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"Li, Jun-Ying"
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Miscanthus cultivation shapes rhizosphere microbial community structure and function as assessed by Illumina MiSeq sequencing combined with PICRUSt and FUNGUIld analyses
Soil microbes play important roles in plant growth and in the biogeochemical cycling of earth’s elements. However, the structure and functions of the microbial community associated with the growth of second-generation energy crops, such as Miscanthus, remain unclear. Thus, in this study, the composition and function of the bacterial and fungal communities associated with Miscanthus cultivation were analyzed by MiSeq sequencing combined with PICRUSt and FUNGUIld analyses. The results of community composition and diversity index analyses showed that Miscanthus cultivation significantly altered the bacterial and fungal community composition and reduced bacterial and fungal diversity. In addition, Miscanthus cultivation increased the soil organic matter (SOM) and total nitrogen (TN) contents. The correlation analysis between microbial community composition and environmental factors indicated that SOM and TN were the most important factors affecting bacterial and fungal communities. Miscanthus cultivation could enrich the abundances of Pseudomonas, Rhizobium, Luteibacter, Bradyrhizobium, Phenylobacterium and other common plant-promoting bacteria, while also increasing Cladophialophora, Hymenula, Magnaporthe, Mariannaea, etc., which predicted corresponded to the saprotrophic, plant pathogenic, and pathotrophic trophic modes. The PICRUSt predictive analysis indicated that Miscanthus cultivation altered the metabolic capabilities of bacterial communities, including the metabolism of carbon, nitrogen, and phosphorus cycle. In addition, FUNGUIld analysis indicated that Miscanthus cultivation altered the fungal trophic mode. The effects of Miscanthus on the communities and function of bacteria and fungi varied among Miscanthus species. Miscanthus specie Xiangdi NO 1 had the greatest impact on soil bacterial and fungal communities, whereas Miscanthus specie Wujiemang NO 1 had the greatest impact on soil bacteria and fungi functions. The results of this study provide a reference for the composition and function of microbial communities during the growth of Miscanthus.
Journal Article
Attributable causes of colorectal cancer in China
Background
Colorectal cancer is the 4th common cancer in China. Most colorectal cancers are due to modifiable lifestyle factors, but few studies have provided a systematic evidence-based assessment of the burden of colorectal cancer incidence and mortality attributable to the known risk factors in China.
Methods
We estimated the population attributable faction (PAF) for each selected risk factor in China, based on the prevalence of exposure around 2000 and relative risks from cohort studies and meta-analyses.
Results
Among 245,000 new cases and 139,000 deaths of colorectal cancer in China in 2012, we found that 115,578 incident cases and 63,102 deaths of colorectal cancer were attributable to smoking, alcohol drinking, overweight and obesity, physical inactivity and dietary factors. Low vegetable intake was the main risk factor for colorectal cancer with a PAF of 17.9%. Physical inactivity was responsible for 8.9% of colorectal cancer incidence and mortality. The remaining factors, including high red and processed meat intake, low fruit intake, alcohol drinking, overweight/obesity and smoking, accounted for 8.6%, 6.4%, 5.4%, 5.3% and 4.9% of colorectal cancer, respectively. Overall, 45.5% of colorectal cancer incidence and mortality were attributable to the joint effects of these seven risk factors.
Conclusions
Tobacco smoking, alcohol drinking, overweight or obesity, physical inactivity, low vegetable intake, low fruit intake, and high red and processed meat intake were responsible for nearly 46% of colorectal cancer incidence and mortality in China in 2012. Our findings could provide a basis for developing guidelines of colorectal cancer prevention and control in China.
Journal Article
Association between serum sodium and sporadic Parkinson’s disease
The correlation between serum sodium and sporadic Parkinson's disease remains unclear currently. This study aimed to assess the association between serum sodium and sporadic Parkinson's disease.
The ultimate goal is to gain a deeper understanding of the implications of this relationship between serum sodium and sporadic Parkinson's disease.
We conducted a retrospective cross-sectional study involving 1,189 participants in PPMI cohort. Age, sex, education years, race, body mass index, calcium, alanine aminotransferase, aspartate aminotransferase, white blood cell, lymphocytes, neutrophils, monocytes, red blood cell, hemoglobin, platelets, total protein, albumin, serum uric acid, serum sodium, serum potassium, urea nitrogen, creatinine, serum glucose were obtained from all participants. Logistic regression, and smooth curve fitting were utilized to substantiate the research objectives.
The overall sporadic Parkinson's disease was 77.5% (921/1189); it was 71.9% (143/199), 75.4% (295/391), 76.7% (171/223), and 83% (312/376) for serum sodium quantile1 (Q1, 130-138.9 mmol/L), quantile 2 (Q2, 139-140.9 mmol/L), quantile 3 (Q3, 141-141.9 mmol/L), and quantile 4 (Q4, 142-155 mmol/L), respectively (
= 0.011). Multivariate odds ratio regression adjusted for risk factors demonstrates a 1-unit increment in the serum sodium raises the risk of sporadic Parkinson's disease by 1.11 times, respectively. Smooth splines analysis suggested a linear association between levels of serum sodium and risk of sporadic Parkinson's disease (P nonlinearity = 0.5). An interaction was observed between serum sodium and sex in their influence on sporadic Parkinson's disease (
< 0.05). Further exploratory subgroup analysis within the age and BMI groups showed that there were no significant interactions between the subgroups (all
values for interaction were > 0.05). Additional sensitivity analyses supported the primary findings and indicated the conclusions are robust.
This study highlights the influence of inappropriate serum sodium on the risk of incident sporadic Parkinson's disease, independent of confounders. The link between serum sodium and sporadic Parkinson's disease is linear.
Journal Article
Cadmium-Induced Oxidative Stress and Apoptotic Changes in the Testis of Freshwater Crab, Sinopotamon henanense
Cadmium (Cd), one of the most toxic environmental and industrial pollutants, is known to exert gonadotoxic and spermiotoxic effects. In the present study, we examined the toxic effect of Cd on the testis of freshwater crab, Sinopotamon henanense. Crabs were exposed to different Cd concentrations (from 0 to 116.00 mg·L(-1)) for 7 d. Oxidative stress and apoptotic changes in the testes were detected. The activities of SOD, GPx and CAT initially increased and subsequently decreased with increasing Cd concentrations, which was accompanied with the increase in malondialdehyde (MDA) and H(2)O(2) content in a concentration-dependent manner. Typical morphological characteristic and physiological changes of apoptosis were observed using a variety of methods (HE staining, AO/EB double fluorescent staining, Transmission Electron Microscope observation and DNA fragmentation analysis), and the activities of caspase-3 and caspase-9 were increased in a concentration-dependent manner after Cd exposure. These results led to the conclusion that Cd could induced oxidative damage as well as apoptosis in the testis, and the apoptotic processes may be mediated via mitochondria-dependent apoptosis pathway by regulating the activities of caspase-3 and caspase-9.
Journal Article
Assembly sequence planning considering the effect of assembly resources with a discrete fireworks algorithm
Assembly sequence planning plays the great role in the assembly process of products, because the quality of the assembly sequence directly influences the feasibility, cost, and the time of the assembly process. Current assembly sequence planning approach mainly focused on the product consists of rigid parts, where the deformation of parts usually cannot occur or can be ignored in the assembly process; however, for the complex products such as the aircraft fuselage which include large and flexible parts, the parts are easily deformed in the assembly process, and the assembly resources such as assembly fixtures are usually needed to position, clamp, and support the parts to control the deformation in the assembly process. So, in the assembly process, the unreasonable assembly sequence may cause the inappropriate use of the assembly resources, which can further influence the subsequent assembly process. This paper proposes an assembly sequence planning approach considering the effect of assembly resources with a discrete fireworks algorithm. Firstly, the effect of assembly resources on the assembly sequence is investigated, a hybrid assembly interference matrix considering the effect of assembly resources is built, the method to conclude the precedence feasibility and the number of assembly interference of the assembly sequence is investigated, based on which, the optimization objectives in assembly sequence planning are concluded and the fitness function is built; secondly, a discrete fireworks algorithm is proposed for assembly sequence planning, the key technologies of the algorithm are discussed, the effect of different factors including the number of initial fireworks, the parameter controlling the total number of sparks generated by the fireworks, and the number of randomly generated specific sparks on the evolution performance of the algorithm is investigated, and the performance of the algorithm in assembly sequence planning is verified through the comparison with the discrete particle swarm optimization algorithm; finally, with the case study of an assembly of the aircraft wing, the proposed assembly sequence planning approach considering the effect of assembly resources with the discrete fireworks algorithm is verified.
Journal Article
Enhancing Mechanisms of the Plant Growth-Promoting Bacterial Strain Brevibacillus sp. SR-9 on Cadmium Enrichment in Sweet Sorghum by Metagenomic and Transcriptomic Analysis
To explore the mechanism by which the plant growth-promoting bacterium Brevibacillus sp. SR-9 improves sweet sorghum tolerance and enriches soil cadmium (Cd) under pot conditions, the effect of strain SR-9 inoculation on the microbial community of sorghum rhizosphere soil was analyzed by metagenomics. Gene expression in sweet sorghum roots was analyzed using transcriptomics. The results showed that strain SR-9 promoted the growth of sweet sorghum and improved the absorption and enrichment of Cd in the plants. Compared with the uninoculated treatment, the aboveground part and root dry weight in strain SR-9 inoculated with sorghum increased by 21.09% and 17.37%, respectively, and the accumulation of Cd increased by 135% and 53.41%, respectively. High-throughput sequencing showed that strain SR-9 inoculation altered the rhizosphere bacterial community, significantly increasing the relative abundance of Actinobacteria and Firmicutes. Metagenomic analysis showed that after inoculation with strain SR-9, the abundance of genes involved in amino acid transport metabolism, energy generation and conversion, and carbohydrate transport metabolism increased. KEGG functional classification showed that inoculation with strain SR-9 increased the abundance of genes involved in soil microbial metabolic pathways in the rhizosphere soil of sweet sorghum and the activity of soil bacteria. Transcriptome analysis identified 198 upregulated differentially expressed genes in sweet sorghum inoculated with strain SR-9, including those involved in genetic information processing, biological system, metabolism, environmental information processing, cellular process, and human disease. Most of the annotated differentially expressed genes were enriched in the metabolic category and were related to pathways such as signal transduction, carbohydrate metabolism, amino acid metabolism, and biosynthesis of other secondary metabolites. This study showed that plant growth-promoting bacteria can alter the rhizosphere bacterial community composition, increasing the activity of soil bacteria and upregulating gene expression in sweet sorghum roots. The findings enhance our understanding of the microbiological and botanical mechanisms by which plant growth-promoting bacterial inoculation improves the remediation of heavy metals by sorghum.
Journal Article
Spectroscopic characterization of DOM and the nitrogen removal mechanism during wastewater reclamation plant
The performance of the Sha-he wastewater reclamation plant was evaluated in this study. To remove residual nitrogen after Anaerobic-Anoxic-Oxic (A2O) treatment, three multistage Anoxic-Oxic (A/O) were added to investigate the nitrogen removal efficiency and its mechanism. In addition, the constituents and evolution of dissolved organic matter (DOM) during wastewater reclamation was also investigated using a method combining fluorescence spectroscopy with fluorescence regional integration (FRI). The results suggested that multistage A/O treatment can effectively improve the nitrogen removal ability under low concentrations of carbon sources. The total nitrogen (TN) exhibits significantly positive correlation with fulvic acid-like materials and humic acid-like materials. The correlation coefficient for TN and fulvic acid-like substances (R2 = 0.810, P < 0.01) removal was greater than that of humic acid-like substances (R2 = 0.636, P < 0.05). The results indicate that nitrogen removal may be achieved with the fulvic-like and humic-like substances, and the removal effects were higher by fulvic acid-like substances than humic-like substances, mostly due to that the latter were relatively more difficult to be utilized as carbon source during the nitrogen removal process. The effluent water quality of biological treatment reached the first grade A standard of \"Cities sewage treatment plant pollutant discharge standard\" (GB18918-2002). In addition, the effluent from the membrane bioreactor reached the \"Standards of reclaimed water quality\" (SL368-2006).
Journal Article
A compound heterozygous PINK1-associated juvenile Parkinson’s disease with pregnancy in Chinese
BackgroundPINK1 mutations are the second most common cause of recessive, early-onset Parkinson’s disease (EOPD), of which 15% are cases of juvenile PD. PD is a progressive neurological disease that primarily affects middle-aged and older people. Thus PD patients experiencing pregnancy is uncommon, especially in patients with juvenile PD caused by PINK1 mutations. We are first to report a woman from a Chinese family diagnosed with sporadic juvenile PD and treated with levodopa/benserazide throughout pregnancy.MethodsWhole exome sequencing was performed on this patient, and pedigree verification was performed on her parents. This patient received levodopa/benserazide treatment with regular outpatient follow-up exams.ResultsWhole exome sequencing and Sanger sequencing identified a heterozygous nonsense mutation (c.1474C > T, p.R492X) and a splicing mutation (c.1488 + 1G > A) that were in exon 7 of the PINK1 gene, co-segregating with the PD phenotype and exhibiting an autosomal recessive pattern. With regular outpatient follow-up exams, this patient delivered a healthy boy without complications. Her PD symptoms were stable with the levodopa/benserazide treatment throughout her pregnancy except in the postpartum period.ConclusionOur findings further demonstrated the safety of levodopa with dopa-decarboxylase treatment in PINK1-associated juvenile PD during pregnancy.
Journal Article
Wavefront aberrations and retinal image quality in different lenticular opacity types and densities
To investigate wavefront aberrations in the entire eye and in the internal optics (lens) and retinal image qualities according to different lenticular opacity types and densities. Forty-one eyes with nuclear cataract, 33 eyes with cortical cataract, and 29 eyes with posterior subcapsular cataract were examined. In each group, wavefront aberrations in the entire eye and in the internal optics and retinal image quality were measured using a raytracing aberrometer. Eyes with cortical cataracts showed significantly higher coma-like aberrations compared to the other two groups in both entire eye and internal optic aberrations (
P
= 0.012 and
P
= 0.007, respectively). Eyes with nuclear cataract had lower spherical-like aberrations than the other two groups in both entire eye and internal optics aberrations (
P
< 0.001 and
P
< 0.001, respectively). In the nuclear cataract group, nuclear lens density was negatively correlated with internal spherical aberrations (
r
= −0.527,
P
= 0.005). Wavefront technology is useful for objective and quantitative analysis of retinal image quality deterioration in eyes with different early lenticular opacity types and densities. Understanding the wavefront optical properties of different crystalline lens opacities may help ophthalmic surgeons determine the optimal time to perform cataract surgery.
Journal Article