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Xiaoyan Tang

Publications and source records attributed to Xiaoyan Tang.

At least 19 recordsLinked to original sources
PubMed2026

Engineering bubble structures as Cas12a activators for highly sensitive monitoring of WRN helicase function.

The Werner syndrome helicase (WRN) is a critical synthetic lethal target in microsatellite instability cancers, essential for resolving complex genomic structures like replication bubbles and R-loops. However, strategies to simultaneously discriminate WRN activity on DNA versus DNA-RNA substrates in living cells are lacking. Here, we developed a structure-specific CRISPR/Cas12a biosensing strategy to visualize WRN functional activity by engineering bubble-structure probes. These probes were rationally designed to structurally mimic DNA replication bubbles and R-loop associated DNA-RNA hybrids. Upon specific unwinding by WRN, the probes release a sequestered activator strand that triggers Cas12a trans-cleavage, effectively converting the unwinding event into an amplified fluorescent signal. This assay achieves low picomolar sensitivity (LODs: 5.6-6.0 pM) and exceptional selectivity against homologous RecQ helicases. Uniquely, this strategy enables the parallel quantification of WRN activity on both substrate types, providing insights into distinct WRN-mediated pathways for resolving genomic stress. We further demonstrated the strategy's utility by visualizing endogenous WRN dynamics in living cells and profiling the efficacy of small-molecule inhibitors. This work offers a powerful molecular toolkit for dissecting WRN biology and facilitating high-throughput drug screening in targeted cancer therapy.

Werner Syndrome Helicase↗
PubMed2006

Source apportionment of PM2.5 in Beijing in 2004.

Based on measurements of fine particulate matter (PM2.5, i.e., particles with an aerodynamic diameter of 2.5 microm or less) in January and August 2004, serious air pollution persists in Beijing. The chemical analysis included organic and elemental carbon, water-soluble ions, and elemental compositions. The positive matrix factorization (PMF) method was used to apportion the PM2.5 sources. The sources contributing dominantly to PM2.5 mass concentrations are coal combustion in winter and the secondary products in summer. Furthermore, the contributions from motor vehicles, road dusts and biomass burning could not be neglected. The products of biomass burning for winter heating in the area around Beijing could enter the urban area during quasi-quiescent weather conditions. In conclusion, some effective control measures were proposed to reduce the PM2.5 pollution in Beijing.

Air Pollutants↗
PubMed2006

RAR1, a central player in plant immunity, is targeted by Pseudomonas syringae effector AvrB.

Pathogenic bacterial effectors suppress pathogen-associated molecular pattern (PAMP)-triggered host immunity, thereby promoting parasitism. In the presence of cognate resistance genes, it is proposed that plants detect the virulence activity of bacterial effectors and trigger a defense response, referred to here as effector-triggered immunity (ETI). However, the link between effector virulence and ETI at the molecular level is unknown. Here, we show that the Pseudomonas syringae effector AvrB suppresses PAMP-triggered immunity (PTI) through RAR1, a co-chaperone of HSP90 required for ETI. AvrB expressed in plants lacking the cognate resistance gene RPM1 suppresses cell wall defense induced by the flagellar peptide flg22, a well known PAMP, and promotes the growth of nonpathogenic bacteria in a RAR1-dependent manner. rar1 mutants display enhanced cell wall defense in response to flg22, indicating that RAR1 negatively regulates PTI. Furthermore, coimmunoprecipitation experiments indicated that RAR1 and AvrB interact in the plant. The results demonstrate that RAR1 molecularly links PTI, effector virulence, and ETI. The study supports that both pathogen virulence and plant disease resistance have evolved around PTI.

Arabidopsis↗
PubMed2006

Variation of alpha-methylacyl-CoA racemase expression in prostate adenocarcinoma cases receiving hormonal therapy.

alpha-methylacyl-CoA racemase (AMACR) is widely used as a diagnostic marker of prostate adenocarcinoma. It is also used to identify residual adenocarcinoma cells in posthormonal therapy cases. However, there have been very few studies on the relationship between hormonal therapy, which is also called androgen withdrawal therapy and AMACR expression. Here, we carried out a study on AMACR expression in paired pre- and posthormonal therapy prostate adenocarcinoma cases using an immunohistochemical method and a digital imaging system to elucidate the relationship between AMACR expression and hormonal therapy. This study showed that AMACR expression was decreased in 65 of 98 paired cases after hormonal therapy (Mann-Whitney U test, P < .05). Wilcoxon analysis also demonstrated a difference in the AMACR digital average expression in all 98 cases (P < .0001). However, this variation in AMACR expression did not seem to have any relevance to the response to hormonal therapy (P = .5386). We propose that AMACR, as a diagnostic marker, should be carefully used in posthormonal therapy cases. Further investigation of the relationship between AMACR expression and androgen or androgen receptors may provide new insight into novel preventive and curative medicine for prostate adenocarcinoma.

Adenocarcinoma↗
PubMed2006

Bile acids induce adhesion molecule expression in endothelial cells through activation of reactive oxygen species, NF-kappaB, and p38.

Bile acids are synthesized in the liver, stored in gallbladder, and secreted into the intestine to aid in the absorption of lipid-soluble nutrients. In addition, bile acids also actively participate in regulation of gene expression through their ability to act as ligands for the nuclear receptor farnesoid X receptor or by activating kinase signaling pathways. Under cholestatic conditions, elevated levels of bile acids in the liver induce hepatic inflammation, and because bile acid levels are also elevated in the circulation, they might also induce vascular inflammation. To test this hypothesis, primary human umbilical vein endothelial cells (HUVEC) and human aortic endothelial cells were treated with bile acids, and the expression of ICAM-1, VCAM-1, and E-selectin were monitored. The three major bile acids found in the circulation, chenodeoxycholic acid, deoxycholic acid, and lithocholic acid, all strongly induced both the mRNA and protein expression of ICAM-1 and VCAM-1. To delineate the mechanism, the experiments were conducted in the presence of various kinase inhibitors. The results demonstrate that the bile acid-mediated induction of adhesion molecule expression occurs by stimulation of NF-kappaB and p38 MAPK signaling pathways through the elevation in reactive oxygen species. The bile acid-induced cell surface expression of ICAM-1 and VCAM-1 was sufficient to result in the increased adhesion of THP-1 monocytes to the HUVEC, suggesting that elevated levels of bile acids in the circulation may cause endothelium dysfunction and contribute to the initiation of early events associated with vascular lesion formation.

Actins↗
PubMed2006

Characteristics of organic matter in PM2.5 in Shanghai.

Solvent extractable organic compounds (SEOC), organic carbon, elemental carbon and water soluble organic carbon (WSOC) in PM(2.5) samples collected in Shanghai, China in 2002 and 2003 were measured to determine the composition and sources of the organic matter in atmospheric aerosols. Distinct seasonal variations were detected with higher concentrations of organic matter in winter. The concentration of total carbon of about 20 microg m(-3) in winter was about three times the summer value. About 30% of the total carbon was water soluble. Unresolved complex mixture (UCM) and fatty acids were the most abundant components quantified in SEOC, similar to other Chinese cities previously studied. High ratio of UCM to n-alkanes (U:R) and the composition of triterpanes indicated that engine exhaust was a major source of the airborne organic matter. Emissions from coal burning had more impact in the rural areas, according to the U:R value and PAHs composition. Chemical mass balance (CMB) modeling shows that about half of the organic carbon was from engine exhaust and about 15% was from coal burning. No clear spatial variation in the concentration of the organic matter was found between urban and rural areas. Our results showed that due to the rapid urbanization and relocation of industrial plants from urban areas to rural areas in the past 20 years, air pollution in rural areas is becoming a serious problem in Shanghai and the Yangtze River delta.

Aerosols↗
PubMed2006

The Pseudomonas syringae pv. tomato DC3000 type III effector HopF2 has a putative myristoylation site required for its avirulence and virulence functions.

The HopPtoF locus in Pseudomonas syringae pv. tomato DC3000 harbors two genes, ShcF and HopF2 (previously named ShcF(Pto) and HopF(Pto)), that encode a type III chaperone and a cognate effector protein, respectively. The HopF2 gene has a rare initiation codon, ATA that was reported to be functional only in mitochondrial genes. Here, we report that the native HopPtoF locus of DC3000 confers an avirulence function in tobacco W38 plants, indicating that the ATA start codon directs the synthesis of a functional effector. However, disruption of HopF2 in DC3000 genome did not alter the bacterial virulence in tomato plants. The HopPtoF locus displayed a measurable virulence activity in two strains of P. syringae pv. tomato when the ATA start codon was changed to ATG, and this change also elevated the avirulence function in W38 plants. HopF2 contains a putative myristoylation site. Mutational analysis indicated that this site is required for plasma membrane localization and virulence and avirulence activities of HopF2.

Bacterial Proteins↗
PubMed2006

Genome-wide gene expression analysis of Pseudomonas syringae pv. tomato DC3000 reveals overlapping and distinct pathways regulated by hrpL and hrpRS.

Pseudomonas syringae pv. tomato DC3000 is a model pathogen infecting tomato and Arabidopsis plants. Genes encoding the type III secretion system and substrate proteins (collectively called TTSS genes) of this bacterium are induced in plants and in minimal medium (MM). The induction of TTSS genes is mediated by HrpL, an alternative sigma factor recognizing the hrp box in the promoter of TTSS genes. The transcription of hrpL is activated by HrpR and HrpS, two homologous DNA-binding proteins encoded by the hrpRS operon. Microarray analysis was conducted to evaluate the DC3000 genes regulated by hrpL and hrpRS in MM. The analysis identified a number of novel hrpL-activated genes with a putative TTSS-independent function. Genes regulated by hrpL were mostly regulated by hrpRS in the same manner, but a large number of genes regulated by hrpRS were hrpL-independent, indicating that hrpL represents one branch of the regulatory pathways downstream of hrpRS. The induction of the TTSS genes was associated with downregulation of the housekeeping genes, indicating that the activation of the TTSS has a cost on the basic cellular activities. The novel genes and pathways identified by the microarray provide new insight into the bacterial functions coordinating with the TTSS.

Bacterial Proteins↗
PubMed2006

Regulation of the type III secretion system in phytopathogenic bacteria.

The type III secretion system (TTSS) is a specialized protein secretion machinery used by numerous gram-negative bacterial pathogens of animals and plants to deliver effector proteins directly into the host cells. In plant-pathogenic bacteria, genes encoding the TTSS were discovered as hypersensitive response and pathogenicity (hrp) genes, because mutation of these genes typically disrupts the bacterial ability to cause diseases on host plants and to elicit hypersensitive response on nonhost plants. The hrp genes and the type III effector genes (collectively called TTSS genes hereafter) are repressed in nutrient-rich media but induced when bacteria are infiltrated into plants or incubated in nutrient-deficient inducing media. Multiple regulatory components have been identified in the plant-pathogenic bacteria regulating TTSS genes under various conditions. In Ralstonia solanacearum, several signal transduction components essential for the induction of TTSS genes in plants are dispensable for the induction in inducing medium. In addition to the inducing signals, recent studies indicated the presence of negative signals in the plant regulating the Pseudomonas syringae TTSS genes. Thus, the levels of TTSS gene expression in plants likely are determined by the interactions of multiple signal transduction pathways. Studies of the hrp regulons indicated that TTSS genes are coordinately regulated with a number of non-TTSS genes.

Gene Expression Regulation, Bacterial↗
PubMed2005

Comparative sorption kinetic studies of ammonium onto zeolite.

The sorption kinetics of ammonium onto three types of zeolite, natural zeolite, natural zeolite covered by biofilm and ammonium-bearing zeolite covered by biofilm, at two particle sizes were studied. The pseudo-first order and pseudo-second order models were fitted to the results by a non-linear method. The batch sorption model, based on a pseudo-second order mechanism, was applied to predict the rate constant of sorption, the equilibrium capacity and the initial sorption rate. Ion exchange between NH(4)(+) and cations in the zeolite increased with decreasing particle size of the zeolite. Biofilm covered on the zeolite did not affect the ion exchange for the smaller particle size but decreased the ion exchange capacity by 22% for the larger particle size. In addition, bioregeneration should be considered for the recovery of ion exchange capacity of the bio-zeolite made from ammonium-bearing zeolite by the microorganisms in the biofilm, 78.0 and 63.9% regeneration for the smaller and larger particle size of zeolite, respectively.

Adsorption↗
PubMed2005

Flagellin induces innate immunity in nonhost interactions that is suppressed by Pseudomonas syringae effectors.

Arabidopsis NONHOST1 (NHO1) is required for limiting the in planta growth of nonhost Pseudomonas bacteria but completely ineffective against the virulent bacterium Pseudomonas syringae pv. tomato DC3000. However, the molecular basis underlying this observation remains unknown. Here we show that NHO1 is transcriptionally activated by flagellin. The nonhost bacterium P. syringae pv. tabaci lacking flagellin is unable to induce NHO1, multiplies much better than does the wild-type bacterium, and causes disease symptoms on Arabidopsis. DC3000 also possesses flagellin that is potent in NHO1 induction, but this induction is rapidly suppressed by DC3000 in a type III secretion system-dependent manner. Direct expression of DC3000 effectors in protoplasts indicated that at least nine effectors, HopS1, HopAI1, HopAF1, HopT1-1, HopT1-2, HopAA1-1, HopF2, HopC1, and AvrPto, are capable of suppressing the flagellin-induced NHO1 expression. One of the effectors, HopAI1, is conserved in both animal and plant bacteria. When expressed in transgenic Arabidopsis plants, HopAI1 promotes growth of the nonpathogenic hrpL- mutant bacteria. In addition, the purified phytotoxin coronatine, a known virulence factor of P. syringae, suppresses the flagellin-induced NHO1 transcription. These results demonstrate that flagellin-induced defenses play an important role in nonhost resistance. A remarkable number of DC3000 virulence factors act in the plant cell by suppressing the species level defenses, and that contributes to the specialization of DC3000 on Arabidopsis.

Arabidopsis↗
PubMed2005

Impact of meteorology and energy structure on solvent extractable organic compounds of PM2.5 in Beijing, China.

Twenty-eight PM2.5 samples collected in Summer (July 2002) and Winter (November 2002) at two sites in Beijing, China were analyzed using GC/MS to investigate the impact of meteorology and coal burning on the solvent extractable organic compounds (SEOC). The characteristics and abundance of the n-alkanes, polycyclic aromatic hydrocarbons (PAHs), n-fatty acids and n-alkanols were determined. Source identification was made using organic species as molecular markers. Semi-volatile compounds of alkanes and PAHs had much higher concentrations in winter than summer because of the large difference in the temperature between the seasons. Plant wax emission was a major contributor to n-alkanes in summer, but fossil fuel residue was a major source (>80%) in winter. The seasonal differences in the distribution of pentacyclic triterpanes clearly shows the impact of coal burning for space heating in winter. The yield of PAHs in winter (148 ng m(-3) at the urban site and 277 ng m(-3) at the suburban site) was six to eight times higher than that in summer and was found to be mainly from coal burning. Higher pollutant concentrations were measured at the suburban site than the urban site in winter due to the rapid expansion of the city limit and the relocation of factories from urban to suburban areas over the last two decades.

Aerosols↗
PubMed2005

Lung pathology of pale ear mouse (model of Hermansky-Pudlak syndrome 1) and beige mouse (model of Chediak-Higashi syndrome): severity of giant lamellar body degeneration of type II pneumocytes correlates with interstitial inflammation.

The authors have recently reported the presence of characteristic foamy swelling/degeneration (giant lamellar body degeneration, GLBD) of type II pneumocytes in the lungs affected by Hermansky-Pudlak syndrome (HPS)-associated interstitial pneumonia (HPSIP), and proposed the hypothesis that GLBD may be the triggering factor in the development of HPSIP (Virchows Arch 2000; 437: 304-13). The purpose of the present paper was to investigate the lung pathology of pale ear (ep) mouse, a mouse model of HPS1, and of beige (bg) mouse, a mouse model of Chediak-Higashi syndrome (CHS) with a reference to GLBD and associated pathologic changes. GLBD was found in both ep and bg mice soon after birth, and increased in severity as the mice grew older. Younger mice had only GLBD with no evidence of interstitial change. Aged bg mice showed the most prominent GLBD and patchy areas of alveolar collapse accompanied by lymphocytic infiltration and slight fibrosis. Aged ep mice with less severe GLBD than bg mice of comparable ages also had a slight tendency to develop interstitial inflammation but no fibrosis. The pneumocytes with GLBD were immunoreactive for surfactant protein B and composed of giant lamellar bodies ultrastructurally, findings which were almost identical to those of human GLBD. The results of the present study support the hypothesis that GLBD may play an important role in the development of HPSIP. Ep and bg mice, especially the latter, may be useful mouse models of HPSIP.

Animals↗
PubMed2004

Characteristics of PM10, SO2, NO(x) and O3 in ambient air during the dust storm period in Beijing.

In this study, the hourly variations of the mass concentrations of PM10, SO2, NO(x) and O3 at three sampling sites were observed in Beijing during dust storm occurrence period in April 2000. The PM2.5 samples were simultaneously collected. By comparing the hourly variations of the pollutant concentrations before, during and after dust storm event and haze pollution episode, the variation characteristics of the mass concentrations of PM10, SO2, NO(x) and O3 during dust storm events were presented. The results show that the mass concentration of PM10 reached 1500 microg m(-3) during dust storm events on April 6 and 25, 2000, which was 5-10 times that of the non-dust weather conditions, and this period of high mass concentration of PM10 lasted for about 14 h, and then the concentration level prior to the dust event was recovered in 6-h time period. Due to the strong wind, the concentrations of SO2, NO(x), NO2 and O3 during dust storm period were maintained at low levels, which was significantly different from those on non-dust storm and haze pollution conditions. A lot of coarse particles as well as a very large amount of fine particles were contained in the atmospheric particulates during dust storm period, and the concentration level of PM2.5 was comparable to that during haze pollution episode. During the dust storm period, the PM2.5 concentration was approximately 230 microg m(-3), accounting for 30% of the total PM10 mass concentration, was four times that of non-dust weather conditions, and the crustal elements constituted about 66.4% of the chemical composition of PM2.5 while sulfate and nitrate contributed much less, which was quite different from the chemical composition of PM2.5 primarily constituted by sulfate, nitrate and organics on haze pollution day.

Air↗
PubMed2004

Arabidopsis CYP86A2 represses Pseudomonas syringae type III genes and is required for cuticle development.

Pseudomonas syringae relies on type III secretion system to deliver effector proteins into the host cell for parasitism. Type III genes are induced in planta, but host factors affecting the induction are poorly understood. Here we report on the identification of an Arabidopsis mutant, att1 (for aberrant induction of type three genes), that greatly enhances the expression of bacterial type III genes avrPto and hrpL. att1 plants display enhanced disease severity to a virulent strain of P. syringae, suggesting a role of ATT1 in disease resistance. ATT1 encodes CYP86A2, a cytochrome P450 monooxygenase catalyzing fatty acid oxidation. The cutin content is reduced to 30% in att1, indicating that CYP86A2 plays a major role in the biosynthesis of extracellular lipids. att1 has a loose cuticle membrane ultrastructure and shows increased permeability to water vapor, demonstrating the importance of the cuticle membrane in controlling water loss. The enhanced avrPto-luc expression is specific to att1, but not another cuticle mutant, wax2. The results suggest that certain cutin-related fatty acids synthesized by CYP86A2 may repress bacterial type III gene expression in the intercellular spaces.

Amino Acid Sequence↗
PubMed2004

Tobacco genes induced by the bacterial effector protein AvrPto.

The type III effector protein AvrPto acts as a virulence factor in susceptible plants lacking a cognate resistance gene but triggers hypersensitive response and disease resistance in tomato plants carrying the Pto gene or in tobacco plants carrying an unknown resistance gene. To assist the characterization of cellular responses caused by AvrPto in the plant, a pathogen-free system was adopted to isolate genes up-regulated 12 h after induced expression of AvrPto. By using subtraction cloning and transgenic tobacco plants expressing avrPto as a transgene, we isolated 125 nonredundant cDNA clones that represent avrPto-response genes (ARG). In addition to genes that are known to be induced by Pto-avrPto recognition, a number of new genes were also isolated. Most of ARG showed a specific induction in tobacco plants challenged with incompatible or nonhost pathogens. The use of an avrPto mutant that selectively eliminated the avrPto recognition in tobacco demonstrated that the ARG were induced in a highly specific manner by the avirulence, instead of the virulence activity of avrPto.

Bacterial Proteins↗
PubMed2004

Pseudomonas Type III effector AvrPto suppresses the programmed cell death induced by two nonhost pathogens in Nicotiana benthamiana and tomato.

Many gram-negative bacterial pathogens rely on a type III secretion system to deliver a number of effector proteins into the host cell. Though a number of these effectors have been shown to contribute to bacterial pathogenicity, their functions remain elusive. Here we report that AvrPto, an effector known for its ability to interact with Pto and induce Pto-mediated disease resistance, inhibited the hypersensitive response (HR) induced by nonhost pathogen interactions. Pseudomonas syringae pv. tomato T1 causes an HR-like cell death on Nicotiana benthamiana. This rapid cell death was delayed significantly in plants inoculated with P. syringae pv. tomato expressing avrPto. In addition, P. syringae pv. tabaci expressing avrPto suppressed nonhost HR on tomato prf3 and ptoS lines. Transient expression of avrPto in both N. benthamiana and tomato prf3 plants also was able to suppress nonhost HR. Interestingly, AvrPto failed to suppress cell death caused by other elicitors and nonhost pathogens. AvrPto also failed to suppress cell death caused by certain gene-for-gene disease resistance interactions. Experiments with avrPto mutants revealed several residues important for the suppression effects. AvrPto mutants G2A, G99V, P146L, and a 12-amino-acid C-terminal deletion mutant partially lost the suppression ability, whereas S94P and 196T enhanced suppression of cell death in N. benthamiana. These results, together with other discoveries, demonstrated that suppression of host-programmed cell death may serve as one of the strategies bacterial pathoens use for successful invasion.

Agrobacterium tumefaciens↗