Finishing the euchromatic sequence of the human genome

The sequence of the human genome encodes the genetic instructions for human physiology, as well as rich information about human evolution. In 2001, the International Human Genome Sequencing Consortium reported a draft sequence of the euchromatic portion of the human genome. Since then, the international collaboration has worked to convert this draft into a genome sequence with high accuracy and nearly complete coverage. Here, we report the result of this finishing process. The current genome sequence (Build 35) contains 2.85 billion nucleotides interrupted by only 341 gaps. It covers ∼99% of the euchromatic genome and is accurate to an error rate of ∼1 event per 100,000 bases. Many of the remaining euchromatic gaps are associated with segmental duplications and will require focused work with new methods. The near-complete sequence, the first for a vertebrate, greatly improves the precision of biological analyses of the human genome including studies of gene number, birth and death. Notably, the human enome seems to encode only 20,000-25,000 protein-coding genes. The genome sequence reported here should serve as a firm foundation for biomedical research in the decades ahead

Spatial and temporal dynamics of habitat quality in response to socioeconomic and landscape patterns in the context of urbanization: A case in Zhengzhou City, China

With the rapid development of urbanization, the habitat quality (HQ) in urban areas has been eroded. This phenomenon is destroying the balance of ecosystems, triggering the reduction of biodiversity and the decay of ecosystem service functions. The study of the relationship between urbanization and HQ in Zhengzhou City is beneficial for the reference of sustainable urban ecological planning and management. Based on landscape classification data and socioeconomic data for three years, this study analyzes the spatial correlations between socioeconomic and landscape pattern factors and HQ, compares the dynamic changes in the explanatory power of different factors, and explores the joint effects between multiple factors. The results show that: (1) The overall value of HQ index in Zhengzhou City decreased by .10 during 2000–2020, mainly occurring in suburban areas, with a small amount of HQ improvement occurring in the core areas of ecological protection, such as mountains and river channels. (2) The spatial autocorrelation of all influencing factors with HQ increased during this period, while the negative impact from socio-economic sources was stronger than the positive impact from landscape patterns. (3) Intensive human activities lead to a single habitat type, which reduces HQ; rich landscape types and complex landscape composition can enhance HQ. Improving the connectivity of blue-green landscapes helps to attenuate the negative effects of urbanization on HQ. (4) Changes of HQ in the study area and the development of multi-factor effects on HQ are driven by the Zhengzhou Metropolitan Area Plan. Urban development policies and management can build idyllic complexes at the edge of urban development, preserving pristine blue-green patches to avoid their homogenized distribution and thus slowing the decline of HQ. The above results provide new ideas for the development of sustainable urban ecology

The role of the PM2.5-associated metals in pathogenesis of child Mycoplasma Pneumoniae infections:a systematic review

The peak occurrence of Mycoplasma pneumoniae (M. pneumoniae) infections in childhood and haze episodes is concurrent. Together, the prevalence of macrolide-resistant M. pneumoniae varies among countries might also be related to the concentration of ambient fine particulate mass (aerodynamic diameter a parts per thousand currency sign2.5 mu m, PM2.5). Numerous cohort studies have identified consistent associations between ambient PM2.5 and cardiorespiratory morbidity and mortality. PM2.5 is a carrier of the heavy metals. The relationship between PM2.5-associated metals and M. pneumoniae infections in childhood has been increasingly drawing public attention. First, we reviewed original articles and review papers in Pubmed and Web of Science regarding M. pneumoniae and PM2.5-associated metal and analyzed the structural basis of PM2.5-associated metal interaction with M. pneumoniae. Then, the possible mechanisms of action between them were conjectured. Mechanisms of oxidative stress induction and modulation of the host immune system and inflammatory responses via Toll-like receptors (TLRs) and/or the nuclear factor-kappa B (NF-kappa B) pathway are postulated to be the result of PM2.5-associated metal complex interaction with M. pneumoniae. In addition, a heavy metal effect on M. pneumoniae-expressed community-acquired respiratory distress syndrome (CARDS) toxin, and activation of the aryl hydrocarbon receptor (AhR) and TLRs to induce the differentiation of T helper (Th) cells are also regarded as important reasons for the influence of the heavy metals on the severity of M. pneumoniae pneumonia and the initial onset and exacerbation of M. pneumoniae associated asthma. PM2.5-associated metals via complex mechanisms can exert a great impact on the host through interaction with M. pneumoniae

Identifying Active Rather than Total Methanotrophs Inhabiting Surface Soil Is Essential for the Microbial Prospection of Gas Reservoirs

Methane-oxidizing bacteria (MOB) have long been recognized as an important bioindicator for oil and gas exploration. However, due to their physiological and ecological diversity, the distribution of MOB in different habitats varies widely, making it challenging to authentically reflect the abundance of active MOB in the soil above oil and gas reservoirs using conventional methods. Here, we selected the Puguang gas field of the Sichuan Basin in Southwest China as a model system to study the ecological characteristics of methanotrophs using culture-independent molecular techniques. Initially, by comparing the abundance of the pmoA genes determined by quantitative PCR (qPCR), no significant difference was found between gas well and non-gas well soils, indicating that the abundance of total MOB may not necessarily reflect the distribution of the underlying gas reservoirs. 13C-DNA stable isotope probing (DNA-SIP) in combination with high-throughput sequencing (HTS) furthermore revealed that type II methanotrophic Methylocystis was the absolutely predominant active MOB in the non-gas-field soils, whereas the niche vacated by Methylocystis was gradually filled with type I RPC-2 (rice paddy cluster-2) and Methylosarcina in the surface soils of gas reservoirs after geoscale acclimation to trace- and continuous-methane supply. The sum of the relative abundance of RPC-2 and Methylosarcina was then used as specific biotic index (BI) in the Puguang gas field. A microbial anomaly distribution map based on the BI values showed that the anomalous zones were highly consistent with geological and geophysical data, and known drilling results. Therefore, the active but not total methanotrophs successfully reflected the microseepage intensity of the underlying active hydrocarbon system, and can be used as an essential quantitative index to determine the existence and distribution of reservoirs. Our results suggest that molecular microbial techniques are powerful tools for oil and gas prospecting

Clinicopathological characteristics and health care for Tibetan women with breast cancer: a cross-sectional survey

Abstract Background The healthcare system (HCS) improved in Tibet Autonomous Region (TAR), China. The present study aimed to investigate whether these improvements might alter the clinicopathological characteristics of a Tibetan female with breast cancer (BC) in TAR. Methods This was a single-center cross-sectional study conducted at TAR People’s Hospital. All Tibetan adult women were treated for BC in this hospital between January 1, 1973 and December 31, 2015. The inclusion criteria were as follows: (1) Tibetan adult woman living in Tibet; (2) Histopathology or cytopathology or both confirming primary BC; (3) All the treatments were finished in this hospital. χ2 test and logistic regression were applied, using age group and census register as the two covariates. Results A total of 273 patients with BC were included in the final analysis. Of these, 14 patients were in the free HCS, 183 patients had medical insurance combined with a new rural cooperative HCS, and 76 were in a rural and urban integration HCS. Currently, a rural and urban integration HCS is an improved system. Consequently, an increase in the proportion patients in the T1–3 stage was observed (0.198; 0.046 to 0.852) between the rural and urban integration HCS and free HCS. The proportion of patients in early (I + II) stage cancer (0.110; 0.019–0.633) also increased between these two HCSs. Conclusion This was the first report about Tibetan women with BC in Tibet. Some clinicopathological characteristics at the presentation of Tibetan women with BC may improve during different HCSs. The cancer awareness, early detection, and the overall management in patients with advanced stage BC might improve the prognosis of BC in the rural and urban integration HCS

Identification of Priority Implementation Areas and Configuration Types for Green Infrastructure Based on Ecosystem Service Demands in Metropolitan City

During urbanization in developing countries, fragmentation of green infrastructure due to increasing populations and the expansion of construction land leads to an extremely serious imbalance between the supply and demand for urban ecosystem services. In this study, the central city of Zhengzhou, a central city in central China, was selected as the study area and the excessive demand for six ecosystem services, namely, air purification, flood regulation, heat regulation, hydrological regulation, CO2 sequestration and recreational services, was quantitatively evaluated. The entropy method was used to calculate the weights of various ecosystem services, and spatial overlay analysis was performed to obtain the comprehensive ecosystem service excessive demand. Finally, bivariate spatial autocorrelation analysis was used to explore the response of population density to comprehensive excessive demand for ESs. The results of this study indicate that: (1) The most prevalent need is for more CO2 regulation service throughout the study area. (2) Except for hydrological regulation service, the spatial distribution of the remaining highly excessive ecosystem service demands are mostly concentrated in old neighborhoods. (3) Of the six excessively demanded economic services, rainwater regulation obtained the greatest weight, reflecting the poor urban infrastructure configuration for countering the rapidly increasing threat of flooding caused by climate change in the city. (4) The comprehensive ecosystem service excessive demand results show that there are eight priority green infrastructure implementation blocks in the central city of Zhengzhou. (5) There were three agglomeration types between population density and comprehensive excessive demand for ESs: high-high type, low-high type and low-low type. The spatial distribution characteristics of population density and comprehensive ES demand are positively correlated. The results of this study could help to provide information for decision making when delineating the priority areas and types of green infrastructure implementation in developing cities