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Article ; Online: Phosphatidic acid: from biophysical properties to diverse functions.

Zhou, Hejiang / Huo, Yanwu / Yang, Na / Wei, Taotao

2023

Abstract: Phosphatidic acid (PA), the simplest phospholipid, acts as a key metabolic intermediate and second messenger that impacts diverse cellular and physiological processes across species ranging from microbes to plants and mammals. The cellular levels of PA ... ...

Abstract	Phosphatidic acid (PA), the simplest phospholipid, acts as a key metabolic intermediate and second messenger that impacts diverse cellular and physiological processes across species ranging from microbes to plants and mammals. The cellular levels of PA dynamically change in response to stimuli, and multiple enzymatic reactions can mediate its production and degradation. PA acts as a signalling molecule and regulates various cellular processes via its effects on membrane tethering, enzymatic activities of target proteins, and vesicular trafficking. Because of its unique physicochemical properties compared to other phospholipids, PA has emerged as a class of new lipid mediators influencing membrane structure, dynamics, and protein interactions. This review summarizes the biosynthesis, dynamics, and cellular functions and properties of PA.
Language	English
Publishing date	2023-04-27
Publishing country	England
Document type	Journal Article ; Review
ZDB-ID	2173655-8
ISSN	1742-4658 ; 1742-464X
ISSN (online)	1742-4658
ISSN	1742-464X
DOI	10.1111/febs.16809
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Article ; Online: Structural and biochemical insights into the mechanism of the Gabija bacterial immunity system.

Huo, Yanwu / Kong, Lingfei / Zhang, Ye / Xiao, Min / Du, Kang / Xu, Sunyuntao / Yan, Xiaoxue / Ma, Jun / Wei, Taotao

Nature communications

2024 Volume 15, Issue 1, Page(s) 836

Abstract: The Gabija system is a newly discovered bacterial immune system that consists of GajA and GajB. Here we report the cryo-EM structure of the Gabija complex from Bacillus cereus VD045 at 3.6 Å, which provides the direct evidence of interactions between ... ...

Abstract	The Gabija system is a newly discovered bacterial immune system that consists of GajA and GajB. Here we report the cryo-EM structure of the Gabija complex from Bacillus cereus VD045 at 3.6 Å, which provides the direct evidence of interactions between GajA and GajB. The Gabija complex is an octameric ring structure with four GajA and four GajB. GajA is an OLD nucleases family protein, while GajB belongs to the SF1 helicases. The Gabija complex has sequence-specific DNA nuclease activity and prefers circular rather than linear DNA as substrate, its activity is more sensitive to concentrations change of nucleotides compared to GajA alone. Our data suggest a mechanism of Gabija immunity: the nuclease activity of Gabija complex is inhibited under physiological conditions, while it is activated by depletion of NTP and dNTP upon the replication and transcription of invading phages and cleave the circular DNA to prevent phage DNA replication.
MeSH term(s)	DNA/metabolism ; Bacteriophages/genetics ; Bacteriophages/metabolism ; Bacillus cereus/metabolism ; Endonucleases ; Immune System/metabolism
Chemical Substances	DNA (9007-49-2) ; Endonucleases (EC 3.1.-)
Language	English
Publishing date	2024-01-29
Publishing country	England
Document type	Journal Article
ZDB-ID	2553671-0
ISSN	2041-1723 ; 2041-1723
ISSN (online)	2041-1723
ISSN	2041-1723
DOI	10.1038/s41467-024-45173-7
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Article ; Online: Mitochondrial elongation factor 4 modulates energy metabolism and promotes breast cancer metastasis by orchestration of mitochondrial translation.

Chen, Qianqian / Xiao, Min / Dai, Fei / Zhang, Ye / Li, Jiayun / Huo, Yanwu / Huang, Zhen / Fang, Yi / Wei, Taotao

Archives of biochemistry and biophysics

2023 Volume 737, Page(s) 109556

Abstract: To cope with the requirements of energy and building blocks for rapid proliferation, cancer cells reprogram their metabolic pathways profoundly, especially in oxygen- and nutrients-deficient tumor microenvironments. However, functional mitochondria and ... ...

Abstract	To cope with the requirements of energy and building blocks for rapid proliferation, cancer cells reprogram their metabolic pathways profoundly, especially in oxygen- and nutrients-deficient tumor microenvironments. However, functional mitochondria and mitochondria-dependent oxidative phosphorylation are still necessary for the tumorigenesis and metastasis of cancer cells. We show here that mitochondrial elongation factor 4 (mtEF4) is commonly upregulated in breast tumors compared to adjacent non-cancerous tissues, and is relevant to tumor progression and poor prognosis. Down regulation of mtEF4 in breast cancer cells impairs the assembly of mitochondrial respiration complexes, decreases mitochondrial respiration, reduces ATP production, attenuates the formation of lamellipodia, and suppresses cell motility in vitro and cancer metastasis in vivo. On the contrary, upregulation of mtEF4 elevates the mitochondrial oxidative phosphorylation, which contributes to the migratory capacities of breast cancer cells. mtEF4 also increases the potential of glycolysis, probably via an AMPK-related mechanism. In summary, we provide direct evidences that the aberrantly upregulated mtEF4 contributes to the metastasis of breast cancer by coordinating metabolic pathways.
MeSH term(s)	Humans ; Female ; Breast Neoplasms/pathology ; Peptide Elongation Factors/metabolism ; Energy Metabolism ; Mitochondria/metabolism ; Glycolysis ; Oxidative Phosphorylation ; Cell Line, Tumor ; Tumor Microenvironment ; Melanoma, Cutaneous Malignant
Chemical Substances	Peptide Elongation Factors
Language	English
Publishing date	2023-02-28
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	523-x
ISSN	1096-0384 ; 0003-9861
ISSN (online)	1096-0384
ISSN	0003-9861
DOI	10.1016/j.abb.2023.109556
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Article ; Online: Variation in community structure and network characteristics of spent mushroom substrate (SMS) compost microbiota driven by time and environmental conditions.

Qian, Xin / Bi, Xiaohui / Xu, Yanfei / Yang, Ziwei / Wei, Taotao / Xi, Meijuan / Li, Jiahuan / Chen, Liding / Li, Hanzhou / Sun, Shujing

Bioresource technology

2022 Volume 364, Page(s) 127915

Abstract: Global mushroom production is growing rapidly, raising concerns about polluting effects of spent mushroom substrate (SMS) and interest in uses in composts. In this study, SMS composting trials and high-throughput sequencing were carried out to ... ...

Abstract	Global mushroom production is growing rapidly, raising concerns about polluting effects of spent mushroom substrate (SMS) and interest in uses in composts. In this study, SMS composting trials and high-throughput sequencing were carried out to investigate to better understand how the structure, co-occurrence patterns, and functioning of bacterial and fungal communities vary through compost time and across environmental conditions. The results suggested that both bacterial and fungal microbiota displayed significant variation in community composition across different composting stages. Enzyme activity levels showed both directional and fluctuating changes during composting, and the activity dynamics of carboxymethyl cellulase, polyphenol oxidase, laccase, and catalase correlated significantly with the succession of microbial community composition. The co-occurrence networks are "small-world" and modularized and the topological properties of each subnetwork were significantly influenced by the environmental factors. Finally, seed germination and seedling experiments were performed to verify the biosafety and effectiveness of the final composting products.
Language	English
Publishing date	2022-09-08
Publishing country	England
Document type	Journal Article
ZDB-ID	1065195-0
ISSN	1873-2976 ; 0960-8524
ISSN (online)	1873-2976
ISSN	0960-8524
DOI	10.1016/j.biortech.2022.127915
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Article ; Online: Genetically Encoded FapR-NLuc as a Biosensor to Determine Malonyl-CoA in Situ at Subcellular Scales.

Du, Yipeng / Hu, Hao / Pei, Xiaoxia / Du, Kang / Wei, Taotao

Bioconjugate chemistry

2019 Volume 30, Issue 3, Page(s) 826–832

Abstract: Malonyl-CoA is one of the key metabolic intermediates in fatty acid metabolism as well as a key player in protein post-translational modifications. Detection of malonyl-CoA in live cells is challenging because of the lack of effective measuring tools. ... ...

Abstract	Malonyl-CoA is one of the key metabolic intermediates in fatty acid metabolism as well as a key player in protein post-translational modifications. Detection of malonyl-CoA in live cells is challenging because of the lack of effective measuring tools. Here we developed a genetically encoded biosensor, FapR-NLuc, by combining a malonyl-CoA responsive bacterial transcriptional factor, FapR, with an engineered luciferase, NanoLuciferase (NLuc). FapR-NLuc specifically responds to malonyl-CoA and enables the rapid detection of malonyl-CoA at the micromolar level. More importantly, it is reflective of the fluctuations of malonyl-CoA in live cells. Upon being targeted to subcellular compartments, this biosensor can detect the changes of malonyl-CoA in situ within organelles. Thus, FapR-NLuc can potentially be used as a tool to study the kinetics of malonyl-CoA in live cells, which will shed light on the underlying mechanisms of malonyl-CoA-mediated biological processes.
MeSH term(s)	Biosensing Techniques ; Escherichia coli Proteins/genetics ; HeLa Cells ; Humans ; Luciferases/genetics ; Malonyl Coenzyme A/metabolism ; Subcellular Fractions/metabolism ; Transcription Factors/genetics
Chemical Substances	Escherichia coli Proteins ; FAPR protein, E coli ; Transcription Factors ; Malonyl Coenzyme A (524-14-1) ; Luciferases (EC 1.13.12.-)
Language	English
Publishing date	2019-01-23
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1024041-x
ISSN	1520-4812 ; 1043-1802
ISSN (online)	1520-4812
ISSN	1043-1802
DOI	10.1021/acs.bioconjchem.8b00920
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Article: Momordica charantia L. induces non-apoptotic cell death in human MDA-MB-436 breast and A549 lung cancer cells by disrupting energy metabolism and exacerbating reactive oxygen species’ generation

Ehigie, Adeola Folasade / Wei, Peng / Wei, Taotao / Yan, Xiyun / Olorunsogo, Olufunso O. / Ojeniyi, Fiyinfoluwa Demilade / Ehigie, Leonard Ona

Journal of ethnopharmacology. 2021 Sept. 15, v. 277

2021

Abstract: Bitter melon, Momordica charantia L. (MC), is an ethnomedicinal plant cultivated in different climes. It's cytotoxic effect on several cancer cell lines has been evaluated. However, there have been contrasting reports on the actual mechanism (s) involved ...

Abstract	Bitter melon, Momordica charantia L. (MC), is an ethnomedicinal plant cultivated in different climes. It's cytotoxic effect on several cancer cell lines has been evaluated. However, there have been contrasting reports on the actual mechanism (s) involved in the observed cell death induced by MC.To probe the mechanism of cell death induction in MDA-MB-436 (Breast) and A549 (lung) cancer cell lines treated with fractions (ethyl acetate, dichloromethane and hexane) derived from the aqueous extract of MC.Aqeous extract of the leaves of MC were fractionated using solvents of different polarities (ethyl acetate (D3), n-hexane (D4), dichloromethane (D5)). The cells were incubated with 100 and 125 μg/mL of the fractions 24 hours. Combination of fluorescence microscopy, enzyme assays, Western blot analyses and flow cytometry were employed in the study.Treatment of the cells with MC fractions reduced Mitochondrial Membrane Potential (MMP) and intracellular ATP levels, while increasing reactive oxygen species levels without classical biochemical and morphological apoptotic features were seen. However, the fractions failed in upregulating either caspase-3 activation or cytochrome c release in the cancer cells. Conclusion: Overall, these results suggest that the cytotoxic effect of MC on the selected cancer cells is mediated by loss of mitochondrial function via loss of respiration leading to cell death rather than by the classical release of cytochrome c or caspase-3 activated apoptosis.
Keywords	Momordica charantia ; Western blotting ; apoptosis ; breasts ; caspase-3 ; cytotoxicity ; energy metabolism ; ethyl acetate ; flow cytometry ; fluorescence microscopy ; hexane ; humans ; lung neoplasms ; lungs ; membrane potential ; methylene chloride ; mitochondria ; mitochondrial membrane ; neoplasm cells ; reactive oxygen species ; traditional medicine
Language	English
Dates of publication	2021-0915
Publishing place	Elsevier B.V.
Document type	Article
ZDB-ID	134511-4
ISSN	1872-7573 ; 0378-8741
ISSN (online)	1872-7573
ISSN	0378-8741
DOI	10.1016/j.jep.2021.114036
Database	NAL-Catalogue (AGRICOLA)

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Article: Variation in community structure and network characteristics of spent mushroom substrate (SMS) compost microbiota driven by time and environmental conditions

Qian, Xin / Bi, Xiaohui / Xu, Yanfei / Yang, Ziwei / Wei, Taotao / Xi, Meijuan / Li, Jiahuan / Chen, Liding / Li, Hanzhou / Sun, Shujing

Bioresource technology. 2022 Sept. 04,

2022

Abstract	Global mushroom production is growing rapidly, raising concerns about polluting effects of spent mushroom substrate (SMS) and interest in uses in composts. In this study, SMS composting trials and high-throughput sequencing were carried out to investigate to better understand how the structure, co-occurrence patterns, and functioning of bacterial and fungal communities vary through compost time and across environmental conditions. The results suggested that both bacterial and fungal microbiota displayed significant variation in community composition across different composting stages. Enzyme activity levels showed both directional and fluctuating changes during composting, and the activity dynamics of carboxymethyl cellulase, polyphenol oxidase, laccase and catalase correlated significantly with the succession of microbial community composition. The co-occurrence networks are “small-world” and modularized and the topological properties of each subnetwork were significantly influenced by the environmental factors. Finally, seed germination and seedling experiments were performed to verify the biosafety and effectiveness of the final composting products.
Keywords	biosafety ; catalase ; catechol oxidase ; community structure ; endo-1,4-beta-glucanase ; enzyme activity ; fungi ; laccase ; microbial communities ; mushroom growing ; seed germination ; seedlings ; spent mushroom compost ; technology ; topology
Language	English
Dates of publication	2022-0904
Publishing place	Elsevier Ltd
Document type	Article
Note	Pre-press version
ZDB-ID	1065195-0
ISSN	1873-2976 ; 0960-8524
ISSN (online)	1873-2976
ISSN	0960-8524
DOI	10.1016/j.biortech.2022.127915
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Inputs and outputs of insulin receptor.

Du, Yipeng / Wei, Taotao

Protein & cell

2014 Volume 5, Issue 3, Page(s) 203–213

Abstract: The insulin receptor (IR) is an important hub in insulin signaling and its activation is tightly regulated. Upon insulin stimulation, IR is activated through autophosphorylation, and consequently phosphorylates several insulin receptor substrate (IRS) ... ...

Abstract	The insulin receptor (IR) is an important hub in insulin signaling and its activation is tightly regulated. Upon insulin stimulation, IR is activated through autophosphorylation, and consequently phosphorylates several insulin receptor substrate (IRS) proteins, including IRS1-6, Shc and Gab1. Certain adipokines have also been found to activate IR. On the contrary, PTP, Grb and SOCS proteins, which are responsible for the negative regulation of IR, are characterized as IR inhibitors. Additionally, many other proteins have been identified as IR substrates and participate in the insulin signaling pathway. To provide a more comprehensive understanding of the signals mediated through IR, we reviewed the upstream and downstream signal molecules of IR, summarized the positive and negative modulators of IR, and discussed the IR substrates and interacting adaptor proteins. We propose that the molecular events associated with IR should be integrated to obtain a better understanding of the insulin signaling pathway and diabetes.
MeSH term(s)	Animals ; Humans ; Protein Binding ; Receptor, Insulin/metabolism ; Signal Transduction ; Substrate Specificity
Chemical Substances	Receptor, Insulin (EC 2.7.10.1)
Language	English
Publishing date	2014-03-16
Publishing country	Germany
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	2543451-2
ISSN	1674-8018 ; 1674-800X
ISSN (online)	1674-8018
ISSN	1674-800X
DOI	10.1007/s13238-014-0030-7
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Article ; Online: KAP1-associated transcriptional inhibitory complex regulates C2C12 myoblasts differentiation and mitochondrial biogenesis via miR-133a repression.

Zhang, Jialing / Hua, Chaoju / Zhang, Yu / Wei, Peng / Tu, Yaping / Wei, Taotao

Cell death & disease

2020 Volume 11, Issue 9, Page(s) 732

Abstract: The differentiation of myoblasts plays a key role in the growth of biological individuals and the reconstruction of muscle tissue. Several microRNAs are significantly upregulated during the differentiation of myoblasts and their target genes have been ... ...

Abstract	The differentiation of myoblasts plays a key role in the growth of biological individuals and the reconstruction of muscle tissue. Several microRNAs are significantly upregulated during the differentiation of myoblasts and their target genes have been explored. However, the molecular mechanisms underlying the transcriptional regulation of microRNAs remain elusive. In the present study, we found that the expression of miR-133a is increased during the differentiation of C2C12 myoblasts. miR-133a mimic is sufficient to induce the biogenesis of mitochondria and differentiation of C2C12 myoblasts whereas miR-133a inhibitor abolishes cell differentiation. Using CRISPR affinity purification in situ of regulatory elements (CAPTURE) technique, we further dissected the regulatory mechanisms of miR-133a expression and found that KAP1-associated transcription complex accounts for the suppression of miR-133a in C2C12 myoblasts. Knockdown of KAP1 increased the expression of miR-133a, which contributed to the biogenesis of mitochondria and differentiation of C2C12 myoblasts. To our knowledge, this is the first study using the CAPTURE technology to identify the regulatory factors of miR-133a during cell differentiation, which may provide new ideas for understanding the precision regulatory machinery of microRNAs during different biological processes.
MeSH term(s)	Animals ; Cell Differentiation/physiology ; HEK293 Cells ; Humans ; Mice ; MicroRNAs/metabolism ; Mitochondria/metabolism ; Myoblasts/cytology ; Myoblasts/metabolism ; Organelle Biogenesis ; Transfection ; Tripartite Motif-Containing Protein 28/metabolism
Chemical Substances	MIRN133 microRNA, human ; MicroRNAs ; Mirn133 microRNA, mouse ; TRIM28 protein, human (EC 2.3.2.27) ; Trim28 protein, mouse (EC 2.3.2.27) ; Tripartite Motif-Containing Protein 28 (EC 2.3.2.27)
Language	English
Publishing date	2020-09-09
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2541626-1
ISSN	2041-4889 ; 2041-4889
ISSN (online)	2041-4889
ISSN	2041-4889
DOI	10.1038/s41419-020-02937-5
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Article ; Online: Tissue distribution, subcellular localization, and enzymatic activity analysis of human SIRT5 isoforms.

Du, Yipeng / Hu, Hao / Hua, Chaoju / Du, Kang / Wei, Taotao

Biochemical and biophysical research communications

2018 Volume 503, Issue 2, Page(s) 763–769

Abstract: SIRT5 is one of the seven mammalian sirtuins which are ... ...

Abstract	SIRT5 is one of the seven mammalian sirtuins which are NAD
MeSH term(s)	Animals ; COS Cells ; Cercopithecus aethiops ; Humans ; Models, Molecular ; Protein Conformation ; Protein Isoforms/analysis ; Protein Isoforms/metabolism ; Sirtuins/analysis ; Sirtuins/metabolism ; Tissue Distribution
Chemical Substances	Protein Isoforms ; SIRT5 protein, human (EC 3.5.1.-) ; Sirtuins (EC 3.5.1.-)
Language	English
Publishing date	2018-06-22
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	205723-2
ISSN	1090-2104 ; 0006-291X ; 0006-291X
ISSN (online)	1090-2104 ; 0006-291X
ISSN	0006-291X
DOI	10.1016/j.bbrc.2018.06.073
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