Geochip: A high throughput genomic tool for linking community structure to functions

GeoChip is a comprehensive functional gene array that targets key functional genes involved in the geochemical cycling of N, C, and P, sulfate reduction, metal resistance and reduction, and contaminant degradation. Studies have shown the GeoChip to be a sensitive, specific, and high-throughput tool for microbial community analysis that has the power to link geochemical processes with microbial community structure. However, several challenges remain regarding the development and applications of microarrays for microbial community analysis

Assessment of codivergence of Mastreviruses with their plant hosts

Background: Viruses that have spent most of their evolutionary time associated with a single host lineage should have sequences that reflect codivergence of virus and host. Several examples for RNA viruses of host-virus tree congruence are being challenged. DNA viruses, such as mastreviruses, are more likely than RNA viruses to have maintained a record of host lineage association.Results: The full genomes of 28 isolates of Wheat dwarf virus (WDV), a member of the Mastrevirus genus, from different regions of China were sequenced. The analysis of these 28 entire genomes and 18 entire genome sequences of cereal mastreviruses from other countries support the designation of wheat, barley and oat mastrevirus isolates as separate species. They revealed that relative divergence times for the viruses WDV, Barley dwarf virus (BDV), Oat dwarf virus (ODV) and Maize streak virus (MSV) are proportional to divergence times of their hosts, suggesting codivergence. Considerable diversity among Chinese isolates was found and was concentrated in hot spots in the Rep A, SIR, LIR, and intron regions in WDV genomes. Two probable recombination events were detected in Chinese WDV isolates. Analysis including further Mastrevirus genomes concentrated on coding regions to avoid difficulties due to recombination and hyperdiversity. The analysis demonstrated congruence of trees in two branches of the genus, but not in the third. Assuming codivergence, an evolutionary rate of 10-8 substitutions per site per year was calculated. The low rate implies stronger constraints against change than are obtained by other methods of estimating the rate.Conclusion: We report tests of the hypothesis that mastreviruses have codiverged with their monocotyledonous hosts over 50 million years of evolution. The tests support the hypothesis for WDV, BDV and ODV, but not for MSV and other African streak viruses.Peer reviewedBiochemistry and Molecular Biolog

Dynamics of Molecular Evolution and Phylogeography of Barley yellow dwarf virus-PAV

Barley yellow dwarf virus (BYDV) species PAV occurs frequently in irrigated wheat fields worldwide and can be efficiently transmitted by aphids. Isolates of BYDV-PAV from different countries show great divergence both in genomic sequences and pathogenicity. Despite its economical importance, the genetic structure of natural BYDV-PAV populations, as well as of the mechanisms maintaining its high diversity, remain poorly explored. In this study, we investigate the dynamics of BYDV-PAV genome evolution utilizing time-structured data sets of complete genomic sequences from 58 isolates from different hosts obtained worldwide. First, we observed that BYDV-PAV exhibits a high frequency of homologous recombination. Second, our analysis revealed that BYDV-PAV genome evolves under purifying selection and at a substitution rate similar to other RNA viruses (3.158×10−4 nucleotide substitutions/site/year). Phylogeography analyses show that the diversification of BYDV-PAV can be explained by local geographic adaptation as well as by host-driven adaptation. These results increase our understanding of the diversity, molecular evolutionary characteristics and epidemiological properties of an economically important plant RNA virus

Construction of Platform-based Business Ecosystem

As the core and foundation of the business ecosystem, the platform determines its structure and operation mode. The research on platform strategy and business ecosystem is receiving more and more attention from all walks of life. This paper first provided the concept of a platform-based business ecosystem. Then, on the basis of the platform's "control mode" and "position on the industry chain, it designed four types of construction modes of business ecosystem: open participation, open technology, close symbiosis and channel control. In addition, combined with typical cases, it discussed the structure and operating characteristics of each type of business ecosystem. Finally, it analyzed weak points of this study and made some prospects for future study

Construction Approaches of Enterprise Innovation Network from the Perspective of Social Network

As an important means for enterprises to promote technological progress, product development and service level, innovation has an absolute role in enhancing enterprises’ innovation strength and market strength. In the context of frequent and rapid product replacement and shortened technological innovation cycle in modern society, through the embedding of social networks, forming platforms for higher education institutions, governments, capital markets, research institutions and intermediary links to promote the integration of innovation and capital development and make the most of every resource has become an important way. From the perspective of social network, the methods and necessary approaches for the establishment of enterprise innovation network are studied in this article

An Empirical Analysis on the Impact of Rural Financial Development on the Income Gap between Urban and Rural Residents in Heilongjiang Province

The high-quality development of rural finance is an important support for rural revitalization. In recent years, it continuously expands the investment in rural finance in Heilongjiang Province, and optimizes the rural financial service system and mechanism. The overall income level and living conditions of rural residents have been significantly improved, but there still exists income gap between urban and rural residents. Therefore, based on analyzing and combing current situation and problems of rural financial development and urban-rural income gap in Heilongjiang Province, multiple linear regression model is used to study the impact of rural financial development on the income gap between urban and rural residents in Heilongjiang Province. The research results show that the scale of rural financial development in Heilongjiang Province will enlarge the income gap between urban and rural residents, while rural financial development efficiency and urbanization level reduce income gap between urban and rural residents in Heilongjiang Province. Based on the above conclusions, some policy suggestions to promote the equalization of urban and rural income in Heilongjiang Province are puts forward in this paper

Innovative slow-release organic carbon-source material for groundwater in situ denitrification

Slow-release organic carbon-source (SOC) material, a new kind of electron donor for in situ groundwater denitrification, was prepared and evaluated in this study. With starch as a biologically utilized carbon source and polyvinyl alcohol (PVA) as a frame, this material performed controllable carbon release rates and demonstrated stable behaviour during the simulated denitrification process. Raman spectrum analysis showed that the PVA skeleton formed cross-linking network structures for hydrogen-bonded water molecules reset in low temperatures, and the starchy molecules filled in the interspace of the skeleton to form a two-phase interlocking/disperse phase structure. In a static system, carbon release processes followed the Fickian law with (1.294-6.560) × 10(-3) mg g(-1) s(-1/2) as the release coefficient. Under domestication and in situ groundwater simulation conditions, SOC material played a favourable role during denitrification, with 1.049 ± 0.165 as an average carbon-nitrogen ratio. The denitrification process followed the law of zero-order kinetics, while the dynamics parameter kN was 0.563-8.753 gN m(-3) d(-1). Generally, SOC material was suggested to be a potential carbon source (electron donor) suitable for in situ groundwater denitrification

Structure and mass transportation model of slow-release organic carbon-source material for groundwater in situ denitrification

Based on the theories of organic polymer and chemical kinetics, the structure and mass transportation model of slow-release organic carbon-source (SOC) material was developed in this study to reveal and predict the carbon release mechanisms of polymer carbon source, which was feasible for in situ denitrification in nitrate-contaminated groundwater. Composed of polyvinyl alcohol (PVA) and starch, the SOC material formed the interlocking/disperse-phase structure. PVA performed as continuous phase and skeleton, whereas the starch or cellulose behaved as release component. Carbon release process was identified in two stages: solid-phase (inner) and interface (gel layer) diffusion. Solid-phase diffusion was affected by material porous medium parameters, for example, distance between the crosslinking points and starch free energy. The interface diffusion depended mostly on the groundwater dynamics and interface energy distribution. The interface diffusion was found as the limiting step of carbon release process, and the carbon release coefficient corresponded to kD,I as static coefficient and kC,I as dynamic coefficient. As the key indicator to evaluate carbon release capacity, kD,I and kC,I represented appropriate boundary conditions and interface properties. Sensitivity analysis showed that the key parameters of the carbon release model were the distance between the crosslinking points and the free energy of polymer, influenced by regulation of preparation technique, raw material composition and additive dosage