti-aging activity in vivo was not illuminated. In this study, the capacity of extending the lifespan and the mechanism based on Caenorhabditis elegans (C. elegans) were determined. The results showed that 100 µM HPp not only enhanced the lifespan of C. elegans in normal environments by 20.96% but also strengthened the lifespan in oxidative and thermal conditions effectively. Moreover, HPp succeeded in lessening the decline in physiological functions of aging worms. In terms of antioxidant efficacy, SOD and CAT enzyme activity were promoted, but the level of MDA was diminished significantly after HPp treatment. Subsequent analysis directly reflected the relationship between higher stress resistance and up-regulation of skn-1 and hsp-16.2, and between greater antioxidant ability and up-regulation of sod-3 and ctl-2. Further studies illustrated that HPp up-graded the mRNA transcription of the genes associated with the insulin/insulin-like growth factor signaling (IIS) pathway and some co-factors, including daf-16, daf-2, ins-18, and sir-2.1. Particularly, the activation of the IIS pathway required the regulation of subcellular localization of DAF-16/FOXO. Taken together, HPp could promote longevity with improved stress resistance and antioxidant properties in vivo through the IIS pathway. These data suggested that HPp might serve as a good source of anti-aging actives, and in particular, laid a foundation for the high value-added application of marine microalgae.

Investigation of the nitrogen removal performance and microbial community structure in a full-scale A/O1/H/O2 coking wastewater treatment system.

Biological treatment processes are an effective method for removing the nitrogen-containing contaminants that exist in coking wastewater. However, little is known about microbial composition and keystone taxa involved in biological nitrogen removal processes. In order to improve the removal efficiency of nitrogen-containing contaminants in anaerobic-aerobic-hydrolytic-aerobic (A/O1/H/O2) system, the microbial composition and interactions of keystone taxa should be clarified. The present work clarifies the removal performance of nitrogen-containing contaminants in the A/O1/H/O2 system, identifies the microbial community involved in various bioreactors, and reveals the keystone taxa within the microbial communities. Combined the processes of ammoniation, denitrification, and nitrification, total nitrogen decreased from 248 to 31 mg L-1 and achieved a removal efficiency of 87.5% in the full-scale A/O1/H/O2 system. High-throughput MiSeq sequencing revealed that Proteobacteria was the most abundant phylum in the A/O1/H/O2 system with relative abundances of 24%-50%. Thiobacillus dominated in bioreactors A and O1 with relative abundances of 2.90% and 4.44%, respectively, while Nitrospira was identified as the most dominant genus in bioreactors H and O2, accounting for 13.33% and 18.38%, respectively. The microbial community composition and co-occurrence network analysis showed that the keystone taxa belonged to Thiobacillus, Nitrospira, Bdellovibrio, Planctomyces, Desulfotomaculum, and Sphingobium, which are related to nitrogen degradation.

Recent advances in health benefits and bioavailability of dietary astaxanthin and its isomers.

Astaxanthin, a xanthophyll carotenoid, has attracted considerable attention owing to its unique molecular structure and excellent antioxidant properties. Due to its structural particularity, it has many geometrical and optical isomers in the diet; Interestingly, the human body has considerable quantity of Z- and optical isomers despite the intake of E- and (3S,3'S) isomers. However, there remains no systematic analysis and summary of astaxanthin and its isomers regarding health benefits and bioavailability. To address this need, this review details the latest research progress of biological activities related to oxidative damage, and these effects are more obvious in Z- and (3S,3'S)-isomers from the existing research. In addition, we outline a comprehensive analysis of the bioavailability of dietary astaxanthin and its isomers from the perspective of transporter-mediated process (e.g. SR-BI, CD36). Further nvestigation of astaxanthin and its isomers is expected to improve human health and promote their applications in future healthcare-related products.

Increasing ß-carotene bioavailability and bioactivity in spinach demonstrated using excipient nanoemulsions-especially those of long-chain triglycerides.

This study sought to improve the biological fate of ß-carotene obtained from spinach, using in vitro digestion, in situ single-pass intestinal perfusion, and in vivo approaches, to investigate the effects of excipient emulsions with medium- (MCT) and long-chain triglyceride (LCT) as a vehicle for improved health benefits of ß-carotene. Results showed that the bioavailability and bioactivity of ß-carotene were both significantly higher in the excipient emulsions relative to those without the emulsions. This was especially true when LCT was used as the vehicle. These results were confirmed by bioaccessibility, duodenal absorption, and in vivo absorption and metabolism. Furthermore, animal feeding studies revealed that LCT may have the potential to promote triglyceride and apo-B48 reconstitution and secretion. This suggested that LCT may facilitate the entry of carotenoids into circulation via the lymphatic pathway. These results highlight the importance of the optimization of excipient foods to improve the efficacy of lipophilic carotenoid.

[Role and Mechanism of Low Molecular-Weight-Organic Acids in Enhanced Phytoremediation of Heavy Metal Contaminated Soil].

Phytoremediation is an environmentally friendly technology to remove heavy metals from polluted soil by using the physical and chemical roles of plants. This can effectively reduce the production of secondary pollutants and is economically feasible. Low molecular-weight-organic acids (LMWOAs) are biodegradable and environmentally friendly and have strong application potential in the phytoremediation of heavy metal-contaminated soils. The role and mechanism of LMWOAs in phytoremediation was elaborated on in this study with the aim to:① regulate the development of roots, stems, and leaves; increase plant biomass; and enhance plant enrichment of heavy metals; ② improve photosynthesis, enhance plant resistance, and promote tolerance to heavy metals; ③ change the properties of rhizosphere soil, improve rhizosphere microbial activity, and promote the absorption of heavy metals; and ④ change the form of heavy metals, reduce the toxicity of heavy metals, and improve transport efficiency. Moreover, the advantages, disadvantages, and application of LMWOAs in enhanced phytoremediation of heavy metal-contaminated soil were explored in this study. Finally, the research direction of LMWOAs in the phytoremediation of heavy metal-contaminated soils was proposed, which will have practical scientific significance for the research and application of LMWOAs in future phytoremediation.

The addition of exogenous low-molecular-weight organic acids improved phytoremediation by Bidens pilosa L. in Cd-contaminated soil.

Enhancing the uptake and enrichment of heavy metals in plants is one of the important means to strengthen phytoremediation. In the present study, citric acid (CA), tartaric acid (TA), and malic acid (MA) were applied to enhance phytoremediation by Bidens pilosa L. in Cd-contaminated soil. The results showed that by the addition of appropriate concentrations of CA, TA, and MA, the values of the bioconcentration factor increased by 77.98%, 78.33%, and 64.49%, respectively, the translocation factor values increased by 16.45%, 12.61%, and 5.73%, respectively, and the values of the phytoextraction rates increased by 169.21%, 71.28%, and 63.11%, respectively. The minimum fluorescence values of leaves decreased by 31.62%, 0.28%, and 17.95%, while the potential efficiency of the PSII values of leaves increased 117.87%, 2.25%, and 13.18%, respectively, when CA, TA, and MA with suitable concentration were added. Redundancy analysis showed that CA and MA in plants were significantly positively correlated with plant growth, photosynthesis, and other indicators, whereas TA showed a negative correlation with most indicators. Moreover, CA addition could significantly increase the abundances of Azotobacter, Pseudomonas, and other growth-promoting bacteria, and the abundance values of Actinophytocola and Ensifer were improved in TA treatments. Therefore, our results demonstrated that low-molecular-weight organic acids could enhance phytoremediation, and exogenous CA could significantly improve the phytoremediation of Cd-contaminated soil by Bidens pilosa L.

Microbial community composition and function prediction involved in the hydrolytic bioreactor of coking wastewater treatment process.

The hydrolytic acidification process has a strong ability to conduct denitrogenation and increase the biological oxygen demand/chemical oxygen demand ratio in O/H/O coking wastewater treatment system. More than 80% of the total nitrogen (TN) was removed in the hydrolytic bioreactor, and the hydrolytic acidification process contributed to the provision of carbon sources for the subsequent nitrification process. The structure and diversity of microbial communities were elaborated using high-throughput MiSeq of the 16S rRNA genes. The results revealed that the operational taxonomic units (OTUs) belonged to phyla Bacteroidetes, Betaproteobacteria, and Alphaproteobacteria were the dominant taxa involved in the denitrogenation and degradation of refractory contaminants in the hydrolytic bioreactor, with relative abundances of 22.94 ± 3.72, 29.77 ± 2.47, and 18.23 ± 0.26%, respectively. The results of a redundancy analysis showed that the OTUs belonged to the genera Thiobacillus, Rhodoplanes, and Hylemonella in the hydrolytic bioreactor strongly positively correlated with the chemical oxygen demand, TN, and the removal of phenolics, respectively. The results of a microbial co-occurrence network analysis showed that the OTUs belonged to the phylum Bacteroidetes and the genus Rhodoplanes had a significant impact on the efficiency of removal of contaminants that contained nitrogen in the hydrolytic bioreactor. The potential function profiling results indicate the complementarity of nitrogen metabolism, methane metabolism, and sulfur metabolism sub-pathways that were considered to play a significant role in the process of denitrification. These results provide new insights into the further optimization of the performance of the hydrolytic bioreactor in coking wastewater treatment.

Diversity and functional prediction of microbial communities involved in the first aerobic bioreactor of coking wastewater treatment system.

The pre-aerobic process of coking wastewater treatment has strong capacity of decarbonization and detoxification, which contribute to the subsequent dinitrogen of non-carbon source/heterotrophic denitrification. The COD removal rate can reach > 90% in the first aerobic bioreactor of the novel O/H/O coking wastewater treatment system during long-term operation. The physico-chemical characteristics of influent and effluent coking wastewater in the first aerobic bioreactor were analyzed to examine how they correlated with bacterial communities. The diversity of the activated sludge microbial community was investigated using a culture-independent molecular approach. The microbial community functional profiling and detailed pathways were predicted from the 16S rRNA gene-sequencing data by the PICRUSt software and the KEGG database. High-throughput MiSeq sequencing results revealed a distinct microbial composition in the activated sludge of the first aerobic bioreactor of the O/H/O system. Proteobacteria, Bacteroidetes, and Chlorobi were the decarbonization and detoxification dominant phyla with the relative abundance of 84.07 ± 5.45, 10.89 ± 6.31, and 2.96 ± 1.12%, respectively. Thiobacillus, Rhodoplanes, Lysobacter, and Leucobacter were the potential major genera involved in the crucial functional pathways related to the degradation of phenols, cyanide, benzoate, and naphthalene. These results indicated that the comprehensive understanding of the structure and function diversity of the microbial community in the bioreactor will be conducive to the optimal coking wastewater treatment.

Structure and function of microbial community associated with phenol co-substrate in degradation of benzo[a]pyrene in coking wastewater.

Coking wastewater (CWW) contains high contents of phenols and other toxic and refractory compounds including polycyclic aromatic hydrocarbons (PAHs) with the most carcinogenic benzo[a]pyrene (BaP) among them. The mechanism of PAHs/BaP degradation in activated sludge of CWW treatment with phenol as co-substrate was studied. For characterizing the structure and functions of microbial community associated with BaP degradation with phenol as co-substrate, high-throughput MiSeq sequencing was used to examine the 16S rRNA genes of microbiology, revealing noticeable shifts in CWW activated sludge bacterial populations. Major genera involved in anaerobic degradation were Tissierella_Soehngenia, Diaphorobacter and Geobacter, whereas in aerobic degradation Rhodanobacter, Dyella and Thauera prevailed. BaP degradation with phenol as co-substrate induced bacterial diversification in CWW activated sludge in opposite trends when anaerobic and aerobic conditions were applied. In order to predict the microbial community functional profiling, a bioinformatics software package of phylogenetic investigation of communities by reconstruction of unobserved states (PICRUSt) was run to find that some dominant genera enriched in the BaP pathway may own the ability to degrade PAHs/BaP. Further experiments should focus on testing the dominant genera in BaP degradation at different oxygen levels.

Contrasting microbial community composition and function perspective in sections of a full-scale coking wastewater treatment system.

To characterize the microbial community of the coking wastewater (CWW) treatment system and to study the effects of CWW characteristics and operational parameters on microbial communities, active sludge samples were collected from a full-scale CWW treatment plant using three-phase fluidized bed biological reactors. High-throughput MiSeq sequencing was used to examine the 16S rRNA genes of microbiology, revealing a distinct microbial composition among the active sludge samples of three sequential bioreactors. Pseudomonas, Comamonas, and Thiobacillus-related sequences dominated in the anaerobic bioreactor A, aerobic bioreactor O1, and aerobic bioreactor O2 active sludge with relative abundance of 72.59, 56.75, and 27.82 %, respectively. The physico-chemical characteristics of CWW were analyzed by standard methods and operational parameters were recorded to examine their effects on the microbial communities. The redundancy analysis (RDA) results showed that the bacterial communities of bioreactors A, O1, and O2 correlated strongly with cyanides, phenols, and ammonia, respectively. These results expand the knowledge about the biodiversity and population dynamics of microorganisms and discerned the relationships between bacterial communities and environmental variables in the biological treatment processes in the full-scale CWW treatment system.