Publications by authors named "Biao Shen"

49 Publications

Manipulating the soil microbiomes during a community recovery process with plant beneficial species for the suppression of Fusarium wilt of watermelon.

AMB Express 2021 Jun 12;11(1):87. Epub 2021 Jun 12.

Jiangsu Provincial Key Lab for Solid Organic Waste Utilization, National Engineering Research Center for Organic-Based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, 210095, China.

Fusarium wilt is a devastating disease which impacts watermelon production. Soil fumigation using dazomet followed by biological organic fertilizer was applied to suppress the Fusarium wilt disease. We propose that fumigation suppresses the soil indigenous community, especially the soil-borne pathogens, while the utilization of bio-organic fertilizer facilitates the recovery of the soil microbiome to a beneficial, suppressive state through the introduction of plant growth-promoting microorganisms. Greenhouse experiment showed that applied biological organic fertilizer after dazomet fumigation effective restrain the disease incidence with a 93.6% disease control. Fumigation strongly decreased soil microbial diversity and altered relative taxa abundances, suggesting the possibility of niche release by the resident soil microbial community. Fumigation followed by bio-fertilizer transformed the soil microbial community composition and resulted in higher relative abundances of beneficial microbial groups such as Bacillus (8.5%) and Trichoderma (13.5%), coupled with lower Fusarium abundance compared to other treatments. Network analysis illustrated that soil fumigation decreased interactions within the soil microbial community with less nodes and links while bio-fertilizer addition promoted node interactions. In addition, bio-fertilizer addition after fumigation resulted in the beneficial species becoming the key network connectors. Collectively, fumigation appears to release the resident soil niche resulting in lower diversity while the beneficial microbes introduced by bio-fertilizer addition colonize these niches, leading to a more complex community with fewer pathogens that suppresses Fusarium wilt disease incidence.
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http://dx.doi.org/10.1186/s13568-021-01225-5DOI Listing
June 2021

Characterization of Cellular Heterogeneity and an Immune Subpopulation of Human Megakaryocytes.

Adv Sci (Weinh) 2021 May 26:e2100921. Epub 2021 May 26.

State Key Laboratory of Experimental Hematology, National Clinical Research Center for Blood Diseases, Institute of Hematology and Blood Diseases Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College, Tianjin, 300020, China.

Megakaryocytes (MKs) and their progeny platelets function in a variety of biological processes including coagulation, hemostasis, inflammation, angiogenesis, and innate immunity. However, the divergent developmental and cellular landscape of adult MKs remains mysterious. Here, by deriving the single-cell transcriptomic profiling of MKs from human adult bone marrow (BM), cellular heterogeneity within MKs is unveiled and an MK subpopulation with high enrichment of immune-associated genes is identified. By performing the dynamic single-cell transcriptomic landscape of human megakaryopoiesis in vitro, it is found that the immune signatures of MKs can be traced back to the progenitor stage. Furthermore, two surface markers, CD148 and CD48, are identified for mature MKs with immune characteristics. At the functional level, these CD148 CD48 MKs can respond rapidly to immune stimuli both in vitro and in vivo, exhibit high-level expression of immune receptors and mediators, and may function as immune-surveillance cells. The findings uncover the cellular heterogeneity and a novel immune subset of human adult MKs and should greatly facilitate the understanding of the divergent functions of MKs under physiological and pathological conditions.
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http://dx.doi.org/10.1002/advs.202100921DOI Listing
May 2021

Soil fungal community affected by regional climate played an important role in the decomposition of organic compost.

Environ Res 2021 Jun 29;197:111076. Epub 2021 Mar 29.

Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic Wastes, Educational Ministry Engineering Center of Resource-saving Fertilizers, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China; The Key Laboratory of Plant Immunity, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China.

A large amount of organic compost, produced with agricultural and breeding industry wastes by composting, is widely used in agriculture in China. The microbial decomposition of organic compost is a major flux in the nutrition cycle in sustainable agricultural soils. To explore the mechanism of organic compost mineralization in soil, in situ decomposition experiments of organic compost buried in soils were arranged in three different latitude regions located in Jilin, Jiangsu, and Yunnan in China. The results showed that organic compost had different decomposition rates at the three different sites, with the highest decomposition rate in Yunnan, followed by Jiangsu and Jilin. The decomposition rates of unsterilized organic compost were significantly greater than those of sterilized organic compost, indicating that the microorganisms in organic compost also made important contributions to the decomposition process. The soil microbial diversity and community structure among the three sites were significantly different. The fungal community, especially fungal richness, rather than the bacterial community in the soil, plays a major role in the decomposition of organic compost. The annual average temperature is an important environmental factor affecting fungal richness. This study will provide a reference for formulating agricultural fertilization models in different regions.
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http://dx.doi.org/10.1016/j.envres.2021.111076DOI Listing
June 2021

miR-125b prevent the progression of esophageal squamous cell carcinoma through the p38-MAPK signaling pathway.

J Gastrointest Oncol 2020 Dec;11(6):1113-1122

Department of Thoracic Surgery, Affiliated Tumor Hospital Nantong University, Nantong, China.

Background: To examine the clinical significance of miR-125b in esophageal squamous cell carcinoma (ESCC) and to research the effect of miR-125b on the biological function of ESCC cells and the relevant underlying mechanism.

Methods: The expression of miR-125b in ESCC tissues and cell lines were discovered by RT-PCR assay. The interrelation between miR-125b expression and clinicopathological parameters and the forecasting of ESCC patients were analyzed. CCK-8 method and Transwell methods were used to detect the increased growth, shifting, and irruption of ESCC cells. Bioinformatics analysis was applied to forecast the possible target genes of miR-125b and verified through dual-luciferase reporter gene assay. After that, the expression of p38-MAPK mRNA and protein were found out by RT-PCR and Western blot.

Results: The expression of miR-125b was down-regulated in ESCC tissues and cell lines (P<0.05). And the expression of miR-125b was closely about tumor differentiation, TNM level, and lymph node metastasis in ESCC patients. The low miR-125b formulation was closely related to rough forecasting in ESCC patients. Large scale expression of miR-125b can effectively decrease the acceleration, shifting, and irrupting strengths of ESCC cells. Bioinformatics analysis showed p38-MAPK was forecasted to be a potential mark of miR-125b, which was confirmed by dual luciferase assay, and extreme expression of miR-125b can stop the expression of p38-MAPK mRNA and protein.

Conclusions: miR-125b is down-regulated in ESCC. Moreover, its expression level is significant concerning tumor progression and prognosis in patients with ESCC. MiR-125b can stop the high growth and shifting of ESCC cells having p38-MAPK at target.
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http://dx.doi.org/10.21037/jgo-20-546DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7807273PMC
December 2020

Highly transparent, self-healing, injectable and self-adhesive chitosan/polyzwitterion-based double network hydrogel for potential 3D printing wearable strain sensor.

Mater Sci Eng C Mater Biol Appl 2020 Dec 24;117:111298. Epub 2020 Jul 24.

College of Materials Science and Engineering, Zhejiang University of Technology, Hangzhou, Zhejiang 310014, PR China. Electronic address:

A purely physically crosslinked double network (DN) hydrogel, poly(sulfobetaine-co-acrylic acid)/chitosan-citrate (P(SBMA-co-AAc)/CS-Cit) DN hydrogel, was prepared based on electrostatic interaction and hydrogen bonding between the polymer chains. The hydrogel is highly stretchable, transparent, anti-fatigue, self-adhesive and has good self-healing properties with a self-healing efficiency as high as 95.4%. Furthermore, the resistance of the P(SBMA-co-AAc)/CS-Cit DN hydrogel is sensitive to a wide strain window and the relative resistance shows stable and reliable change during deformation. Herein, the hydrogel was demonstrated as a strain sensor to detect human motions, such as joint bending and swallowing. More excitingly, before ionic crosslinking, the P(SBMA-co-AAc)/CS-Cit composite hydrogel is injectable, thus the P(SBMA-co-AAc)/CS-Cit DN hydrogel sensor can be made into various complex shapes by injecting the P(SBMA-co-AAc)/CS-Cit composite hydrogel into citrate solution, including multilayer structures, exhibiting a great potential for applications as 3D printing strain sensors.
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http://dx.doi.org/10.1016/j.msec.2020.111298DOI Listing
December 2020

Bacterial Tomato Pathogen Invasion Modulates Rhizosphere Compounds and Facilitates the Cascade Effect of Fungal Pathogen .

Microorganisms 2020 May 27;8(6). Epub 2020 May 27.

Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic Wastes, Educational Ministry Engineering Center of Resource-saving fertilizers, Nanjing Agricultural University, Nanjing 210095, China.

Soil-borne pathogen invasions can significantly change the microbial communities of the host rhizosphere. However, whether bacterial pathogen invasion influences the abundance of fungal pathogens remains unclear. In this study, we combined high-throughput sequencing, qPCR, liquid chromatography and soil culture experiments to analyze the rhizosphere fungal composition, co-occurrence of fungal communities, copy numbers of functional genes, contents of phenolic acids and their associations in healthy and bacterial wilt-diseased tomato plants. We found that . invasion increased the abundance of the soil-borne pathogen . The concentrations of three phenolic acids in the rhizosphere soil of bacterial wilt-diseased tomato plants were significantly higher than those in the rhizosphere soil of healthy tomato plants. In addition, the increased concentrations of phenolic acids significantly stimulated growth in the soil. Furthermore, a simple fungal network with fewer links, nodes and hubs (highly connected nodes) was found in the diseased tomato plant rhizosphere. These results indicate that once the symptom of bacterial wilt disease is observed in tomato, the roots of the wilt-diseased tomato plants need to be removed in a timely manner to prevent the enrichment of other fungal soil-borne pathogens. These findings provide some ecological clues for the mixed co-occurrence of bacterial wilt disease and other fungal soil-borne diseases.
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http://dx.doi.org/10.3390/microorganisms8060806DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7356623PMC
May 2020

Ultra-high strength poly(N-(2-hydroxyethyl)acrylamide)/chitosan hydrogel with "repelling and killing" bacteria property.

Carbohydr Polym 2019 Dec 8;225:115160. Epub 2019 Aug 8.

College of Materials Science and Engineering, Zhejiang University of Technology, Hangzhou, Zhejiang, 310014, PR China. Electronic address:

Hydrogels with good mechanical properties are promising for various applications. In this work, a simple yet effective method for preparing a novel double-network hydrogel was reported. First, nonfouling polymer, poly(N-(2-hydroxyethyl)acrylamide) (PHEAA), was crosslinked through covalent bonds. Antibacterial polysaccharide, chitosan (CS), was then crosslinked by chelation between the N-glucosamine units on the CS and citrate or sulfate ions. The poly(N-(2-hydroxyethyl)acrylamide)/chitosan double-network hydrogels (PHEAA/CS DN hydrogels) exhibited high tensile strength (3.8 MPa), strong elastic modulus (0.6 MPa). And the dynamic ionic crosslinking in CS network provided the DN gels with fast self-recovery ability as well as excellent fatigue resistance. Furthermore, the mechanical properties of the DN gels were enhanced after stretching and relaxing because of the molecular orientation and reconstruction of chitosan network. More importantly, the hydrogels have excellent antifouling and antibacterial properties, which is called "repelling and killing", making them competitive candidates for applications in the biomedical field.
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http://dx.doi.org/10.1016/j.carbpol.2019.115160DOI Listing
December 2019

Antibacterial and Antifouling Hybrid Ionic-Covalent Hydrogels with Tunable Mechanical Properties.

ACS Appl Mater Interfaces 2019 Sep 23;11(35):31594-31604. Epub 2019 Aug 23.

College of Materials Science and Engineering , Zhejiang University of Technology , Hangzhou , Zhejiang 310014 , P. R. China.

Because of their self-recovery ability and fatigue resistance, double-network (DN) hydrogels with hybrid ionical-covalent cross-linking have received wide attention. In this work, by a simple "one-pot" method, a novel kind of hybrid ionic-covalent chitosan/poly(sulfobetaine methacrylate) (CS/PSBMA) DN hydrogels was prepared. The hydrogels showed high tensile strength (2.0 MPa), strong elastic modulus (0.5 MPa), fast self-recovery ability as well as excellent fatigue resistance, high mechanical strength, and toughness retention rate after soaking in water for 24 h. Additionally, the mechanical properties of the DN gels were enhanced after stretch and relaxation because of the rearrangement of the CS network. More excitingly, because of the antifouling feature of PSBMA and the inherent antibacterial property of CS, the hybrid DN hydrogels demonstrated a "repel and kill" effect on microorganisms. The CS/PSBMA DN hydrogels may find potential applications in biomedical fields, such as artificial connective tissues, implantable devices, and wound dressing.
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http://dx.doi.org/10.1021/acsami.9b08870DOI Listing
September 2019

Dual-Sensitive Graphene Oxide Loaded with Proapoptotic Peptides and Anticancer Drugs for Cancer Synergetic Therapy.

Langmuir 2019 05 23;35(18):6120-6128. Epub 2019 Apr 23.

College of Materials Science & Engineering , Zhejiang University of Technology , Hangzhou , Zhejiang 310014 , China.

A dual-sensitive drug delivery system (DDS) based on graphene oxide (GO) which is simultaneously loaded with proapoptotic peptides and anticancer drugs was rationally designed and fabricated for cancer synergetic therapy. Specifically, a kind of cell apoptosis peptide (KLAKLAK) (KLA) was anchored on the surface of GO via a disulfide bond to obtain GO-SS-KLA. Then, the aromatic anticancer drug doxorubicin (DOX) was loaded on GO through π-π conjugation and hydrogen bonding interactions. Finally, bovine serum albumin (BSA) was used to coat the GO carrier to obtain a biological medium-stable GO-based DDS, [email protected]/BSA. The results show that KLA and DOX can be released responding to the reductive and pH stimulus inside the cells, respectively, and achieve a synergetic therapy for cancer. Moreover, the results of stability studies show that [email protected]/BSA could be stably dispersed in water for more than 8 days and in 10% fetal bovine serum for at least 6 days. The constructed [email protected]/BSA exhibits great potential as a drug carrier for co-delivery of various therapeutic agents.
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http://dx.doi.org/10.1021/acs.langmuir.9b00611DOI Listing
May 2019

A dual-sensitive mesoporous silica nanoparticle based drug carrier for cancer synergetic therapy.

Colloids Surf B Biointerfaces 2019 Mar 28;175:65-72. Epub 2018 Nov 28.

College of Materials Science & Engineering, Zhejiang University of Technology, Hangzhou 310014, China. Electronic address:

A multifunctional envelope-type mesoporous silica nanoparticle (MSN) was delicately designed for subcellular co-delivery of drug and therapeutic peptide to tumor cells. Firstly, a kind of cell apoptosis peptide (KLAKLAK) (KLA) was anchored on surface of MSN via disulfide bond to obtain MSN-SS-KLA. Subsequently, anticancer drug doxorubicin hydrochloride (DOX) was loaded into the pores of MSN-SS-KLA. Then, the drug loaded MSN-SS-KLA ([email protected]) was further coated with bovine serum albumin (BSA) to obtain a biological media stable MSN based drug delivery system (DDS), [email protected]/BSA, for cancer synergetic therapy. The results show that stability of the [email protected]/BSA is much better than that of [email protected] and it could keep well dispersed in serum for more than 24 h. After accumulating at tumor site by EPR effect, the [email protected]/BSA could be effectively phagocytosed by HeLa cells and release apoptotic peptide KLA as well as DOX simultaneously responding to reductive stimulus inside the cells. In vitro cell experiment results show that the [email protected]/BSA complex exhibits much better inhibition on HeLa cells compared with pure DOX, indicating that co-delivery of KLA and DOX is expected to achieve synergetic therapy of cancer.
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http://dx.doi.org/10.1016/j.colsurfb.2018.11.071DOI Listing
March 2019

[Rapid screening of pesticide residues in imported grains by ultra-performance liquid chromatography-quadrupole-time of flight mass spectrometry].

Se Pu 2017 Aug;35(8):787-793

Agilent Technology China Ltd, Beijing 100102, China.

A fast sample pretreatment method by fast pesticide extraction (FaPEx) method combined with ultra-performance liquid chromatography-quadrupole-time of flight mass spectrometry was developed for screening of unknown pesticide residues in imported grains. The samples were extracted with 1% (v/v) acetic acid acetonitrile solution, cleaned-up by solid phase extraction column with FaPEx cartridges, and determined by UPLC-Q-TOF. The data was compared with the library with the accurate mass, isotopic distribution, fragmentation information and retention time. The results showed that this method can be used for the rapid screening of pesticide residues in imported grains without the reference standards, and it was applied to the actual screening of imported grain samples. The method is high efficiency, sensitivity and accuracy, which can meet the requirement for the rapid screening of pesticide residues in imported grains.
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http://dx.doi.org/10.3724/SP.J.1123.2017.03024DOI Listing
August 2017

Electromagnetic diagnostic system for the Keda Torus eXperiment.

Rev Sci Instrum 2017 Sep;88(9):093513

KTX Laboratory and Department of Modern Physics, University of Science and Technology of China, Hefei, Anhui 230026, China.

A system for electromagnetic measurements was designed and installed on the Keda Torus eXperiment (KTX) reversed field pinch device last year. Although the unique double-C structure of the KTX, which allows the machine to be opened easily without disassembling the poloidal field windings, makes the convenient replacement and modification of the internal inductive coils possible, it can present difficulties in the design of flux coils and magnetic probes at the two vertical gaps. Moreover, the KTX has a composite shell consisting of a 6 mm stainless steel vacuum chamber and a 1.5 mm copper shell, which results in limited space for the installation of saddle sensors. Therefore, the double-C structure and composite shell should be considered, especially during the design and installation of the electromagnetic diagnostic system (EDS). The inner surface of the vacuum vessel includes two types of probes. One type is for the measurement of the global plasma parameters, and the other type is for studying the local behavior of the plasma and operating the new saddle coils. In addition, the probes on the outer surface of the composite shell are used for measurements of eddy currents. Finally, saddle sensors for radial field measurements for feedback control were installed between the conducting shell and the vacuum vessel. The entire system includes approximately 1100 magnetic probes, 14 flux coils, 4×26×2 saddle sensors, and 16 Rogowski coils. Considering the large number of probes and limited space available in the vacuum vessel, the miniaturization of the probes and optimization of the probe distribution are necessary. In addition, accurate calibration and careful mounting of the probes are also required. The frequency response of the designed magnetic probes is up to 200 kHz, and the resolution is 1 G. The EDS, being spherical and of high precision, is one of the most basic and effective diagnostic tools of the KTX and meets the demands imposed by requirements on basic machine operating information and future studies.
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http://dx.doi.org/10.1063/1.5003039DOI Listing
September 2017

Early Onset of Nucleate Boiling on Gas-covered Biphilic Surfaces.

Sci Rep 2017 05 17;7(1):2036. Epub 2017 May 17.

International Institute for Carbon-Neutral Energy Research (WPI-I2CNER), Kyushu University, 744 Motooka, Nishi-ku, Fukuoka, 819-0395, Japan.

For phase-change cooling schemes for electronics, quick activation of nucleate boiling helps safeguard the electronics components from thermal shocks associated with undesired surface superheating at boiling incipience, which is of great importance to the long-term system stability and reliability. Previous experimental studies show that bubble nucleation can occur surprisingly early on mixed-wettability surfaces. In this paper, we report unambiguous evidence that such unusual bubble generation at extremely low temperatures-even below the boiling point-is induced by a significant presence of incondensable gas retained by the hydrophobic surface, which exhibits exceptional stability even surviving extensive boiling deaeration. By means of high-speed imaging, it is revealed that the consequently gassy boiling leads to unique bubble behaviour that stands in sharp contrast with that of pure vapour bubbles. Such findings agree qualitatively well with numerical simulations based on a diffuse-interface method. Moreover, the simulations further demonstrate strong thermocapillary flows accompanying growing bubbles with considerable gas contents, which is associated with heat transfer enhancement on the biphilic surface in the low-superheat region.
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http://dx.doi.org/10.1038/s41598-017-02163-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5435692PMC
May 2017

Influence of straw incorporation with and without straw decomposer on soil bacterial community structure and function in a rice-wheat cropping system.

Appl Microbiol Biotechnol 2017 Jun 14;101(11):4761-4773. Epub 2017 Feb 14.

Jiangsu Key Lab for Organic Waste Utilization, Nanjing Agricultural University, Nanjing, 210095, China.

To study the influence of straw incorporation with and without straw decomposer on bacterial community structure and biological traits, a 3-year field experiments, including four treatments: control without fertilizer (CK), chemical fertilizer (NPK), chemical fertilizer plus 7500 kg ha straw incorporation (NPKS), and chemical fertilizer plus 7500 kg ha straw incorporation and 300 kg ha straw decomposer (NPKSD), were performed in a rice-wheat cropping system in Changshu (CS) and Jintan (JT) city, respectively. Soil samples were taken right after wheat (June) and rice (October) harvest in both sites, respectively. The NPKS and NPKSD treatments consistently increased crop yields, cellulase activity, and bacterial abundance in both sampling times and sites. Moreover, the NPKS and NPKSD treatments altered soil bacterial community structure, particularly in the wheat harvest soils in both sites, separating from the CK and NPK treatments. In the rice harvest soils, both NPKS and NPKSD treatments had no considerable impacts on bacterial communities in CS, whereas the NPKSD treatment significantly shaped bacterial communities compared to the other treatments in JT. These practices also significantly shifted the bacterial composition of unique operational taxonomic units (OTUs) rather than shared OTUs. The relative abundances of copiotrophic bacteria (Proteobacteria, Betaproteobacteria, and Actinobacteria) were positively correlated with soil total N, available N, and available P. Taken together, these results indicate that application of straw incorporation with and without straw decomposer could particularly stimulate the copiotrophic bacteria, enhance the soil biological activity, and thus, contribute to the soil productivity and sustainability in agro-ecosystems.
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http://dx.doi.org/10.1007/s00253-017-8170-3DOI Listing
June 2017

The eddy current probe array for Keda Torus eXperiment.

Rev Sci Instrum 2016 Nov;87(11):113503

CAS Key Laboratory of Geospace Environment, Department of Modern Physics, University of Science and Technology of China, Hefei 230026, People's Republic of China.

In a reversed field pinch device, the conductive shell is placed as close as possible to the plasma so as to balance the plasma during discharge. Plasma instabilities such as the resistive wall mode and certain tearing modes, which restrain the plasma high parameter operation, respond closely with conditions in the wall, in essence the eddy current present. Also, the effect of eddy currents induced by the external coils cannot be ignored when active control is applied to control instabilities. One diagnostic tool, an eddy current probe array, detects the eddy current in the composite shell. Magnetic probes measuring differences between the inner and outer magnetic fields enable estimates of the amplitude and angle of these eddy currents. Along with measurements of currents through the copper bolts connecting the poloidal shield copper shells, we can obtain the eddy currents over the entire shell. Magnetic field and eddy current resolutions approach 2 G and 6 A, respectively. Additionally, the vortex electric field can be obtained by eddy current probes. As the conductivity of the composite shell is high, the eddy current probe array is very sensitive to the electric field and has a resolution of 0.2 mV/cm. In a bench test experiment using a 1/4 vacuum vessel, measurements of the induced eddy currents are compared with simulation results based on a 3D electromagnetic model. The preliminary data of the eddy currents have been detected during discharges in a Keda Torus eXperiment device. The typical value of toroidal and poloidal eddy currents across the magnetic probe coverage rectangular area could reach 3.0 kA and 1.3 kA, respectively.
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http://dx.doi.org/10.1063/1.4966988DOI Listing
November 2016

Biological Potential of Bioorganic Fertilizer Fortified with Bacterial Antagonist for the Control of Tomato Bacterial Wilt and the Promotion of Crop Yields.

J Microbiol Biotechnol 2016 Oct;26(10):1755-1764

National Engineering Research Center for Organic-based Fertilizers, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, P.R. China.

The application of sp. in the biological control of plant soilborne diseases has been shown to be an environmentally friendly alternative to the use of chemical fungicides. In this study, the effects of bioorganic fertilizer (BOF) fortified with SQY 162 on the suppression of tomato bacterial wilt were investigated in pot experiments. The disease incidence of tomato wilt after the application of BOF was 65.18% and 41.62% lower at 10 and 20 days after transplantation, respectively, than in the control condition. BOF also promoted the plant growth. The SQY 162 populations efficiently colonized the tomato rhizosphere, which directly suppressed the number of in the tomato rhizosphere soil. In the presence of BOF, the activities of defense-related enzymes in tomato were lower than in the presence of the control treatment, but the expression levels of the defense-related genes of the plants in the salicylic acid and jasmonic acid pathways were enhanced. It was also found that strain SQY 162 could secrete antibiotic surfactin, but not volatile organic compounds, to suppress . The strain could also produce plant growth promotion compounds such as siderophores and indole-3-acetic acid. Thus, owing to its innate multiple-functional traits and its broad biocontrol activities, we found that this antagonistic strain isolated from the tobacco rhizosphere could establish itself successfully in the tomato rhizosphere to control soilborne diseases.
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http://dx.doi.org/10.4014/jmb.1604.04021DOI Listing
October 2016

Higher Caffeinated Coffee Intake Is Associated with Reduced Malignant Melanoma Risk: A Meta-Analysis Study.

PLoS One 2016 27;11(1):e0147056. Epub 2016 Jan 27.

Nantong Tumor Hospital, Nantong Pingchao town, Tong yang Rd. 30, 226361, Jiangsu province, China.

Background: Several epidemiological studies have determined the associations between coffee intake level and skin cancer risk; however, the results were not yet conclusive. Herein, we conducted a systematic review and meta-analysis of the cohort and case-control studies for the association between coffee intake level and malignant melanoma (MM) risk.

Methods: Studies were identified through searching the PubMed and MEDLINE databases (to November, 2015). Study-specific risk estimates were pooled under the random-effects model.

Results: Two case-control studies (846 MM patients and 843 controls) and five cohort studies (including 844,246 participants and 5,737 MM cases) were identified. For caffeinated coffee, the pooled relative risk (RR) of MM was 0.81 [95% confidential interval (95% CI) = 0.68-0.97; P-value for Q-test = 0.003; I2 = 63.5%] for those with highest versus lowest quantity of intake. In the dose-response analysis, the RR of MM was 0.955 (95% CI = 0.912-0.999) for per 1 cup/day increment of caffeinated coffee consumption and linearity dose-response association was found (P-value for nonlinearity = 0.326). Strikingly, no significant association was found between the decaffeinated coffee intake level and MM risk (pooled RR = 0.92, 95% CI = 0.81-1.05; P-value for Q-test = 0.967; I2 = 0%; highest versus lowest quantity of intake).

Conclusions: This meta-analysis suggested that caffeinated coffee might have chemo-preventive effects against MM but not decaffeinated coffee. However, larger prospective studies and the intervention studies are warranted to confirm these findings.
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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0147056PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4729676PMC
July 2016

Pectin Enhances Bio-Control Efficacy by Inducing Colonization and Secretion of Secondary Metabolites by Bacillus amyloliquefaciens SQY 162 in the Rhizosphere of Tobacco.

PLoS One 2015 21;10(5):e0127418. Epub 2015 May 21.

National Engineering Research Center for Organic-based Fertilizers, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, 210095, China.

Bacillus amyloliquefaciens is a plant-beneficial Gram-positive bacterium involved in suppressing soil-borne pathogens through the secretion of secondary metabolites and high rhizosphere competence. Biofilm formation is regarded as a prerequisite for high rhizosphere competence. In this work, we show that plant extracts affect the chemotaxis and biofilm formation of B. amyloliquefaciens SQY 162 (SQY 162). All carbohydrates tested induced the chemotaxis and biofilm formation of the SQY 162 strain; however, the bacterial growth rate was not influenced by the addition of carbohydrates. A strong chemotactic response and biofilm formation of SQY 162 were both induced by pectin through stimulation of surfactin synthesis and transcriptional expression of biofilm formation related matrix genes. These results suggested that pectin might serve as an environmental factor in the stimulation of the biofilm formation of SQY 162. Furthermore, in pot experiments the surfactin production and the population of SQY 162 in the rhizosphere significantly increased with the addition of sucrose or pectin, whereas the abundance of the bacterial pathogen Ralstonia decreased. With increased production of secondary metabolites in the rhizosphere of tobacco by SQY 162 and improved colonization density of SQY 162 in the pectin treatment, the disease incidences of bacterial wilt were efficiently suppressed. The present study revealed that certain plant extracts might serve as energy sources or environmental cues for SQY 162 to enhance the population density on tobacco root and bio-control efficacy of tobacco bacterial wilt.
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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0127418PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4440637PMC
March 2016

Complete Genome Sequence of Paenibacillus polymyxa SQR-21, a Plant Growth-Promoting Rhizobacterium with Antifungal Activity and Rhizosphere Colonization Ability.

Genome Announc 2014 Apr 10;2(2). Epub 2014 Apr 10.

National Engineering Research Center for Organic-Based Fertilizers, Nanjing Agricultural University, Nanjing, China.

Here we report the complete genome sequence of a plant growth-promoting rhizobacterium (PGPR), Paenibacillus polymyxa SQR-21, which consists of one circular chromosome of 5,828,438 bp with 5,024 coding sequences (CDS). The data presented highlight multiple sets of functional genes associated with its plant-beneficial characteristics.
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http://dx.doi.org/10.1128/genomeA.00281-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3983308PMC
April 2014

Origin of the enhanced visible-light photocatalytic activity of CNT modified g-C3N4 for H2 production.

Phys Chem Chem Phys 2014 May;16(17):8106-13

Key Laboratory for Functional Materials of Fujian Higher Education, College of Materials Science and Engineering, Huaqiao University, Xiamen 361021, P. R. China.

Graphitic carbon nitride (g-C3N4) hybridized with a small number of multi-walled carbon nanotubes (CNT) was synthesized using cyanamide as precursor. The optimal CNT content is found to be ∼0.2 wt% in the composite, which displays a 2.4-fold enhancement in photocatalytic water splitting over pure g-C3N4. Characterizations by a series of joint techniques including Raman spectra, UV/vis diffuse reflectance spectra, steady and time-resolved fluorescence emission spectra, and photocurrent responses were carried out, aiming to reveal the determinative factor for the improved visible-light response. Our results indicate that the increased photoactivity originates from the enhanced charge-transfer effect due to the intimate interactions between g-C3N4 and conjugated CNT. The presence of CNT in the hybrids is beneficial for improving electron-hole separation on the excited g-C3N4 by prolonging the lifetimes of charge carriers and improving the population distribution of short-lived and long-lived charge carriers.
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http://dx.doi.org/10.1039/c3cp55191aDOI Listing
May 2014

Isolation of Bacillus amyloliquefaciens S20 and its application in control of eggplant bacterial wilt.

J Environ Manage 2014 May 13;137:120-7. Epub 2014 Mar 13.

National Engineering Research Center for Organic-based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Utilization, Nanjing Agricultural University, Nanjing 210095, China. Electronic address:

Bacterial strain S20 was isolated and identified as Bacillus amyloliquefaciens based on physiological and biochemical characteristics and a 16S rRNA gene sequence analysis. Strain S20 inhibits the growth of Fusarium oxysporum and Ralstonia solanacearum. Some genes associated with the synthesis of some lipopeptides were detected in strain S20 by PCR. Iturins A were identified as the main antagonistic substrates by analysis with electrospray ionization mass spectrometry/collision-induced dissociation (ESI-MS/CID). Four homologues of iturin A (C13-C16) were identified. Pot experiments showed that the application of strain S20 alone could control eggplant wilt with an efficacy of 25.3% during a 40 day experiment. If strain S20 was used with organic fertilizer, the control efficacy against eggplant wilt reached as high as 70.7%. The application of organic fertilizer alone promotes the growth of R. solanacearum, resulting in a higher wilt incidence than that observed in control plants. The application of strain S20 effectively inhibits R. solanacearum in the rhizosphere soil of eggplant. The combined use of strain S20 and organic fertilizer more effectively controlled R. solanacearum in soil than the use of strain S20 alone. The soil count of strain S20 decreased gradually during the course of the experiment after inoculation. Organic fertilizer was beneficial for the survival of the antagonistic bacterial strain S20; a higher level of these bacteria could be maintained. The application of organic fertilizer with strain S20 increased bacterial diversity in rhizosphere soil.
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http://dx.doi.org/10.1016/j.jenvman.2014.01.043DOI Listing
May 2014

Responses of bacterial communities in arable soils in a rice-wheat cropping system to different fertilizer regimes and sampling times.

PLoS One 2014 20;9(1):e85301. Epub 2014 Jan 20.

Key Laboratory of Plant Nutrition and Fertilization in Low-Middle Reaches of the Yangtze River, Ministry of Agriculture, Nanjing, Jiangsu, China ; Jiangsu Key Lab and Engineering Center for Solid Organic Waste Utilization, Nanjing Agricultural University, Nanjing, Jiangsu, China ; Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, Jiangsu, China.

Soil physicochemical properties, soil microbial biomass and bacterial community structures in a rice-wheat cropping system subjected to different fertilizer regimes were investigated in two seasons (June and October). All fertilizer regimes increased the soil microbial biomass carbon and nitrogen. Both fertilizer regime and time had a significant effect on soil physicochemical properties and bacterial community structure. The combined application of inorganic fertilizer and manure organic-inorganic fertilizer significantly enhanced the bacterial diversity in both seasons. The bacterial communities across all samples were dominated by Proteobacteria, Acidobacteria and Chloroflexi at the phylum level. Permutational multivariate analysis confirmed that both fertilizer treatment and season were significant factors in the variation of the composition of the bacterial community. Hierarchical cluster analysis based on Bray-Curtis distances further revealed that bacterial communities were separated primarily by season. The effect of fertilizer treatment is significant (P = 0.005) and accounts for 7.43% of the total variation in bacterial community. Soil nutrients (e.g., available K, total N, total P and organic matter) rather than pH showed significant correlation with the majority of abundant taxa. In conclusion, both fertilizer treatment and seasonal changes affect soil properties, microbial biomass and bacterial community structure. The application of NPK plus manure organic-inorganic fertilizer may be a sound fertilizer practice for sustainable food production.
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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0085301PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3896389PMC
December 2014

Variations of culturable thermophilic microbe numbers and bacterial communities during the thermophilic phase of composting.

World J Microbiol Biotechnol 2014 Jun 12;30(6):1737-46. Epub 2014 Jan 12.

National Engineering Research Center for Organic-based Fertilizers, Key Laboratory of Plant Nutrition and Fertilization in Low-Middle Reaches of the Yangtze River, Ministry of Agricultural, Jiangsu Key Lab for Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, 210095, Jiangsu Province, People's Republic of China.

Composting is a process of stabilizing organic wastes through the degradation of biodegradable components by microbial communities under controlled conditions. In the present study, genera and species diversities, amylohydrolysis, protein and cellulose degradation abilities of culturable bacteria in the thermophilic phase of composting of cattle manure with plant ash and rice bran were investigated. The number of culturable thermophilic bacteria and actinomyces decreased with the increasing temperature. At the initiation and end of the thermophilic phase, genera and specie diversities and number of bacteria possessing degradation abilities were higher than during the middle phase. During the thermophilic composting phase, Bacillus, Geobacillus and Ureibacillus were the dominant genera, and Geobacillus thermodenitrificans was the dominant species. In later thermophilic phases, Geobacillus toebii and Ureibacillus terrenus were dominant. Bacillus, at the initiation, and Ureibacillus and Geobacillus, at the later phase, contributed the multiple degradation abilities. These data will facilitate the control of composting in the future.
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http://dx.doi.org/10.1007/s11274-013-1593-9DOI Listing
June 2014

Promoter analysis and transcription regulation of fus gene cluster responsible for fusaricidin synthesis of Paenibacillus polymyxa SQR-21.

Appl Microbiol Biotechnol 2013 Nov 27;97(21):9479-89. Epub 2013 Sep 27.

Jiangsu Provincial Key Lab of Organic Solid Waste Utilization, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, 210095, China.

Fusaricidins produced by Paenibacillus polymyxa are lipopeptide antibiotics with outstanding antifungal activity. In this study, the whole gene cluster responsible for fusaricidin biosynthesis (fusA) was isolated and identified from the cDNA library of one biocontrol agent P. polymyxa SQR-21 (SQR-21). MALDI-TOF MS analysis confirmed that SQR-21 could produce four kinds of fusaricidins: A, B, C, and D. A central promoter that drove the transcription of fusGFEDCBA was revealed by mapping of the fus promoter region by 5' deletions. The disruption of fusA in SQR-21 led to the abolishment of fusaricidin production and antifungal activity. The direct interaction between a potential regulator, AbrB, and the promoter region of fus gene cluster was confirmed by electrophoretic mobility shift assays. One abrB disruption mutant showed significantly higher antifungal activity compared with the wild type. These results revealed a pathway for the transcriptional regulation of the fus gene cluster in P. polymyxa.
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http://dx.doi.org/10.1007/s00253-013-5157-6DOI Listing
November 2013

Rapid high-yield N-acylation of aminothiols: N-acetylglutathione and N-acetylhomocysteine and their thiol pK(a) values.

J Pept Sci 2013 May 27;19(5):263-7. Epub 2013 Mar 27.

Department of Chemistry and Biochemistry, Concordia University, 7141 Sherbrooke Street West, Montreal, Quebec H4B 1R6, Canada.

Methodology for the rapid N-acylation of aminothiols in aqueous solution using procedures commonly employed in biochemical studies is described here. Glutathione disulfide (GSSG) and homocystine were diN-acetylated in ~100% yield in 0.1 M aqueous NaHCO3 (pH 8.5) at room temperature by 2.5 equiv of the activated ester, N-hydroxysulfosuccinimidyl acetate, an efficient water-soluble acetylating reagent. Following acetone precipitation, diN-acetylGSSG was further purified and desalted on a strong anion-exchange (SAX) cartridge. DiN-acetylhomocystine was simultaneously purified and desalted on a C18 cartridge. The N-acetylated aminothiols were generated using gel-immobilized tris(2-carboxyethyl)phosphine as a reductant, which obviated the need for further purification. Alternatively, disulfide exchange with dissolved dithiothreitol yielded N-acetylglutathione, which was purified on the SAX cartridge. pH titrations of N-acetylglutathione (8.99) and N-acetylhomocysteine (9.66) as well as those of commercially available N-acetylcysteine (9.53) and N-acetylpenicillamine (10.21) yielded pK(a) (SH) values of importance for biological studies.
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http://dx.doi.org/10.1002/psc.2492DOI Listing
May 2013

An optimized DNA extraction and purification method from dairy manure compost for genetic diversity analysis.

World J Microbiol Biotechnol 2013 May 14;29(5):815-23. Epub 2012 Dec 14.

Jiangsu Key Lab for Organic Solid Waste Utilization, Nanjing Agricultural University, Nanjing 210095, China.

An unbiased DNA extraction protocol is necessary for analysis of genetic diversity, particularly, of genes in complex environmental samples by nucleic acid techniques. In the present study, three manual extraction methods and two commonly used commercial kits, which were accompanied by two DNA purification strategies, were compared based on cell lysis efficiency, DNA and humic acid yields, PCR amplification and denaturing gradient gel electrophoresis (DGGE) analysis. The results show that in spite of higher cell lysis efficiencies of the two commercial kits, the purified DNA yields were only one-third of that obtained by the two manual methods of FTSP (Freeze-thaw-SDS-Protein K) and FTSPP (Freeze-thaw-SDS-Protein K-Polyvinylpolypyrrolidone). The purified DNA from all five methods was pure enough for successful PCR and real-time PCR amplifications in the presence of 1 μg μL(-1) BSA. However, the FTSPP extraction method with DNA purification by a Wizard(®) kit yielded the largest number of 16S rRNA gene copies and ribotypes or bands in DGGE profiles, which indicated a superiority over the other four methods. The development of this optimized DNA extraction and purification method may provide a valuable tool for further molecular analysis of compost.
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http://dx.doi.org/10.1007/s11274-012-1236-6DOI Listing
May 2013

A facile approach to synthesize novel oxygen-doped g-C3N4 with superior visible-light photoreactivity.

Chem Commun (Camb) 2012 Dec;48(98):12017-9

Key Laboratory for Functional Materials of Fujian Higher Education, College of Materials Science and Engineering, Huaqiao University, Xiamen 361021, P. R. China.

O-doped g-C(3)N(4) was synthesized for the first time by a facile H(2)O(2) hydrothermal approach. The O-doping in the g-C(3)N(4) lattice could induce intrinsic electronic and band structure modulation, resulting in its absorbance edge up to 498 nm and enhanced visible-light photoactivity, consequently.
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http://dx.doi.org/10.1039/c2cc35862jDOI Listing
December 2012

Extraction, structure and bioactivities of the polysaccharides from Fructus corni.

Recent Pat Food Nutr Agric 2013 Apr;5(1):57-61

Pharmaceutical School, Xinxiang Medical University, Xinxiang 453003, Henan, China.

Plant-derived bioactive polysaccharides have a long history of application in traditional Chinese medicine (TCM). The polysaccharides of Fructus Corni, secondary metabolites from Cornus officinalis Sieb. Et Zucc, possess various pharmacological activities, including immune regulation, anti-oxidation, anti-tumor, and anti-aging effects. The present review is trying to summarize the extraction process of polysaccharides of Fructus Corni, structural features and related patents.
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http://dx.doi.org/10.2174/2212798411305010009DOI Listing
April 2013

Isolation of a thermophilic bacterium, Geobacillus sp. SH-1, capable of degrading aliphatic hydrocarbons and naphthalene simultaneously, and identification of its naphthalene degrading pathway.

Bioresour Technol 2012 Nov 19;124:83-9. Epub 2012 Aug 19.

Key Laboratory of Plant Nutrition and Fertilization in Low-Middle Reaches of the Yangtze River, Ministry of Agricultural, College of Resources and Environmental Sciences, Nanjing Agricultural University, 210095 Nanjing, Jiangsu Province, PR China.

A thermophilic naphthalene- and aliphatic hydrocarbon-degrading bacterium SH-1 was isolated from a deep oil well and identified as Geobacillus sp. n-alkanes from C12 to C33 in crude oil and naphthalene were effectively degraded by strain SH-1, and this strain could readily utilize these compounds as its sole carbon and energy resources. During the degradation of naphthalene, strain SH-1 initiated its attack on naphthalene by a monooxygenation at its C-1 to give 1-naphthol and further monooxygenation at C-2 to produce 1,2-dihydroxynaphthalene. The ring of 1,2-dihydroxynaphthalene was cleaved to form trans-o-hydroxybenzylidenepyruvate. Subsequently, trans-o-hydroxybenzylidenepyruvate was transformed to (2E)-3-(2-hydroxyphenyl)prop-2-enal by losing a carboxyl group. Additionally, benzoic acid was identified as an intermediate in the naphthalene degradation pathway of this Geobacillus strain. This study highlights an important potential use of the thermophilic degradative strain SH-1 in the cleanup of environmental contamination by naphthalene and crude oil and presents a mechanism for naphthalene metabolism.
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http://dx.doi.org/10.1016/j.biortech.2012.08.044DOI Listing
November 2012

Isolation and characterization of Pseudomonas brassicacearum J12 as an antagonist against Ralstonia solanacearum and identification of its antimicrobial components.

Microbiol Res 2012 Jul 21;167(7):388-94. Epub 2012 Feb 21.

Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, Nanjing Agricultural University, Nanjing 210095, China.

A bacterial strain, J12, isolated from the rhizosphere soil of tomato plants strongly inhibited the growth of phytopathogenic bacteria Ralstonia solanacearum. Strain J12 was identified as Pseudomonas brassicacearum based on its 16S rRNA gene sequence. J12 could produce 2,4-diacetylphloroglucinol (2,4-DAPG), hydrogen cyanide (HCN), siderophore(s) and protease. The maximum growth and antagonistic activity were recorded at 30°C and pH 8. Glucose and tryptone were used as the most suitable carbon and nitrogen sources, respectively. Strain J12 significantly suppressed tomato bacteria wilt by 45.5% in the greenhouse experiment. The main antimicrobial compound of J12 was identified as 2,4-diacetylphloroglucinol (2,4-DAPG) by HPLC-ESI-MS analysis. The gene cluster phlACBD, which is responsible for 2,4-DAPG production, was identified and expressed in the bacterial strain Escherichia coli DH5α.
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http://dx.doi.org/10.1016/j.micres.2012.01.003DOI Listing
July 2012