Diversity and evolution of the Confuciusornithidae: Evidence from a new 131- million-year-old specimen from the Huajiying Formation in NE China

The Huajiying Formation contains the earliest deposits of the Jehol Biota, representing the world’s second oldest avifauna. This avifauna includes the early confuciusornithid Eoconfuciusornis zhengi, the oldest occurrence of this clade and one of the earliest divergences of pygostylian birds. Although E. zhengi shows unique traits, the holotype’s immature age makes comparisons with the better known Confuciusornis sanctus problematic. As a result, the taxonomic validity of E. zhengi is controversial. We describe a small, osteologically adult confuciusornithid from the same deposits as E. zhengi. The new fossil is most similar to E. zhengi but also shares traits with the stratigraphically younger Confuciusornis. The humerus of the new fossil is straighter and more slender, and bears a less dorsally-developed deltopectoral crest compared with similarly-sized and smaller specimens of Confuciusornis. The morphology of the humerus is intermediate between E. zhengi and Confuciusornis and its proximal portion is pierced by a small deltopectoral foramen, absent in the holotype of E. zhengi. However, this foramen is much smaller than in any other confuciusornithid. Shape analyses (geometric morphometrics) of the humerus of confuciusornithids of different ages and representatives of other basal avians and closely-related non-avian theropods supports our observations and indicate that the humeral differences between the holotype of E. zhengi and the new specimen are not easily explained as ontogenetic variation within a single species. However, the limited number of early confuciursornithids does not allow us to confidently interpret such differences as interspecific. Nonetheless, these analyses support the morphological distinctiveness of the early confuciusornithids from the Huajiying Formation and suggest a stepwise acquisition of the unique humeral morphology of ConfuciusornithidaeGN is supported by a PG Scholarship/Studentship from The Alumni Foundation, University of Bristol, UK. JML is supported by the Spanish MINECO, Project CGL-2013-42643. Innovative Team Program of the Beijing Academy of Science and Technology, the Beijing Millions of Talents Project in the New Century, the National Natural Science Foundation of China (No. 41602006), and theBeijing Natural Science Foundation (No. 5174032) provided funding for this researc

High-quality genome assembly and comparative genomic profiling of yellowhorn (Xanthoceras sorbifolia) revealed environmental adaptation footprints and seed oil contents variations

Yellowhorn (Xanthoceras sorbifolia) is a species of deciduous tree that is native to Northern and Central China, including Loess Plateau. The yellowhorn tree is a hardy plant, tolerating a wide range of growing conditions, and is often grown for ornamental purposes in parks, gardens, and other landscaped areas. The seeds of yellowhorn are edible and contain rich oil and fatty acid contents, making it an ideal plant for oil production. However, the mechanism of its ability to adapt to extreme environments and the genetic basis of oil synthesis remains to be elucidated. In this study, we reported a high-quality and near gap-less yellowhorn genome assembly, containing the highest genome continuity with a contig N50 of 32.5 Mb. Comparative genomics analysis showed that 1,237 and 231 gene families under expansion and the yellowhorn-specific gene family NB-ARC were enriched in photosynthesis and root cap development, which may contribute to the environmental adaption and abiotic stress resistance of yellowhorn. A 3-ketoacyl-CoA thiolase (KAT) gene (Xso_LG02_00600) was identified under positive selection, which may be associated with variations of seed oil content among different yellowhorn cultivars. This study provided insights into environmental adaptation and seed oil content variations of yellowhorn to accelerate its genetic improvement

Association of bone morphogenetic protein-2 gene polymorphisms with susceptibility to ossification of the posterior longitudinal ligament of the spine and its severity in Chinese patients

A case–control study was conducted to examine the association between two single nucleotide polymorphisms (SNPs) in exon 2 of the bone morphogenetic protein-2 gene (BMP-2) and ossification of the posterior longitudinal ligament (OPLL), and to investigate whether SNPs of the Ser37Ala (T/G) and the Ser87Ser (A/G) in the BMP-2 gene are associated with genetic susceptibility to OPLL and its severity in Chinese subjects. The Ser87Ser (A/G) SNP has been implicated in bone mineral density (BMD) and increases the risk of OA in women. The Ser37Ala (T/G) SNP is associated with BMD and the rate of bone loss in osteoporosis and osteoporosis fractures. A total of 57 OPLL patients and 135 non-OPLL controls were studied. Radiographs of the cervical spine were analyzed to determine the presence and the severity of OPLL. The association of two SNPs with the occurrence and the extent of OPLL were statistically evaluated. There was a significant association between the Ser37Ala (T/G) polymorphism and the occurrence of OPLL in the cervical spine. However, no significant association was found between the Ser37Ala (T/G) polymorphism and the more number of ossified cervical vertebrae in OPLL patients. There was a significant association between the Ser87Ser (A/G) polymorphism and the more number of ossified cervical vertebrae in OPLL patients. However, there was no statistical difference between the Ser87Ser (A/G) SNP and the occurrence of OPLL in the cervical spine. In addition, the Ser87Ser (A/G) polymorphism in male patients and in female patients showed no statistical difference between cases and controls. The present results demonstrate that BMP-2 Gene is not only a factor associated with the occurrence of OPLL, but also a factor related to more extensive OPLL. The “G” allele in the Ser37Ala (T/G) polymorphism is associated with the occurrence of OPLL, but not more extensive OPLL in the cervical spine. The “G” allele in the Ser87Ser (A/G) polymorphism promotes the extent of OPLL, whereas the “A” allele in the Ser87Ser (A/G) polymorphism restricts ectopic ossification in the cervical spine at least in Chinese subjects

Turbulent combustion modeling using a flamelet generated manifold approach - a validation study in OpenFOAM

An OpenFOAM based turbulence combustion solver with flamelet generated manifolds (FGMs) is presented in this paper. A series of flamelets, representative for turbulent flames, are calculated first by a one-dimensional (1D) detailed chemistry solver with the consideration of both transport and stretch/curvature contributions. The flame structure is then parameterized as a function of multiple reaction control variables. A manifold, which collects the 1D flame properties, is built from the 1D flame solutions. The control variables of the mixture fraction and the progress variable are solved from the corresponding transport equations. During the calculation, the scalar variables, e.g., temperature and species concentration, are retrieved from the manifolds by interpolation. A transport equation for NO is solved to improve its prediction accuracy. To verify the ability to deal with the enthalpy loss effect, the temperature retrieved directly from the manifolds is compared with the temperature solved from a transport equation of absolute enthalpy. The resulting FGM-computational fluid dynamics (CFD) coupled code has three significant features, i.e., accurate NO prediction, the ability to treat the heat loss effect and the adoption at the turbulence level, and high quality prediction within practical industrial configurations. The proposed method is validated against the Sandia flame D, and good agreement with the experimental data is obtained

An efficient approach to achieve flame acceleration and transition to detonation

This paper presents a novel method to accelerate flame propagation and transition to detonation in a coiled channel. The objective is to bring to light the basic understanding of the phenomenon and to show its potential in the fields of highly efficient combustion or propulsion. It was found that the flame evolution in the coiled channel is significantly different from that in a straight channel. In the flame acceleration stage, the flame propagation velocity increases exponentially in the coiled channel while it increases linearly in the straight channel, primarily due to the existence of a strong velocity gradient in the transverse direction in the coiled channel. Deflagration to detonation transition (DDT) was only observed in the coiled channel under current settings, being triggered by a series of local explosions at the boundary layer. In general, the coiled channel can greatly accelerate the flame and shorten the distance of the DDT compared with the straight channel

Turbulent combustion modeling using a flamelet generated manifold approach—a validation study in OpenFOAM

An OpenFOAM based turbulence combustion solver with flamelet generated manifolds(FGMs) is presented in this paper. A series of flamelets, representative for turbulent flames, are calculated first by a one-dimensional(1D) detailed chemistry solver with the consideration of both transport and stretch/curvature contributions. The flame structure is then parameterized as a function of multiple reaction control variables. A manifold, which collects the 1D flame properties, is built from the 1D flame solutions. The control variables of the mixture fraction and the progress variable are solved from the corresponding transport equations. During the calculation, the scalar variables, e.g., temperature and species concentration, are retrieved from the manifolds by interpolation. A transport equation for NO is solved to improve its prediction accuracy. To verify the ability to deal with the enthalpy loss effect, the temperature retrieved directly from the manifolds is compared with the temperature solved from a transport equation of absolute enthalpy. The resulting FGM-computational fluid dynamics(CFD) coupled code has three significant features, i.e., accurate NO prediction, the ability to treat the heat loss effect and the adoption at the turbulence level, and high quality prediction within practical industrial configurations. The proposed method is validated against the Sandia flame D, and good agreement with the experimental data is obtained

The Internal Anatomy and Water Current System of Cambrian Archaeocyaths of South China

Archaeocyaths are a group of extinct filter feeders that flourished in the early Cambrian period and occupied an important position in the evolution of basal fauna and the early marine ecosystem. However, the detailed morphological and anatomical information of this group are still unclear due to insufficient fossil material and limited experimental analyses. Here, we report exquisitely preserved phosphatized archaeocyathan fossil cups, ca. 515 million years old, from the top of the Shuijingtuo Formation (Series 2, Stage 3) and the Xiannüdong Formation (Series 2, Stage 3) of the Yangtze Platform, South China. Detailed observation of their external morphology via scanning electron microscopy (SEM) and micro-computed tomography (Micro-CT) analysis revealed detailed information of their internal structure. They have a typical double-walled cup, with the perforated inner and outer walls concentrically distributed, but the structure between the two walls differs. The inverted cone-shaped cups have radially distributed septa between the walls. Perforated septa connect the two walls. The low and columnar cups have canals between the two walls, forming the network. These pores and cavities constitute an important component of the water current system (pumping and filtering water with a network of canals and chambers) and influence the process of filtration in the cup. In comparison to traditional thin-section analysis, the combination of SEM and Micro-CT analysis on phosphatized archaeocyaths presented in this study further explored the detailed internal structure and finely reconstructed the microscopic overall morphology and anatomy, which provide important information to help us understand the systematic taxonomy, anatomy, and morphology of archaeocyaths during the Cambrian period

Functional observer-based finite-time adaptive ISMC for continuous systems with unknown nonlinear function

This paper is concerned with functional observer-based finite-time adaptive integral sliding mode control (ISMC) for continuous systems with unknown nonlinear function. First, a novel finite-time ISMC framework is established based on the functional observer whose parameters can be directly found. Second, an adaptive compensator is designed to counteract the effect of the unknown nonlinear function such that the composite integral sliding mode controller ensures that the closed-loop system reaches boundedness in a predefined finite time. Moreover, some sufficient conditions in the form of matrix inequalities are proposed to guarantee the finite-time boundedness with H∞ performance (FTB-H∞) over the sliding phase and the reaching phase of the closed-loop system. Then the FTB-H∞ conditions over the whole finite-time interval are also provided. Due to introducing more degrees of freedom in the functional observer, the designed finite-time integral sliding mode controller is more flexible and less conservative. Finally, a simulation example is given to show the validity of the proposed method

A quasi-direct numerical simulation solver for compressible reacting flows

A new quasi-direct numerical simulation (q-DNS) solver named combustionFoam, capable of simulating reacting flows at arbitrary Mach number with a detailed chemical reaction mechanism, has been developed. This solver is implemented based on reactingFoam-solver from OpenFOAM-v7. The main improvements are a mixture-averaged formula transport model and ability to simulate reacting flows at arbitrary Mach number. The transport model is implemented by developing an data exchange interface to couple OpenFOAM (R) with Cantera. To damped nonphysical oscillations near shocks, a hybrid KT/KNP approach derived by Kraposhin et al. [18] is adopted. This solver was validated by two test cases: (1) a low speed steady two dimensional non-premixed counterflow diffusion flame; (2) a supersonic transient one dimensional detonation waves. Comparisons of the results with data from other solvers and literatures are carried out and good agreements are obtained. (C) 2020 Published by Elsevier Ltd