Abstract
The high productivity and efficient nutrient utilization in rice–fish integrated farming system are well reported. However, the characteristics of soil bacterial communities and their ...relationship with soil nutrient availability in rice–fish field remain unclear. In this study, we selected three paddy fields, including a rice monoculture field and two rice–fish fields with different planting years, to investigate the soil bacterial community composition with Illumina MiSeq sequencing technology. The results indicated that the soil properties were significantly different among different rice farming systems. The soil bacterial community composition in the rice–fish field was significantly different from that in the rice monoculture field. Five of the top 15 phyla were observed with significant differences and
Nitrospirae
was the most significant one. However, no taxa observed with significance between the rice planting area and aquaculture area no matter in the 1st or 5th year of rice–fish field. RDA analysis showed that the soil bacterial community differentiation in the 5th year of rice–fish field was positively correlated with soil properties, such as AN and OM contents, EC and pH value. Although the rice yields in rice–fish field decreased, the net economic benefit of the rice–fish system enhanced obviously due to the high value of aquaculture animals.
Persistent high-risk (HR) human papillomavirus (HPV) infection is an essential risk factor for cervical carcinoma and precancerous lesion. There are differences in HPV distribution among different ...countries, regions and ethnic groups. The aim of this research was to reveal the epidemiological characteristics of HPV in Chongqing, China. In this study, 13,788 women aged 18 to 78 were screened for 23 HPV genotypes by PCR-reverse dot blot hybridization. The total HPV-positive rate was 19.9% (2,745/13,788), while the positive rates for HR, and low-risk (LR) HPV were 17.3% (2,379/13,788), and 4.6% (638/13,788), respectively. In addition to cervical cancer (CC) and cervical intraepithelial neoplasia (CIN) patients, the HPV infection rates among infertile women and women with gynecological diseases were markedly higher than that among healthy women. The HPV and HR-HPV infection rates in the different age groups showed statistically significant differences, and the prevalence peaks were observed in women under 20 years and over 50 years of age. Overall, HPV-52, HPV-16 and HPV-58 ranked as the top 3 most common subtypes among women in Chongqing. The results of this research provide epidemiological information regarding HPV infection in Chongqing. These data constitute valuable evidence for the prevention and management of cervical carcinoma and development of HPV vaccines.
Artificial intelligence (AI) could automatedly detect abnormalities in digital cytological images, however, the effect in cervical cancer screening is inconclusive. We aim to evaluate the performance ...of AI-assisted cytology for the detection of histologically cervical intraepithelial lesions (CIN) or cancer.
We trained a supervised deep learning algorithm based on 188,542 digital cytological images. Between Mar 13, 2017, and Oct 20, 2018, 2145 referral women from organized screening were enrolled in a multicenter, clinical-based, observational study. Cervical specimen was sampled to generate two liquid-based slides: one random slide was allocated to AI-assisted reading, and the other to manual reading conducted by skilled cytologists from senior hospital and cytology doctors from primary hospitals. HPV testing and colposcopy-directed biopsy was performed, and histological result was regarded as reference. We calculated the relative sensitivity and relative specificity of AI-assisted reading compared to manual reading for CIN2+. This trial was registered, number ChiCTR2000034131.
In the referral population, AI-assisted reading detected 92.6% of CIN 2 and 96.1% of CIN 3+, significantly higher than or similar to manual reading. AI-assisted reading had equivalent sensitivity (relative sensitivity 1.01, 95%CI, 0.97–1.05) and higher specificity (relative specificity 1.26, 1.20–1.32) compared to skilled cytologists; whereas higher sensitivity (1.12, 1.05–1.20) and specificity (1.36, 1.25–1.48) compared to cytology doctors. In HPV-positive women, AI-assisted reading improved specificity for CIN1 or less at no expense of reduction of sensitivity compared to manual reading.
AI-assisted cytology may contribute to the primary cytology screening or triage. Further studies are needed in general population.
•AI based on deep learning could generated severity scores of abnomal cytology associating with histological lesions.•AI-assisted cytology show comparable performance for the detection of CIN2+ relative to skilled cytologist in referral women.•AI-assisted cytology would improve specificity at no expense of sensitivity in HPV-positive triage.•AI-assisted cytology may contribute to the primary cytology screening or HPV-positive triage.
SummaryContinuous monocropping degrades soil physicochemical properties, leads to the accumulation of toxic compounds and changes soil microbial community composition. Pre-flooding the soil is a ...promising strategy to improve its productivity; however, little is known about the underlying mechanisms. Here, strawberry (Fragaria × ananassa) pot experiments were conducted with soil that had been used for continuous monocropping. The treatments were pre-flooding alone, with rice straw added and with rice straw plus a biofertilizer (mainly contained Bacillus velezensis) amendment, and the impacts of the treatments on soil physicochemical properties, bacterial diversity and composition and the integrated plant-soil-microbe responses were tracked. The strawberry biomass significantly increased after pre-flooding treatments. Pre-flooding increased the soil pH and the available P and K concentrations, while it decreased soil electrical conductivity. The bacterial diversity and abundance significantly increased after pre-flooding treatments. A Mantel test showed that soil pH and salinity were the two most important factors in shaping bacterial composition, but they exerted opposite effects. The increased strawberry biomass after pre-flooding was significantly correlated with bacterial composition and soil salinity in long-term continuous strawberry monocropping systems.
China carries a heavy burden of cervical cancer and has an alarmingly low cervical cancer screening rate. In order to achieve the goal of cervical cancer elimination, there is an urgent need for ...suitable methods and strategies in China.
A total 9972 woman who received cervical cancer screening services of National Cervical Cancer Screening Program in Rural Areas (NCCSPRA) in 8 project counties participated in this study. TruScreen, HPV test and LBC test were performed in all participants. A total of 1945women had one or more than one positive or abnormal screening results of the above three screening tests subsequently received colposcopy. The detection rate of CIN2+ between the three tests were compared.
No matter what kind of screening method is used, the CIN2+ detection rate in the eastern regions was much higher than that in the central and western regions. The total detection rate of CIN2+ in HPV group was highest (0.73%), following in LBC group (0.44%) and TS group (0.31%). There was statistically significant difference in the total detection rate of CIN2+ between TS and HPV groups, LBC and HPV groups, respectively. There was no statistical difference in the total detection rate of CIN2+ between TS and LBC screening groups. Moreover, except for the eastern regions, there was no statistical difference in the detection rate of CIN2+ between TS group and the other two groups in central and western regions.
If it can meet the requirements of the laboratory and personnel, HPV test seems to be the preferred method for cervical cancer screening in rural areas of China. The characteristics of minimal training requirements, simple operation, real-time results obtained without the collection of cervical cell samples and the help of laboratory equipment and cytologists of TS make it ideal for cervical cancer screening in low-resource regions.
Plant rotation is a common practice in upland rice production. However, the effects of plant rotation on the interactions between rice plants, soil and underground ecosystems need to be studied ...further. Here, quantitative PCR and high-throughput pyrosequencing of the ITS region was applied to investigate the fungal abundance, diversity, and composition of fungal functional guilds in rice field soils and after different rotation practices ((rice-fallow (RF), rice-Chinese milk vetch (RV) and rice-wheat (RW)) and their relationship with rice yields. The results showed that the six-year RV and RW rotations increased fungal abundance by 42.7 %–69.2 % relative to RF, but decreased the soil bacterial-to-fungi ratio and fungal diversity. For the functional guilds, RV rotation significantly increased the relative abundance of soil saprotrophs and pathotrophs by 73.30 % and 32.94 %, respectively, while that of symbiotrophs was decreased by 35.96 %, compared to RF. RW rotation was found to significantly decrease all three fungal functional guilds, but increased the symbiotroph-saprotroph ratio. A structure equal model analysis indicated that the diversity of saprotrophs was significantly and negatively correlated with rice yield. Altogether, this work provides a detailed description of how the soil fungal community, including saprotrophic, symbiotrophic and pathotrophic functional guilds, responded to different upland rice rotation practices after eight years of application.
Soil nutrient characteristics are key factors that regulate grape growth and fruit quality. To investigate soil nutrient characteristics, 73 typical vineyards in Shanghai suburbs were selected for ...this study. The impacts of different planting areas, planting ages and grape varieties on soil characteristics were studied. The Agro Services International (ASI) analysis method was adopted to measure the levels of soil nutrients. The results indicated that soil nutrient characteristics varied greatly across the 73 selected vineyards in Shanghai suburbs. Planting area and planting age were the major factors that significantly affected soil nutrient characteristics. However, no significant differences were observed among the 5 major cultivated grape varieties. Significant differences in soil pH were only observed in different planting areas. Soil nutrients in the selected vineyards were mainly at a high level or extra-high level, which means that the current amount of fertilizer in these vineyards exceeds the actual demands of the grapevines and should be reduced. Meanwhile, the intermediate soil organic matter (OM) content indicated that more organic fertilizer should be applied to the soil in these vineyards. Optimized fertilization based on soil nutrient levels plays an essential role in sustaining production resources, increasing economic benefits and improving environmental conditions of vineyards.
Soil degradation caused by watermelon continuous cropping obstacle is a serious problem in China. Compost, as a soil conditioner, has great potential in improving soil degradation. In order to ...explore how compost affects the soil quality under continuous cropping obstacle, associations among soil chemical characteristics, microbial community structures and agronomic variables were analyzed and compared. Results showed that soil pH, available potassium, alkali-hydrolyzable nitrogen and organic matter changed significantly after using maize straw compost and sludge compost, which indicated the feasibility of composts as soil remediations. This is also reflected on the significant changes of soil microbial community. Mizugakiibacter, as the main reason of watermelon continuous cropping obstacle, decreased significantly after using compost products. It also showed a negative connection with most chemical characteristics. Rhodanobacter and Galbibacter increased significantly after using compost products, which were positively related to most chemical characteristics. The increase of them was helpful to reduce Mizugakiibacter. Beneficial bacteria were positively related to beneficial fungi (Chaetomium and Chrysosporium). The increase of them and the decrease of Verticillium also helped to improve microbial community structure. The results indicated that compost as a useful and inexpensive technique could alleviate soil degradation caused by watermelon continuous cropping obstacle.
•Soil degradation was improved after the application of compost.•Beneficial microorganism increased and harmful microorganism decreased.•Mizugakiibacter was the main reason of watermelon continuous cropping obstacle.•The increase of Rhodanobacter and Galbibacter was helpful to reduce Mizugakiibacter.•Beneficial fungi were positively related to beneficial bacteria.
Human activities, including agricultural practice, have a significant effect on soil biodiversity and function. However, little is known about the influence of agricultural practice on the microbial ...CO2 fixation potential. We applied stable isotope, quantitative polymerase chain reaction, and high-throughput sequencing to study the atmospheric CO2 fixation rates and the composition of autotrophic cbbL-gene-harboring bacterial and accA-gene-harboring archaeal communities in response to a dozen years of agricultural practice (including rice-upland rotation, fertilization, and tillage). Fertilizer additions significantly increased CO2 fixation rates by 14.9–40.5%, with the highest rates found for combined nitrogen and manure treatments. Rice-fallow increased soil CO2 fixation rates by 26.8% and 15.6% compared with rice-wheat and rice-Chinese milk vetch rotation, respectively, while no-tillage treatments increased it by 24.7% than traditional tillage treatments. Different agricultural practices significantly affected the cbbL-harboring bacterial diversity but not accA-harboring archaeal diversity, suggesting that cbbL-harboring bacteria are more sensitive to agricultural practices than are the accA-harboring archaea. The principal coordinated analysis revealed that agricultural practices affected both cbbL-harboring bacterial and accA-harboring archaeal communities. Partial least squares path models further revealed that the modified cbbL-harboring bacterial communities and accA-harboring archaeal communities directly or indirectly affected the CO2 fixation rate. Both random forest and correlation analyses revealed that CO2 fixation potential was attributed to Rhodobacteraceae, Oscillochloridaceae, and Dokdonella, and that soil available phosphorus was the most important factor shaping autotrophic microbial composition. Our study shows that a dozen years of agricultural practice modifies soil microbial CO2 fixation and the composition of autotrophic microorganisms. It also highlights the role of no-tillage and rice-fallow treatments in increasing soil organic carbon sequestration.
•No tillage and rice fallow dramatically increased soil CO2 fixation rate.•Fixation rate was mostly driven by soil autotroph community composition.•Soil autotrophs were primarily driven by available phosphorus content in soil.•Autotrophs were studied based on different agricultural practices.
The flooded paddy field ecosystem is an important source of CH4 and N2O emissions from agricultural lands. Denitrification-Decomposition (DNDC), a process-based model, was used in this study to ...evaluate the effects of different field management practices on CH4 and N2O emissions from flooded paddy fields in Shanghai, China. The results indicated that the predicted seasonal patterns of CH4 (R2 = 0.76, ME = 0.71) and N2O (R2 = 0.71, ME = 0.67) emissions were in line with the observations from our experimental paddy field under traditional management practices. The total CH4 and N2O fluxes from paddy fields in the Shanghai region in the 2013 rice season reached 32,300 and 175 tons, respectively, and varied widely across 101 simulated rice-cultivating towns. A sensitivity analysis indicated that CH4 emissions were positively correlated with the organic fertilizer rate, the straw returned fraction, the tillage depth and the soil organic carbon (SOC) content and negatively correlated with the soil clay fraction. N2O emissions had a positive relationship with precipitation, the urea rate, the tillage depth and the SOC content and a negative relationship with the soil pH and the clay fraction. Based on the sensitivity analysis, four field management variables, including the fertilization rate, the irrigation method, the straw returned fraction and the tillage depth, were selected to construct several management scenarios for the DNDC scenario simulation tests. The simulated results indicated that reducing the rate of fertilization by 20% combined with moistening irrigation (keeping the paddy soil saturated with water but not covered with a layer of water) was the best practice for long-term sustainable management of paddy fields. This best management practice could reduce integrated emissions of CH4 and N2O (CO2-equivalent) by 33%, while maintaining optimal rice yields. However, straw returning and deep plowing increased CH4 emissions from paddy fields in Shanghai.
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•CH4 and N2O emissions from paddy fields in Shanghai region were simulated with the DNDC model.•CH4 and N2O emissions could be substantially reduced with management optimization.•Reducing fertilization combined with moistening irrigation was the best management practice.•The applicability of the DNDC model in flooded paddy field was validated.
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