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"Zhou, Yawei"
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Ancient genomes from northern China suggest links between subsistence changes and human migration
2020
Northern China harbored the world’s earliest complex societies based on millet farming, in two major centers in the Yellow (YR) and West Liao (WLR) River basins. Until now, their genetic histories have remained largely unknown. Here we present 55 ancient genomes dating to 7500-1700 BP from the YR, WLR, and Amur River (AR) regions. Contrary to the genetic stability in the AR, the YR and WLR genetic profiles substantially changed over time. The YR populations show a monotonic increase over time in their genetic affinity with present-day southern Chinese and Southeast Asians. In the WLR, intensification of farming in the Late Neolithic is correlated with increased YR affinity while the inclusion of a pastoral economy in the Bronze Age was correlated with increased AR affinity. Our results suggest a link between changes in subsistence strategy and human migration, and fuel the debate about archaeolinguistic signatures of past human migration.
Northern China contains some of the world’s earliest farming societies. Here, authors use 55 ancient genomes to trace the genetic history of human migrations across northern China for the last 7500 years, and document genetic changes mirroring shifts in subsistence strategy.
Journal Article
Exploring genetic associations between immune cells and hypertensive disorder of pregnancy using Mendelian randomization
2024
Background
Observational epidemiological studies suggested that immunological dysregulation and inflammation play a significant role in the placental and renal dysfunction that leads to maternal hypertension. The immunophenotypes' possible causalities with hypertensive disease of pregnancy remain ambiguous. We performed two-sample Mendelian randomization (MR) analyses to comprehensively investigate the causal effect of immunophenotypes on hypertensive disorder of pregnancy (HDP).
Methods
The large-scale genome-wide association studies (GWASs) data on immunological traits was taken from public catalog for 731 immunophenotypes. The summarized GWAS data in 4 types of HDP were retrieved from FinnGen database, including 811,605 Finnish individuals. The primary analysis was the inverse variance weighted (IVW) method, supplemented by conducting sensitivity analysis. To confirm whether cardiovascular proteins mediated the causal effect of immune cells on HDP, we additionally executed a mediation MR study.
Results
After looking into genetically predicted immunophenotype biomarkers, we discovered 14 highly correlative immunophenotypes and 104 suggestive possible factors. The IVW analysis indicated that HLA DR on myeloid DC, HLA DR on plasmacytoid DC, and HLA DR on DC had a significant association with pre-eclampsia/eclampsia (PE), whereas CD4
+
CD8
dim
AC and CD4
+
CD8
dim
% leukocyte were protective against gestational hypertension (GH). All of HDP in our study had no statistically significant impact on immune cells, according to reverse MR analysis. The mediating role of LOX-1between HLA DR on plasmacytoid DC and chronic hypertension prior to pregnancy was validated.
Conclusion
This study showed that many immunophenotypes are implicated in HDP. Furthermore, the level of LOX-1 mediated the pathophysiology relationship between HLA DR on plasmacytoid dendritic cells and chronic hypertension prior to pregnancy.
Journal Article
Circulating immune cells and apolipoprotein A mediation: a Mendelian randomization study on hypertensive disorder of pregnancy
by
Zhou, Yawei
,
Pei, Jianying
,
Wang, Wendi
in
Apolipoprotein A
,
Apolipoproteins
,
Apolipoproteins A - genetics
2024
Studies using observational epidemiology have indicated that inflammation and immunological dysregulation are important contributors to placental and renal failure, which ultimately results in maternal hypertension. The potential causal relationships between the immunophenotypes and hypertensive disorder of pregnancy (HDP) are yet unclear.
We conducted two-sample Mendelian randomization (MR) analyses to thoroughly examine the relationship between immunophenotypes and HDP. The GWAS data on immunological traits was taken from public catalog for 731 immunophenotypes and the summarized GWAS data in 4 types of HDP were retrieved from FinnGen database. The link between immune cell traits and HDP was examined through our study methodology, taking into account both direct relationships and mediation effects of apolipoprotein A (apoA). The inverse variance weighted (IVW) method served as the main analysis, while sensitivity analysis was carried out as a supplement.
We identified 14 highly correlative immunophenotypes and 104 suggestive possible factors after investigating genetically predicted immunophenotype biomarkers. According to the IVW analysis, there was a strong correlation between HDP and HLA DR on DC and plasmacytoid DC. Reverse MR analysis showed that there was no statistically significant effect of HDP on immune cells in our investigation. Mediation analysis confirmed that apoA mediates the interaction between HLA DR on DC and HDP.
Our results highlight the complex interplay of immunophenotypes, apoA, and HDP. Moreover, the pathophysiological link between HLA DR on DC and HDP was mediated by the level of apoA.
Journal Article
Determination of NMR T2 Cutoff and CT Scanning for Pore Structure Evaluation in Mixed Siliciclastic–Carbonate Rocks before and after Acidification
2020
Nuclear magnetic resonance (NMR) is used widely to characterize petrophysical properties of siliciclastic and carbonate rocks but rarely to study those of mixed siliciclastic–carbonate rocks. In this study, 13 different core samples and eight acidified core samples selected amongst those 13 from the Paleogene Shahejie Formation in Southern Laizhouwan Sag, Bohai Bay Basin, were tested by scanning electron microscopy (SEM), micro-nano-computed tomography (CT), and NMR. SEM and CT results revealed a complex pore structure diversity, pore distribution, and pore-throat connectivity in mixed reservoirs. Sixteen groups of NMR experiments addressed changes in these properties and permeabilities of mixed siliciclastic–carbonate rocks before and after acidification to determine its effects on such reservoirs. NMR experimental results showed no “diffusion coupling” effect in mixed siliciclastic–carbonate rocks. Distributions of NMR T2 cutoff values (T2C) are closely related to the pore structure and lithologic characteristics before and after acidification. The T2C index separates irreducible and movable fluids in porous rocks and is a key factor in permeability prediction. Centrifugation experiments showed that, before acidification, the T2C of mixed siliciclastic–carbonate rocks with 60–90% siliciclastic content (MSR) ranged widely from 1.5 to 9.8 ms; the T2C of mixed siliciclastic–carbonate rocks with 60–90% carbonate content (MCR) ranged from 1.8 to 5.6 ms. After acidification, the T2C of MSR ranged widely from 2.6 to 11.6 ms, the T2C of MCR ranged from 1.5 to 5.6 ms, and no significant difference was observed between MCR reservoirs. Based on an analysis of the morphology of NMR T2 spectra, we propose a new T2 cutoff value prediction method for mixed siliciclastic–carbonate rocks based on a normal distribution function to predict various T2C values from morphological differences in NMR T2 spectra and to calculate the irreducible water saturation (Swir), i.e., the ratio of irreducible total fluid volume to effective porosity. The reliability of the proposed method is verified by comparing predicted T2C and Swir values with those from NMR experimental results. New experiments and modeling demonstrate the applicability of NMR for the petrophysical characterization of mixed siliciclastic–carbonate rock reservoirs. Our results have potential applications for identification and evaluation of mixed siliciclastic–carbonate rock reservoirs using NMR logging.
Journal Article
Free volume characteristics on water permeation and salt rejection of polyamide reverse osmosis membranes investigated by a pulsed slow positron beam
by
Fang, Pengfei
,
Xiong, Bangyun
,
Zhang, Xiaowei
in
Characterization and Evaluation of Materials
,
Chemistry and Materials Science
,
Chloride ions
2018
Polyamide thin film composite reverse osmosis membranes on porous polysulfone support were prepared using m-phenylenediamine, trimesoyl chloride and dimethyl sulfoxide (DMSO) with various contents as precursors via an interfacial polymerization. The membrane with heterogeneous multilayer structure was depth-profiled by positron annihilation lifetime spectroscopy based on a pulsed slow positron beam and the thickness of the polyamide active layer can be estimated through fitting the results of depth dependence of
o
-Ps intensity. The free volume characteristics in the polyamide selective layer of the membranes were evaluated and were correlated with the permeation properties. With increasing DMSO content, mean free volume size (
V
FV
) was enlarged, which was responsible for the enhanced water and sodium chloride permeation. However, the salt rejection was significantly decreased with a slight increase in the
V
FV
around a critical value of 88.0 Å
3
, which was the average size of hydrated sodium and chloride ions. It was well interpreted for that the broadened free volume distribution enables an amount of larger free volumes to be involved in the salt permeation, although little change in
V
FV
was found.
Journal Article
Origin and dispersal history of Hepatitis B virus in Eastern Eurasia
2024
Hepatitis B virus is a globally distributed pathogen and the history of HBV infection in humans predates 10000 years. However, long-term evolutionary history of HBV in Eastern Eurasia remains elusive. We present 34 ancient HBV genomes dating between approximately 5000 to 400 years ago sourced from 17 sites across Eastern Eurasia. Ten sequences have full coverage, and only two sequences have less than 50% coverage. Our results suggest a potential origin of genotypes B and D in Eastern Asia. We observed a higher level of HBV diversity within Eastern Eurasia compared to Western Eurasia between 5000 and 3000 years ago, characterized by the presence of five different genotypes (A, B, C, D, WENBA), underscoring the significance of human migrations and interactions in the spread of HBV. Our results suggest the possibility of a transition from non-recombinant subgenotypes (B1, B5) to recombinant subgenotypes (B2 - B4). This suggests a shift in epidemiological dynamics within Eastern Eurasia over time. Here, our study elucidates the regional origins of prevalent genotypes and shifts in viral subgenotypes over centuries.
Hepatitis B virus is an ancient human pathogen that dates back more than 10,000 years. Here, the authors investigate the evolutionary history of the virus in Eastern Eurasia by sequencing 34 genomes dating from approximately 400–5,000 years ago and comparing them with other contemporary sequences.
Journal Article
Ancient genomes from the Tang Dynasty capital reveal the genetic legacy of trans-Eurasian communication at the eastern end of Silk Road
2024
Background
Ancient Chang’an in the Tang Dynasty (618–907 AD) was one of the world’s largest and most populated cities and acted as the eastern end of the world-famous Silk Road. However, little is known about the genetics of Chang’an people and whether the Western Regions-related gene flows have been prevalent in this cosmopolitan city.
Results
Here, we present seven genomes from Xingfulindai (XFLD) sites dating to the Tang Dynasty in Chang’an. We observed that four of seven XFLD individuals (XFLD_1) were genetically homogenous with the Late Neolithic Wadian, Pingliangtai, and Haojiatai populations from the middle reaches of the Yellow River Basin (YR_LN), with no genetic influence from the Western Eurasian or other non-Yellow River-related lineages. The remaining three XFLD individuals were a mixture of YR_LN-related ancestry and ~ 3–15% Western Eurasian-related ancestry. Mixtures of XFLD_1 and Western Eurasian-related ancestry drove the main gradient of genetic variation in northern and central Shaanxi Province today.
Conclusions
Our study underlined the widespread distribution of the YR_LN-related ancestry alongside the Silk Road within the territory of China during the historical era and provided direct evidence of trans-Eurasian communication in Chang’an from a genetic perspective.
Journal Article
A Deep Learning-Based Algorithm for Ceramic Product Defect Detection
2025
In the field of ceramic product defect detection, traditional manual visual inspection methods suffer from low efficiency and high subjectivity, while existing deep learning algorithms are limited in detection efficiency due to their high complexity. To address these challenges, this study proposes a deep learning-based algorithm for ceramic product defect detection. The algorithm designs a lightweight YOLOv10s detector, which reconstructs the backbone network using GhostNet and incorporates an Efficient Channel Attention (ECA) mechanism fused with depthwise separable convolutions, effectively reducing the model’s complexity and computational load. Additionally, an adaptive threshold method is proposed to improve the traditional Canny edge detection algorithm, significantly enhancing its accuracy in defect edge detection. Experimental results demonstrate that the algorithm achieves an mAP@50 of 92.8% and an F1-score of 90.3% in ceramic product defect detection tasks, accurately identifying and locating four types of defects: cracks, glaze missing, damage, and black spots. In crack detection, the average Edge Localization Error (ELE) is reduced by 25%, the Edge Connectivity Rate (ECR) is increased by 15%, the Weak Edge Responsiveness (WER) is improved by 17%, and the frame rate reaches 40 frames per second (f/s), meeting real-time detection requirements. This algorithm exhibits significant potential in the field of ceramic product defect detection, providing solid technical support for optimizing the ceramic product manufacturing process.
Journal Article
Minimum safety protection distance of high‐pressure natural gas pipeline based on physical explosion injury consequences
2024
The transportation of natural gas through pipelines offers numerous advantages. However, physical explosions in high‐pressure natural gas pipelines can cause casualties and property loss. There is currently no method for accurately predicting the damage range of physical explosions in pipelines, and a safer site selection plan cannot be determined during the pipeline construction design stage. This study proposes a method for determining the range of pipeline physical explosion damage by comprehensively considering two factors: the size range of the physical explosion craters, and the attenuation distance of the shock waves. A high‐pressure natural gas pipeline physical explosion crater model was constructed using HyperMesh software, and the accuracy of the model was verified using the PRCI calculation model. Based on the Sadovsky formula, a program was developed to simulate the spatiotemporal changes in shock wave diffusion, demonstrating the law of shock wave diffusion. The results show that the distance from the overpressure peak attenuation of the physical explosion shock wave in air to 0.02 MPa is calculated to be 33 m, and the maximum damage range of the crater is 9.27 m. Finally, the safe protection distance for personnel and buildings was determined to be 33 m. This study proposes a method for determining the range of pipeline physical explosion damage by comprehensively considering two factors: the size range of the physical explosion craters, and the attenuation distance of the shock waves. A high‐pressure natural gas pipeline physical explosion crater model was constructed using HyperMesh software, and the accuracy of the model was verified using the PRCI calculation model.
Journal Article
PCR-based reverse genetics strategy for bluetongue virus recovery
2019
Background
Bluetongue virus (BTV), an emerging insect vector mediated pathogen affecting both wild ruminants and livestock, has a genome consisting of 10 linear double-stranded RNA genome segments. BTV has a severe economic impact on agriculture in many parts of the world. Current reverse genetics (RG) strategy to rescue BTV mainly rely on in vitro synthesis of RNA transcripts from cloned complimentary DNA (cDNA) corresponding to viral genome segments with the aid of helper plasmids. RNA synthesis is a laborious job which is further complicated with a need for expensive reagents and a meticulous operational procedure. Additionally, the target genes must be cloned into a specific vector to prepare templates for RNA transcription.
Result
In this study, we have developed a PCR based BTV RG system with easy two-step transfection. Viable viruses were recovered following a first transfection with the seven helper plasmids and a second transfection with the 10 PCR products on the BSR cells. Further, recovered viruses were characterized with indirect immunofluorescence assays (IFA) and gene sequencing. And the proliferation properties of these viruses were also compared with wild type BTV. Interestingly, we have identified that viruses containing the segment 2 of the genome from reassortant BTV, grew slightly slower than the others.
Conclusion
In this study, a convenient PCR based RG platform for BTV is established, and this strategy could be an effective alternative to the original available BTV rescue methods. Furthermore, this RG strategy is likely applicable for other Orbiviruses.
Journal Article