Spatial Heterogeneity of Bacteria: Evidence from Hot Composts by Culture-independent Analysis

The phylogenetic diversity of the bacteria in hot composting samples collected from three spatial locations was investigated by molecular tools in order to determine the influence of gradient effect on bacterial communities during the thermophilic phase of composting swine manure with rice straw. Total microbial DNA was extracted and bacterial near full-length 16S rRNA genes were subsequently amplified, cloned, restriction fragment length polymorphism-screened and sequenced. The superstratum sample had the highest microbial diversity among the three samples which was possibly related to the surrounding conditions of the sample resulting from the location. The results showed that the sequences related to Bacillus sp. were most common in the composts. In superstratum sample, 45 clones (33%) and 36 clones (27%) were affiliated with the Bacillus sp. and Clostridium sp., respectively; 74 clones (58%) were affiliated with the Clostridium sp. in the middle-level sample; 52 clones (40%) and 29 clones (23%) were affiliated with the Clostridium sp. and Bacillus sp. in substrate sample, respectively. It indicated that the microbial diversity and community in the samples were different for each sampling site, and different locations of the same pile often contained distinct and different microbial communities

Adsorption–desorption behavior of malachite green by potassium permanganate pre-oxidation polyvinyl chloride microplastics

Microplastics (MPs) and the typical hydrophilic organic pollutant Malachite green (MG) are frequently detected in sewage treatment plants. Potassium permanganate (KMnO4) pre-oxidation is an economical and effective technology in wastewater treatment. It is important to study the surface physicochemical characteristics of MPs and understand their fate in wastewater treatment plants after pre-oxidation. In this study, Polyvinyl chloride (PVC) MPs were treated by single and composite KMnO4 pre-oxidation with different pH values. After the pre-oxidation treatment, the appearance of Osingle bondMn spectra and surface nanoparticles indicated the oxides (MnO2) were produced on the MPs surface. Moreover, the adhesion of MnO2 is helpful to improve the hydrophilicity and adsorption capacity of MG. The adsorption capacity of pristine PVC for MG was 2.6 mg/g. But the adsorption capacity increased to 7.0 mg/g for single oxidation and 140.7 mg/g for composite oxidation, respectively. The desorption experiment results indicate the pre-oxidation process could reduce the release efficiency of MG from the PVC MPs due to the better binding of surface MnO2 nanoparticles to MG. However, the total desorption capacity is still high. which illustrates that there is a high potential risk of MG which can transfer from the surface of the PVC MPs to the gastrointestinal fluids.publishedVersio

Desorption of sulfamethoxazole from polyamide 6 microplastics: Environmental factors, simulated gastrointestinal fluids, and desorption mechanisms

Microplastics (MPs) can enrich pollutants after being released into the environment, and the contaminants-loaded MPs are usually ingested by organisms, resulting in a potential dual biotoxic effect. In this paper, the adsorption behavior of Sulfamethoxazole (SMX) on Polyamide 6 (PA6) MPs was systematically investigated and simulated by the kinetic and isotherm models. The effect of environmental conditions (pH, salinity) on the adsorption process was studied, and the desorption behavior of SMX-loaded PA6 MPs was focused on simulating the seawater, ultrapure water, gastric and intestinal fluids. We found that lower pH and solubilization of SMX by gastrointestinal components (bovine serum albumin (BSA), sodium taurocholate (NaT), and pepsin) can reduce the electrostatic interaction between the surface charge of PA6 MPs and SMX. The result will lead to an increase in the desorption capacity of SMX-loaded PA6 MPs in gastrointestinal fluids and therefore will provide a reasonable mechanism for the desorption of SMX-loaded PA6 MPs in the gastrointestinal fluids. This study will provide a theoretical reference for studying the desorption behavior of SMX-loaded PA6 MPs under gastrointestinal conditions.publishedVersio

Comparing the adsorption of methyl orange and malachite green on similar yet distinct polyamide microplastics: Uncovering hydrogen bond interactions

Microplastics (MPs) and dye pollutants are widespread in aquatic environments. Here, the adsorption characteristics of anionic dye methyl orange (MO) and cationic dye malachite green (MG) on polyamide 6 (PA6) and polyamide 66 (PA66) MPs were investigated, including kinetics, isotherm equilibrium and thermodynamics. The co-adsorption of MO and MG under different pH was also evaluated. The results reveal that the adsorption process of MO and MG is suitably expounded by a pseudo-second-order kinetic model. The process can be characterized by two stages: internal diffusion and external diffusion. The isothermal adsorption equilibrium of MO and MG can be effectively described using the Langmuir model, signifying monolayer adsorption. Furthermore, the thermodynamic results indicated that the adsorption was spontaneous with exothermic and endothermic properties, respectively. The results of binary systems reveal that MO dominates the adsorption at low pH (2–5), while MG dominates at high pH (8–10). Strong competitive adsorption was observed between MO and MG in neutral conditions (pH 6–8). The desorption experiments confirm that PA6 and PA66 could serve as potential carriers of MO and MG. The interaction between dyes and polyamide MPs is primarily mediated through hydrogen bonds and electrostatic attraction. The results reveal that PA6 formed more hydrogen bonds with the dyes, resulting in higher adsorption capacity than that of PA66. This difference can be attributed to the disparities in the synthesis process and polymerization method. Our study uncovered the adsorption mechanism of dye pollutants on PA6 and PA66, and provided a more comprehensive theoretical basis for the risk assessment concerning different types of polyamide MPs in aquatic environments.publishedVersio

Competition adsorption of malachite green and rhodamine B on polyethylene and polyvinyl chloride microplastics in aqueous environment

Microplastics (MPs) will cause compound pollution by combining with organic pollutants in the aqueous environment. It is important for environmental protection to study the adsorption mechanism of different MPs for pollutants. In this study, the adsorption behaviors of malachite green (MG) and rhodamine B (RhB) on polyethylene (PE) and polyvinyl chloride (PVC) were studied in single systems and binary systems, separately. The results show that in single system, the adsorptions of between MPs for pollutants (MG and RhB) are more consistent with the pseudo-second-order kinetics and Freundlich isotherm model, the adsorption capacity of both MPs for MG is greater than that of RhB. The adsorption capacities of MG and RhB were 7.68 mg/g and 2.83 mg/g for PVC, 4.52 mg/g and 1.27 mg/g for PE. In the binary system, there exist competitive adsorption between MG and RhB on MPs. And the adsorption capacities of PVC for the two dyes are stronger than those of PE. This is attributed to the strong halogen-hydrogen bond between the two dyes and PVC, and the larger specific surface area of PVC. This study revealed the interaction and competitive adsorption mechanism between binary dyes and MPs, which is of great significance for understanding the interactions between dyes and MPs in the multi-component systems.publishedVersio

Image reconstruction through a multimode fiber with a simple neural network architecture

Multimode fibers (MMFs) have the potential to carry complex images for endoscopy and related applications, but decoding the complex speckle patterns produced by mode-mixing and modal dispersion in MMFs is a serious challenge. Several groups have recently shown that convolutional neural networks (CNNs) can be trained to perform high-fidelity MMF image reconstruction. We find that a considerably simpler neural network architecture, the single hidden layer dense neural network, performs at least as well as previously-used CNNs in terms of image reconstruction fidelity, and is superior in terms of training time and computing resources required. The trained networks can accurately reconstruct MMF images collected over a week after the cessation of the training set, with the dense network performing as well as the CNN over the entire period.Comment: 17 pages, 10 figure

Investigation and analysis of bacteria contamination of edible raw meat and related products in catering of Shanghai in 2019

Objective To detect microbial contamination status of edible raw meat products in catering enterprises of Shanghai and to provide reference for food safety and supervision. Methods According to the national standards a total of 198 batches of edible raw meat products and related products from catering enterprises in Shanghai in 2019 were tested for hygienic indicator organisms and common foodborne pathogenic bacteria. SPSS 16.0 software was used to analyze the test result. Results Judging from the hygienic indicator organisms, 2.06% (2/97) of edible raw meat products, raw and supplementary materials had aerobic plate count ≥ 100 000 CFU/g, 5.15% (5/97) of them had coliforms more than 100 CFU/g, and the detection rate of Escherichia coli was 2.06% (2/97), among which the detection rate of raw beef samples was 11.11% (2/18) and the quantitative value was all 10 CFU/g. In terms of the contact surface samples of ready-to-eat foods, the detection rate of coliform was 12.87% (13/101), among which the positive rate of processing tools and utensils was 20.83% (10/48), higher than the tableware samples 5.66% (3/53) (χ2=12.678, P<0.05). According to the detection of foodborne pathogenic bacteria, the detection rates of Salmonella in raw beef and finished products were 5.56% (1/18) respectively and no foodborne pathogens were detected in the remaining samples. Conclusion According to the result of this survey, the detection of the hygienic indicator organisms and Salmonella of edible raw meat products and the raw materials from catering in Shanghai in 2019 was worthy of attention, and the supervison agency should attach importance to the hygienic supervision of the processing tools and utensils in direct contact with ready-to-eat foods

Molecular Phylogenetic Diversity and Spatial Distribution of Bacterial Communities in Cooling Stage during Swine Manure Composting

Polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) and subsequent sub-cloning and sequencing were used in this study to analyze the molecular phylogenetic diversity and spatial distribution of bacterial communities in different spatial locations during the cooling stage of composted swine manure. Total microbial DNA was extracted, and bacterial near full-length 16S rRNA genes were subsequently amplified, cloned, RFLP-screened, and sequenced. A total of 420 positive clones were classified by RFLP and near-full-length 16S rDNA sequences. Approximately 48 operational taxonomic units (OTUs) were found among 139 positive clones from the superstratum sample; 26 among 149 were from the middle-level sample and 35 among 132 were from the substrate sample. Thermobifida fusca was common in the superstratum layer of the pile. Some Bacillus spp. were remarkable in the middle-level layer, and Clostridium sp. was dominant in the substrate layer. Among 109 OTUs, 99 displayed homology with those in the GenBank database. Ten OTUs were not closely related to any known species. The superstratum sample had the highest microbial diversity, and different and distinct bacterial communities were detected in the three different layers. This study demonstrated the spatial characteristics of the microbial community distribution in the cooling stage of swine manure compost

Comprehensive identification and characterization of lncRNAs and circRNAs reveal potential brown planthopper-responsive ceRNA networks in rice

Brown planthopper (Nilaparvata lugens Stål, BPH) is one of the most destructive pests of rice. Non-coding RNA plays an important regulatory role in various biological processes. However, comprehensive identification and characterization of long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs) in BPH-infested rice have not been performed. Here, we performed a genome-wide analysis of lncRNAs and circRNAs in BPH6-transgenic (resistant, BPH6G) and Nipponbare (susceptible, NIP) rice plants before and after BPH feeding (early and late stage) via deep RNA-sequencing. A total of 310 lncRNAs and 129 circRNAs were found to be differentially expressed. To reveal the different responses of resistant and susceptible rice to BPH herbivory, the potential functions of these lncRNAs and circRNAs as competitive endogenous RNAs (ceRNAs) were predicted and investigated using Gene Ontology and Kyoto Encyclopedia of Genes and Genomes analyses. Dual-luciferase reporter assays revealed that miR1846c and miR530 were targeted by the lncRNAs XLOC_042442 and XLOC_028297, respectively. In responsive to BPH infestation, 39 lncRNAs and 21 circRNAs were predicted to combine with 133 common miRNAs and compete for miRNA binding sites with 834 mRNAs. These mRNAs predictably participated in cell wall organization or biogenesis, developmental growth, single-organism cellular process, and the response to stress. This study comprehensively identified and characterized lncRNAs and circRNAs, and integrated their potential ceRNA functions, to reveal the rice BPH-resistance network. These results lay a foundation for further study on the functions of lncRNAs and circRNAs in the rice-BPH interaction, and enriched our understanding of the BPH-resistance response in rice

Microarray-Based Approach Identifies Differentially Expressed MicroRNAs in Porcine Sexually Immature and Mature Testes

MicroRNAs (miRNAs) are short non-coding RNA molecules which are proved to be involved in mammalian spermatogenesis. Their expression and function in the porcine germ cells are not fully understood.We employed a miRNA microarray containing 1260 unique miRNA probes to evaluate the miRNA expression patterns between sexually immature (60-day) and mature (180-day) pig testes. One hundred and twenty nine miRNAs representing 164 reporter miRNAs were expressed differently (p<0.1). Fifty one miRNAs were significantly up-regulated and 78 miRNAs were down-regulated in mature testes. Nine of these differentially expressed miRNAs were validated using quantitative RT-PCR assay. Totally 15,919 putative miRNA-target sites were detected by using RNA22 method to align 445 NCBI pig cDNA sequences with these 129 differentially expressed miRNAs, and seven putative target genes involved in spermatogenesis including DAZL, RNF4 gene were simply confirmed by quantitative RT-PCR.Overall, the results of this study indicated specific miRNAs expression in porcine testes and suggested that miRNAs had a role in regulating spermatogenesis