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Bayesian tensor decomposition has been widely applied in channel parameter estimations, particularly in cases with the presence of interference. However, the types of interference are not considered in Bayesian tensor decomposition, making it difficult to accurately estimate the interference parameters. In this paper, we present a robust tensor variational method using a CANDECOMP/PARAFAC (CP)-based additive interference model for multiple input–multiple output (MIMO) with orthogonal frequency division multiplexing (OFDM) systems. A more realistic interference model compared to traditional colored noise is considered in terms of co-channel interference (CCI) and front-end interference (FEI). In contrast to conventional algorithms that filter out interference, the proposed method jointly estimates the channel and interference parameters in the time–frequency domain. Simulation results validate the correctness of the proposed method by the evidence lower bound (ELBO) and reveal the fact that the proposed method outperforms traditional information-theoretic methods, tensor decomposition models, and robust model based on CP (RCP) in terms of estimation accuracy. Further, the interference parameter estimation technique has profound implications for anti-interference applications and dynamic spectrum allocation. [ABSTRACT FROM AUTHOR]

Visible light communication (VLC) and visible light positioning (VLP) systems are usually designed separately to prevent mutual interference, while terminal mobility often introduces challenges that can degrade their performance. In this paper, we propose an integrated visible light communication and positioning (VLCP) scheme designed for mobile scenarios, encompassing both multiple-input–single-output (MISO) and multiple-input–multiple-output (MIMO) configurations. This scheme integrates both functionalities into a unified system. Utilizing decision feedback channel estimation (DFCE), we effectively estimate the dynamic channel state information (CSI) for both VLC and VLP, thereby potentially enhancing both communication and positioning performance. Simulation results across various routes verify the effectiveness of the proposed scheme. It is observed that when the terminal moves at 1 m/s, the VLCP scheme with DFCE can maintain reliable transmission quality, ensuring bit error rates (BERs) consistently below 1.3 × 10−2. Additionally, the mean positioning errors remain within the centimeter range in different routes, not exceeding 4.3 cm and 15.5 cm in the MISO and MIMO scenarios, respectively. [ABSTRACT FROM AUTHOR]

In order to analyze the influence of grout strength, rebar diameter, sleeve material and anchorage length on performance of grout sleeve splicing of rebars, 72 specimens were designed and fabricated. The experimental results revealed that the failure modes included three forms, namely rebar fracture, sleeve rupture and bond slip between the rebar and grout. The tensile strength increased with the increase of grout strength and anchorage length of rebar at the same time, demonstrating that the sleeve could effectively transfer the bond stress. The sleeve strain gradually increased from the mechanical connection end to the grout connection end, illustrating linear pattern. Based on the failure mechanism of the grout sleeve splicing of rebars and the experimental results, the calculation formula of the anchorage length of grout sleeve splicing of rebars was proposed considering the grout strength and sleeve inner diameter. [ABSTRACT FROM AUTHOR]

Background: Ferroptosis is a type of cell death characterized by the accumulation of iron-dependent lethal lipid peroxides, which is associated with various pathophysiological processes. Psoriasis is a chronic autoimmune skin disease accompanied by abnormal immune cell infiltration and excessive production of lipid reactive oxygen species (ROS). Currently, its pathogenesis remains elusive, especially the potential role of ferroptosis in its pathophysiological process. Methods: The microarrays GSE13355 (58 psoriatic skin specimens versus 122 healthy skin specimens) and the ferroptosis database were employed to identify the common differentially expressed genes (DEGs) associated with psoriasis and ferroptosis. The functions of common DEGs were investigated through functional enrichment analysis and protein-protein interaction analysis. The potential diagnostic markers for psoriasis among the common DEGs were identified using four machine-learning algorithms. DGIdb was utilized to explore potential therapeutic agents for psoriasis. Additionally, CIBERSORT was employed to investigate immune infiltration in psoriasis. Results: A total of 8 common DEGs associated with psoriasis and ferroptosis were identified, which are involved in intercellular signaling and affect pathways of cell response to stress and stimulation. Four machine-learning algorithms were employed to identify poly (ADP-ribose) polymerase 12 (PARP12), frizzled homolog 7 (FZD7), and arachidonate 15-lipoxygenase (ALOX15B) among the eight common DEGs as potential diagnostic markers for psoriasis. A total of 18 drugs targeting the five common DEGs were identified as potential candidates for treating psoriasis. Additionally, significant changes were observed in the immune microenvironment of patients with psoriasis. Conclusion: This study has contributed to our enhanced comprehension of ferroptosis-related genes as potential biomarkers for psoriasis diagnosis, as well as the alterations in the immune microenvironment associated with psoriasis. Our findings offer valuable insights into the diagnosis and treatment of psoriasis. [ABSTRACT FROM AUTHOR]

The spatial density structures of different particles (high-energy electron excited ionic and low-energy electron excited neutral particles) in both discharge and plume plasmas of a helicon source were characterized by an optical emission spectroscope (OES) and a Langmuir probe. Filters of 480 nm band pass and 600 nm high pass were used to distinguish the ionic and the excited neutral particles, respectively. The ion energy distributions at the outlet of the discharge tube with different magnetic field were obtained by a four-grid retarding field energy analyzer (RFEA). Results show that as RF input power increased, the helicon discharge modes change from a capacitive (E mode) to an inductive (H mode) to a wave coupling or a helicon discharge (W mode). After reaching the W mode, neutral particles are basically saturated, but ions will experience another growth as the power increases. Moreover, the reversed applied magnetic field can change the axial distribution of ion density (ionization region). The IEDF test results show that the maximum (most probable) ion energy increases with increasing input power. Meanwhile, the reversed magnetic field (+ 50 A) can increase the maximum ion energy by about 15 eV, which is believed to be the ionization/acceleration zone is close to the ion energy test point. Therefore, the directed ion energy is more correlated with the ion density distribution excited by high-energy electrons. [ABSTRACT FROM AUTHOR]

Objective: The study's objective was to explore whether early time‐restricted eating (eTRE) and late time‐restricted eating (lTRE) have different impacts on intrahepatic fat and metabolic health among patients with nonalcoholic fatty liver disease (NAFLD). Methods: This is an 8‐week, randomized, parallel‐arm, open‐label trial. Forty eligible patients were randomly assigned to eTRE (eating between 8:00 a.m. and 4:00 p.m.) or lTRE (eating between 12:00 p.m. and 8:00 p.m.). The primary outcome was the change of intrahepatic fat measured by magnetic resonance image‐derived proton density fat fraction. Secondary outcomes included changes in weight, body composition, liver function, and cardiometabolic factors. Results: Forty participants who underwent randomization completed the trial (mean age: 38.25 years). The eTRE group had a −3.24% absolute reduction of intrahepatic fat (95% CI: −4.55% to −1.92%) and there was a −3.51% absolute reduction for the lTRE group (95% CI: −5.10% to −1.92%). Changes in intrahepatic fat were not statistically different between the two groups. Both the eTRE and lTRE groups had similar and significant reductions in weight, visceral fat, subcutaneous fat, liver enzymes, and glucose regulatory indicators. Conclusions: Among patients with NAFLD, both eTRE and lTRE induced significant reductions in intrahepatic fat and improvements in body composition, liver function, and metabolic health with similar magnitude. These findings suggest that eTRE and lTRE are comparable and feasible strategies for NAFLD management. [ABSTRACT FROM AUTHOR]

Compared with traditional electric propulsion, RF plasma thruster have attracted much attention due to their characteristics of no electrodes, long life, and high ionization rate. In recent years, the development of micro-nano satellites has put forward requirements for the miniaturization, modularization, and integration of satellite thrusters, and the miniaturization of RF plasma thrusters has a broad prospect. In this paper, a mini-RF plasma thruster with a discharge chamber inner diameter of 10 mm is designed, and a magnetic field is generated around it by two annular samarium cobalt permanent magnets. The discharge state and plasma parameters of the mini-RF thruster are tested using optical emission spectrometry (OES) and target thrust stand. In the experiment, we changed the flow rate of argon gas, the presence or absence of a magnetic field, the power of the RF source and analyzed the effects of these factors on the mode transition, plasma density, electron temperature, and thrust. According to the experimental results, it is found that the magnetic field (maximum strength 0.14T) helps to increase the plasma density at low power but delay the jump power threshold of the CCP-ICP. [ABSTRACT FROM AUTHOR]

Human aging is invariably accompanied by a decline in renal function, a process potentially exacerbated by uremic toxins originating from gut microbes. Based on a registered household Chinese Guangxi longevity cohort (n = 151), we conducted comprehensive profiling of the gut microbiota and serum metabolome of individuals from 22 to 111 years of age and validated the findings in two independent East Asian aging cohorts (Japan aging cohort n = 330, Yunnan aging cohort n = 80), identifying unique age‐dependent differences in the microbiota and serum metabolome. We discovered that the influence of the gut microbiota on serum metabolites intensifies with advancing age. Furthermore, mediation analyses unveiled putative causal relationships between the gut microbiota (Escherichia coli, Odoribacter splanchnicus, and Desulfovibrio piger) and serum metabolite markers related to impaired renal function (p‐cresol, N‐phenylacetylglutamine, 2‐oxindole, and 4‐aminohippuric acid) and aging. The fecal microbiota transplantation experiment demonstrated that the feces of elderly individuals could influence markers related to impaired renal function in the serum. Our findings reveal novel links between age‐dependent alterations in the gut microbiota and serum metabolite markers of impaired renal function, providing novel insights into the effects of microbiota‐metabolite interplay on renal function and healthy aging. [ABSTRACT FROM AUTHOR]

The skin is the largest organ in the human body. Various skin environments on its surface constitutes a complex ecosystem. One of the characteristics of the skin micro‐ecosystem is low biomass, which greatly limits a comprehensive identification of the microbial species through sequencing. In this study, deep‐shotgun sequencing (average 21.5 Gigabyte (Gb)) from 450 facial samples and publicly available skin metagenomic datasets of 2069 samples to assemble a Unified Human Skin Genome (UHSG) catalog is integrated. The UHSG encompasses 813 prokaryotic species derived from 5779 metagenome‐assembled genomes, among which 470 are novel species covering 20 phyla with 1385 novel assembled genomes. Based on the UHSG, the core functions of the skin microbiome are described and the differences in amino acid metabolism, carbohydrate metabolism, and drug resistance functions among different phyla are identified. Furthermore, analysis of secondary metabolites of the near‐complete genomes further find 1220 putative novel secondary metabolites, several of which are found in previously unknown genomes. Single nucleotide variant (SNV) reveals a possible skin protection mechanism: the negative selection process of the skin environment to conditional pathogens. UHSG offers a convenient reference database that will facilitate a more in‐depth understanding of the role of skin microorganisms in the skin. [ABSTRACT FROM AUTHOR]

Background: 2019 Coronavirus disease (COVID-19) is an infectious disease caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The COVID-19 pandemic has already had a serious influence on human existence, causing a huge public health concern for countries all around the world. Because SARS-CoV-2 infection can be spread by contact with the oral cavity, the link between oral illness and COVID-19 is gaining traction. Through bioinformatics approaches, we explored the possible molecular mechanisms linking the COVID-19 and periodontitis to provide the basis and direction for future research. Methods: Transcriptomic data from blood samples of patients with COVID-19 and periodontitis was downloaded from the Gene Expression Omnibus database. The shared differentially expressed genes were identified. The analysis of Gene Ontology, Kyoto Encyclopedia of Genesand Genomes pathway, and protein–protein interaction network was conducted for the shared differentially expressed genes. Top 5 hub genes were selected through Maximal Clique Centrality algorithm. Then mRNA-miRNA network of the hub genes was established based on miRDB database, miRTarbase database and Targetscan database. The Least absolute shrinkage and selection operator regression analysis was used to discover possible biomarkers, which were then investigated in relation to immune-related genes. Results: Fifty-six shared genes were identified through differential expression analysis in COVID-19 and periodontitis. The function of these genes was enriched in regulation of hormone secretion, regulation of secretion by cell. Myozenin 2 was identified through Least absolute shrinkage and selection operator regression Analysis, which was down-regulated in both COVID-19 and periodontitis. There was a positive correlation between Myozenin 2 and the biomarker of activated B cell, memory B cell, effector memory CD4 T cell, Type 17 helper cell, T follicular helper cell and Type 2 helper cell. Conclusion: By bioinformatics analysis, Myozenin 2 is predicted to correlate to the pathogenesis and immune infiltrating of COVID-19 and periodontitis. However, more clinical and experimental researches are needed to validate the function of Myozenin 2. [ABSTRACT FROM AUTHOR]

Numerous studies have investigated the risk factors of Alzheimer's disease (AD); however, AD-risk factors related miRNAs were rarely reported. In this study, AD-risk factor related miRNAs of 105 Chinese individuals (45 AD patients and 60 cognitively normal controls) were investigated. The results showed that Hsa-miR-185-5p, Hsa-miR-20a-5p, and Hsa-miR-497-5p were related to AD and education, Hsa-miR-185-5p, Hsa-miR-181c-5p, Hsa-miR-664a-3p, Hsa-miR-27a-3p, Hsa-miR-451a, and Hsa-miR-320a were related to AD and depression. Target prediction of above miRNAs showed that these miRNAs were involved in the generation and clearance of amyloid-beta (Aβ), important molecules related to cognition, and disease-activated microglia response to AD. It is worth noting that Hsa-miR-185-5p was related to both education and depression, whose decreased expression pattern in AD patients was alleviated by education and enhanced by depression, and participates in Aβ generation and accumulation. Our results indicated that certain education and depression factors can contribute to AD progression by modulating miRNA expression, implying that preventive interventions might alter AD progression in Chinese patients. [ABSTRACT FROM AUTHOR]

Hepatocellular carcinoma (HCC) is the fourth main reason of cancer-related death. Codonopsis pilosula is a commonly used traditional Chinese medicine (TCM) for patients with HCC. However, its potential mechanism for treatment of HCC remains unclear. Here, we used transcriptomics and network pharmacology to explore the potential molecular mechanisms of Codonopsis pilosula. In our study, twelve differentially expressed genes (DEGs) (5 upregulated and 7 downregulated) of Codonopsis pilosula treating HepG2 cells (a kind of HCC cell) were identified. Among the 12 DEGs, HMOX1 may play an essential role. Codonopsis pilosula mainly affects the mineral absorption pathway in HCC. We acquired 2957, 1877, and 255 targets from TCMID, SymMap, and TCMSP, respectively. Codonopsis pilosula could upregulate HMOX1 via luteolin, capsaicin, and sulforaphane. Our study provided new understanding of the potential pharmacological mechanisms of Codonopsis pilosula in treating HCC and pointed out a direction for further experimental research. [ABSTRACT FROM AUTHOR]

Range-based positioning using wireless signal has gained remarkable attention in past decades. Accurately extracting the distance information, i.e., estimating parameters of individual multipath, is of interest. It has been shown that diffuse multipath component (DMC) in wireless propagation channel has significant influence on channel estimation and, thus, the ranging performance. In addition to specular component (SC), DMC should be considered in order to improve the estimated accuracy of channel paths’ parameters and, thus, the ranging performance. In this paper, we extend the quasi-maximum likelihood space-alternating generalized expectation-maximization (SAGE) algorithm by incorporating an autoregressive moving average (ARMA) filter to estimate the channel parameters under the presence of DMC. The parameters of both DMC and SC are estimated in an iterative approach, where the DMC is assumed as colored noise and the ARMA-filter is used to estimate the contributions from DMC. The validation of the algorithm based on measured data shows that both SC and DMC can be accurately estimated by the proposed approach. A comparison with standard SAGE and AR-SAGE is conducted, where the results reveal that the proposed method outperforms other two approaches in terms of ranging accuracy. [ABSTRACT FROM AUTHOR]

DNA barcoding has become one of the most important techniques in plant species identification. Successful application of this technology is dependent on the availability of reference database of high species coverage. Unfortunately, there are experimental and data processing challenges to construct such a library within a short time. Here, we present our solutions to these challenges. We sequenced six conventional DNA barcode fragments (ITS1, ITS2, matK1, matK2, rbcL1, and rbcL2) of 380 flowering plants on next‐generation sequencing (NGS) platforms (Illumina Hiseq 2500 and Ion Torrent S5) and the Sanger sequencing platform. After comparing the sequencing depths, read lengths, base qualities, and base accuracies, we conclude that Illumina Hiseq2500 PE250 run is suitable for conventional DNA barcoding. We developed a new "Cotu" method to create consensus sequences from NGS reads for longer output sequences and more reliable bases than the other three methods. Step‐by‐step instructions to our method are provided. By using high‐throughput machines (PCR and NGS), labeling PCR, and the Cotu method, it is possible to significantly reduce the cost and labor investments for DNA barcoding. A regional or even global DNA barcoding reference library with high species coverage is likely to be constructed in a few years. [ABSTRACT FROM AUTHOR]

Purpose: Critically ill COVID-19 patients have significantly increased risk of death. Although several circulating biomarkers are thought to be related to COVID-19 severity, few studies have focused on the characteristics of critically ill patients with different outcomes. The objective of this study was to perform a longitudinal investigation of the potential mechanisms affecting the prognosis of critically ill COVID-19 patients. Methods: In addition to clinical data, 113 whole blood samples and 85 serum samples were collected from 33 severe and critical COVID-19 patients without selected comorbidities. Multi-omics analysis was then performed using longitudinal samples. Results: Obvious transcriptional transitions were more frequent in critical survivors than in critical non-survivors, indicating that phase transition may be related to survival. Based on analysis of differentially expressed genes during transition, the erythrocyte differentiation pathway was significantly enriched. Furthermore, clinical data indicated that red blood cell counts showed greater fluctuation in survivors than in non-survivors. Moreover, declining red blood cell counts and hemoglobin levels were validated as prognostic markers of poor outcome in an independent cohort of 114 critical COVID-19 patients. Protein–metabolite–lipid network analysis indicated that tryptophan metabolism and melatonin may contribute to molecular transitions in critical COVID-19 patients with different outcomes. Conclusions: This study systematically and comprehensively depicted the longitudinal hallmarks of critical COVID-19 patients and indicated that multi-omics transition may impact the prognosis. Take home message: Frequent transcriptional phase transitions may contribute to outcome in critically ill COVID-19 patients. Furthermore, fluctuation in red blood cell and hemoglobin levels may relate to poor prognosis. The biological function of melatonin was suppressed in COVID-19 non-survivors, which may provide a potential theoretical basis for clinical administration. [ABSTRACT FROM AUTHOR]

Background: Lysine succinylation is a newly identified posttranslational modification (PTM), which exists widely from prokaryotes to eukaryotes and participates in various cellular processes, especially in the metabolic processes. Staphylococcus epidermidis is a commensal bacterium in the skin, which attracts more attention as a pathogen, especially in immunocompromised patients and neonates by attaching to medical devices and forming biofilms. However, the significance of lysine succinylation in S. epidermidis proteins has not been investigated. Objectives: The purpose of this study was to investigate the physiological and pathological processes of S. epidermidis at the level of PTM. Moreover, by analyzing previous succinylome datasets in various organisms, we tried to provide an in-depth understanding of lysine succinylation. Methods: Using antibody affinity enrichment followed by LC-MS/MS analysis, we examined the succinylome of S. epidermidis (ATCC 12228). Then, bioinformatics analysis was performed, including Gene Ontology (GO), KEGG enrichment, motif characterization, secondary structure, protein–protein interaction, and BLAST analysis. Results: A total of 1557 succinylated lysine sites in 649 proteins were identified in S. epidermidis (ATCC 12228). Among these succinylation proteins, GO annotation showed that proteins related to metabolic processes accounted for the most. KEGG pathway characterization indicated that proteins associated with the glycolysis/gluconeogenesis and citrate cycle (TCA cycle) pathway were more likely to be succinylated. Moreover, 13 conserved motifs were identified. The specific motif KsuD was conserved in model prokaryotes and eukaryotes. Succinylated proteins with this motif were highly enriched in the glycolysis/gluconeogenesis pathway. One succinylation site (K144) was identified in S-ribosylhomocysteine lyase, a key enzyme in the quorum sensing system, indicating the regulatory role succinylation may play in bacterial processes. Furthermore, 15 succinyltransferases and 18 desuccinylases (erasers) were predicted in S. epidermidis by BLAST analysis. Conclusion: We performed the first comprehensive profile of succinylation in S. epidermidis and illustrated the significant role succinylation may play in energy metabolism, QS system, and other bacterial behaviors. This study may be a fundamental basis to investigate the underlying mechanisms of colonization, virulence, and infection of S. epidermidis , as well as provide a new insight into regulatory effects succinylation may lay on metabolic processes (Data are available via ProteomeXchange with identifier PXD022866). [ABSTRACT FROM AUTHOR]

Key message: We applied the phylogenomics to clarify the concept of rice species, aid in the identification and use of rice germplasms, and support rice biodiversity. Rice (genus Oryza) is one of the most important crops in the world, supporting half of the world's population. Breeding of high-yielding and quality cultivars relies on genetic resources from both cultivated and wild species, which are collected and maintained in seed banks. Unfortunately, numerous seeds are mislabeled due to taxonomic issues or misidentifications. Here, we applied the phylogenomics of 58 complete chloroplast genomes and two hypervariable nuclear genes to determine species identity in rice seeds. Twenty-one Oryza species were identified. Conspecific relationships were determined between O. glaberrima and O. barthii, O. glumipatula and O. longistaminata, O. grandiglumis and O. alta, O. meyeriana and O. granulata, O. minuta and O. malampuzhaensis, O. nivara and O. sativa subsp. indica, and O. sativa subsp. japonica and O. rufipogon.D and L genome types were not found and the H genome type was extinct. Importantly, we evaluated the performance of four conventional plant DNA barcodes (matK, rbcL, psbA-trnH, and ITS), six rice-specific chloroplast DNA barcodes (psaJ-rpl33, trnC-rpoB, rps16-trnQ, rpl22-rps19, trnK-matK, and ndhC-trnV), two rice-specific nuclear DNA barcodes (NP78 and R22), and a chloroplast genome super DNA barcode. The latter was the most reliable marker. The six rice-specific chloroplast barcodes revealed that 17% of the 53 seed accessions from rice seed banks or field collections were mislabeled. These results are expected to clarify the concept of rice species, aid in the identification and use of rice germplasms, and support rice biodiversity. [ABSTRACT FROM AUTHOR]

The presence of diatoms in victim's internal organs has been regarded as a gold biological evidence of drowning. The idea becomes true at the advent of DNA metabarcoding. Unfortunately, the DNA barcode of diatoms are far from being applicable due to neither consensus on the barcode and nor reliable reference library.In this study we tested 23 pairs of primers, including two new primer pairs, Baci18S (V4 of 18S) and BacirbcL (central region of rbcL), for amplifying fragments of 16S/18S , 23S/28S, COI, ITS and rbcL. A total of five pairs of primers performed satisfactory for diatoms. We used three of them, 18S605 (V2 + V3 of 18S), Baci18S and BacirbcL, to barcode four water samples using next generation sequencing platform. The results showed that these primers worked well for NGS metabarcoding of diatoms. We suggest that 18S605, Baci18S and BacirbcL be barcodes of diatoms and the corresponding primer pairs be used. Considering a quite high proportion of sequences deposited in GenBank were mislabeled, the most urgent task for DNA barcoding of diatoms is to create standard sequences using correctly identified specimens, ideally type specimens. [ABSTRACT FROM AUTHOR]

Neurodegenerative diseases encompass a wide variety of pathological conditions caused by a loss of neurons in the central nervous system (CNS) and are severely debilitating. Exosome contains bio-signatures of great diagnostic and therapeutic value. There is proof that exosomal proteins can be biomarkers for Alzheimer's disease (AD) and Parkinson's disease (PD). MicroRNAs in exosome has potential to be an important source of biomarkers for neurodegenerative diseases. Here, we report exosomal microRNA performance of human plasma in neurodegenerative diseases by small RNA sequencing. A wide range of altered exo-miRNA expression levels were detected in both AD and PD patients. Down-regulated miRNAs in AD samples were enriched in ECM-receptor interaction pathway and both up-/down-regulated miRNAs in PD samples were enriched in fatty acid biosynthesis pathway. Compared to the control, 8 miRNAs were found to be significantly elevated/declined in AD and PD samples, of which 4 miRNAs were newly identified. Additionally, two exosome isolating methods were compared and the reproducibility of plasma exo-miRNA expression was confirmed, suggesting the feasibility of large-scale clinical application of this method. This study revealed exo-miRNA expression levels in neurodegenerative diseases, proposed new biomarkers and their potential functional pathway for AD and PD, confirmed the reproductivity of exo-miRNA profiles by using a different exosome isolating method, and compared the results with plasma miRNA expression. Therefore, this study also provides a precedent for identifying exosomal biomarkers of neurodegenerative diseases in plasma by high-throughput sequencing and it could extend the therapeutic repertoire of exosomal biomarkers. [ABSTRACT FROM AUTHOR]

The accuracy of traditional 3-D measurements is limited by the depth of field (DOF), such as in binocular imaging and holography. Ghost imaging (GI) can achieve lensless imaging with a DOF deeper than the traditional imaging. To realize this, a computational GI method is proposed and a system built, in which the light field information and modulation information are used to reconstruct the 3-D image. This system uses two projection devices for light modulation and pattern projecting, and utilizes a detector to receive the reflected signals of the two projectors on the object synchronously. The experiment shows that for an original DOF of 0.4 m, our system can extend the depth to 1.5 m. The method should have the great application prospects in the fields of remote sensing, imaging guidance, and medical imaging. [ABSTRACT FROM AUTHOR]

We report a novel synthesis scheme to produce polydopamine (PDA) nanotubes using halloysite clay nanotubes (HNT) as a sacrificial template. Polydopamine nanotubes were fabricated via the formation of a polydopamine coating on HNT from a dopamine solution followed by template removal. Michael Addition was used to decorate the outer surface with polyethylene glycol. Removal of the template material resulted in a bilayered organic nanotube consisting of an inner layer of polydopamine adjacent to the lumen and an outer polyethylene glycol surface. The tubes had an aspect ratio of 5.3 ± 0.6, a diameter on the order of 70 nm, and wall thicknesses on the order of 15 nm. The PDA nanotubes exhibited photothermal conversion upon irradiation at near infrared wavelengths; a temperature increase of 30 °C was observed when a 250 μg ml−1 sample was subjected to 1 W cm−2 density irradiation at 808 nm wavelength. Analysis indicated that the prepared tubes had slightly higher photothermal conversion efficiency than PDA nanospheres. An antitumor drug, doxorubicin, was used as a model to test the potential for drug delivery of the organic nanotubes. The nanotubes exhibited higher loading capacities than PDA nanospheres and were capable of controlled release at pHs relevant to human serum and tumors (pH 7.4 and 5.0 respectively). Drug release rates varied as a function of system pH and application of near infrared irradiation. Release of doxorubicin was enhanced at a pH of 5.0, and retarded at a pH of 7.4. Irradiation with 808 nm wavelength light also increased the release of doxorubicin. [ABSTRACT FROM AUTHOR]

Phosphorylation of the transit peptides of nuclear-encoded preprotein is a well-known regulatory process of protein import in plant chloroplasts. In the Arabidopsis Protein Phosphorylation Site Database, 103 out of 802 mitochondrial proteins were found to contain one or more experimentally proven phosphorylation sites in their first 60 amino acid residues. Analysis of the N-terminal sequences of selected mitochondrial preproteins and their homologs from 64 plant species showed high conservation among phosphorylation sites. The ability of kinases from various sources including leaf extract (LE), root extract (RE), wheat germ lysate (WGL), and STY kinases to phosphorylate N-terminal sequences of several respiratory chain proteins were examined by in vitro kinase assays. The three STY kinases were shown to phosphorylate the N-terminal sequences of some proteins we tested but exhibited different specificities. Interestingly, the N-terminal sequences of two mitochondrial ATP synthase beta subunit 1/3 (pF1β-1/3) could be phosphorylated by LE and RE but not by STY kinases, suggesting that there are uncharacterized presequence-phosphorylating kinases other than STY kinases present in RE and LE. Mitochondrial import studies showed that the import of RRL-synthesized pF1βs was impeded by the treatment of LE, and the addition of a short SSU transit peptide containing a phosphorylatable 14-3-3 binding site could enhance the import of LE-treated pF1βs. Our results suggested that the transit peptide of pSSU can compete with the presequences of pF1βs for an uncharacterized kinase(s) in leaf. Altogether, our data showed that phosphorylation of transit peptides/presequences are not uncommon for chloroplast-targeted and mitochondria-targeted proteins, albeit possibly differentially regulated. [ABSTRACT FROM AUTHOR]

Disease resistance exerts a fitness cost on plants, presumably due to the extra consumption of energy and carbon. In this study, we examined whether transgenic Arabidopsis thaliana with increased levels of ATP and sucrose is more resistant or susceptible to pathogen infection. Lines of A. thaliana over-expressing purple acid phosphatase 2 (AtPAP2) (OE lines) contain increased levels of ATP and sucrose, with improved growth rate and seed production. Compared to wild type (WT) and pap2 lines, the OE lines were more susceptible to several Pseudomonas syringae pv. tomato (Pst) strains carrying AvrRpm1, AvrRpt2 AvrRps4, AvrPtoB, HrcC and WT strain DC3000. The increased susceptibility of the OE lines to Pst strains cannot solely be attributed to the suppressed expression of R-genes but must also be attributed to the suppression of downstream signaling components, such as MOS2, EDS1 and EDS5. Before infection, the levels of salicylic acid (SA) and jasmonic acid (JA) precursor OPDA were similar in the leaves of OE, pap2 and WT plants, whereas the levels of JA and its derivative JA-Ile were significantly lower in the leaves of OE lines and higher in the pap2 line. The expression of JA marker defense gene PDF1.2 was up-regulated in the OE lines compared to the WT prior to Pst DC3000 infection, but its expression was lower in the OE lines after infection. In summary, high fitness Arabidopsis thaliana exhibited altered JA metabolism and broad suppression of R-genes and downstream genes as well as a higher susceptibility to Pst infections. [ABSTRACT FROM AUTHOR]

miR396 targets seven GROWTH-REGULATING FACTOR (GRF) genes and the BASIC HELIX–LOOP–HELIX (bHLH) TRANSCRIPTION FACTOR 74 gene (bHLH74) in Arabidopsis. Previous research revealed that the miR396 target module regulates cell proliferation and plays a critical role in leaf development. However, no additional biological functions of miR396 have been investigated in detail. In this study, T-DNA insertion mutants and transgenic plants with altered levels of miR396 or its target genes were used to characterize the regulatory role of miR396 in root development. We found that AtMIR396a was the predominant source for miR396 accumulation in the roots of seedlings, and that the mir396a-1 mutant had longer roots than wild-type seedlings. Overexpression of AtMIR396a decreased the transcript levels of target genes such as GRF genes and bHLH74, and resulted in a shorter root phenotype. Furthermore, the bhlh74-1 mutant had shorter roots, whereas overexpression of an miR396-resistant form of bHLH74 (mbHLH74) had an enhanced root growth phenotype. Moreover, MIR396a regulated root growth by affecting the elongation zone. Taken together, these data indicate that miR396a-mediated bHLH74 repression helps regulate root growth in Arabidopsis seedlings. [ABSTRACT FROM PUBLISHER]

Biological age (BA) has been proposed to evaluate the aging status instead of chronological age (CA). Our study shows evidence that there might be multiple "clocks" within the whole-body system: systemic aging drivers/clocks overlaid with organ/tissue-specific counterparts. We utilize multi-omics data, including clinical tests, immune repertoire, targeted metabolomic molecules, gut microbiomes, physical fitness examinations, and facial skin examinations, to estimate the BA of different organs (e.g., liver, kidney) and systems (immune and metabolic system). The aging rates of organs/systems are diverse. People's aging patterns are different. We also demonstrate several applications of organs/systems BA in two independent datasets. Mortality predictions are compared among organs' BA in the dataset of the United States National Health and Nutrition Examination Survey. Polygenic risk score of BAs constructed in the Chinese Longitudinal Healthy Longevity Survey cohort can predict the possibility of becoming centenarian. [Display omitted] • Constructing biological ages of organs/systems using multi-omics features • Organs and systems are aging at different rates • Specific biological age could predict disease of corresponding organs • Biological ages of organs and systems have diverse genetic architectures Nie et al. estimate biological ages of organs and systems using 402 multi-omics features from 4,066 individuals and demonstrate several applications. They find that organs and systems are aging at different rates, and biological ages could be utilized for population stratification, mortality prediction, and phenotypes of genetic association studies. [ABSTRACT FROM AUTHOR]

The immune system of skin develops in stages in mice. However, the developmental dynamics of immune cells in human skin remains elusive. Here, we perform transcriptome profiling of CD45+ hematopoietic cells in human fetal skin at an estimated gestational age of 10–17 weeks by single-cell RNA sequencing. A total of 13 immune cell types are identified. Skin macrophages show dynamic heterogeneity over the course of skin development. A major shift in lymphoid cell developmental states occurs from the first to the second trimester that implies an in situ differentiation process. Gene expression analysis reveals a typical developmental program in immune cells in accordance with their functional maturation, possibly involving metabolic reprogramming. Finally, we identify transcription factors (TFs) that potentially regulate cellular transitions by comparing TFs and TF target gene networks. These findings provide detailed insight into how the immune system of the human skin is established during development. [Display omitted] • Single-cell RNA sequencing reveals diverse immune cells in human fetal skin • Macrophages are heterogeneous and dynamic in fetal skin development • Innate lymphoid lineages gradually differentiate from early to mid-gestation • Skin immune cell development is associated with metabolic reprogramming Xu et al. perform single-cell transcriptome profiling of immune cells in human fetal skin at early- to mid-gestation. They highlight the heterogeneity and dynamic developmental process of macrophages and innate lymphoid cells and reveal metabolic reprogramming and transcription factors (TFs) transition involved in cell differentiation in situ. [ABSTRACT FROM AUTHOR]

To achieve the promise of stimuli-responsive drug delivery systems for the treatment of cancer, they should (1) avoid premature clearance; (2) accumulate in tumors and undergo endocytosis by cancer cells; and (3) exhibit appropriate stimuli-responsive release of the payload. It is challenging to address all of these requirements simultaneously. However, the numerous proof-of-concept studies addressing one or more of these requirements reported every year have dramatically expanded the toolbox available for the design of drug delivery systems. This review highlights recent advances in the targeting and stimuli-responsiveness of drug delivery systems. It begins with a discussion of nanocarrier types and an overview of the factors influencing nanocarrier biodistribution. On-demand release strategies and their application to each type of nanocarrier are reviewed, including both endogenous and exogenous stimuli. Recent developments in stimuli-responsive targeting strategies are also discussed. The remaining challenges and prospective solutions in the field are discussed throughout the review, which is intended to assist researchers in overcoming interdisciplinary knowledge barriers and increase the speed of development. This review presents a nanocarrier-based drug delivery systems toolbox that enables the application of techniques across platforms and inspires researchers with interdisciplinary information to boost the development of multifunctional therapeutic nanoplatforms for cancer therapy. [ABSTRACT FROM AUTHOR]

In the above mentioned publication the funding section was missing. The original article has been corrected and the funding section is also published here. [ABSTRACT FROM AUTHOR]

Nitrogen fixation in soybean consumes a tremendous amount of energy, leading to substantial differences in energy metabolism and mitochondrial activities between nodules and uninoculated roots. While C-to-U RNA editing and intron splicing of mitochondrial transcripts are common in plant species, their roles in relation to nodule functions are still elusive. In this study, we performed RNA-seq to compare transcript profiles and RNA editing of mitochondrial genes in soybean nodules and roots. A total of 631 RNA editing sites were identified on mitochondrial transcripts, with 12% or 74 sites differentially edited among the transcripts isolated from nodules, stripped roots, and uninoculated roots. Eight out of these 74 differentially edited sites are located on the matR transcript, of which the degrees of RNA editing were the highest in the nodule sample. The degree of mitochondrial intron splicing was also examined. The splicing efficiencies of several introns in nodules and stripped roots were higher than in uninoculated roots. These include nad1 introns 2/3/4, nad4 intron 3, nad5 introns 2/3, cox2 intron 1, and ccmFc intron 1. A greater splicing efficiency of nad4 intron 1, a higher NAD4 protein abundance, and a reduction in supercomplex I + III2 were also observed in nodules, although the causal relationship between these observations requires further investigation. [ABSTRACT FROM AUTHOR]

Whispering-gallery-mode (WGM) microresonators have shown their potential in high-precision gyroscopes because of their small volume and high-quality factors. However, Kerr noise can always be the limit of accuracy. Angular-rate sensing based on mode splitting treats backscattering as a measured signal, which can induce mode splitting, while it is considered as a main source of noise in conventional resonator optical gyroscopes. Meanwhile, mode splitting also provides superior noise suppression owing to its self-reference scheme. Kerr noise in this scheme has not been defined and solved yet. Here, the mechanism of the Kerr noise in the measurement is analyzed and the mathematical expressions are derived, indicating the relationship between the Kerr noise and the output of the system. The influence caused by Kerr noise on the output is simulated and discussed. Simulations show that the deviation of the splitting caused by Kerr noise is 1.913 × 10−5 Hz at an angular rate of 5 × 106 °/s and the corresponding deviation of the angular rate is 9.26 × 10−9 °/s. It has been proven that angular-rate sensing based on mode splitting offers good suppression of Kerr noise. [ABSTRACT FROM AUTHOR]