A novel method for spine ultrasound and X-ray radiograph registration.

Ultrasound is a promising imaging method for scoliosis evaluation because it is radiation free and provide real-time images. However, it cannot provide bony details because ultrasound cannot penetrate the bony structure. Therefore, registration of real-time ultrasound images with the previous X-ray radiograph can help physicians understand the spinal deformity of patients. In this study, an improved free-from deformation registration method based on mutual registration and hierarchical adaptive grid (MRHA-FFD) was developed. The method first performed registration grid preprocessing and then optimized control points and conducted mutual registration. Finally, a Blur-aware Attention Network was adopted for image deblurring. The performance of each step was verified by ablation experiments. Comparison experiment between the proposed method and traditional registration methods was also conducted. The qualitative and quantitative results suggested that MRHA-FFD is a promising approach for registering spine ultrasound image and X-ray radiograph.

Novel automated spinal ultrasound segmentation approach for scoliosis visualization.

Scoliosis is a 3D deformity of the spine in which one or more segments of the spine curve laterally, usually with rotation of the vertebral body. Generally, having a Cobb angle (Cobb) greater than 10° can be considered scoliosis. In spine imaging, reliable and accurate identification and segmentation of bony features are crucial for scoliosis assessment, disease diagnosis, and treatment planning. Compared with commonly used X-ray detection methods, ultrasound has received extensive attention from researchers in the past years because of its lack of radiation, high real-time performance, and low price. On the basis of our previous research on spinal ultrasound imaging, this work combines artificial intelligence methods to create a new spine ultrasound image segmentation model called ultrasound global guidance block network (UGBNet), which provides a completely automatic and reliable spine segmentation and scoliosis visualization approach. Our network incorporates a global guidance block module that integrates spatial and channel attention, through which long-range feature dependencies and contextual scale information are learned. We evaluate the performance of the proposed model in semantic segmentation on spinal ultrasound datasets through extensive experiments with several classical learning segmentation methods, such as UNet. Results show that our method performs better than other approaches. Our UGBNet significantly improves segmentation precision, which can reach 74.2% on the evaluation metric of the Dice score.

Study on the tissue clearing process using different agents by Mueller matrix microscope.

In this paper, we monitor the in vitro tissue clearing process of mouse dorsal skin immersed into two types of agents using Mueller matrix microscope. By Mueller matrix polar decomposition, we can see that the major difference between polarization changes due to two kinds of agents is the opposite trend of phase retardance with clearing. For the insight of the connection between different agents with the microstructural and optical changes of cleared tissues, we establish various models to mimic the dynamic process of microphysical features of tissues with clearing time. The mechanisms considered include refractive index matching, collagen shrinkage, more orderly fibers and birefringence variation. We compare the experimental results with simulations based on a single mechanism model and a combined model, respectively, which confirms that an individual possible mechanism cannot explain the polarization phenomena due to clearing. Also by simulations of various clearing models involving two possible mechanisms, we can speculate that formamide and saturated sucrose as agents have respective impacts on tissue features and then cause different polarization changes with clearing. Specifically, collagen shrinkage plus birefringence reduction can better explain the tissue cleared by formamide, and refractive index match plus increased birefringence model is likely to be a proper description of tissue cleared by sucrose. Both simulations and experiments also validate the potential of Mueller matrix microscope as a good tool to understand the interaction between clearing agents and tissues.

Hemimetabolous genomes reveal molecular basis of termite eusociality.

Around 150 million years ago, eusocial termites evolved from within the cockroaches, 50 million years before eusocial Hymenoptera, such as bees and ants, appeared. Here, we report the 2-Gb genome of the German cockroach, Blattella germanica, and the 1.3-Gb genome of the drywood termite Cryptotermes secundus. We show evolutionary signatures of termite eusociality by comparing the genomes and transcriptomes of three termites and the cockroach against the background of 16 other eusocial and non-eusocial insects. Dramatic adaptive changes in genes underlying the production and perception of pheromones confirm the importance of chemical communication in the termites. These are accompanied by major changes in gene regulation and the molecular evolution of caste determination. Many of these results parallel molecular mechanisms of eusocial evolution in Hymenoptera. However, the specific solutions are remarkably different, thus revealing a striking case of convergence in one of the major evolutionary transitions in biological complexity.

Mueller matrix polarimetry for characterizing microstructural variation of nude mouse skin during tissue optical clearing.

We investigate the polarization features corresponding to changes in the microstructure of nude mouse skin during immersion in a glycerol solution. By comparing the Mueller matrix imaging experiments and Monte Carlo simulations, we examine in detail how the Mueller matrix elements vary with the immersion time. The results indicate that the polarization features represented by Mueller matrix elements m22&m33&m44 and the absolute values of m34&m43 are sensitive to the immersion time. To gain a deeper insight on how the microstructures of the skin vary during the tissue optical clearing (TOC), we set up a sphere-cylinder birefringence model (SCBM) of the skin and carry on simulations corresponding to different TOC mechanisms. The good agreement between the experimental and simulated results confirm that Mueller matrix imaging combined with Monte Carlo simulation is potentially a powerful tool for revealing microscopic features of biological tissues.

Reciprocal genomic evolution in the ant-fungus agricultural symbiosis.

The attine ant-fungus agricultural symbiosis evolved over tens of millions of years, producing complex societies with industrial-scale farming analogous to that of humans. Here we document reciprocal shifts in the genomes and transcriptomes of seven fungus-farming ant species and their fungal cultivars. We show that ant subsistence farming probably originated in the early Tertiary (55-60 MYA), followed by further transitions to the farming of fully domesticated cultivars and leaf-cutting, both arising earlier than previously estimated. Evolutionary modifications in the ants include unprecedented rates of genome-wide structural rearrangement, early loss of arginine biosynthesis and positive selection on chitinase pathways. Modifications of fungal cultivars include loss of a key ligninase domain, changes in chitin synthesis and a reduction in carbohydrate-degrading enzymes as the ants gradually transitioned to functional herbivory. In contrast to human farming, increasing dependence on a single cultivar lineage appears to have been essential to the origin of industrial-scale ant agriculture.

Comparative genomics reveals insights into avian genome evolution and adaptation.

Birds are the most species-rich class of tetrapod vertebrates and have wide relevance across many research fields. We explored bird macroevolution using full genomes from 48 avian species representing all major extant clades. The avian genome is principally characterized by its constrained size, which predominantly arose because of lineage-specific erosion of repetitive elements, large segmental deletions, and gene loss. Avian genomes furthermore show a remarkably high degree of evolutionary stasis at the levels of nucleotide sequence, gene synteny, and chromosomal structure. Despite this pattern of conservation, we detected many non-neutral evolutionary changes in protein-coding genes and noncoding regions. These analyses reveal that pan-avian genomic diversity covaries with adaptations to different lifestyles and convergent evolution of traits.