A Conceptual Framework for Mapping Quantitative Trait Loci Regulating Ontogenetic Allometry

Although ontogenetic changes in body shape and its associated allometry has been studied for over a century, essentially nothing is known about their underlying genetic and developmental mechanisms. One of the reasons for this ignorance is the unavailability of a conceptual framework to formulate the experimental design for data collection and statistical models for data analyses. We developed a framework model for unraveling the genetic machinery for ontogenetic changes of allometry. The model incorporates the mathematical aspects of ontogenetic growth and allometry into a maximum likelihood framework for quantitative trait locus (QTL) mapping. As a quantitative platform, the model allows for the testing of a number of biologically meaningful hypotheses to explore the pleiotropic basis of the QTL that regulate ontogeny and allometry. Simulation studies and real data analysis of a live example in soybean have been performed to investigate the statistical behavior of the model and validate its practical utilization. The statistical model proposed will help to study the genetic architecture of complex phenotypes and, therefore, gain better insights into the mechanistic regulation for developmental patterns and processes in organisms

An inventory of invasive alien species in China

Invasive alien species (IAS) are a major global challenge requiring urgent action, and the Strategic Plan for Biodiversity (2011–2020) of the Convention on Biological Diversity (CBD) includes a target on the issue. Meeting the target requires an understanding of invasion patterns. However, national or regional analyses of invasions are limited to developed countries. We identified 488 IAS in China’s terrestrial habitats, inland waters and marine ecosystems based on available literature and field work, including 171 animals, 265 plants, 26 fungi, 3 protists, 11 procaryots, and 12 viruses. Terrestrial plants account for 51.6% of the total number of IAS, and terrestrial invertebrates (104 species) for 21.3%. Of the total numbers, 67.9% of plant IAS and 34.8% of animal IAS were introduced intentionally. All other taxa were introduced unintentionally despite very few animal and plant species that invaded naturally. In terms of habitats, 64.3% of IAS occur on farmlands, 13.9% in forests, 8.4% in marine ecosystems, 7.3% in inland waters, and 6.1% in residential areas. Half of all IAS (51.1%) originate from North and South America, 18.3% from Europe, 17.3% from Asia not including China, 7.2% from Africa, 1.8% from Oceania, and the origin of the remaining 4.3% IAS is unknown. The distribution of IAS can be divided into three zones. Most IAS are distributed in coastal provinces and the Yunnan province; provinces in Middle China have fewer IAS, and most provinces in West China have the least number of IAS. Sites where IAS were first detected are mainly distributed in the coastal region, the Yunnan Province and the Xinjiang Uyghur Autonomous Region. The number of newly emerged IAS has been increasing since 1850. The cumulative number of firstly detected IAS grew exponentially

Modulating the Verwey Transition of Epitaxial Magnetite Thin Films by Ionic Gating

Understanding the Verwey transition in magnetite (Fe3O4), a strongly correlated magnetic oxide, is a one-century-old topic that recaptures great attention because of the recent spectroscopy studies revealing its orbital details. Here, the modulation of the Verwey transition by tuning the orbital configurations with ionic gating is reported. In epitaxial magnetite thin films, the insulating Verwey state can be tuned continuously to be metallic showing that the low-temperature trimeron states can be controllably metalized by both the gate-induced oxygen vacancies and proton doping. The ionic gating can also reverse the sign of the anomalous Hall coefficient, indicating that the metallization is associated with the presence of a new type of carrier with competing spin. The variable spin orientation associated with the sign reversal is originated from the structural distortions driven by the gate-induced oxygen vacancies

Metformin ameliorates ionizing irradiation-induced long-term hematopoietic stem cell injury in mice

AbstractExposure to ionizing radiation (IR) increases the production of reactive oxygen species (ROS) not only by the radiolysis of water but also through IR-induced perturbation of the cellular metabolism and disturbance of the balance of reduction/oxidation reactions. Our recent studies showed that the increased production of intracellular ROS induced by IR contributes to IR-induced late effects, particularly in the hematopoietic system, because inhibition of ROS production with an antioxidant after IR exposure can mitigate IR-induced long-term bone marrow (BM) injury. Metformin is a widely used drug for the treatment of type 2 diabetes. Metformin also has the ability to regulate cellular metabolism and ROS production by activating AMP-activated protein kinase. Therefore, we examined whether metformin can ameliorate IR-induced long-term BM injury in a total-body irradiation (TBI) mouse model. Our results showed that the administration of metformin significantly attenuated TBI-induced increases in ROS production and DNA damage and upregulation of NADPH oxidase 4 expression in BM hematopoietic stem cells (HSCs). These changes were associated with a significant increase in BM HSC frequency, a considerable improvement in in vitro and in vivo HSC function, and complete inhibition of upregulation of p16Ink4a in HSCs after TBI. These findings demonstrate that metformin can attenuate TBI-induced long-term BM injury at least in part by inhibiting the induction of chronic oxidative stress in HSCs and HSC senescence. Therefore, metformin has the potential to be used as a novel radioprotectant to ameliorate TBI-induced long-term BM injury

Segment Anything Model (SAM) for Radiation Oncology

In this study, we evaluate the performance of the Segment Anything Model (SAM) model in clinical radiotherapy. We collected real clinical cases from four regions at the Mayo Clinic: prostate, lung, gastrointestinal, and head \& neck, which are typical treatment sites in radiation oncology. For each case, we selected the OARs of concern in radiotherapy planning and compared the Dice and Jaccard outcomes between clinical manual delineation, automatic segmentation using SAM's "segment anything" mode, and automatic segmentation using SAM with box prompt. Our results indicate that SAM performs better in automatic segmentation for the prostate and lung regions, while its performance in the gastrointestinal and head \& neck regions was relatively inferior. When considering the size of the organ and the clarity of its boundary, SAM displays better performance for larger organs with clear boundaries, such as the lung and liver, and worse for smaller organs with unclear boundaries, like the parotid and cochlea. These findings align with the generally accepted variations in difficulty level associated with manual delineation of different organs at different sites in clinical radiotherapy. Given that SAM, a single trained model, could handle the delineation of OARs in four regions, these results also demonstrate SAM's robust generalization capabilities in automatic segmentation for radiotherapy, i.e., achieving delineation of different radiotherapy OARs using a generic automatic segmentation model. SAM's generalization capabilities across different regions make it technically feasible to develop a generic model for automatic segmentation in radiotherapy