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Objective RNA epigenetic modifications play an important role in regulating immune response of mammals. Bovine mastitis induced by Staphylococcus aureus (S. aureus) is a threat to the health of dairy cattle. There are numerous RNA modifications, and how these modification-associated enzymes systematically coordinate their immunomodulatory effects during bovine mastitis is not well reported. Therefore, the role of common RNA modification-related genes (RMRGs) in bovine S. aureus mastitis was investigated in this study. Methods In total, 80 RMRGs were selected for this study. Four public RNA-seq data sets about bovine S. aureus mastitis were collected and one additional RNA-seq data set was generated by this study. Firstly, quantitative trait locus (QTL) database, transcriptome-wide association studies (TWAS) database and differential expression analyses were employed to characterize the potential functions of selected enzyme genes in bovine S. aureus mastitis. Correlation analysis and weighted gene co-expression network analysis (WGCNA) were used to further investigate the relationships of RMRGs from different types at the mRNA expression level. Interference experiments targeting the m6A demethylase FTO and utilizing public MeRIP-seq dataset from bovine Mac-T cells were used to investigate the potential interaction mechanisms among various RNA modifications. Results Bovine QTL and TWAS database in cattle revealed associations between RMRGs and immune-related complex traits. S. aureus challenged and control groups were effectively distinguished by principal component analysis based on the expression of selected RMRGs. WGCNA and correlation analysis identified modules grouping different RMRGs, with highly correlated mRNA expression. The m6A modification gene FTO showed significant effects on the expression of m6A and other RMRGs (such as NSUN2, CPSF2, and METTLE), indicating complex co-expression relationships among different RNA modifications in the regulation of bovine S. aureus mastitis. Conclusion RNA epigenetic modification genes play important immunoregulatory roles in bovine S. aureus mastitis, and there are extensive interactions of mRNA expression among different RMRGs. It is necessary to investigate the interactions between RNA modification genes regulating complex traits in the future.

Abstract The effect of seafloor cold seeps on the biogeochemical cycling of mercury (Hg) remains enigmatic. Here we demonstrate substantial enrichments of mercury and methylmercury, along with the presence of microbes capable of metabolizing mercury in sediments of the Haima cold seep, South China Sea, by analyzing mercury and methylmercury concentrations, mercury isotopic composition analyses and metagenomic analyses of sediment cores. Compared to the reference area, the sediments in the upper sediment column of the active-seep area were 2.4 times enriched in Hg and 10.5 times in methylmercury. The slope of the capital delta ratio of mercury 199 to mercury 201 (Δ199Hg/Δ201Hg) with 1.23 ± 0.10 in the active-seep area indicate the occurrence of dark redox reactions. Genes related to mercury methylation (hgcA), demethylation (merB) and reduction (merA) were phylogenetically associated with several bacterial and archaeal linages. We roughly estimated an additional 2,835 Mg mercury and 9 Mg methylmercury are stored in cold seep globally. In summary, we propose that cold seeps globally function as a previously unrecognized sink for mercury and source for methylmercury in the deep ocean.

Abstract Background Characterization of regulatory variants (e.g., gene expression quantitative trait loci, eQTL; gene splicing QTL, sQTL) is crucial for biologically interpreting molecular mechanisms underlying loci associated with complex traits. However, regulatory variants in dairy cattle, particularly in specific biological contexts (e.g., distinct lactation stages), remain largely unknown. In this study, we explored regulatory variants in whole blood samples collected during early to mid-lactation (22–150 days after calving) of 101 Holstein cows and analyzed them to decipher the regulatory mechanisms underlying complex traits in dairy cattle. Results We identified 14,303 genes and 227,705 intron clusters expressed in the white blood cells of 101 cattle. The average heritability of gene expression and intron excision ratio explained by cis-SNPs is 0.28 ± 0.13 and 0.25 ± 0.13, respectively. We identified 23,485 SNP-gene expression pairs and 18,166 SNP-intron cluster pairs in dairy cattle during early to mid-lactation. Compared with the 2,380,457 cis-eQTLs reported to be present in blood in the Cattle Genotype-Tissue Expression atlas (CattleGTEx), only 6,114 cis-eQTLs (P 0.6). Finally, transcriptome-wide association studies (TWAS) revealed certain genes (e.g., FAM83H and TBC1D17) whose expression in white blood cells was significantly (P

Objective Abnormally increased somatic cell counts (SCCs) in milk is usually a sign of bovine subclinical mastitis. Mutual interaction between the host and its associated microbiota plays an important role in developing such diseases. The main objective of this study was to explore the difference between cows with elevated SCCs and healthy cattle from the perspective of host-microbe interplay. Methods A total of 31 milk samples and 23 bovine peripheral blood samples were collected from Holstein dairy cattle to conduct an integrated analysis of transcriptomic and metagenomics. Results The results showed that Ralstonia and Sphingomonas were enriched in cows with subclinical mastitis. The relative abundance of the two bacteria was positively correlated with the expression level of bovine transcobalamin 1 and uridine phosphorylase 1 encoding gene. Moreover, functional analysis revealed a distinct alternation in some important microbial biological processes. Conclusion These results reveal the relative abundance of Ralstonia and Sphingomonas other than common mastitis-causing pathogens varied from healthy cows to those with subclinical mastitis and might be associated with elevated SCCs. Potential association was observed between bovine milk microbiota composition and the transcriptional pattern of some genes, thus providing new insights to understand homeostasis of bovine udder.

Radial piston motors are executive components in hydraulic systems, tasked with providing appropriate torque and speed according to load requirements in practical applications. The purpose of this study is to predict the output torque of radial piston hydraulic motors and confirm their suitable operating conditions. Efficiency determination experiments were conducted on physical models, yielding thirty sets of performance data. Torque (output torque) and mechanical efficiency from the experimental data were selected as prediction targets and fitted using two methods: multiple linear regression and neural networks. A dynamic simulation model was built using Adams2020 software to obtain theoretical torque values, enabling the verification of the alignment between the predicted values and simulation results. The results indicate that the error between the theoretical torque of the dynamic model and the physical experiments is 1.9%, with the error of the neural network predictions being within 2%. The dynamic simulation model can yield highly accurate theoretical torque values, providing a reference for the external load of hydraulic motors; additionally, neural networks offer accurate predictions of output torque, thus reducing experimental testing costs.

Reconstructing Holocene vegetation history and human impact on vegetation is critical for understanding past interactions between humans and nature. This study concentrates on the lower West River area in Southern China, offering high-resolution reconstructions of vegetation changes over the last 9000 years. Our findings reveal that during the Holocene Climatic Optimum (9–5 ka BP), the area was predominantly covered by dense evergreen broad-leaved forests. Around 5.1 ka BP, the emergence of marsh forests, as evidenced by abundant pollen of Glyptostrobus and in situ buried woods and roots, indicated a transition towards a wetland ecosystem. Notably, a thriving wetland environment and high production of peat deposits dating from 4.3 ka to 2.5 ka BP reflect the continuous drop of lake levels and the formation of swamps driven by a climatic pattern marked by decreased precipitation, potentially linked to a reduction in summer monsoon intensity during the latter part of the Holocene. This period of wetland expansion also coincides with the earliest evidence of rice cultivation in Southern China, suggesting a relationship between agricultural development and regional landscape changes. Additionally, millennial-scale paleo-megafloods are not only identified by lithological features but also by pollen taxa and principal component analysis. Despite the temporary disruptions of the marsh forest, it demonstrated resilience, quickly recovering within decades. By approximately 2.5 ka BP, a significant increase in rice-type Poaceae pollen and Pteridophyte spores, alongside the sharp decline of Glyptostrobus and a decrease in arboreal taxa, were observed. This shift in pollen spectra, coupled with a PC1 curve of principal component analysis, points to intensified human activity as a primary driver behind the collapse of the local wetland ecosystem. These findings align with regional evidence from the Pearl River Delta and coastal Southern China, highlighting extensive human intervention in natural forests and the onset of large-scale agriculture post-2.5 ka BP.

Abstract Background Insights into the genetic basis of complex traits and disease in both human and livestock species have been achieved over the past decade through detection of genetic variants in genome-wide association studies (GWAS). A majority of such variants were found located in noncoding genomic regions, and though the involvement of numerous regulatory elements (REs) has been predicted across multiple tissues in domesticated animals, their evolutionary conservation and effects on complex traits have not been fully elucidated, particularly in ruminants. Here, we systematically analyzed 137 epigenomic and transcriptomic datasets of six mammals, including cattle, sheep, goats, pigs, mice, and humans, and then integrated them with large-scale GWAS of complex traits. Results Using 40 ChIP-seq datasets of H3K4me3 and H3K27ac, we detected 68,479, 58,562, 63,273, 97,244, 111,881, and 87,049 REs in the liver of cattle, sheep, goats, pigs, humans and mice, respectively. We then systematically characterized the dynamic functional landscapes of these REs by integrating multi-omics datasets, including gene expression, chromatin accessibility, and DNA methylation. We identified a core set (n = 6359) of ruminant-specific REs that are involved in liver development, metabolism, and immune processes. Genes with more complex cis-REs exhibited higher gene expression levels and stronger conservation across species. Furthermore, we integrated expression quantitative trait loci (eQTLs) and GWAS from 44 and 52 complex traits/diseases in cattle and humans, respectively. These results demonstrated that REs with different degrees of evolutionary conservation across species exhibited distinct enrichments for GWAS signals of complex traits. Conclusions We systematically annotated genome-wide functional REs in liver across six mammals and demonstrated the evolution of REs and their associations with transcriptional output and conservation. Detecting lineage-specific REs allows us to decipher the evolutionary and genetic basis of complex phenotypes in livestock and humans, which may benefit the discovery of potential biomedical models for functional variants and genes of specific human diseases.

Tectonically induced liquefaction and the resulting soft-sediment deformation structure (SSDS) can provide useful information on paleo-earthquakes, which is vital for the assessment of geohazard susceptibility in tectonically active regions. In this study, we combined sedimentary and chronological methods to the reveal detailed characteristics of the mottled clay in the Huizhou Quaternary Basin. The dating results suggest that mottled clay usually developed during the late Pleistocene, overlying the fluvial deposit or embedding homogeneous aeolian yellow silt. Mottled clay has a typical bimodal frequency distribution with modal sizes at 5 and 80–90 μm, which are identical to those of the yellow silt and the underlying fluvial sand, respectively. Micro-X-ray fluorescence mapping revealed high concentrations of Fe and Si in the red and white fraction, respectively. In addition, the red fraction of mottled clay has a high hematite content, similar to loess-like yellow silt, whereas the white fraction and the underlying fluvial sediments are dominated by goethite. This sedimentary evidence together suggests that the mottled clay could be an admixture of aeolian yellow silt and the underlying fluvial sand. Furthermore, diverse deformed structures (e.g., fragmented structures, sand veins, sand dykes and flame structures) were observed in mottled clay. Therefore, we suggest that the mottled clay structure in the Huizhou Basin is a product of liquefaction-induced SSDS. Tectonic activity was considered to have triggered the liquefaction and SSDS, which is supported by the close spatial relationship between the mottled clay and regional faults. We propose that the SSDS of mottled clay could be a potential indicator of paleo-earthquakes in the coastal Quaternary basins of the northern South China Sea.

Although pressure pipelines serve as a secure and energy-efficient means of transporting oil, gas, and chemicals, they are susceptible to fatigue cracks over extended periods of cyclic loading due to the challenging operational conditions. Their quality and efficiency directly affect the safe operation of the project. Therefore, a thorough and precise characterization approach towards pressure pipelines can proactively mitigate safety risks and yield substantial economic and societal benefits. At present, the current mainstream 2D ultrasound imaging technology faces challenges in fully visualizing the internal defects and topography of pressure pipelines. Reverse time migration (RTM), widely employed in geophysical exploration, has the capability to visualize intricate geological structures. In this paper, we introduced the RTM into the realm of ultrasonic non-destructive testing, and proposed a 3D ultrasonic RTM imaging method for internal defects and sensor settings of pressure pipelines. To accurately simulate the extrapolation of wave field in 3D pressure pipelines, we set the absorbing boundary and double free boundary in cylindrical coordinates. Subsequently, using the 3D ultrasonic RTM approach, we attained higher-precision 3D imaging of internal defects in the pressure pipelines through suppressing imaging artifacts. By comparing and analyzing the imaging results of different sensor settings, the design of the observation system is optimized to provide a basis for the imaging and interpretation of actual data. Both simulations and actual field data demonstrate that our approach delivers top-notch 3D imaging of pipeline defects (with an imaging range accuracy up to 97.85%). This method takes into consideration the complexities of multiple scattering and mode conversions occurring at the base of the defects as well as the optimal sensor settings.

The Pearl River Delta (PRD, China) has undergone complex geological development within a multi-island faulted basin, shaped by the interplay of regional tectonic movements, Quaternary sea-level fluctuations, and fluvial-marine interactions. Despite a great number of studies on the Holocene sedimentary sequences and spatial differences of lithofacies and environments, scant attention has been paid to the overarching human influence on deltaic evolution and coastline modifications since the Neolithic epoch. To further elucidate the spatial variation in Holocene sedimentation and its underlying basement topography shaped during the Last Glacial Maximum (LGM), we compiled a comprehensive dataset incorporating borehole data from over 2800 cores (the maximum depth can reach 92.5 m) within the PRD. Subsequently, high-resolution isobath maps of Quaternary deltaic deposits were generated, offering unprecedented insights into sediment distribution. This dataset facilitated a nuanced reconstruction of pre-Holocene topography, revealing a zone characterized by elongated, deep-incised valleys governed by NW-SE fault orientations. Further, we delineated coastline shifts since the period of maximum Holocene transgression (~7000 years BP), contributing to an enhanced understanding of the formation and evolutionary patterns of the delta and river network oscillations. Our findings illuminate an increasing anthropogenic impact on the rate of fluvial sedimentation and land growth, particularly accentuated over the last two millennia, favoring deltaic accretion.

While understanding the long-term slip rate of active normal faults is essential for the comprehensive assessment of seismic activity, it is difficult due to the absence of age control in the erosional bedrock region. The preserved sequence of wave-cut platforms in granite allows exploration of the long-term slip rate in the footwall of some normal faults. We investigated wave-cut platforms in the southern Pearl River Delta (PRD), a coastal delta transected by the seismically active Littoral Fault Zone (LFZ) in the northern South China Sea, to derive slip rates and their impacts on the seismic hazard potential. We mapped a flight of four wave-cut platforms (T1–T4), dated the T2 and T4 platforms by 10Be cosmogenic nuclide dating, and used the absolute age to correlate the un-dated platform to global sea-level highstands. Our results allocate the ages of 128 ka, 197 ka, and 239 ka to the upper three wave-cut platforms and yield temporally various uplift rates ranging from 0.30 to 0.38 mm/a during 239–128 ka to 0.09 mm/a since 128 ka. A decrease in the uplift rate, which coincided with a decreased subsidence rate within the PRD in previous work, implied a weakened differential uplift onshore of the LFZ system. Our findings infer that the transgression event occurred as early as marine isotope stage (MIS) 7 in the PRD, consistent with the view that Pleistocene sedimentation began in MIS 5 or earlier in the PRD.

Abstract Background Staphylococcus aureus (S. aureus) mastitis is one of the most difficult diseases to treat in lactating dairy cows worldwide. S. aureus with different lineages leads to different host immune responses. Long non-coding RNAs (lncRNAs) are reported to be widely involved in the progress of inflammation. However, no research has identified stable lncRNAs among different S. aureus strain infections. In addition, folic acid (FA) can effectively reduce inflammation, and whether the inflammatory response caused by S. aureus can be reduced by FA remains to be explored. Methods lncRNA transcripts were identified from Holstein mammary gland tissues infected with different concentrations of S. aureus (in vivo) and mammary alveolar cells (Mac-T cells, in vitro) challenged with different S. aureus strains. Differentially expressed (DE) lncRNAs were evaluated, and stable DE lncRNAs were identified in vivo and in vitro. On the basis of the gene sequence conservation and function conservation across species, key lncRNAs with the function of potentially immune regulation were retained for further analysis. The function of FA on inflammation induced by S. aureus challenge was also investigated. Then, the association analysis between these keys lncRNA transcripts and hematological parameters (HPs) was carried out. Lastly, the knockdown and overexpression of the important lncRNA were performed to validate the gene function on the regulation of cell immune response. Results Linear regression analysis showed a significant correlation between the expression levels of lncRNA shared by mammary tissue and Mac-T cells (P

Subclinical bovine mastitis is a pathogenic infection of the breast characterized by a marked decrease in milk production and quality. As it has no obvious clinical symptoms, diagnosis and treatment are challenging. Therefore, searching for biomarkers in cows’ peripheral white blood cells is valuable for preventing and treating subclinical mastitis. Thus, in this study, the transcriptome of peripheral blood from healthy and subclinical mastitis cows was characterized to find the regulatory signatures of bovine subclinical mastitis using RNA-seq. A total of 287 differentially expressed genes (DEGs) and 70 differentially expressed lncRNAs (DELs) were detected, and 37 DELs were documented near known Quantitative Trait Loci (QTL) associated with the mastitis of cows. Bioinformatic analysis indicated that lncRNAs MSTRG25101.2, MSTRG.56327.1, and MSTRG.18968.1, which are adjacent to the SCS QTL and SCC QTL, may be candidate lncRNAs that influence the pathogenesis of mastitis in cows by up-regulating the expression of genes TLR4, NOD2, CXCL8, and OAS2. Moreover, the alternative splicing (AS) pattern of transcriptional sequence differences between healthy cows and subclinical mastitis cows suggested a molecular mechanism of mastitis resistance and susceptibility. A total of 2,212 differential alternative splicing (DAS) events, corresponding to 1,621 unique DAS genes, were identified in both groups and significantly enriched in immune and inflammatory pathways. Of these, 29 DAS genes were subject to regulation by 32 alternative splicing SNPs, showing diverse and specific splicing patterns and events. It is hypothesized that the PIK3C2B and PPRPF8 splice variants associated with AS SNPs (rs42705933 and rs133847062) may be risk factors for susceptibility to bovine subclinical mastitis. Altogether, these key blood markers associated with resistance to subclinical mastitis and SNPs associated with alternative splicing of genes provide the basis for genetic breeding for resistance to subclinical mastitis in cows.

Relative pollen productivity (RPP) is a key parameter for quantitative reconstruction of past vegetation cover. However, RPP estimates are rarely obtained in the subtropical and tropical regions. In this study, the extended R-value (ERV) model was used to estimate RPP for major plant taxa in the evergreen broadleaved and mixed forests in middle subtropical China based on soil samples and vegetation data from 23 sites. The best result was obtained with the combinations of ERV sub-model 3 and Prentice’s or 1/d vegetation distance-weighting method. The relevant source area of pollen (RSAP) of the soil samples was estimated to be ca. 500 m. RPP on the basis of ERV sub-model 3 and Prentice’s model was obtained for seven taxa and the ranking is as follows: Castanopsis (1 ± 0), Ilex (0.352 ± 0.031), Mallotus (0.221 ± 0.028), Liquidambar (0.115 ± 0.007), Cyclobalanopsis (0.107 ± 0.006), Camelia (0.033 ± 0.001), Symplocos (0.010 ± 0.002). RPPs for Cyclobalanopsis, Camelia, Ilex, and Symplocos which are dominant elements in the subtropical evergreen broadleaved forests were first obtained. Our result demonstrates a significant effect of pollen dispersal models on the estimates of RPPs. The RPPs obtained in this study provide an important basis for quantitative vegetation reconstruction in the subtropical region of China.

Submarine pipelines are a safe and energy-efficient mode of gas transport. However, due to the complex manufacturing process and harsh operating environment, submarine pipelines are subject to fatigue cracks under long-term cyclic loading. A comprehensive and high-precision characterization strategy for submarine pipelines can effectively prevent potential safety hazards and have significant economic and social repercussions. As a matter of fact, pipeline defects cannot be reliably detected with current traditional 2D methods. On the other hand, in ultrasonic testing, cylindrical geometry increases the complexity of the 3D wave field in the submarine pipeline space and significantly influences the accuracy of the detection results. In this paper, we put forward a novel method for 3D ultrasonic image testing that is suitable for cylindrical coordinates. In order to accurately simulate the ultrasonic signal received from pipelines, we generalize the 3D staggered-grid finite-difference method from Cartesian coordinates to cylindrical ones and simulate the full wave field in the 3D pipeline space. Then, signal processing is performed on the ultrasound simulation records, and 3D reverse-time migration imaging of submarine pipeline defects can be effectively achieved using the reverse-time migration method and cross-correlation imaging conditions. The results obtained from simulations and real field data show that the proposed method provides high-quality 3D imaging of defects in pipelines, taking into account multiple scattering and mode conversion information at the bottom of the defects.

Respiratory syncytial virus (RSV) infection can cause life-threatening pneumonia and bronchiolitis, posing a significant threat to human health worldwide, especially to children and the elderly. Currently, there is no specific treatment for RSV infection. The most effective measures for preventing RSV infection are vaccines and prophylactic medications. However, not all population groups are eligible for the approved vaccines or antibody-based preventive medications. Therefore, there is an urgent need to develop novel vaccines and prophylactic drugs available for people of all ages. High-throughput assays that evaluate the efficacy of viral entry inhibitors or vaccine-induced neutralizing antibodies in blocking RSV entry are crucial for evaluating vaccine and prophylactic drug candidates. We developed an efficient entry assay using a lentiviral pseudovirus carrying the fusion (F) protein of type A or B RSV. In addition, the essential parameters were systematically optimized, including the number of transfected plasmids, storage conditions of the pseudovirus, cell types, cell numbers, virus inoculum, and time point of detection. Furthermore, the convalescent sera exhibited comparable inhibitory activity in this assay as in the authentic RSV virus neutralization assay. We established a robust pseudovirus-based entry assay for RSV, which holds excellent promise for studying entry mechanisms, evaluating viral entry inhibitors, and assessing vaccine-elicited neutralizing antibodies against RSV.

Somatic cell count (SCC) is an important indicator of the health state of bovine udders. However, the exact cut-off value used for differentiating the cows with healthy quarters from the cows with subclinical mastitis remains controversial. Here, we collected composite milk (milk from four udder quarters) and peripheral blood samples from individual cows in two different dairy farms and used 16S rRNA gene sequencing combined with RNA-seq to explore the differences in the milk microbial composition and transcriptome of cows with three different SCC levels (LSCC: 200,000 cells/mL). Results showed that the milk microbial profiles and gene expression profiles of samples derived from cows in the MSCC group were indeed relatively easily discriminated from those from cows in the LSCC group. Discriminative analysis also uncovered some differentially abundant microbiota at the genus level, such as Bifidobacterium and Lachnospiraceae_AC2044_group, which were more abundant in milk samples from cows with SCC below 100,000 cells/mL. As for the transcriptome profiling, 79 differentially expressed genes (DEGs) were found to have the same direction of regulation in two sites, and functional analyses also showed that biological processes involved in inflammatory responses were more active in MSCC and HSCC cows. Overall, these results showed a similarity between the milk microbiota and gene expression profiles of MSCC and HSCC cows, which presented further evidence that 100,000 cells/ml is a more optimal cut-off value than 200,000 cells/mL for intramammary infection detection at the cow level.

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), especially emerging variants, poses an increased threat to global public health. The significant reduction in neutralization activity against the variants such as B.1.351 in the serum of convalescent patients and vaccinated people calls for the design of new potent vaccines targeting the emerging variant. However, since most vaccines approved and in clinical trials are based on the sequence of the original SARS-CoV-2 strain, the immunogenicity and protective efficacy of vaccines based on the B.1.351 variant remain largely unknown. In this study, we evaluated the immunogenicity, induced neutralization activity, and protective efficacy of wild-type spike protein nanoparticle (S-2P) and mutant spike protein nanoparticle (S-4M-2P) carrying characteristic mutations of B.1.351 variant in mice. Although there was no significant difference in the induction of spike-specific IgG responses in S-2P- and S-4M-2P-immunized mice, neutralizing antibodies elicited by S-4M-2P exhibited noteworthy, narrower breadth of reactivity with SARS-CoV-2 variants compared with neutralizing antibodies elicited by S-2P. Furthermore, the decrease of induced neutralizing antibody breadth at least partly resulted from the amino acid substitution at position 484. Moreover, S-4M-2P vaccination conferred insufficient protection against live SARS-CoV-2 virus infection, while S-2P vaccination gave definite protection against SARS-CoV-2 challenge in mice. Together, our study provides direct evidence that the E484K substitution in a SARS-CoV-2 subunit protein vaccine limited the cross-reactive neutralizing antibody breadth in mice and, more importantly, draws attention to the unfavorable impact of this mutation in spike protein of SARS-CoV-2 variants on the induction of potent neutralizing antibody responses.

Mastitis caused by Staphylococcus aureus (S. aureus) infection is one of the most difficult diseases to treat in dairy cattle. Exploring the biological progression of S. aureus mastitis via the interaction between host, pathogen, and environment is the key to an effective and sustainable improvement of animal health. Here, two strains of S. aureus and a strain of MRSA (Methicillin-resistant Staphylococcus aureus) isolated from cows with different inflammation phenotypes were used to challenge Mac-T cells and to investigate their effects on the global transcriptome of the cells, then to explore the potential regulatory mechanisms of folic acid on S. aureus mastitis prevention. Differential gene expression or splicing analysis showed that different strains of S. aureus led to distinct transcriptional responses from the host immune system. Folic acid could protect host defense against the challenge of S. aureus and MRSA partially through activating cytoplasmic DNA sensing and tight junction pathway. ZBP1 at the upstream of cytoplasmic DNA sensing pathway was verified and related to anti-pathogen through RNA interference. Further enrichment analysis using these transcriptome data with cattle large-scale genome-wide association study (GWAS) data confirmed that ZBP1 gene is highly associated with bovine somatic cell score (SCS) trait. Our data shed light on the potential effect of FA through regulating key gene and then protect host cells’ defense against S. aureus and MRSA.

To explore the evolution process of soil salinization in Shouguang, the current study applied the Pan and Multi-spectra Sensor (PMS), Operational Land Imager (OLI) and Thematic Mapper (TM) data to establish a remote sensing monitoring model of soil salinization. Based on the vegetation and salinity indexes, we extracted the information of soil salinization in the flourishing period of plant growth in Shouguang in 2017. At the same time, we monitored the spatial and temporal patterns of soil salinization in Shouguang from 1998 to 2017. We compared the range of soil salinization reflected by remote sensing data and the regional groundwater level and revealed the formation and evolution mechanism of soil salinization in Shouguang. The results reflected that the distribution of soil salinization in Shouguang demonstrated obvious banding characteristics in distribution, and soil salinization gradually increased from the south to the north. Based on the imagery interpretation of Landsat images of three periods from 1998 to 2017, we found that the area of saline land in Shouguang severely decreased as a whole, but the coastal salinization intensified. Moreover, the inversion of surface soil salinity using the GF-1 satellite PMS image has a high precision, and the goodness of fit (R2) is up to 0.871. Compared with the GF-1 image, the Landsat image is more suitable for grading and monitoring soil salinization in a wide range. We also confirmed that the change in ground water level is the main reason for the evolution of salinization. Excessive exploitation of groundwater by vegetable production caused the intensification of seawater intrusion and secondary salinization in coastal areas, while the water level dropped in areas far from the coastline. To prevent the deterioration from soil salinization in Shouguang, it is necessary for us to extract the local groundwater resources reasonably and optimally.

Considering that artificial insemination is the most widely used assisted reproductive technique in the dairy industry, the semen quality of bulls is very important for selecting excellent stud bulls. Sperm motility is one of the important traits of semen quality, and related genes may be regulated by environmental factors. Seminal plasma can affect sperm cell transcriptome and further affect sperm motility through exosome or other processes. However, the molecular regulation mechanism of bull sperm motility has not been studied by combining the sperm cell transcriptome with seminal plasma metabolome. The number of motile sperm per ejaculate (NMSPE) is an integrated indicator for assessing sperm motility in stud bulls. In the present study, we selected 7 bulls with higher NMSPE (5,698.55 million +/− 945.40 million) as group H and 7 bulls with lower NMSPE (2,279.76 million +/− 1,305.69 million) as group L from 53 Holstein stud bulls. The differentially expressed genes (DEGs) in sperm cells were evaluated between the two groups (H vs. L). We conducted gene co-expression network analysis (WGCNA) on H and L groups of bulls, as well as two monozygotic twin Holstein bulls with different NMSPE values, to screen candidate genes for NMSPE. The regulatory effect of seminal plasma metabolome on the candidate genes of NMSPE was also investigated. A total of 1,099 DEGs were identified in the sperm cells of H and L groups. These DEGs were primarily concentrated in energy metabolism and sperm cell transcription. The significantly enriched Kyoto encyclopedia of genes and genomes (KEGG) pathways of the 57 differential metabolites were the aminoacyl–tRNA biosynthesis pathway and vitamin B6 metabolism pathway. Our study discovered 14 genes as the potential candidate markers for sperm motility, including FBXO39. We observed a broad correlation between transcriptome of sperm cells and seminal plasma metabolome, such as three metabolites, namely, mesaconic acid, 2-coumaric acid, and 4-formylaminoantipyrine, might regulate FBXO39 expression through potential pathways. The genes related to seminal plasma metabolites expressed in sperm cells are not only located near the quantitative trait loci of reproductive traits, but also enriched in the genome-wide association study signal of sire conception rate. Collectively, this study was the first to investigate the interplays among transcriptome of sperm cells and seminal plasma metabolome from Holstein stud bulls with different sperm motility. [ABSTRACT FROM AUTHOR]