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  • Oxford University Press (OUP)  (4)
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  • Oxford University Press (OUP)  (4)
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  • 1
    Online Resource
    Online Resource
    BrpNAC895 and BrpABI449 coregulate the transcription of the afflux-type cadmium transporter BrpHMA2 in Brassica parachinensis
    Oxford University Press (OUP) ; 2022
    In:  Horticulture Research Vol. 9 ( 2022-01-05)
    Details
    In: Horticulture Research, Oxford University Press (OUP), Vol. 9 ( 2022-01-05)
    Abstract: Brassica parachinensis is a popular leafy vegetable. It is able to accumulate high concentrations of cadmium (Cd), but the molecular mechanism of Cd accumulation is unknown. This study investigated the function and regulatory mechanism of the Cd-responsive metal ion transporter gene BrpHMA2. BrpHMA2 was induced by Cd stress and specifically expressed in vascular tissues, and the protein was localized in the plasma membrane. Heterologous expression of BrpHMA2 enhanced Cd accumulation and Cd sensitivity in transgenic Arabidopsis and yeast. After Cd stress, the transcription factors BrpNAC895 and BrpABI449, which may recognize the abscisic acid-responsive elements in the BrpHMA2 promoter, were also differentially expressed. The transcriptional regulation of BrpHMA2 was further investigated using the chromatin immunoprecipitation–quantitative PCR (ChIP–qPCR) assay, the electrophoretic mobility shift assay (EMSA), and luciferase (LUC) reporter activity analysis employing the transient expression system of B. parachinensis protoplasts and tobacco leaves and the Escherichia coli expression system. By binding to the promoter, BrpNAC895 induced the transcription of BrpHMA2. BrpABI449 might bind to the BrpHMA2 promoter or interact with BrpNAC895 to interfere with the action of BrpNAC895. The findings suggest that BrpHMA2 is a membrane-based afflux-type Cd transporter involved in Cd2+ uptake and long-distance transport in plants. BrpNAC895 and BrpABI449, which function as the transcription activator and repressor, respectively, coregulate BrpHMA2 expression.
    Type of Medium: Online Resource
    ISSN: 2052-7276
    URL: Article
    DOI: 10.1093/hr/uhac044
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2022
    detail.hit.zdb_id: 2781828-7
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  • 2
    Online Resource
    Online Resource
    A pair of transporters controls mitochondrial Zn2+ levels to maintain mitochondrial homeostasis
    Oxford University Press (OUP) ; 2022
    In:  Protein & Cell Vol. 13, No. 3 ( 2022-03), p. 180-202
    Details
    In: Protein & Cell, Oxford University Press (OUP), Vol. 13, No. 3 ( 2022-03), p. 180-202
    Abstract: Zn 2+ is required for the activity of many mitochondrial proteins, which regulate mitochondrial dynamics, apoptosis and mitophagy. However, it is not understood how the proper mitochondrial Zn 2+ level is achieved to maintain mitochondrial homeostasis. Using Caenorhabditis elegans , we reveal here that a pair of mitochondrion-localized transporters controls the mitochondrial level of Zn 2+ . We demonstrate that SLC-30A9/ZnT9 is a mitochondrial Zn 2+ exporter. Loss of SLC-30A9 leads to mitochondrial Zn 2+ accumulation, which damages mitochondria, impairs animal development and shortens the life span. We further identify SLC-25A25/SCaMC-2 as an important regulator of mitochondrial Zn 2+ import. Loss of SLC-25A25 suppresses the abnormal mitochondrial Zn 2+ accumulation and defective mitochondrial structure and functions caused by loss of SLC-30A9. Moreover, we reveal that the endoplasmic reticulum contains the Zn 2+ pool from which mitochondrial Zn 2+ is imported. These findings establish the molecular basis for controlling the correct mitochondrial Zn 2+ levels for normal mitochondrial structure and functions.
    Type of Medium: Online Resource
    ISSN: 1674-800X , 1674-8018
    URL: Article
    DOI: 10.1007/s13238-021-00881-4
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2022
    detail.hit.zdb_id: 2537093-5
    detail.hit.zdb_id: 2543451-2
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  • 3
    Online Resource
    Online Resource
    Machine learning-aided atomic structure identification of interfacial ionic hydrates from AFM images
    Oxford University Press (OUP) ; 2023
    In:  National Science Review Vol. 10, No. 7 ( 2023-05-31)
    Details
    In: National Science Review, Oxford University Press (OUP), Vol. 10, No. 7 ( 2023-05-31)
    Abstract: Relevant to broad applied fields and natural processes, interfacial ionic hydrates have been widely studied by using ultrahigh-resolution atomic force microscopy (AFM). However, the complex relationship between the AFM signal and the investigated system makes it difficult to determine the atomic structure of such a complex system from AFM images alone. Using machine learning, we achieved precise identification of the atomic structures of interfacial water/ionic hydrates based on AFM images, including the position of each atom and the orientations of water molecules. Furthermore, it was found that structure prediction of ionic hydrates can be achieved cost-effectively by transfer learning using neural network trained with easily available interfacial water data. Thus, this work provides an efficient and economical methodology that not only opens up avenues to determine atomic structures of more complex systems from AFM images, but may also help to interpret other scientific studies involving sophisticated experimental results.
    Type of Medium: Online Resource
    ISSN: 2095-5138 , 2053-714X
    URL: Article
    DOI: 10.1093/nsr/nwac282
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2023
    detail.hit.zdb_id: 2745465-4
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  • 4
    Online Resource
    Online Resource
    Integrative single-cell multiomics analyses dissect molecular signatures of intratumoral heterogeneities and differentiation states of human gastric cancer
    Oxford University Press (OUP) ; 2023
    In:  National Science Review Vol. 10, No. 6 ( 2023-05-10)
    Details
    In: National Science Review, Oxford University Press (OUP), Vol. 10, No. 6 ( 2023-05-10)
    Abstract: Human gastric cancer is a highly lethal disease, but the underlying multiomic molecular signatures remain largely unclear. Here, we performed multi-regional sampling, parallel single-cell multiomics sequencing and integrated analyses of human gastric cancer. We identified common transcriptomic alterations of gastric cancer cells, such as aberrant down-regulation of genes associated with normal stomach function and up-regulation of KRT7, PI3, S100A4, etc. Surprisingly, aberrant and prevalent up-regulation of genes highly expressed in normal colorectal epithelial cells were also identified in cancer cells, which may be partially regulated by promoter chromatin accessibility and DNA methylation levels. We revealed the single-cell DNA methylome landscape of gastric cancer, and identified candidate DNA methylation biomarkers, such as hypermethylated promoters of TMEM240 and HAGLROS, and hypomethylated promoters of TRPM2-AS and HRH1. Additionally, the relationships between genetic lineages, DNA methylation and transcriptomic clusters were systematically revealed at single-cell level. We showed that DNA methylation heterogeneities were mainly among different genetic lineages of cancer cells. Moreover, we found that DNA methylation levels of cancer cells with poorer differentiation states tend to be higher than those of cancer cells with better differentiation states in the primary tumor within the same patient, although still lower than in normal gastric epithelial cells. Cancer cells with poorer differentiation states also prevalently down-regulated MUC1 expression and immune-related pathways, and had poor infiltration of CD8+ T cells. Our study dissected the molecular signatures of intratumoral heterogeneities and differentiation states of human gastric cancer using integrative single-cell multiomics analyses.
    Type of Medium: Online Resource
    ISSN: 2095-5138 , 2053-714X
    URL: Article
    DOI: 10.1093/nsr/nwad094
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2023
    detail.hit.zdb_id: 2745465-4
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