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1.
J Cancer Res Clin Oncol ; 150(5): 258, 2024 May 16.
Artigo em Inglês | MEDLINE | ID: mdl-38753091

RESUMO

PURPOSE: Breast cancer (BC) is the most prevalent malignant tumor worldwide among women, with the highest incidence rate. The mechanisms underlying nucleotide metabolism on biological functions in BC remain incompletely elucidated. MATERIALS AND METHODS: We harnessed differentially expressed nucleotide metabolism-related genes from The Cancer Genome Atlas-BRCA, constructing a prognostic risk model through univariate Cox regression and LASSO regression analyses. A validation set and the GSE7390 dataset were used to validate the risk model. Clinical relevance, survival and prognosis, immune infiltration, functional enrichment, and drug sensitivity analyses were conducted. RESULTS: Our findings identified four signature genes (DCTPP1, IFNG, SLC27A2, and MYH3) as nucleotide metabolism-related prognostic genes. Subsequently, patients were stratified into high- and low-risk groups, revealing the risk model's independence as a prognostic factor. Nomogram calibration underscored superior prediction accuracy. Gene Set Variation Analysis (GSVA) uncovered activated pathways in low-risk cohorts and mobilized pathways in high-risk cohorts. Distinctions in immune cells were noted between risk cohorts. Subsequent experiments validated that reducing SLC27A2 expression in BC cell lines or using the SLC27A2 inhibitor, Lipofermata, effectively inhibited tumor growth. CONCLUSIONS: We pinpointed four nucleotide metabolism-related prognostic genes, demonstrating promising accuracy as a risk prediction tool for patients with BC. SLC27A2 appears to be a potential therapeutic target for BC among these genes.


Assuntos
Neoplasias da Mama , Humanos , Feminino , Neoplasias da Mama/genética , Neoplasias da Mama/patologia , Prognóstico , Medição de Risco/métodos , Nucleotídeos/genética , Nomogramas , Biomarcadores Tumorais/genética , Biomarcadores Tumorais/metabolismo , Animais , Regulação Neoplásica da Expressão Gênica , Camundongos , Linhagem Celular Tumoral
2.
Cancer Lett ; : 216846, 2024 Apr 04.
Artigo em Inglês | MEDLINE | ID: mdl-38582397

RESUMO

Cancer cells employ the unfolded protein response (UPR) or induce autophagy, especially selective removal of certain ER domains via reticulophagy (termed ER-phagy), to mitigate endoplasmic reticulum (ER) stress for ER homeostasis when encountering microenvironmental stress. N6-methyladenosine (m6A) is one of the most abundant epitranscriptional modifications and plays important roles in various biological processes. However, the molecular mechanism of m6A modification in the ER stress response is poorly understood. In this study, we first found that ER stress could dramatically elevate m6A methylation levels through XBP1s-dependent transcriptional upregulation of METTL3/METTL14 in breast cancer (BC) cells. Further MeRIP sequencing and relevant validation results confirmed that ER stress caused m6A methylation enrichment on target genes for ER-phagy. Mechanistically, METTL3/METTL14 increased ER-phagy machinery formation by promoting m6A modification of the ER-phagy regulators CALCOCO1 and p62, thus enhancing their mRNA stability. Of note, we further confirmed that the chemotherapeutic drug paclitaxel (PTX) could induce ER stress and increase m6A methylation for ER-phagy. Furthermore, the combination of METTL3/METTL14 inhibitors with PTX demonstrated a significant synergistic therapeutic effect in both BC cells and xenograft mice. Thus, our data built a novel bridge on the crosstalk between ER stress, m6A methylation and ER-phagy. Most importantly, our work provides novel evidence of METTL3 and METTL14 as potential therapeutic targets for PTX sensitization in breast cancer.

3.
J Immunother ; 2024 Apr 30.
Artigo em Inglês | MEDLINE | ID: mdl-38686904

RESUMO

The involvement of M2-like tumor-associated macrophages (TAMs) in the advancement and treatment of cancer has been widely documented. This study aimed to develop a new signature associated with M2-like TAMs to predict the prognosis and treatment response in individuals diagnosed with breast cancer (BC). Weighted gene co-expression network analysis (WGCNA) was used to identity for M2-like TAM-related modular genes. The M2-like TAM-related modular subtype was identified using unsupervised clustering. WGCNA identified 722 M2-like TAM genes, 204 of which were associated with recurrence-free survival (RFS). Patients in cluster 1 exhibited upregulated cancer-related pathways, a higher proportion of triple-negative breast cancer (TNBC) subtypes, lower expression of immune checkpoints, and worse prognosis. Cluster 2 was characterized by upregulated immune-related pathways, a higher proportion of luminal A subtypes, and higher expression of immune checkpoints. A prognostic signature was created and confirmed using an independent dataset. A well-built nomogram can accurately forecast the survival outcomes for every individual. Furthermore, patients classified as low-risk exhibited a more favorable outlook, elevated tumor microenvironment (TME) score, and superior reaction to immunotherapy. In conclusion, we discovered 2 different types of M2-like TAMs and developed a prognostic signature revealing the diversity of M2-like TAMs in BC and their correlation with immune status and prognosis. This feature can predict the prognosis and immunotherapeutic effects of BC and offer novel concepts and approaches for tailoring BC treatment.

4.
Int Immunopharmacol ; 131: 111818, 2024 Apr 20.
Artigo em Inglês | MEDLINE | ID: mdl-38460300

RESUMO

Immunotherapy is widely applied for the treatment of breast cancer, but to which some patients respond poorly or develop resistance. Therefore, the mechanism needs to be further studied. Transcriptomic data of 31 breast cancer patients treated with anti-programmed death receptor 1 (PD-1) was downloaded from the VIB-KULeuven Center for Cancer Biology to analyze the changes in myeloid cells in tumor tissues before and after immunotherapy. And 24 cell populations that may be immune-related were further identified. Representative cell populations were also screened and validated through cellular and animal experiments to evaluate the relevant molecular expression and pathways of tumor-associated macrophages (TAMs) in the tumor microenvironment. The results demonstrated that MGP+ TAMs and IDO1+ TAMs influenced the efficacy of immunotherapy in breast cancer patients. After anti-PD-1 treatment, Increased numbers of MGP+ TAMs and IDO1+ TAMs in breast cancer patients upregulated pro-tumorigenic factors associated with resistance to immunosuppressive therapy. This study provides new biomarkers for immunotherapy to predict therapeutic responses and overcome potential resistance to immunotherapy. It is an important complement to the immunosuppression caused by TAMs after immunotherapy for breast cancer.


Assuntos
Neoplasias da Mama , Animais , Humanos , Feminino , Neoplasias da Mama/patologia , Macrófagos Associados a Tumor , Macrófagos/metabolismo , Imunoterapia/métodos , Análise de Sequência de RNA , Microambiente Tumoral
5.
Front Plant Sci ; 14: 1237822, 2023.
Artigo em Inglês | MEDLINE | ID: mdl-37600185

RESUMO

Prunella vulgaris (Lamiaceae) is widely distributed in Eurasia. Former studies have demonstrated that P. vulgaris has a wide range of pharmacological effects. Nevertheless, no complete P. vulgaris mitochondrial genome has been reported, which limits further understanding of the biology of P. vulgaris. Here, we assembled the first complete mitochondrial genome of P. vulgaris using a hybrid assembly strategy based on sequencing data from both Nanopore and Illumina platforms. Then, the mitochondrial genome of P. vulgaris was analyzed comprehensively in terms of gene content, codon preference, intercellular gene transfer, phylogeny, and RNA editing. The mitochondrial genome of P. vulgaris has two circular structures. It has a total length of 297, 777 bp, a GC content of 43.92%, and 29 unique protein-coding genes (PCGs). There are 76 simple sequence repeats (SSRs) in the mitochondrial genome, of which tetrameric accounts for a large percentage (43.4%). A comparative analysis between the mitochondrial and chloroplast genomes revealed that 36 homologous fragments exist in them, with a total length of 28, 895 bp. The phylogenetic analysis showed that P. vulgaris belongs to the Lamiales family Lamiaceae and P. vulgaris is closely related to Salvia miltiorrhiza. In addition, the mitochondrial genome sequences of seven species of Lamiaceae are unconservative in their alignments and undergo frequent genome reorganization. This work reports for the first time the complete mitochondrial genome of P. vulgaris, which provides useful genetic information for further Prunella studies.

6.
Nature ; 621(7979): 610-619, 2023 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-37557913

RESUMO

The proper regulation of transcription is essential for maintaining genome integrity and executing other downstream cellular functions1,2. Here we identify a stable association between the genome-stability regulator sensor of single-stranded DNA (SOSS)3 and the transcription regulator Integrator-PP2A (INTAC)4-6. Through SSB1-mediated recognition of single-stranded DNA, SOSS-INTAC stimulates promoter-proximal termination of transcription and attenuates R-loops associated with paused RNA polymerase II to prevent R-loop-induced genome instability. SOSS-INTAC-dependent attenuation of R-loops is enhanced by the ability of SSB1 to form liquid-like condensates. Deletion of NABP2 (encoding SSB1) or introduction of cancer-associated mutations into its intrinsically disordered region leads to a pervasive accumulation of R-loops, highlighting a genome surveillance function of SOSS-INTAC that enables timely termination of transcription at promoters to constrain R-loop accumulation and ensure genome stability.


Assuntos
Instabilidade Genômica , Regiões Promotoras Genéticas , Estruturas R-Loop , Terminação da Transcrição Genética , Humanos , DNA de Cadeia Simples/metabolismo , Instabilidade Genômica/genética , Mutação , Estruturas R-Loop/genética , RNA Polimerase II/metabolismo , Regiões Promotoras Genéticas/genética , Genoma Humano , Proteínas de Ligação a DNA/metabolismo
7.
J Immunother Cancer ; 11(6)2023 06.
Artigo em Inglês | MEDLINE | ID: mdl-37380368

RESUMO

BACKGROUND: As an emerging treatment strategy for triple-negative breast cancer (TNBC), immunotherapy acts in part by inducing ferroptosis. Recent studies have shown that protein arginine methyltransferase 5 (PRMT5) has distinct roles in immunotherapy among multiple cancers by modulating the tumor microenvironment. However, the role of PRMT5 during ferroptosis, especially for TNBC immunotherapy, is unclear. METHODS: PRMT5 expression in TNBC was measured by IHC (immunohistochemistry) staining. To explore the function of PRMT5 in ferroptosis inducers and immunotherapy, functional experiments were conducted. A panel of biochemical assays was used to discover potential mechanisms. RESULTS: PRMT5 promoted ferroptosis resistance in TNBC but impaired ferroptosis resistance in non-TNBC. Mechanistically, PRMT5 selectively methylated KEAP1 and thereby downregulated NRF2 and its downstream targets which can be divided into two groups: pro-ferroptosis and anti-ferroptosis. We found that the cellular ferrous level might be a critical factor in determining cell fate as NRF2 changes. In the context of higher ferrous concentrations in TNBC cells, PRMT5 inhibited the NRF2/HMOX1 pathway and slowed the import of ferrous. In addition, a high PRMT5 protein level indicated strong resistance of TNBC to immunotherapy, and PRMT5 inhibitors potentiated the therapeutic efficacy of immunotherapy. CONCLUSIONS: Our results reveal that the activation of PRMT5 can modulate iron metabolism and drive resistance to ferroptosis inducers and immunotherapy. Accordingly, PRMT5 can be used as a target to change the immune resistance of TNBC.


Assuntos
Neoplasias de Mama Triplo Negativas , Humanos , Neoplasias de Mama Triplo Negativas/tratamento farmacológico , Proteína 1 Associada a ECH Semelhante a Kelch , Fator 2 Relacionado a NF-E2 , Imunoterapia , Bioensaio , Microambiente Tumoral , Proteína-Arginina N-Metiltransferases
8.
Front Oncol ; 13: 1178595, 2023.
Artigo em Inglês | MEDLINE | ID: mdl-37313465

RESUMO

Background: Breast cancer is the most frequently diagnosed cancer and a leading cause of cancer-related death in women. Endoplasmic reticulum stress (ERS) plays a crucial role in the pathogenesis of several malignancies. However, the prognostic value of ERS-related genes in breast cancer has not been thoroughly investigated. Methods: We downloaded and analyzed expression profiling data for breast invasive carcinoma samples in The Cancer Genome Atlas-Breast Invasive Carcinoma (TCGA-BRCA) and identified 23 ERS-related genes differentially expressed between the normal breast tissue and primary breast tumor tissues. We constructed and validated risk models using external test datasets. We assessed the differences in sensitivity to common antitumor drugs between high- and low-scoring groups using the Genomics of Drug Sensitivity in Cancer (GDSC) database, evaluated the sensitivity of patients in high- and low-scoring groups to immunotherapy using the Tumor Immune Dysfunction and Exclusion (TIDE) algorithm, and assessed immune and stromal cell infiltration in the tumor microenvironment (TME) using the Estimation of Stromal and Immune cells in Malignant Tumor tissues using Expression data (ESTIMATE) algorithm. We also analyzed the expression of independent factors in the prognostic model using the Western-blot analysis for correlation in relation to breast cancer. Results: Using multivariate Cox analysis, FBXO6, PMAIP1, ERP27, and CHAC1 were identified as independent prognostic factors in patients with breast cancer. The risk score in our model was defined as the endoplasmic reticulum score (ERScore). ERScore had high predictive power for overall survival in patients with breast cancer. The high-ERScore group exhibited a worse prognosis, lower drug sensitivity, and lower immunotherapy response and immune infiltration than did the low-ERScore group. Conclusions based on ERScore were consistent with Western-blot results. Conclusion: We constructed and validated for the first time an endoplasmic reticulum stress-related molecular prognostic model for breast cancer with reliable predictive properties and good sensitivity, as an important addition to the prognostic prediction model for breast cancer.

9.
Genome Med ; 15(1): 14, 2023 03 03.
Artigo em Inglês | MEDLINE | ID: mdl-36869384

RESUMO

BACKGROUND: Immunotherapy has revolutionized cancer treatment, but most patients are refractory to immunotherapy or acquire resistance, with the underlying mechanisms remaining to be explored. METHODS: We characterized the transcriptomes of ~92,000 single cells from 3 pre-treatment and 12 post-treatment patients with non-small cell lung cancer (NSCLC) who received neoadjuvant PD-1 blockade combined with chemotherapy. The 12 post-treatment samples were categorized into two groups based on pathologic response: major pathologic response (MPR; n = 4) and non-MPR (NMPR; n = 8). RESULTS: Distinct therapy-induced cancer cell transcriptomes were associated with clinical response. Cancer cells from MPR patients exhibited a signature of activated antigen presentation via major histocompatibility complex class II (MHC-II). Further, the transcriptional signatures of FCRL4+FCRL5+ memory B cells and CD16+CX3CR1+ monocytes were enriched in MPR patients and are predictors of immunotherapy response. Cancer cells from NMPR patients exhibited overexpression of estrogen metabolism enzymes and elevated serum estradiol. In all patients, therapy promoted expansion and activation of cytotoxic T cells and CD16+ NK cells, reduction of immunosuppressive Tregs, and activation of memory CD8+T cells into an effector phenotype. Tissue-resident macrophages were expanded after therapy, and tumor-associated macrophages (TAMs) were remodeled into a neutral instead of an anti-tumor phenotype. We revealed the heterogeneity of neutrophils during immunotherapy and identified an aged CCL3+ neutrophil subset was decreased in MPR patients. The aged CCL3+ neutrophils were predicted to interact with SPP1+ TAMs through a positive feedback loop to contribute to a poor therapy response. CONCLUSIONS: Neoadjuvant PD-1 blockade combined with chemotherapy led to distinct NSCLC tumor microenvironment transcriptomes that correlated with therapy response. Although limited by a small patient sample size subjected to combination therapy, this study provides novel biomarkers to predict therapy response and suggests potential strategies to overcome immunotherapy resistance.


Assuntos
Carcinoma Pulmonar de Células não Pequenas , Neoplasias Pulmonares , Humanos , Terapia Neoadjuvante , Receptor de Morte Celular Programada 1 , Microambiente Tumoral , Imunoterapia , Análise de Sequência de RNA
10.
Materials (Basel) ; 16(4)2023 Feb 15.
Artigo em Inglês | MEDLINE | ID: mdl-36837259

RESUMO

A cold spray-laser cladding composite gradient coating (CLGC) was successfully formed on a Cu substrate. In comparison with traditional laser cladding gradient coatings (LGC), cold spraying the pre-set Ni-Cu alloy's intermediate transition layer not only mitigates the negative impacts due to the high reflectivity of the copper substrate but also helps to minimize the difference in the coefficients of thermal expansion (CTE) between the substrate and coating. This reduces the overall crack sensitivity and improves the cladding quality of the coating. Besides this, the uniform distribution of hard phases in CLGC, such as Ni11Si12 and Mo5Si3, greatly increases its microhardness compared to the Cu substrate, thus resulting in the value of 478.8 HV0.5 being approximately 8 times that of the Cu substrate. The friction coefficient of CLGC is lowered compared to both the Cu substrate and LGC with respective values of 0.28, 0.54, and 0.43, and its wear rate is only one-third of the Cu substrate's. These results suggest CLGC has excellent anti-wear properties. In addition, the wear mechanism was determined from the microscopic morphology and element distribution and was found to be oxidative and abrasive. This approach combines cold spraying and laser cladding to form a nickel-based gradient coating on a Cu substrate without cracks, holes, or other faults, thus improving the wear resistance of the Cu substrate and improving its usability.

11.
Materials (Basel) ; 17(1)2023 Dec 20.
Artigo em Inglês | MEDLINE | ID: mdl-38203873

RESUMO

The pursuit of an advanced functional coating that simultaneously combines high hardness, wear resistance, and superior electrical conductivity has remained an elusive goal in the field of copper alloy surface enhancement. Traditional solid solution alloying methods often lead to a significant increase in electron scattering, resulting in a notable reduction in electrical conductivity, making it challenging to achieve a balance between high hardness, wear resistance, and high conductivity. The key lies in identifying a suitable microstructure where dislocation motion is effectively hindered while minimizing the scattering of conductive electrons. In this study, a novel Cu-MoSi2 coating was successfully fabricated on a CuCrZr alloy surface using the coaxial powder feeding high-speed laser cladding technique, with the addition of 10-30% MoSi2 particles. The coating significantly enhances the hardness and wear resistance of the copper substrate while maintaining favorable electrical conductivity. As the quantity of MoSi2 particles increases, the coating's hardness and wear resistance gradually improve, with minimal variance in conductivity. Among the coatings, the Cu-30%MoSi2 coating stands out with the highest hardness (974.5 HV0.5) and the lowest wear amount (0.062 mg/km), approximately 15 times the hardness of the copper base material (65 HV0.5) and only 0.45% of the wear amount (13.71 mg/km). Additionally, the coating exhibits a resistivity of 0.173 × 10-6 Ω·m. The extraordinary hardness and wear resistance of these coatings can be attributed to the dispersion strengthening effect of MoxSiy particles, while the high electrical conductivity is due to the low silicon content dissolved into the copper from the released MoSi2 particles, as well as the rapid cooling rates associated with the high-speed laser cladding process.

12.
Materials (Basel) ; 16(1)2022 Dec 28.
Artigo em Inglês | MEDLINE | ID: mdl-36614623

RESUMO

To improve the wear resistance of high-strength and high-conductivity Cu-Cr-Zr alloys in high-speed and heavy load friction environments, coatings including Ni-Cu, Ni-Cu-10(W,Si), Ni-Cu-10(Mo,W,Si), and Ni-Cu-15(Mo,W,Si) (with an atomic ratio of Mo,W to Si of 1:2) were prepared using coaxial powder-feeding laser cladding technology. The microstructure and wear performance of coatings were chiefly investigated. The results revealed that (Mo,W)Si2 and MoNiSi phases are found in the Ni-Cu-10(Mo,W,Si) and Ni-Cu-15(Mo,W,Si) coating. WSi2 phases are found in the Ni-Cu-10(W,Si) coating. The degree of grain refinement in Ni-Cu-10(Mo,W,Si) was greater than that of the Ni-Cu-10(W,Si) coating after the effect of Mo. The excellent wear resistance and micro-hardness of the Ni-Cu-15(Mo,W,Si) coating were attributed to the increase in its dispersion phase, which were approximately 34.72 mg/km and 428 HV, 27.1% and 590% higher than the Cu-Cr-Zr substrate, respectively. The existence of silicide plays an important role in grain refinement due to the promotion of nucleation and the inhibition of grain growth. In addition, the wear mechanism transformed from adhesive wear in the Ni-Cu coating with no silicides to abrasive wear in the Ni-Cu-15(Mo,W,Si) coating with high levels of silicides.

13.
Transl Lung Cancer Res ; 10(2): 636-650, 2021 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-33718010

RESUMO

BACKGROUND: Combined small cell lung cancer (CSCLC) is an uncommon and heterogeneous subtype of small cell lung cancer (SCLC). However, there is limited data concerning the different molecular changes and clinical features in CSCLC compared to pure SCLC. METHODS: The clinical and pathological characteristics of pure SCLC and CSCLC patients were analyzed. Immunohistochemistry and microdissection were performed to isolate the CSCLC components. Further molecular analysis was carried out by next-generation sequencing (NGS) in 12 CSCLC and 30 pure SCLC. RESULTS: There were no significant differences in clinical features between CSCLC and pure SCLC. Overall survival (OS) of CSCLC patients was worse than pure SCLC (P=0.005). NGS results indicated that TP53 and RB1 were the most frequently mutated genes in both CSCLC (83.33% and 66.67%) and pure SCLC (80.00% and 63.33%) groups. However, less than 10% common mutations were found in both CSCLC and pure SCLC. When analyzing the data of SCLC and non-small cell lung cancer (NSCLC) components of CSCLC, more than 50% common mutations, and identical genes with mutations were detected. Moreover, there were also common biological processes and signaling pathways identified in CSCLC and pure SCLC, in addition to SCLC and NSCLC components. CONCLUSIONS: There were no significant differences in terms of clinical features between CSCLC and pure SCLC. However, the prognosis for CSCLC was worse than pure SCLC. NGS analysis suggested that CSCLC components might derive from the same pluripotent single clone with common initial molecular alterations and subsequent acquisitions of other genetic mutations.

14.
Surg Oncol ; 37: 101513, 2021 Jun.
Artigo em Inglês | MEDLINE | ID: mdl-33429326

RESUMO

OBJECTIVE(S): Lymph node status is vital for patients with small cell lung cancer (SCLC). We sought to evaluate the association between the number of lymph nodes examined (NLNE) and prognosis and nodal upstaging in stage I SCLC patients. METHODS: We queried the Surveillance, Epidemiology and End Results (SEER) database and our department for surgically treated patients with pathologic stage I SCLC to evaluate the correlation between NLNE and overall survival (OS). We further investigated the association between the NLNE and nodal upstaging in clinical stage I SCLC. RESULTS: A total of 878 patients with pathologic stage I SCLC were enrolled from the SEER database. Univariate and multivariate Cox regression analysis revealed that removing more than 6 lymph nodes was associated with significantly improved OS. We validated the prognostic impact from examining more than 6 nodes in pathologic stage I SCLC patients from our department. Logistic regression analysis found that removing more than 6 nodes increased the odds of nodal upstaging for clinical stage I SCLC. CONCLUSIONS: Adequate nodal examination leads to survival benefits and accurate nodal staging. Our analysis indicated that examining more than 6 lymph nodes could confer better OS and predict nodal upstaging for stage I SCLC patients.


Assuntos
Neoplasias Pulmonares/epidemiologia , Neoplasias Pulmonares/patologia , Excisão de Linfonodo/estatística & dados numéricos , Linfonodos/patologia , Carcinoma de Pequenas Células do Pulmão/epidemiologia , Carcinoma de Pequenas Células do Pulmão/patologia , Adulto , Idoso , Idoso de 80 Anos ou mais , Feminino , Humanos , Neoplasias Pulmonares/cirurgia , Masculino , Pessoa de Meia-Idade , Estadiamento de Neoplasias , Prognóstico , Modelos de Riscos Proporcionais , Estudos Retrospectivos , Programa de SEER , Carcinoma de Pequenas Células do Pulmão/cirurgia , Análise de Sobrevida , Estados Unidos/epidemiologia
15.
J Anim Sci ; 99(2)2021 Feb 01.
Artigo em Inglês | MEDLINE | ID: mdl-33493272

RESUMO

Despite the broad variety of available microRNA (miRNA) research tools and methods, their application to the identification, annotation, and target prediction of miRNAs in nonmodel organisms is still limited. In this study, we collected nearly all public sRNA-seq data to improve the annotation for known miRNAs and identify novel miRNAs that have not been annotated in pigs (Sus scrofa). We newly annotated 210 mature sequences in known miRNAs and found that 43 of the known miRNA precursors were problematic due to redundant/missing annotations or incorrect sequences. We also predicted 811 novel miRNAs with high confidence, which was twice the current number of known miRNAs for pigs in miRBase. In addition, we proposed a correlation-based strategy to predict target genes for miRNAs by using a large amount of sRNA-seq and RNA-seq data. We found that the correlation-based strategy provided additional evidence of expression compared with traditional target prediction methods. The correlation-based strategy also identified the regulatory pairs that were controlled by nonbinding sites with a particular pattern, which provided abundant complementarity for studying the mechanism of miRNAs that regulate gene expression. In summary, our study improved the annotation of known miRNAs, identified a large number of novel miRNAs, and predicted target genes for all pig miRNAs by using massive public data. This large data-based strategy is also applicable for other nonmodel organisms with incomplete annotation information.


Assuntos
MicroRNAs , Animais , Genoma , Sequenciamento de Nucleotídeos em Larga Escala/veterinária , MicroRNAs/genética , Suínos/genética
16.
Chemosphere ; 235: 434-439, 2019 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-31272003

RESUMO

The development of slow-release carbon source is an effective way to reduce the total nitrogen (TN) in low carbon to nitrogen ratio wastewater. In this study, a novel solid slow-release carbon source (PPP) was prepared using polycaprolactone (PCL) and peanut shell (PS) as carbon sources with polyvinyl alcohol-sodium alginate (PVA-SA) as hybrid scaffolds. The carbon release properties of PPP and each carbon source materials were compared. The performances of nitrogen removal and microbial community structure using PPP as external carbon source were investigated. The results showed that PPP had the best slow-release performance, and its release process followed the first-order release equation. The ratio of acetic acid, propionic acid and butyric acid in released organic matter was stable at (75.73 ±â€¯4.62)%:(17.22 ±â€¯4.53)%:(7.06 ±â€¯1.02)%. When using PPP as an external carbon source for denitrification, the relative abundance of Gammaproteobacteria increased from 39.32% to 46.66%, while the Shannon index decreased from 8.59 to 8.29. The utilization efficiency of PPP was determined by the ratio of the organic matter releasing rate to the released organic matter consumption rate. By optimizing the PPP dosage, both high nitrogen removal efficiency and low residual organic matter could be achieved.


Assuntos
Carbono/química , Poliésteres/química , Eliminação de Resíduos Líquidos/métodos , Arachis , Desnitrificação , Nitrogênio/química , Águas Residuárias
17.
Nat Nanotechnol ; 13(12): 1191, 2018 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-30443033

RESUMO

In the version of this Letter originally published, Zongfu Yu was mistakenly not noted as being a corresponding author; this has now been corrected in all versions of the Letter.

18.
Opt Express ; 26(19): 24835-24842, 2018 Sep 17.
Artigo em Inglês | MEDLINE | ID: mdl-30469594

RESUMO

Metasurface optical elements, optical phased arrays constructed from a dense arrangement of nanoscale antennas, are promising candidates for the next generation of flat optical components. Metasurfaces that rely on the Pancharatnam-Berry phase facilitate complete and efficient wavefront control. However, their operation typically requires control over the polarization state of the incident light to achieve a desired optical function. Here, we circumvent this inherent sensitivity to the incident polarization by multiplexing two metasurfaces that were designed to achieve the same optical function with incident light of opposite helicity. We analyze the optical performance of different multiplexing approaches, and demonstrate a subwavelength random interleaved polarization-independent metasurface lens operating in the visible spectrum, providing a diffraction-limited spot size for the shared-aperture.

19.
Nat Nanotechnol ; 13(12): 1143-1147, 2018 12.
Artigo em Inglês | MEDLINE | ID: mdl-30374161

RESUMO

Sensing the direction of sounds gives animals clear evolutionary advantage. For large animals, with an ear-to-ear spacing that exceeds audible sound wavelengths, directional sensing is simply accomplished by recognizing the intensity and time differences of a wave impinging on its two ears1. Recent research suggests that in smaller, subwavelength animals, angle sensing can instead rely on a coherent coupling of soundwaves between the two ears2-4. Inspired by this natural design, here we show a subwarvelength photodetection pixel that can measure both the intensity and incident angle of light. It relies on an electrical isolation and optical coupling of two closely spaced Si nanowires that support optical Mie resonances5-7. When these resonators scatter light into the same free-space optical modes, a non-Hermitian coupling results that affords highly sensitive angle determination. By straightforward photocurrent measurements, we can independently quantify the stored optical energy in each nanowire and relate the difference in the stored energy between the wires to the incident angle of a light wave. We exploit this effect to fabricate a subwavelength angle-sensitive pixel with angular sensitivity, δθ = 0.32°.


Assuntos
Luz , Nanotecnologia/instrumentação , Nanofios/química , Dispositivos Ópticos , Silício/química , Animais , Biomimética , Desenho de Equipamento , Audição , Lagartos , Som
20.
Water Sci Technol ; 78(10): 2113-2118, 2018 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-30629539

RESUMO

Controlling dissolved oxygen (DO) at low level can save energy for wastewater treatment plants (WWTPs), but it is easy to induce filamentous sludge bulking. Through establishing the kinetic equation of sludge settleability, ammonia nitrogen (NH4 +-N) load and organic load (food-to-microbe ratio, F/M), the mechanism of the competitive relationship between filamentous and floccular bacteria under low DO was analyzed. The results showed when DO, NH4 +-N load and F/M were in the range of 0.15-0.35 mg/L, 0.035-0.15 d-1 and 0.12-0.42 d-1, respectively, the mass transfer limitation of organic matter was the main factor determining the dominant growth of filamentous bacteria. When DO, NH4 +-N load and F/M were in the range of 0.35-0.65 mg/L, 0.035-0.065 d-1 and 0.12-0.22 d-1, respectively, the mass transfer limitation of NH4 +-N was the main factor determining the dominant growth of filamentous bacteria. When DO was low, no matter how NH4 +-N load and F/M changed, the growth of filamentous bacteria was promoted. When DO and F/M were in the range of 0.35-0.65 mg/L and 0.22-0.42 d-1, respectively, no matter how NH4 +-N load and F/M changed, the growth of filamentous bacteria was inhibited. Therefore, in actual operation, ensuring relatively low DO and high F/M was beneficial for the sludge settleability improvement.


Assuntos
Amônia/análise , Esgotos/química , Eliminação de Resíduos Líquidos/métodos , Poluentes Químicos da Água/análise , Reatores Biológicos , Nitrogênio , Oxigênio
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