Whole-genome sequencing and comparative genome analysis of Xanthomonas fragariae YM2 causing angular leaf spot disease in strawberry

BackgroundAngular leaf spot disease caused by plant pathogenic bacterium Xanthomonas fragariae seriously threatens strawberry crop production globally.MethodsIn this study, we sequenced the whole genome of X. fragariae YM2, isolated from Yunnan Province, China. In addition, we performed a comparative genome analysis of X. fragariae YM2 with two existing strains of X. fragariae YL19 and SHQP01 isolated from Liaoning and Shanghai, respectively.ResultsThe results of Nanopore sequencing showed that X. fragariae YM2 comprises one single chromosome with a contig size of 4,263,697 bp, one plasmid contig size of 0.39 Mb, a GC content ratio of 62.27%, and 3,958 predicted coding genes. The genome of YM2 comprises gum, hrp, rpf, and xps gene clusters and lipopolysaccharide (LPS), which are typical virulence factors in Xanthomonas species. By performing a comparative genomic analysis between X. fragariae strains YM2, YL19, and SHQP01, we found that strain YM2 is similar to YL19 and SHQP01 regarding genome size and GC contents. However, there are minor differences in the composition of major virulence factors and homologous gene clusters. Furthermore, the results of collinearity analysis demonstrated that YM2 has lower similarity and longer evolutionary distance with YL19 and SHQP01, but YL19 is more closely related to SHQP01.ConclusionsThe availability of this high-quality genetic resource will serve as a basic tool for investigating the biology, molecular pathogenesis, and virulence of X. fragariae YM2. In addition, unraveling the potential vulnerabilities in its genetic makeup will aid in developing more effective disease suppression control measures

Searching for the nano-Hertz stochastic gravitational wave background with the Chinese Pulsar Timing Array Data Release I

Observing and timing a group of millisecond pulsars (MSPs) with high rotational stability enables the direct detection of gravitational waves (GWs). The GW signals can be identified from the spatial correlations encoded in the times-of-arrival of widely spaced pulsar-pairs. The Chinese Pulsar Timing Array (CPTA) is a collaboration aiming at the direct GW detection with observations carried out using Chinese radio telescopes. This short article serves as a `table of contents' for a forthcoming series of papers related to the CPTA Data Release 1 (CPTA DR1) which uses observations from the Five-hundred-meter Aperture Spherical radio Telescope (FAST). Here, after summarizing the time span and accuracy of CPTA DR1, we report the key results of our statistical inference finding a correlated signal with amplitude \log A_{\rm c}= -14.4 \,^{+1.0}_{-2.8} for spectral index in the range of $\alpha\in [-1.8, 1.5]$ assuming a GW background (GWB) induced quadrupolar correlation. The search for the Hellings-Downs (HD) correlation curve is also presented, where some evidence for the HD correlation has been found that a 4.6-$\sigma$ statistical significance is achieved using the discrete frequency method around the frequency of 14 nHz. We expect that the future International Pulsar Timing Array data analysis and the next CPTA data release will be more sensitive to the nHz GWB, which could verify the current results.Comment: 18 pages, 6 figures, submitted to "Research in astronomy and astrophysics" 22nd March 202

Identifying price bubbles in copper market: Evidence from a GSADF test approach.

This paper uses the test proposed by Generalized Supremum Augmented Dickey-Fuller to identify whether there are multiple bubbles in copper price. The empirical results show that base on market fundamentals, there are seven bubbles existed from January 1980 to March 2023. Through analyses, the first two bubbles can be explained by the demand from Japan by the industry concentration and persistent supply constraint. The third to sixth bubbles are mainly negatively impacted by the global financial crisis and growing demand of China. The last bubble is caused by the economic recovery from Covid-19. The logit regression has stated that aluminum price, copper production, all metals index and GDP have a positive impact on copper bubbles, while China's copper imports and precious metals price negatively explains copper bubbles. The main contributions are the investigation of the copper price bubbles, its determinants and the different technique of GSADF to detect copper price bubbles. Furthermore, it provides helpful information for those investors to make reasonable investment decisions and thus, avoid potential price risk

A New Analysis Model for Potential Contamination of a Shallow Aquifer from a Hydraulically-Fractured Shale

Hydraulic fracturing (HF) is widely used in shale gas development, which may cause some heavy metals release from shale formations. These contaminants could transport from the fractured shale reservoirs to shallow aquifers. Thus, it is necessary to assess the impact of pollution in shallow aquifers. In this paper, a new analysis model, considering geological distributions, discrete natural fractures (NFs) and faults, is developed to analyze the migration mechanism of contaminants. Furthermore, the alkali erosion of rock caused by high-pH drilling of fluids, is considered in this paper. The numerical results suggest that both NFs and alkali erosion could reduce the time required for contaminants migrating to aquifers. When NFs and alkali erosion are both considered, the migration time will be shortened by 51 years. Alkali erosion makes the impact of NFs, on the contaminant migration, more significant. The migration time decreases with increasing pH values, while the accumulation is on the opposite side. Compared with pH 12.0, the migration time would be increased by 45 years and 29 years for pH 11.0 and 11.5, respectively. However, the migration time for pH 12.5 and 13.0 were found to be decreased by 82 years and 180 years, respectively. Alkali erosion could increase the rock permeability, and the elevated permeability would further enhance the migration velocity of the contaminants, which might play a major role in assessing the potential contamination of shallow aquifers

Spatiotemporal Evolution Characteristics of Urbanization in the Xiamen Special Economic Zone Based on Nighttime-Light Data from 1992 to 2020

In China and elsewhere, urban expansion is directly related to the important issues of social development, economic development, and the sustainable development of the ecological environment. Traditional statistical methods based on administrative regions lack geospatial information, which makes it difficult to analyze and explore in detail the development status and spatial differences of cities. In real time, nighttime light (NTL) remote sensing can reveal the spatial expansion change information of urban built-up areas (UB) on different scales, thus allowing for the analysis of urban spatial patterns and variations in urban development. Based on the long-time sequence NTL data from 1992 to 2020, this work studies the Xiamen Special Economic Zone by using the vegetation-water-adjusted NTL urban index (VWANUI) to extract the urban built-up areas and study the UB expansion patterns, the migration of the urban center of gravity, and intra-city differences. The result is a qualitative and quantitative temporal and spatial evaluation of Xiamen’s economic development characteristics. The results show that the UB of Xiamen expanded 349.219 km2 from 1995 to 2020, mainly concentrated in the period 2005–2020, during which time 79.44% of the expansion of the whole study period occurred. Throughout the study period, the urban center of gravity of Xiamen city shifts 8757.15 m to the northeast at the rate of 350.29 m/year in the direction of 74.88° (the urban center of gravity shifted from the inner island to the outer island). The total brightness of nighttime lights in Xiamen is gradually increasing, indicating that the level of urban economic development continuously improved over the measurement period, that human social activities have strengthened, and that the cross-island development strategy has produced certain results. These results provide data that describe urban development and policy formulation in Xiamen

Efficient Synthesis of 3-Sulfonyl-2-sulfonylmethyl-2<i>H</i>-chromenes via Tandem Knoevenagel Condensation/Oxa-Michael Addition Protocol

An organocatalytic [4 + 2] cascade annulation of salicylaldehydes and 1,3-bisarylsulfonylpropenes has been developed. This protocol enables the efficient and straightforward synthesis of a new series of 3-sulfonyl-2-sulfonylmethyl-2H-chromenes that are useful for exploring pharmacologically valued compounds. Further reductive modifications result in 3-desulfonylated chromene or chromane derivatives. This protocol can be expanded to the synthesis of 3-sulfonyl-2-sulfonylmethyl 1,2-dihydroquinoline

Efficient Synthesis of 3-Sulfonyl-2-sulfonylmethyl-2H-chromenes via Tandem Knoevenagel Condensation/Oxa-Michael Addition Protocol

An organocatalytic [4 + 2] cascade annulation of salicylaldehydes and 1,3-bisarylsulfonylpropenes has been developed. This protocol enables the efficient and straightforward synthesis of a new series of 3-sulfonyl-2-sulfonylmethyl-2H-chromenes that are useful for exploring pharmacologically valued compounds. Further reductive modifications result in 3-desulfonylated chromene or chromane derivatives. This protocol can be expanded to the synthesis of 3-sulfonyl-2-sulfonylmethyl 1,2-dihydroquinoline