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Large yellow croaker (Larimichthys crocea), yellow drum (Nibea albiflora), and Chinese seabass (Lateolabrax maculatus) are important economic marine fishes in China. The conserved non-coding elements (CNEs) in the liver tissues of the three kinds of fish are directly or indirectly involved in the regulation of gene expression and affect liver functions. However, the fishes' CNEs and even chromatin accessibility landscape have not been effectively investigated. Hence, this study established the landscapes of the fishes' genome-wide chromatin accessibility and CNEs by detecting regions of the open chromatin in their livers using an assay for transposase-accessible chromatin by high-throughput sequencing (ATAC-seq) and comparative genomics approach. The results showed that Smad1, Sp1, and Foxl1 transcription factor binding motifs were considerably enriched in the chromatin accessibility landscape in the liver of the three species, and the three transcription factors (TFs) had a wide range of common targets. The hypothetical gene set was targeted by one, two, or all three TFs, which was much higher than would be expected for an accidental outcome. The gene sets near the CNEs were mainly enriched through processes such as a macromolecule metabolic process and ribonucleoprotein complex biogenesis. The active CNEs were found in the promoter regions of genes such as ap1g1, hax1, and ndufs2. And 5 CNEs were predicted to be highly conserved active enhancers. These results demonstrated that Smad1, Sp1, and Foxl1 might be related to the liver function in the three fishes. In addition, we found a series of ATAC-seq-labeled CNEs located in the gene promoter regions, and highly conserved H3k27ac + -labeled CNEs located in the liver function genes. The highly conserved nature of these regulatory elements suggests that they play important roles in the liver in fish. This study mined the landscape of chromatin accessibility and CNEs of three important economic fishes to fill the knowledge gaps in this field. Moreover, the work provides useful data for the industrial application and theoretical research of these three fish species.

Friction is a fundamental force that impacts almost all interface-related applications. Over the past decade, there is a revival in our basic understanding and practical applications of the friction. In this review, we discuss the recent progress on solid-liquid interfacial friction from the perspective of interfaces. We first discuss the fundamentals and theoretical evolution of solid-liquid interfacial friction based on both bulk interactions and molecular interactions. Then, we summarize the interfacial friction regulation strategies manifested in both natural surfaces and artificial systems, focusing on how liquid, solid, gas, and hydrodynamic coupling actions mediate interfacial friction. Next, we discuss some practical applications that are inhibited or reinforced by interfacial friction. At last, we present the challenges to further understand and regulate interfacial friction.

Edwardsiella anguillarum is a common bacterial pathogen mainly infected cultivated eel, and outer membrane protein A (OmpA) emulsified with Freund's adjuvant was evaluated as an effective fishery vaccine. However, the role of solo OmpA in the vaccine have not been explored on the molecular mechanism. In this study, we examined the RNA-seq in the liver of European eel (Anguilla anguilla) post the challenge of E. anguillarum in eels injected with the OmpA vaccine, Freund's adjuvant, or PBS to elucidate the alternative splicing (AS) and long noncoding RNA (lncRNA) in the process of E. anguillarum infection and host anti-infection using genome-wide transcriptome. After all eels were challenged by E. anguillarum at 28 d post the injection (dpi), compared to severe pathological changes in the liver of PBS injected eels (Con_inf group), the OmpA immunized eels (OmpA_inf group) showed infiltrated lymphocytes in the liver as well as the Freund's adjuvant inoculated eels (FCIA_inf group) showed slight edema of hepatocytes and blood coagulation. Compared to the Con_inf group, the relative percent survival (RPS) of eels was 77.7% and 44.4% in OmpA_inf and FCIA_inf group. The results of DEGs and DE-transcripts showed 6 samples in the OmpA_inf and FCIA_inf groups were clustered together, which different to 3 samples in the Con_inf group. We found only 35 DEGs between OmpA_inf and FCIA_inf compare to thousands of DEGs in two compares of OmpA_inf vs Con_inf and FCIA_inf Con_inf. GO and KEGG analysis of genes targeted by 37 DE-lncRNAs in co-expression and co-location showed at least 52 GO terms and 2 KEGG pathways were enrichment. The results of AS analysis showed 293 differentially alternative splicing (DAS) genes between OmpA_inf and FCIA_inf were mainly involved in GO terms of catalytic activity, membrane part and biological regulation, and KEGG pathways of signal transduction, immune system and infection disease. Finally, the interaction between proteins expressed by DAS genes and the interaction between DE-lncRNAs and target genes were explored using Cytoscape 3.9.1. The results indicated 66 DAS gene expressed proteins formed total of 50 degrees in 20 networks, and 33 DE-lncRNAs interacted with 194 target genes formed total of 246 and 41 networks in co-expression and co-location. Taken together, after the immunization of OmpA vaccine, compared to Freund's adjuvant inoculation, higher RPS was closely related to DAS genes and DE-lncRNAs in response to E. anguillarum infection in European eels. The OmpA role in vaccine was firstly revealed through AS genes and lncRNAs, and results of this study are of great significance to the development of fishery subunit vaccines.

Galectins are proteins that are involved in the innate immune response against pathogenic microorganisms. In the present study, the gene expression pattern of galectin-1 (named as NaGal-1) and its function in mediating the defense response to bacterial attack were investigated. The tertiary structure of NaGal-1 protein consists of homodimers and each subunit has one carbohydrate recognition domain. Quantitative RT-PCR analysis indicated that NaGal-1 was ubiquitously distributed in all the detected tissues and highly expressed in the swim-bladder of Nibea albiflora, and its expression could be upregulated by the pathogenic Vibrio harveyi attack in the brain. Expression of NaGal-1 protein in HEK 293T cells was distributed in the cytoplasm as well as in the nucleus. The recombinant NaGal-1 protein by prokaryotic expression could agglutinate red blood cells from rabbit, Larimichthys crocea, and N. albiflora. The agglutination of N. albiflora red blood cells by the recombinant NaGal-1 protein was inhibited by peptidoglycan, lactose, D-galactose, and lipopolysaccharide in certain concentrations. In addition, the recombinant NaGal-1 protein agglutinated and killed some gram-negative bacteria including Edwardsiella tarda, Escherichia coli, Photobacterium phosphoreum, Aeromonas hydrophila, Pseudomonas aeruginosa, and Aeromonas veronii. These results set the stage for further studies of NaGal-1 protein in the innate immunity of N. albiflora.

Due to an increasing number of abused drugs dumped into the wastewater, more and more drugs are detected in the water environment, which may affect the survival of aquatic organisms. Lenvatinib is a multi-targeted tyrosine kinase inhibitor, and is clinically used to treat differentiated thyroid cancer, renal epithelial cell carcinoma and liver cancer. However, there are few reports on the effects of lenvatinib in embryos development. In this study, zebrafish embryos were used to evaluate the effect of lenvatinib on cardiovascular development. Well-developed zebrafish embryos were selected at 6 h post fertilization (hpf) and exposed to 0.05 mg/L, 0.1 mg/L and 0.2 mg/L lenvatinib up to 72 hpf. The processed embryos demonstrated cardiac edema, decreased heart rate, prolonged SV-BA distance, inhibited angiogenesis, and blocked blood circulation. Lenvatinib caused cardiac defects in the whole stage of cardiac development and increased the apoptosis of cardiomyocyte. Oxidative stress in the processed embryos was accumulated and inhibiting oxidative stress could rescue cardiac defects induced by lenvatinib. Additionally, we found that lenvatinib downregulated Notch signaling, and the activation of Notch signaling could rescue cardiac developmental defects and downregulate oxidative stress level induced by lenvatinib. Our results suggested that lenvatinib might induce cardiac developmental toxicity through inducing Notch mediated-oxidative stress generation, raising concerns about the harm of exposure to lenvatinib in aquatic organisms.

Manipulating liquid is of great significance in fields from life sciences to industrial applications. Owing to its advantages in manipulating liquids with high precision and flexibility, electrowetting on dielectric (EWOD) has been widely used in various applications. Despite this, its efficient operation generally needs electrode arrays and sophisticated circuit control. Here, we develop a largely unexplored triboelectric wetting (TEW) phenomenon that can directly exploit the triboelectric charges to achieve the programmed and precise water droplet control. This key feature lies in the rational design of a chemical molecular layer that can generate and store triboelectric charges through agile triboelectrification. The TEW eliminates the requirement of the electric circuit design and additional source input and allows for manipulating liquids of various compositions, volumes, and arrays on various substrates in a controllable manner. This previously unexplored wetting mechanism and control strategy will find diverse applications ranging from controllable chemical reactions to surface defogging.

Pressure-sensitive adhesives (PSAs) are extensively used in diverse applications such as semiconductor manufacturing, labeling, and healthcare because of their quick and viscoelasticity-driven physical adhesion to dry surfaces. However, most of the existing PSAs normally fail to maintain or even establish adhesion under harsh conditions, particularly underwater, due to the lack of robust chemical functionalities for chemistry-based adhesion. Meanwhile, these PSAs are incapable of altering the adhesion in response to external stimuli, limiting their employment in applications requiring dynamic adhesion. Here, we develop a chemically functionalized PSA (f-PSA) with enhanced and phototunable underwater adhesion by incorporating an underwater adhesion enhancer (i.e., mussel-inspired catechol) and a photoresponsive functionality (i.e., anthracene) into a standard acrylic PSA matrix. The synergistic coupling of viscoelasticity-driven physical adhesion originating from the matrix with catechol-enabled chemical adhesion secures sufficient interfacial molecular interactions and leads to enhanced underwater adhesion. The efficient dimerization of anthracene via light-triggered cycloaddition facilely mediates the viscoelastic property of f-PSA, rendering the phototunable adhesion. We envision that this f-PSA can open up more opportunities for applications such as underwater manipulation, transfer printing, and medical adhesives.

Frost accretion occurs ubiquitously in various industrial applications and causes tremendous energy and economic loss, as manifested by the Texas power crisis that impacted millions of people over a vast area in 2021. To date, extensive efforts have been made on frost removal by micro-engineering surfaces with superhydrophobicity or lubricity. On such surfaces, air or oil cushions are introduced to suspend the frost layer and promote the rapid frost sliding off, which, although promising, faces the instability of the cushions under extreme frosting conditions. Most existing hydrophilic surfaces, characterized by large interfacial adhesion, have long been deemed unfavorable for frost shedding. Here, we demonstrated that a hydrophilic and slippery surface can achieve efficient defrosting. On such a surface, the hydrophilicity gave rise to a highly interconnected basal frost layer that boosted the substrate-to-frost heat transfer; then, the resulting melted frost readily slid off the surface due to the superb slipperiness. Notably, on our surface, the retained meltwater coverage after frost sliding off was only 2%. In comparison to two control surfaces, for example, surfaces lacking either hydrophilicity or slipperiness, the defrosting efficiency was 13 and 19 times higher and the energy consumption was 2.3 and 6.2 times lower, respectively. Our study highlights the use of a hydrophilic surface for the pronounced defrosting in a broad range of industrial applications.

The large yellow croaker (

Phosphoribosyl pyrophosphate synthetases (EC 2.7.6.1) are key enzymes in the biological synthesis of phosphoribosyl pyrophosphate and are involved in diverse developmental processes. In our previous study, the PRPS1 gene was discovered as a key disease-resistance candidate gene in yellow drum, Nibea albiflora, in response to the infection of Vibrio harveyi, through genome-wide association analysis. This study mainly focused on the characteristics and its roles in immune responses of the PRPS1 gene in yellow drum. In the present study, the NaPRPS1 gene was cloned from yellow drum, encoding a protein of 320 amino acids. Bioinformatic analysis showed that NaPRPS1 was highly conserved during evolution. Quantitative RT-PCR demonstrated that NaPRPS1 was highly expressed in the head-kidney and brain, and its transcription and translation were significantly activated by V. harveyi infection examined by RT-qPCR and immunohistochemistry analysis, respectively. Subcellular localization revealed that NaPRPS1 was localized in cytoplasm. In addition, semi-in vivo pull-down assay coupled with mass spectrometry identified myeloid differentiation factor 88 (MyD88) as an NaPRPS1-interacting patterner, and their interaction was further supported by reciprocal pull-down assay and co-immunoprecipitation. The inducible expression of MyD88 by V. harveyi suggested that the linker molecule MyD88 in innate immune response may play together with NaPRPS1 to coordinate the immune signaling in yellow drum in response to the pathogenic infection. We provide new insights into important functions of PRPS1, especially PRPS1 in the innate immunity of teleost fishes, which will benefit the development of marine fish aquaculture.

Nibea coibor belongs to Sciaenidae and is distributed in the South China Sea, East China Sea, India and the Philippines. In this study, we sequenced the DNA of a male Nibea coibor using PacBio long-read sequencing and generated chromatin interaction data. The genome size of Nibea coibor was estimated to be 611.85~633.88 Mb based on k-mer counts generated with Jellyfish. PacBio sequencing produced 29.26 Gb of HiFi reads, and Hifiasm was used to assemble a 627.60 Mb genome with a contig N50 of 10.66 Mb. We further found the canonical telomeric repeats “TTAGGG” to be present at the telomeres of all 24 chromosomes. The completeness of the assembly was estimated to be 98.9% and 97.8% using BUSCO and Merqury, respectively. Using the combination of ab initio prediction, protein homology and RNAseq annotation, we identified a total of 21,433 protein-coding genes. Phylogenetic analyses showed that Nibea coibor and Nibea albiflora are closely related. The results provide an important basis for research on the genetic breeding and genome evolution of Nibea coibor.

Phosphoribosyl pyrophosphate synthetases (EC 2.7.6.1) are key enzymes in the biological synthesis of phosphoribosyl pyrophosphate and are involved in diverse developmental processes. In our previous study, the

Sex is one of the most important scientific topics, and the existence of sex dimorphism is a conserved feature in vertebrate taxa. The research on sex-determining genes and sex chromosome evolution is a hot topic in biology. The majority of sex-determining genes expressed in somatic cells, and reciprocal interactions between germ cells and somatic cells, are important for gonadal differentiation. However, the knowledge of how signals are transmitted between somatic cells and germ cells remains unclear. In this study, we confirmed the 36 dph was a sex determination critical stage in yellow drum through transcriptome analysis at the early development stages. We further found that Kank1 participated in the germ cells’ motility process in yellow drum through KEGG pathway analysis together with protein-protein interaction network. With the dual-luciferase reporter assay, we detected that Kank1 increased the transcription of dmrt1_Luc gene in CHO cells and 293T cells. Additionally, we observed that Kank1 was not only expressed in the cytoplasm but also in the nucleus in CHO cells through a fluorescence microscope. These results suggest that Kank1 acts as a shuttling protein as in humans and may play a difunctional role at the early gonad development stage in yellow drum, and it not only participated in the germ cells’ motility but also increased the expression of dmrt1 in yellow drum.

Hydrogels have emerged as a landmark soft material for a wide range of applications such as in biomedical devices, soft robotics, artificial electronic skins, and the Internet of Things (IoT). To date, engineering hydrogels that simultaneously possess high stretchability (>3000%) and strong on-skin adhesion (>30 kPa) has not been an easy task. Generally, good stretchability is mainly dominated by the bulk interactions of hydrogels, whereas robust adhesion relies on the interfacial interactions of hydrogels with their surroundings. Here, we report a facile strategy to engineer an ultra-stretchable, highly adhesive and self-healable hydrogel, by virtue of tannic-acid-enabled dynamic interactions (TEDI) to fully substitute conventional covalent crosslinking. The TEDI strategy allows us to synchronously regulate both bulk and interfacial interactions to obtain exciting properties that outperform conventional hydrogels, including an extraordinary stretchability of over 7300%, remarkable self-healing abilities, and a robust on-skin adhesion of 50 kPa. With these intriguing merits, TEDI hydrogels are demonstrated to be a wearable strain sensor that accurately detect the motion of the human body. Moreover, our TEDI strategy unlocks new opportunities to design next-generation ionic hydrogels that may be valuable for applications in wearable electronic devices and healthcare monitoring.

From April to May, 2016, an archaeological survey for Paleolithic sites along the Muling River Basin was carried out jointly by a team from the School of Archaeology of Jilin University, the Institute of Cultural Relics and Archaeology of Heilongjiang Province, and local city and county Cultural Relics Administrative institutes. A total of 21 Paleolithic localities and 974 stone artifacts were found. This paper presents the results of this survey and a typological classification of the stone artifacts found in these localities, which are divided into different industry types (Flake, Blade, and Microblade) through their characteristics. Stratigraphic methods are used to speculate on the ages of the collected assemblages. Then, their functions are discussed through considerations of percussion technique, tool processing, and toolkits. Finally, they are compared with Paleolithic sites of the same age from surrounding areas.

Designing environment-friendly, scalable superhydrophobic coatings with a wide spectrum of robustness in mechanochemical strength, interfacial adhesion, and flame retardancy is critical to low-carbon economy and green environment, especially for green buildings. Simultaneously achieving these preferred functionalities dominated by either interfacial or bulky properties has proved challenging. Herein, we propose an integral skin-inspired triple-layered coating (STC) that resolves conflicting demands imposed by individual features on the structure, component, and thermal property of materials. The STC demonstrates sustained anti-wetting and anti-corrosion even under harsh environments, strong adhesion and anti-abrasion, and excellent flame retardancy, all of which enhance its durability and lifetime so as to eliminate the maintenance and repair, thereby reducing cost and energy consumption. Together with facile spraying fabrication process, our STC paves the way to construct a green and resource-saving society.

Background The dazzling phenotypic characteristics of male Indian peafowl (Pavo cristatus) are attractive both to the female of the species and to humans. However, little is known about the evolution of the phenotype and phylogeny of these birds at the whole-genome level. So far, there are no reports regarding the genetic mechanism of the formation of leucism plumage in this variant of Indian peafowl. Results A draft genome of Indian peafowl was assembled, with a genome size of 1.05 Gb (the sequencing depth is 362×), and contig and scaffold N50 were up to 6.2 and 11.4 Mb, respectively. Compared with other birds, Indian peafowl showed changes in terms of metabolism, immunity, and skeletal and feather development, which provided a novel insight into the phenotypic evolution of peafowl, such as the large body size and feather morphologies. Moreover, we determined that the phylogeny of Indian peafowl was more closely linked to turkey than chicken. Specifically, we first identified that PMEL was a potential causal gene leading to the formation of the leucism plumage variant in Indian peafowl. Conclusions This study provides an Indian peafowl genome of high quality, as well as a novel understanding of phenotypic evolution and phylogeny of Indian peafowl. These results provide a valuable reference for the study of avian genome evolution. Furthermore, the discovery of the genetic mechanism for the development of leucism plumage is both a breakthrough in the exploration of peafowl plumage and also offers clues and directions for further investigations of the avian plumage coloration and artificial breeding in peafowl.

To deal with the issues of high computational cost and prediction uncertainty of numerical models in train-induced ground-borne vibration prediction, a prediction method based on transfer learning is proposed in this study. In this method, the vehicle–track-coupled analytical model and three-dimensional finite element model are first used to calculate the train-induced ground vibration under various condition variables, and these data were used as training samples to pre-train the deep neural network models. Numerous train-induced ground vibration experiments were then conducted along the metro lines in Beijing, and those measured vibration data were used to fine-tune the pre-trained deep neural network model with the transfer learning strategy. A random variable obeying a Gaussian distribution is assumed over the predicted vibration acceleration levels to model the randomness of train-induced vibration, and the parameters of this distribution were determined by the statistical results of vibration monitoring data in the metro tunnels. The fully trained model could complete the prediction of train-induced ground vibration in seconds. Finally, a case study was carried out, by comparing the probabilistic prediction results with the statistical results of the field measurements, and the feasibility and the improvement of the proposed method were demonstrated.

Significance Despite emerging breakthroughs in the achievement of numerous elegant biomimetic structures that impart fascinating functionalities, bioinspired materials still suffer from poor structural durability, chemical reliability, flexibility, and optical transparency, as well as unaffordable cost and low throughput, thus preventing their broad real-life applications. In striking contrast to conventional wisdom, we demonstrate that the usually avoided and detrimental elastic crack phenomenon can be translated into powerful configurable-crack engineering to achieve structures and functions that are impossible to realize even using state-of-the-art techniques. Our approach dramatically enriches the freedom and flexibility in the design of materials to mimic various natural living organisms and paves the road for translating nature’s inspirations into real-world applications., Three-dimensional hierarchical morphologies widely exist in natural and biomimetic materials, which impart preferential functions including liquid and mass transport, energy conversion, and signal transmission for various applications. While notable progress has been made in the design and manufacturing of various hierarchical materials, the state-of-the-art approaches suffer from limited materials selection, high costs, as well as low processing throughput. Herein, by harnessing the configurable elastic crack engineering—controlled formation and configuration of cracks in elastic materials—an effect normally avoided in various industrial processes, we report the development of a facile and powerful technique that enables the faithful transfer of arbitrary hierarchical structures with broad material compatibility and structural and functional integrity. Our work paves the way for the cost-effective, large-scale production of a variety of flexible, inexpensive, and transparent 3D hierarchical and biomimetic materials.

Hydrogels have emerged as a landmark soft material for a wide range of applications such as in biomedical devices, soft robotics, artificial electronic skins, and the Internet of Things (IoT). To date, engineering hydrogels that simultaneously possess high stretchability (3000%) and strong on-skin adhesion (30 kPa) has not been an easy task. Generally, good stretchability is mainly dominated by the bulk interactions of hydrogels, whereas robust adhesion relies on the interfacial interactions of hydrogels with their surroundings. Here, we report a facile strategy to engineer an ultra-stretchable, highly adhesive and self-healable hydrogel, by virtue of tannic-acid-enabled dynamic interactions (TEDI) to fully substitute conventional covalent crosslinking. The TEDI strategy allows us to synchronously regulate both bulk and interfacial interactions to obtain exciting properties that outperform conventional hydrogels, including an extraordinary stretchability of over 7300%, remarkable self-healing abilities, and a robust on-skin adhesion of 50 kPa. With these intriguing merits, TEDI hydrogels are demonstrated to be a wearable strain sensor that accurately detect the motion of the human body. Moreover, our TEDI strategy unlocks new opportunities to design next-generation ionic hydrogels that may be valuable for applications in wearable electronic devices and healthcare monitoring.

Author(s): Ai, Huashui; Zhang, Mingpeng; Yang, Bin; Goldberg, Amy; Li, Wanbo; Ma, Junwu; Brandt, Debora; Zhang, Zhiyan; Nielsen, Rasmus; Huang, Lusheng | Abstract: Throughout its distribution across Eurasia, domestic pig (Sus scrofa) populations have acquired differences through natural and artificial selection, and have often interbred. We re-sequenced 80 Eurasian pigs from 9 different Asian and European breeds; we identify 42,288 reliable SNPs on the Y chromosome in a panel of 103 males, among which 96.1% are newly detected. Based on these new data, we elucidate the evolutionary history of pigs through the lens of the Y chromosome. We identify two highly divergent haplogroups: one present only in Asia and one fixed in Europe but present in some Asian populations. Analyzing the European haplotypes present in Asian populations, we find evidence of three independent waves of introgression from Europe to Asia in last 200 years, agreeing well with the literature and historical records. The diverse European lineages were brought in China by humans and left significant imprints not only on the autosomes but also on the Y chromosome of geographically and genetically distinct Chinese pig breeds. We also find a general excess of European ancestry on Y chromosomes relative to autosomes in Chinese pigs, an observation that cannot be explained solely by sex biased migration and genetic drift. The European Y haplotype is associated with leaner meat production, and we hypothesize that the European Y chromosome increased in frequency in Chinese populations due to artificial selection. We find evidence of Y chromosomal gene-flow between Sumatran wild boar and Chinese pigs. Our results demonstrate how human-mediated admixture and selection shaped the distribution of modern swine Y-chromosomes.

The limited knowledge of genomic noncoding and regulatory regions has restricted our ability to decipher the genetic mechanisms underlying complex traits in pigs. In this study, we characterized the spatiotemporal landscape of putative enhancers and promoters and their target genes by combining H3K27ac-targeted ChIP-Seq and RNA-Seq in fetal (prenatal days 74-75) and adult (postnatal days 132-150) tissues (brain, liver, heart, muscle and small intestine) sampled from Asian aboriginal Bama Xiang and European highly selected Large White pigs of both sexes. We identified 101,290 H3K27ac peaks, marking 18,521 promoters and 82,769 enhancers, including peaks that were active across all tissues and developmental stages (which could indicate safe harbor locus for exogenous gene insertion) and tissue- and developmental stage-specific peaks (which regulate gene pathways matching tissue- and developmental stage-specific physiological functions). We found that H3K27ac and DNA methylation in the promoter region of the XIST gene may be involved in X chromosome inactivation and demonstrated the utility of the present resource for revealing the regulatory patterns of known causal genes and prioritizing candidate causal variants for complex traits in pigs. In addition, we identified an average of 1,124 super-enhancers per sample and found that they were more likely to show tissue-specific activity than ordinary peaks. We have developed a web browser to improve the accessibility of the results ( http://segtp.jxau.edu.cn/pencode/?genome=susScr11 ).

The limited knowledge of genomic non-coding and regulatory regions has limited our ability to decipher the genetic mechanisms underlying complex traits in pigs. In this study, we characterize the spatiotemporal landscape of putative enhancers and promoters and their target genes by combining H3K27ac targeted ChIP-Seq and RNA-Seq in fetal (day 74-75 pc) and adult (day 132-150 pn) tissues (brain, liver, heart, muscle and small intestine) sampled from Asian aboriginal Bamaxiang and European highly selected Large White pigs of both sexes. We identify 101,290 H3K27ac peaks marking 18,521 promoters and 82,769 enhancers, including peaks that are active across all tissues and developmental stages could indicate safe harbors for exogenous gene insertion, and tissue and developmental-stage specific peaks that regulate genes pathways matching tissue and developmental stage specific physiological functions. We found H3K27ac and DNA methylation in the promoter region of the XIST gene may involve in X chromosome inactivation, and demonstrate utility of the present resource to reveal regulatory patterns of known causal genes and to prioritize candidate causal variants for complex traits in pigs. We have developed a web browser to improve the accessibility of the results (http://39.108.231.116/browser/?genome=susScr11).

Background : Indian peafowl ( Pavo cristatus ) attracts people's attention because of the exclusively dazzling phenotypic characteristics. However, little is known about the phenotypic evolution and phylogeny of Indian peafowl at the whole-genome level. So far, there has been no report on the genetic mechanism of the formation of white feather in white feather peafowl. Results : This study assembled a draft genome of Indian peafowl with a genome size of 1.05 Gb (the sequencing depth is 362×), and N50 of the contig and scaffold was up to 6.2 Mb and 11.4 Mb, respectively. Compared with other birds, Indian peafowl changed in terms of metabolism, immunity, skeletal development and feather development, which provided a novel insight into the phenotypic evolution of peafowl, such as the large body size and feather morphologies. It was confirmed that the phylogeny of Indian peafowl was closer to that of turkey than that of chicken. Specially, it was identified that PMEL was a causal gene leading to the formation of white plumage in blue and white feather peafowl. Conclusions: This study provides a peafowl genome with high-quality as well as a novel understanding in the phenotypic evolution and phylogeny of peafowl among other birds. The results contribute a valuable reference genome to the study of the avian genome evolution. In addition, the discovery of the genetic mechanism of white plumage not only is a breakthrough in the exploration of peafowl plumage, but also provides clues and new ideas for further investigations of the avian plumage coloration and artificial breeding in peafowl.

The epigenetic regulation of gene expression is implicated in complex diseases in humans and various phenotypes in other species. There has been little exploration of regulatory elements in the pig. Here, we performed chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-Seq) to profile histone H3 lysine 4 trimethylation (H3K4me3) and histone H3 lysine 27 acetylation (H3K27ac) in the pituitary gland of adult Bama Xiang and Large White pigs, which have divergent evolutionary histories and large phenotypic differences. We identified a total of 65,044 non-redundant regulatory regions, including 23,680 H3K4me3 peaks and 61,791 H3K27ac peaks (12,318 proximal and 49,473 distal), augmenting the catalog of pituitary regulatory elements in pigs. We found 793 H3K4me3 and 3,602 H3K27ac peaks that show differential activity between the two breeds, overlapping with genes involved in the Notch signaling pathway, response to growth hormone (GH), thyroid hormone signaling pathway, and immune system, and enriched for binding motifs of transcription factors (TFs), including JunB, ATF3, FRA1, and BATF. We further identified 2,025 non-redundant super enhancers from H3K27ac ChIP-seq data, among which 302 were shared in all samples of cover genes enriched for biological processes related to pituitary function. This study generated a valuable dataset of H3K4me3 and H3K27ac regions in porcine pituitary glands and revealed H3K4me3 and H3K27ac peaks with differential activity between Bama Xiang and Large White pigs.

The study of sign language involves the intersection of many fields and disciplines. At present, the two mainstream research directions of sign language recognition are data gloves[1] and visual sign language recognition[2]. The former uses the data collected by the sensor for sign language recognition and translation, while the latter uses the camera to capture the user's hand characteristics for sign language recognition and translation. In this paper, an improved convolutional neural network (CNN)[3] and long short-term memory(LSTM)[4] neural network combined sign language recognition system, which is different from the current only for sign language recognition and translation, but also for sign language generation function is designed. For the first time, this system uses a PyQt designed GUI interface. Once in the system, users can select sign language recognition and translation capabilities, capture images via OpenCV, and then use the trained CNN neural network for special processing. The model can then identify American sign language through LSTM decisions. The user can also click the voice button, the system will be based on the user's voice to convert the corresponding gesture image into the same pixels, and write to the video file. Experimental results show that sign language recognition rate is 95.52% compared with similar algorithms [5], and sign language[6] (American sign language and Arabic numerals) is 90.3%.

Lenvatinib is a multi-kinase inhibitor for widely treating thyroid cancer. However, little studies have been done about it or its toxicity on embryonic development of vertebrate. In this study, we used zebrafish to assess the effect of lenvatinib on early embryonic development. Exposure of zebrafish embryos to 58, 117, 176 nM lenvatinib induced abnormal embryonic development, such as decreased heart rate, pericardial edema, delayed yolk absorption, and bladder atrophy. Lenvatinib exposure reduced liver area and down-regulated liver developmental related genes. The proliferation of hepatocytes and the expression of apoptosis-related genes were significantly reduced.by Lenvatinib. Furthermore, the imbalance of liver metabolism and abnormal liver tissue structure were observed in adult zebrafish after Lenvatinib exposure. Oxidative stress was up-regulated by lenvatinib and astaxanthin partially rescued hepatic developmental defects via downregulating oxidative stress. After lenvatinib exposure, Wnt signaling was down-regulated, and activation of Wnt signaling partially rescued hepatic developmental defects. Therefore, these results suggested that lenvatinib might induce zebrafish hepatotoxicity by down-regulating Wnt signaling related genes and inducing oxidative stress. This study provides a reference for the potential hepatotoxicity of lenvatinib during embryonic development and raises health concern about the potential harm of exposure to lenvatinib for foetuses.

Harvesting energy from water, in the form of raindrops, river, and ocean waves, is of considerable importance and has potential applications in self‐powered electronic devices and large‐scale energy needs. Recently, the droplet‐based electricity generator has shown an increase by several orders of magnitude in electrical output, overcoming the drawback of traditional droplet‐based device limited by interfacial effects. Despite this exciting result, the output performance of this novel droplet‐based electricity generator is limited by relatively low frequency of impinging droplets owing to the formation of a continuous liquid film at high impact frequency, which might hinder its practical applications. To overcome this challenge, here, we report the design of a superhydrophobic surface based droplet electricity generator, referred to as SHS‐DEG, which can timely shed water droplets from the surface without the formation of liquid film at high impact frequency, and thereby generating enhanced average electrical output. Moreover, our SHS‐DEG exhibits many distinctive advantages over conventional design including robustness, long‐term durability, and power generation stability even in harsh environments. We envision that the ability to harvest electrical energy from water droplets at high impact frequency has promising applications in various energy‐harvesting systems.

Cultured large yellow croaker (Larimichthys crocea) is frequently infected by bacteria, thus developing small white granulomas in the spleen and kidneys with high mortality in a few days. We performed a genome-wide association study (GWAS) on the trait of resistance to Pseudomonas plecoglossicida infection in a large yellow croaker population in 222 extreme-phenotype samplings using the whole-genome resequencing technology. With the 254,110 detected SNPs for the trait, three candidate regions associated with disease resistance were found on chromosomes 3, 5 and 20. By combing our GWAS results with the biological functional analysis of immunity genes, we found that IL10, THBS1, IGSF21, IGR and IGH as well as IRF8, TRAIL, CC, TNF and LINGO1 are candidate genes of the disease resistance trait in the large yellow croaker. Moreover, after comparison with transcriptome sequencing data, we found that the candidate genes from GWAS were actually up-regulated or down-regulated. This is the first time that a GWAS combined with a transcriptome-wide study was performed on disease resistance to detect candidate loci and find potential functionally relevant genes in the large yellow croaker.

The large yellow croaker (Larimichthys crocea) is one of the most economically valuable mariculture fish in China. Infection of Pseudomonas plecoglossicida can cause an outbreak of “internal organ white-spot disease”, which seriously affects the aquaculture of the large yellow croaker. Ubiquitylation is closely related to the post-translation modification of proteins and plays a vital role in many hosts’ immune defense pathways, while the E2-binding enzyme is a key factor in ubiquitination. Our previous genome-wide association study found that the ubiquitin-binding enzyme E2G1 (designed LcUbe2g1) was one of the candidate genes related to disease resistance in large yellow croaker. In this study, we analyzed the molecular characteristics, function, and immune mechanism of the LcUbe2g1. The full-length cDNA is 812 bp, with an open reading frame of 513 bp, encoding 170 amino acid residues. The results of the RT-qPCR and immunohistochemistry analysis revealed that its transcription and translation were significantly activated by the infection of P. plecoglossicida in large yellow croaker. Immunocytochemistry experiments verified the co-localization of LcUBE2G1 and the ubiquitin proteins in the head kidney cells of large yellow croaker. Through GST pull-down, we found that LcUBE2G1 interacted with NEDD8 to co-regulate the ubiquitination process. The above results indicate that LcUBE2G1 is essential in the regulation of ubiquitination against P. plecoglossicida infection in large yellow croaker, which lays a foundation for further study on the resistance mechanism of internal organ white-spot disease.

Surface bacterial fouling has become an urgent global challenge that calls for resilient solutions. Despite the effectiveness in combating bacterial invasion, antibiotics are susceptible to causing microbial antibiotic resistance that threatens human health and compromises the medication efficacy. In nature, many organisms have evolved a myriad of surfaces with specific physicochemical properties to combat bacteria in diverse environments, providing important inspirations for implementing bioinspired approaches. This review highlights representative natural antibacterial surfaces and discusses their corresponding mechanisms, including repelling adherent bacteria through tailoring surface wettability and mechanically killing bacteria via engineering surface textures. Following this, we present the recent progress in bioinspired active and passive antibacterial strategies. Finally, the biomedical applications and the prospects of these antibacterial surfaces are discussed.

Designing scalable coatings with a wide spectrum of functions such as liquid repellency, anticorrosion, and antiflaming and a high level of mechano-chemical-thermal robustness is crucial in real-life applications. However, these individual functionalities and robustness are coupled together or even have conflicting requirements on the interfacial or bulky properties of materials, and thus, simultaneously integrating all these individual features into one coating has proved challenging. Herein, an integral skin-inspired triple-layered coating (STC) that resolves conflicting demands imposed by individual features on the structural, chemical, mechanical, and thermal properties of materials is proposed. Specifically, the rational design of multiple gradients in roughness, wetting, strength, and flame retardancy and the formation of continuous interfaces along its triple layers endow a sustained liquid repellency, anticorrosion, and flame retardancy even under harsh environments, as well as strong antiabrasion on surfaces and adhesion with the substrate. Such an all-in-one design enhances the durability and lifetime of coatings and reduces the maintenance and repair, thereby contributing to cost and energy saving. Together with a facile spraying fabrication process, this STC provides a feasible and sustainable strategy for constructing energy and resource-saving materials.

Yellow drum (Nibea albiflora) is an important fish species in capture fishery and aquaculture in East Asia. We herein report the first and near-complete genome assembly of an ultra-homologous gynogenic female yellow drum using Illumina short sequencing reads. In summary, a total of 154.2 Gb of raw reads were generated via whole-genome sequencing and were assembled to 565.3 Mb genome with a contig N50 size of 50.3 kb and scaffold N50 size of 2.2 Mb (BUSCO completeness of 97.7%), accounting for 97.3%-98.6% of the estimated genome size of this fish. We further identified 22,448 genes using combined methods of ab initio prediction, RNAseq annotation, and protein homology searching, of which 21,614 (96.3%) were functionally annotated in NCBI nr, trEMBL, SwissProt, and KOG databases. We also investigated the nucleotide diversity (around 1/390) of aquacultured individuals and found the genetic diversity of the aquacultured population decreased due to inbreeding. Evolutionary analyses illustrated significantly expanded and extracted gene families, such as myosin and sodium: neurotransmitter symporter (SNF), could help explain swimming motility of yellow drum. The presented genome will be an important resource for future studies on population genetics, conservation, understanding of evolutionary history and genetic breeding of the yellow drum and other Nibea species.

To determine the genetic basis of pork eating quality traits and cooking loss, we herein performed a genome-wide association study (GWAS) for tenderness, juiciness, oiliness, umami, overall liking and cooking loss by using whole genome sequences of heterogeneous stock F6 pigs which were generated by crossing 4 typical western pig breeds (Duroc, Landrace, Large White and Pietrain) and 4 typical Asian pig breeds (Erhualian, Laiwu, Bamaxiang and Tibetan). We identified 50 associated loci (QTLs) and most of them are novel. Seven loci also showed pleiotropic associations with different traits. In addition, we identified multiple promising candidate genes for these traits, including PAK1 and AQP11 for cooking loss, EP300 for tenderness, SDK1 for juiciness, FITM2 and 5-linked MYH genes for oiliness, and TNNI2 and TNNT3 for overall liking. Our results provide not only a better understanding of the genetic basis for meat quality, but also a potential application in future breeding for these complex traits.

Galectins are protein that participates in a variety of immune responses in the process of pathogenic infections. In the present study, a chimera galectin gene was screened from the transcriptome database of Nibea albiflora, which was named as YdGal-3. The results of qRT-PCR showed that the mRNA transcripts of YdGal-3 were ubiquitously distributed in all the detected tissues. After infection with Vibrio harveyi, the expression of YdGal-3 in liver, spleen, and head kidney increased significantly. Immunohistochemistry showed that YdGal-3 protein was widely expressed in the head kidney. The purified YdGal-3 protein by prokaryotic expression agglutinated red blood cells. Sugar inhibition assay showed that the agglutinating activity of YdGal-3 protein was inhibited by different sugars including lactose, D-galactose, and lipopolysaccharide. In addition, we mutated YdGal-3 His 294 into proline (P), alanine (A), glycine (G), and aspartic acid (D), it was further proved that the residue plays a key role in agglutination. YdGal-3 agglutinated some gram-negative bacteria including Pseudomonas plecoglossicida, Vibrio parahemolyticus, V. harveyi, and Aeromonas hydrophila, and exhibited antibacterial activity. These results suggested that YdGal-3 protein played an important role in the innate immunity of N. albiflora.

Autosomal origins of heterogametic sex chromosomes have been inferred frequently from suppressed recombination and gene degeneration manifested in incompletely differentiated sex chromosomes. However, the initial transition of an autosome region to a proto-sex locus has been not explored in depth. By assembling and analyzing a chromosome-level draft genome, we found a recent (evolved 0.26 million years ago), highly homologous, anddmrt1containing sex-determination locus with slightly reduced recombination in large yellow croaker (Larimichthys crocea), a teleost species with genetic sex determination (GSD) and with undifferentiated sex chromosomes. We observed genomic homology and polymorphic segregation of the proto-sex locus between sexes. Expression ofdmrt1showed a stepwise increase in the development of testis, but not in the ovary. We infer that the inception of the proto-sex locus involves a few divergences in nucleotide sequences and slight suppression of recombination in an autosome region. In androgen-induced sex reversal of genetic females, in addition todmrt1, genes in the conserveddmrt1cluster, and the rest of the sex determination network were activated. We provided evidence that broad functional links were shared by genetic sex determination and environmental sex reversal.

Defect engineering of enzyme-MOF composites by microfluidics engenders high enzymatic activity., Mimicking the cellular environment, metal-organic frameworks (MOFs) are promising for encapsulating enzymes for general applications in environments often unfavorable for native enzymes. Markedly different from previous researches based on bulk solution synthesis, here, we report the synthesis of enzyme-embedded MOFs in a microfluidic laminar flow. The continuously changed concentrations of MOF precursors in the gradient mixing on-chip resulted in structural defects in products. This defect-generating phenomenon enables multimodal pore size distribution in MOFs and therefore allows improved access of substrates to encapsulated enzymes while maintaining the protection to the enzymes. Thus, the as-produced enzyme-MOF composites showed much higher (~one order of magnitude) biological activity than those from conventional bulk solution synthesis. This work suggests that while microfluidic flow synthesis is currently underexplored, it is a promising strategy in producing highly active enzyme-MOF composites.

Sex-specific markers have important implications in genetic improvements of economical traits in aquacultured fish. Yellow drum (Nibea albiflora) is a commercially important fish species distributed in China, Southern Japan and Korea, exhibiting a sex-dependent dimorphic growth pattern where females grow much faster than males. Yet its sex determination mechanism was unclear and sex-specific markers were missing. In this study, a 45 bp deletion within the first intron of Dmrt1 was detected only in males through comparative analysis between males and females. Two pairs of primers (male-specific primers MS-F/R and male and female shared-primers MFS-F/R) were designed to efficiently distinguish the genetic sex of the yellow drum. Importantly, genotyping the deletion in large cohorts of both artificially bred and wild yellow drum confirmed its male-specific property. Our results showed that this male-specific genetic marker could be used to establish a simple and reproducible method for genetic sex identification. Furthermore, the fact in which males are heterozygotes and females are homozygotes of the marker indicates that yellow drum adopted the male heterogametic XX/XY sex determination system.