Identification of Susceptibility Genes Underlying Bovine Respiratory Disease in Xinjiang Brown Cattle Based on DNA Methylation.

DNA methylation is a form of epigenetic regulation, having pivotal parts in controlling cellular expansion and expression levels within genes. Although blood DNA methylation has been studied in humans and other species, its prominence in cattle is largely unknown. This study aimed to methodically probe the genomic methylation map of Xinjiang brown (XJB) cattle suffering from bovine respiratory disease (BRD), consequently widening cattle blood methylome ranges. Genome-wide DNA methylation profiling of the XJB blood was investigated through whole-genome bisulfite sequencing (WGBS). Many differentially methylated regions (DMRs) obtained by comparing the cases and controls groups were found within the CG, CHG, and CHH (where H is A, T, or C) sequences (16,765, 7502, and 2656, respectively), encompassing 4334 differentially methylated genes (DMGs). Furthermore, GO/KEGG analyses showed that some DMGs were involved within immune response pathways. Combining WGBS-Seq data and existing RNA-Seq data, we identified 71 significantly differentially methylated (DMGs) and expressed (DEGs) genes (p < 0.05). Next, complementary analyses identified nine DMGs (LTA, STAT3, IKBKG, IRAK1, NOD2, TLR2, TNFRSF1A, and IKBKB) that might be involved in the immune response of XJB cattle infected with respiratory diseases. Although further investigations are needed to confirm their exact implication in the involved immune processes, these genes could potentially be used for a marker-assisted selection of animals resistant to BRD. This study also provides new knowledge regarding epigenetic control for the bovine respiratory immune process.

Sustainable Conversion of Harmful Algae Biomass into a CO2 Reduction Electrocatalyst for Two-Fold Carbon Utilization.

Harmful algae blooms (HABs) frequently occur all over the world and cause great harm to the environment, human health, and aquatic ecosystems. However, owing to their great growth rate and large nutrient intake capacity, algae can enrich a large amount of carbon (CO2) and nutritional elements (N and P) in their biomass. Thus, this could be applied as a robust approach to battle global warming and water eutrophication if the harmful algae biomass was effectively harvested and utilized. Herein, we propose a thermochemical approach to convert algae biomass into a nitrogen-doped electrocatalyst for CO2 reduction. The as-synthesized carbon catalyst exhibits a favorable electrochemical CO2 reduction activity. The key drivers of the environmental impacts in the thermochemical conversion approach with a comparison with the commonly used landfilling approach are identified with life cycle assessment. The former presents much lower environmental burdens in terms of impacts such as freshwater/terrestrial ecotoxicity and human toxicity than the latter. Moreover, if the thermochemical conversion process was successfully applied for biomass conversion worldwide, 2.17 × 108 tons of CO2-eq, 8.42 × 106 tons of N, and 1.21 × 106 tons of P could be removed from the global carbon and other element cycles. Meanwhile, the thermochemical approach is also similar to landfilling in terms of costs. The results from this work provide a brand-new perspective for achieving twofold CO2 utilization and efficiently battling harmful algae blooms.

Candidate genes for litter size in Xinjiang sheep identified by Specific Locus Amplified Fragment (SLAF) sequencing.

The aim of this study was to investigate the selection signatures at a genome-wide level in 'Pishan' sheep using Specific Locus Amplified Fragment (SLAF)-seq. Blood samples from 126 ewes were sequenced using SLAF tags, and the ovarian tissues from 8 ewes (Bashbay sheep, a single litter size group (SG group); 'Pishan' sheep, double litter size group (DG group)) were collected to detect expression levels by quantitative real-time reverse transcription polymerase chain reaction (qRT-PCR). Selection signature analysis was performed using global fixation index (Fst) and nucleotide diversity (π) ratio. A total of 1,192,168 high-quality SLAFs were identified. Notably, 2380 candidate regions under selection using two approaches were identified. A total of 2069 genes were identified, which were involved in dopaminergic synapses, thyroid hormone synthesis, ovarian steroidogenesis and thyroid hormone signalling pathways. Furthermore, Growth Differentiation Factor 9 (GDF9), Period Circadian Regulator 2 (PER2), Thyroid Stimulating Hormone Receptor (TSHR), and Nuclear Receptor Coactivator 1 (NCOA1) reside within these regions and pathways. The expression levels of GDF9 and PER2 genes in sheep tissue of the DG group were significantly higher than those in the SG group. These genes are interesting candidates for litter size and provide a starting point for further identification of conservation strategies for 'Pishan' sheep.

Transcriptome profiling of LncRNAs in sheep tail fat deposition.

LncRNAs have recently received special attention due to their critical role in many important biological processes. There are few reports on its regulatory function in sheep fat deposition. In this study, two sheep populations with different tail types in Xinjiang, Bashibai sheep (fat-tailed) and the hybrid population of Bashibai sheep and wild argali (small-tailed) were selected for whole transcriptome sequencing from their tail tissues. First, 728 differentially expressed LncRNAs of tail fat between Bashibai and F2 sheep were identified by RNA-seq. Second, the tissue expression profile and relative expression difference between Bashibai and F2 sheep of 2 of 728 DE LncRNAs were analyzed by RT-PCR. LncRNA-MSTRG.24995 was highly expressed in tail fat, while lncRNA-MSTRG.36913 was highly expressed in subcutaneous fat. In addition, the expressions of LncRNA-MSTRG.24995 and LncRNA-MSTRG.36913 in tail fat of F2 sheep were significantly lower than that of Bashibai sheep, while those patterns in longissimus dorsi, quadriceps femoris and rumen were reversed. Third, the expression pattern of target genes FASN and THRSP in each tissue was similar with that of corresponding LncRNAs. The LncRNA-MSTRG.24995 directly affects tail fat deposition by FASN gene, while the LncRNA-MSTRG.36913 indirectly affects that by THRSP gene. This will help us to understand molecular mechanism of fat tail deposition from transcriptomic perspectives.

Study on lactation performance and development of KASP marker for milk traits in Xinjiang donkey (Equus asinus).

Donkey milk has high nutritional and medicinal value, but there are few researches in donkey milk traits, especially on genome. The whole lactation of 89 donkeys was recorded and it was found that Xinjiang donkey had good lactation performance while great differences among individuals. In our previous study, four genes including LGALS2, NUMB, ADCY8 and CA8 were identified as milk-associated with Chinese Kazakh house, based on Equine 670k Chip genomic analysis. And then 15 SNPs of the four key genes were conducted for genotyping in Xinjiang donkey in this study, one of Chinese indigenous breed, 14 SNPs were successful classified. And those SNPs were correlation analysis with milk yield of Xinjiang donkeys. The results showed that NUMB g.46709914T > G was significantly correlated with daily milk yield of Xinjiang donkey in the early, middle, and late periods, while ADCY8 g.48366302T > C, CA8 g.89567442T > G and CA8 g.89598328T > A were significantly correlated with lactation in the late periods. These results indicate that NUMB g.46709914T > G can be as markers of candidate genes for lactating traits in donkeys, SNPs of ADCY8 and CA8 as potential. Our findings will not only help confirm key genes for donkey milk traits, but also provide future for genomic selection in donkeys.

Exosomal RNAs: Novel Potential Biomarkers for Diseases-A Review.

Exosomes are a subset of nano-sized extracellular vesicles originating from endosomes. Exosomes mediate cell-to-cell communication with their cargos, which includes mRNAs, miRNAs, lncRNAs, and circRNAs. Exosomal RNAs have cell specificity and reflect the conditions of their donor cells. Notably, their detection in biofluids can be used as a diagnostic marker for various diseases. Exosomal RNAs are ideal biomarkers because their surrounding membranes confer stability and they are detectable in almost all biofluids, which helps to reduce trauma and avoid invasive examinations. However, knowledge of exosomal biomarkers remains scarce. The present review summarizes the biogenesis, secretion, and uptake of exosomes, the current researches exploring exosomal mRNAs, miRNAs, lncRNAs, and circRNAs as potential biomarkers for the diagnosis of human diseases, as well as recent techniques of exosome isolation.

Review on upgrading organic waste to value-added carbon materials for energy and environmental applications.

Value-added materials such as biochar and activated carbon that are produced using thermo-chemical conversion of organic waste have gained an emerging interest for the application in the fields of energy and environment because of their low cost and unique physico-chemical properties. Organic waste-derived materials have multifunctional abilities in the field of environment for capturing greenhouse gases and remediation of contaminated soil and water as well as in the field of energy storage and conversion. This review critically evaluates and discusses the current thermo-chemical approaches for upgrading organic waste to value-added carbon materials, performance enhancement of these materials via activation and/or surface modification, and recent research findings related to energy and environmental applications. Moreover, this review provides detailed guidelines for preparing high-performance organic waste-derived materials and insights for their potential applications. Key challenges associated with the sustainable management of organic waste for ecological and socio-economic benefits and potential solutions are also discussed.

Fates of Chemical Elements in Biomass during Its Pyrolysis.

Biomass is increasingly perceived as a renewable resource rather than as an organic solid waste today, as it can be converted to various chemicals, biofuels, and solid biochar using modern processes. In the past few years, pyrolysis has attracted growing interest as a promising versatile platform to convert biomass into valuable resources. However, an efficient and selective conversion process is still difficult to be realized due to the complex nature of biomass, which usually makes the products complicated. Furthermore, various contaminants and inorganic elements (e.g., heavy metals, nitrogen, phosphorus, sulfur, and chlorine) embodied in biomass may be transferred into pyrolysis products or released into the environment, arousing environmental pollution concerns. Understanding their behaviors in biomass pyrolysis is essential to optimizing the pyrolysis process for efficient resource recovery and less environmental pollution. However, there is no comprehensive review so far about the fates of chemical elements in biomass during its pyrolysis. Here, we provide a critical review about the fates of main chemical elements (C, H, O, N, P, Cl, S, and metals) in biomass during its pyrolysis. We overview the research advances about the emission, transformation, and distribution of elements in biomass pyrolysis, discuss the present challenges for resource-oriented conversion and pollution abatement, highlight the importance and significance of understanding the fate of elements during pyrolysis, and outlook the future development directions for process control. The review provides useful information for developing sustainable biomass pyrolysis processes with an improved efficiency and selectivity as well as minimized environmental impacts, and encourages more research efforts from the scientific communities of chemistry, the environment, and energy.

Pseudocapacitive Ni-Co-Fe Hydroxides/N-Doped Carbon Nanoplates-Based Electrocatalyst for Efficient Oxygen Evolution.

The oxygen evolution reaction (OER) catalytic activity of a transition metal oxides/hydroxides based electrocatalyst is related to its pseudocapacitance at potentials lower than the OER standard potential. Thus, a well-defined pseudocapacitance could be a great supplement to boost OER. Herein, a highly pseudocapacitive Ni-Fe-Co hydroxides/N-doped carbon nanoplates (NiCoFe-NC)-based electrocatalyst is synthesized using a facile one-pot solvothermal approach. The NiCoFe-NC has a great pseudocapacitive performance with 1849 F g-1 specific capacitance and 31.5 Wh kg-1 energy density. This material also exhibits an excellent OER catalytic activity comparable to the benchmark RuO2 catalysts (an initiating overpotential of 160 mV and delivering 10 mA cm-2 current density at 250 mV, with a Tafel slope of 31 mV dec-1 ). The catalytic performance of the optimized NiCoFe-NC catalyst could keep 24 h. X-ray photoelectron spectroscopy, electrochemically active surface area, and other physicochemical and electrochemical analyses reveal that its great OER catalytic activity is ascribed to the Ni-Co hydroxides with modular 2-Dimensional layered structure, the synergistic interactions among the Fe(III) species and Ni, Co metal centers, and the improved hydrophily endowed by the incorporation of N-doped carbon hydrogel. This work might provide a useful and general strategy to design and synthesize high-performance metal (hydr)oxides OER electrocatalysts.

Magnesium Oxide Embedded Nitrogen Self-Doped Biochar Composites: Fast and High-Efficiency Adsorption of Heavy Metals in an Aqueous Solution.

Lead (Pb) pollution in natural water bodies is an environmental concern due to toxic effects on aquatic ecosystems and human health, while adsorption is an effective approach to remove Pb from the water. Surface interactions between adsorbents and adsorbates play a dominant role in the adsorption process, and properly engineering a material's surface property is critical to the improvement of adsorption performance. In this study, the magnesium oxide (MgO) nanoparticles stabilized on the N-doped biochar (MgO@N-biochar) were synthesized by one-pot fast pyrolysis of an MgCl2-loaded N-enriched hydrophyte biomass as a way to increase the exchangeable ions and N-containing functional groups and facilitate the adsorption of Pb2+. The as-synthesized MgO@N-biochar has a high performance with Pb in an aqueous solution with a large adsorption capacity (893 mg/g), a very short equilibrium time (<10 min), and a large throughput (∼4450 BV). Results show that this excellent adsorption performance can be maintained with various environmentally relevant interferences including pH, natural organic matter, and other metal ions, suggesting that the material may be suitable for the treatment of wastewater, natural bodies of water, and even drinking water. In addition, MgO@N-biochar quickly and efficiently removed Cd2+ and tetracycline. Multiple characterizations and comparative tests have been performed to demonstrate the surface adsorption and ion exchange contributed to partial Pb adsorption, and it can be inferred from these results that the high performance of MgO@N-biochar is mainly due to the surface coordination of Pb2+ and C═O or O═C-O, pyridinic, pyridonic, and pyrrolic N. This work suggests that engineering surface functional groups of biochar may be crucial for the development of high performance heavy metal adsorbents.

Use of Nutrient Rich Hydrophytes to Create N,P-Dually Doped Porous Carbon with Robust Energy Storage Performance.

The optimal strategy for the safe disposal of large amounts of hydrophyte biomass with enriched levels of N and P is challenging. In this study, we proposed and illustrated a facile pyrolysis approach to prepare an N, P-dually doped porous carbon (NPC) material with robust energy storage performance using a thermochemical self-doping process and a widely distributed hydrophyte biomass (Typha angustifolia). As a supercapacitor electrode material for electrochemical energy storage, the NPC shows a maximum capacitance of 257 F g-1 and energy density of 19.0 Wh kg-1 and only 3% capacitance loss after 6000 times of cyclic use, which places the NPC among the best porous carbon supercapacitors known previously. Multiple characterizations (BET, SEM, XPS, and Raman) provide evidence that NPC's excellent energy storage performance involves a pseudocapacitive contribution due to the Faradaic redox reactions of the N and P functional groupsand a capacitive contribution from the formation of the electrical double layer. The external nitrogen resource cannot improve the supercapacitor performance of NPC, suggesting a role for the assimilated nitrogenof plants. In contrast, an external phosphorus resource can significantly increase the specific capacitance from 257 to 375 F g-1 of NPC. These findings provide useful information for effective energy storage utilization of biomass wastes with differentconcentrations of N and P by fast pyrolysis and activation processes.

Pyrolytic Temperature Dependent and Ash Catalyzed Formation of Sludge Char with Ultra-High Adsorption to 1-Naphthol.

Massively produced sewage sludge brings a serious problem to environment. Pyrolysis is a promising and bifunctional technology to dispose the sewage sludge and recover energy, in which a large amount of pyrolytic sludge char is also produced. In this study, we proposed a value-added utilization of sludge char. We prepared an adsorbent with ultrahigh capacity for hydrophobic organic pollutant (1-naphthol) by pyrolysis of sludge and removal of the ash moiety from the sludge char. The adsorptive behavior of the adsorbent is strongly dependent on the pyrolytic temperature of sludge, and the maximum adsorption capacity of 666 mg g(-1) was achieved at 800 °C, which is comparable to deliberately modified graphene. Further exploration indicated that the robust adsorption to 1-naphthol is attributed to the catalytic effect of ash in sludge which facilitated the formation of more orderly graphitic structures and aromaticity at high pyrolytic temperatures.

Investigation on the evolution of N-containing organic compounds during pyrolysis of sewage sludge.

Pyrolysis is an emerging technology for the disposal of huge amounts of sewage sludge. However, the thermochemical decomposition mechanism of organic compounds in sludge is still unclear. We adopt a novel online TG-FTIR-MS technology to investigate the pyrolysis of sludge. The sludge samples were pyrolyzed from 150 to 800 °C with heating rates of 10, 50, and 200 K min(-1). We found for the first time that the heating rate of pyrolysis can significantly change the species of liquid organic compounds produced, but cannot change the gaseous species produced under the same conditions. The contents of produced gas and liquid compounds, most of which were produced at 293-383 °C, are influenced by both the heating rate and temperature of pyrolysis. The results also showed that heterocyclic-N, amine-N, and nitrile-N compounds are obtained from the decomposition of N-compounds in sludge, such as pyrrolic-N, protein-N, amine-N, and pyridinic-N. Heterocyclic-N compounds are the dominant N-containing products, which can be due to the thermochemical decomposition of pyridine-N and pyrrole-N, whereas fewer amine-N compounds are produced during the pyrolysis. A mechanism for the decomposition of N-containing compounds in sludge is proposed based on the obtained data.

High-yield harvest of nanofibers/mesoporous carbon composite by pyrolysis of waste biomass and its application for high durability electrochemical energy storage.

Disposal and recycling of the large scale biomass waste is of great concern. Themochemically converting the waste biomass to functional carbon nanomaterials and bio-oil is an environmentally friendly apporach by reducing greenhouse gas emissions and air pollution caused by open burning. In this work, we reported a scalable, "green" method for the synthesis of the nanofibers/mesoporous carbon composites through pyrolysis of the Fe(III)-preloaded biomass, which is controllable by adjustment of temperature and additive of catalyst. It is found that the coupled catalytic action of both Fe and Cl species is able to effectively catalyze the growth of the carbon nanofibers on the mesoporous carbon and form magnetic nanofibers/mesoporous carbon composites (M-NMCCs). The mechanism for the growth of the nanofibers is proposed as an in situ vapor deposition process, and confirmed by the XRD and SEM results. M-NMCCs can be directly used as electrode materials for electrochemical energy storage without further separation, and exhibit favorable energy storage performance with high EDLC capacitance, good retention capability, and excellent stability and durability (more than 98% capacitance retention after 10,000 cycles). Considering that biomass is a naturally abundant and renewable resource (over billions tons biomass produced every year globally) and pyrolysis is a proven technique, M-NMCCs can be easily produced at large scale and become a sustainable and reliable resource for clean energy storage.

Precise and economical dredging model of sediments and its field application: case study of a river heavily polluted by organic matter, nitrogen, and phosphorus.

Environmental dredging is an efficient means to counteract the eutrophication of water bodies caused by endogenous release of nitrogen and/or phosphorus from polluted sediments. The huge operational cost and subsequent disposal cost of the dredged polluted sediments, as well as the adverse effect on the benthic environment caused by excessive dredging, make the currently adopted dredging methods unfavorable. Precise dredging, i.e., determining the dredging depth based on the pollution level, not only significantly decreases the costs but also leaves a uniform favorable environment for benthos. However, there is still no feasible process to make this promising method executable. Taking a river heavily polluted by organic compounds as an example, we proposed an executable precise dredging process, including sediment survey, model establishment, data interpolation, and calculation of dredging amount. Compared with the traditional dredging method, the precise one would save 16 to 45% of cost according to different pollutant removal demands. This precise dredging method was adopted by the National Water Project of China to treat the endogenous pollution of Nanfei River in 2010. This research provides a universal scientific and engineering basis for sediment dredging projects.

Mesoporous carbon stabilized MgO nanoparticles synthesized by pyrolysis of MgCl2 preloaded waste biomass for highly efficient CO2 capture.

Anthropogenic CO2 emission makes significant contribution to global climate change and CO2 capture and storage is a currently a preferred technology to change the trajectory toward irreversible global warming. In this work, we reported a new strategy that the inexhaustible MgCl2 in seawater and the abundantly available biomass waste can be utilized to prepare mesoporous carbon stabilized MgO nanoparticles (mPC-MgO) for CO2 capture. The mPC-MgO showed excellent performance in the CO2 capture process with the maximum capacity of 5.45 mol kg(-1), much higher than many other MgO based CO2 trappers. The CO2 capture capacity of the mPC-MgO material kept almost unchanged in 19-run cyclic reuse, and can be regenerated at low temperature. The mechanism for the CO2 capture by the mPC-MgO was investigated by FTIR and XPS, and the results indicated that the high CO2 capture capacity and the favorable selectivity of the as-prepared materials were mainly attributed to their special structure (i.e., surface area, functional groups, and the MgO NPs). This work would open up a new pathway to slow down global warming as well as resolve the pollution of waste biomass.

A Genome-Wide Association Study of the Chest Circumference Trait in Xinjiang Donkeys Based on Whole-Genome Sequencing Technology.

Animal genotyping by means of genome-wide association studies is important for connecting phenotypes of interest with their underlying genetics in livestock. However, the use of whole genome sequencing to investigate chest circumference (CC) in donkeys has rarely been reported. We aimed to use the genome-wide association study approach to detect significant single nucleotide polymorphisms (SNPs) and key genes associated with chest circumference traits in Xinjiang donkeys. We assessed 112 Xinjiang donkeys in this study. The chest circumference of each was measured 2 h before milking. We re-sequenced blood samples from the Xinjiang donkeys, and genome-wide association study analyses were performed using a mixed model with the PLINK, GEMMA, and REGENIE programs. We tested 38 donkeys for candidate SNPs for genome-wide association study using three software programs. Additionally, 18 SNP markers reached genome-wide significance (p < 1.61 × 10-9). On the basis of these, 41 genes were identified. Previously proposed candidate genes for CC traits were supported by this study, including NFATC2 (Nuclear Factor of Activated T Cells 2), PROP1 (PROP Paired-Like Homeobox 1), UBB (Ubiquitin B), and HAND2 (Heart and Neural Crest Derivatives Expressed 2). These promising candidates provide a valuable resource for validating potential meat production genes and will facilitate the development of high-yielding Xinjiang donkey breeds through marker-assisted selection or gene editing.

Transcript Characteristics on the Susceptibility Difference of Bovine Respiratory Disease.

Bovine respiratory disease (BRD) is one of the major health issues in the cattle industry, resulting in significant financial crises globally. There is currently no good treatment, and cattle are made resistant to pneumonia through disease-resistant breeding. The serial blood samples from six Xinjiang brown (XJB) calves were collected for the RNA sequencing (RNA-seq). The obtained six samples were grouped into two groups, in each group as infected with BRD and healthy calves, respectively. In our study, the differential expression mRNAs were detected by using RNA-seq and constructed a protein-protein interaction (PPI) network related to the immunity in cattle. The key genes were identified by protein interaction network analysis, and the results from RNA-seq were verified using reverse transcription-quantitative polymerase chain reaction (RT-qPCR). A total of 488 differentially expressed (DE) mRNAs were identified. Importantly, the enrichment analysis of these identified DEGs classified them as mainly enriched in the regulation and immune response processes. The 16 hub genes were found to be related to immune pathways categorized by PPIs analysis. Results revealed that many hub genes were related to the immune response to respiratory disease. These results will provide the basis for a better understanding of the molecular mechanism of bovine resistance to BRD.

Engineering of Local Coordination Microenvironment in Single-Atom Catalysts Enabling Sustainable Conversion of Biomass into a Broad Range of Amines.

Utilizing renewable biomass as a substitute for fossil resources to produce high-value chemicals with a low carbon footprint is an effective strategy for achieving a carbon-neutral society. Production of chemicals via single-atom catalysis is an attractive proposition due to its remarkable selectivity and high atomic efficiency. In this work, a supramolecular-controlled pyrolysis strategy is employed to fabricate a palladium single-atom (Pd1 /BNC) catalyst with B-doped Pd-Nx atomic configuration. Owing to the meticulously tailored local coordination microenvironment, the as-synthesized Pd1 /BNC catalyst exhibits remarkable conversion capability for a wide range of biomass-derived aldehydes/ketones. Thorough characterizations and density functional theory calculations reveal that the highly polar metal-N-B site, formed between the central Pd single atom and its adjacent N and B atoms, promotes hydrogen activation from the donor (reductants) and hydrogen transfer to the acceptor (C═O group), consequently leading to exceptional selectivity. This system can be further extended to directly synthesize various aromatic and furonic amines from renewable lignocellulosic biomass, with their greenhouse gas emission potentials being negative in comparison to those of fossil-fuel resource-based amines. This research presents a highly effective and sustainable methodology for constructing C─N bonds, enabling the production of a diverse array of amines from carbon-neutral biomass resources.