Advances in biological regulation最新文献

{"title":"Erratum regarding missing Declaration of Competing Interest statements in previously published articles","authors":"","doi":"10.1016/j.jbior.2021.100855","DOIUrl":"10.1016/j.jbior.2021.100855","url":null,"abstract":"","PeriodicalId":7214,"journal":{"name":"Advances in biological regulation","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2022-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2212492621000737/pdfft?md5=81a0066005a9ae1b455c08897295c00a&pid=1-s2.0-S2212492621000737-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39612451","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Erratum regarding missing Declaration of Competing Interest statements in previously published articles","authors":"","doi":"10.1016/j.jbior.2021.100856","DOIUrl":"10.1016/j.jbior.2021.100856","url":null,"abstract":"","PeriodicalId":7214,"journal":{"name":"Advances in biological regulation","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2022-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2212492621000749/pdfft?md5=f2a11c05ca7ecea869fa934008817163&pid=1-s2.0-S2212492621000749-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39612453","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"New strategies for combating fungal infections: Inhibiting inositol lipid signaling by targeting Sec14 phosphatidylinositol transfer proteins","authors":"Vytas A. Bankaitis ,&nbsp;Ashutosh Tripathi ,&nbsp;Xiao-Ru Chen ,&nbsp;Tatyana I. Igumenova","doi":"10.1016/j.jbior.2022.100891","DOIUrl":"10.1016/j.jbior.2022.100891","url":null,"abstract":"<div><p>Virulent fungi represent a particularly difficult problem in the infectious disease arena as these organisms are eukaryotes that share many orthologous activities with their human hosts. The fact that these activities are often catalyzed by conserved proteins places additional demands on development of pharmacological strategies for specifically inhibiting target fungal activities without imposing undesirable secondary effects on the host. While deployment of a limited set of anti-mycotics has to date satisfied the clinical needs for treatment of fungal infections, the recent emergence of multi-drug resistant fungal ‘superbugs’ now poses a serious global health threat with rapidly diminishing options for treatment. This escalating infectious disease problem emphasizes the urgent need for development of new classes of anti-mycotics. In that regard, Sec14 phosphatidylinositol transfer proteins offer interesting possibilities for interfering with fungal phosphoinositide signaling with exquisite specificity and without targeting the highly conserved lipid kinases responsible for phosphoinositide production. Herein, we review the establishment of proof-of-principle that demonstrates the feasibility of such an approach. We also describe the lead compounds of four chemotypes that directly target fungal Sec14 proteins. The rules that pertain to the mechanism(s) of Sec14 inhibition by validated small molecule inhibitors, and the open questions that remain, are discussed – as are the challenges that face development of next generation Sec14-directed inhibitors.</p></div>","PeriodicalId":7214,"journal":{"name":"Advances in biological regulation","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2022-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9379472","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"CCAAT enhancer binding protein gamma (C/EBP-γ): An understudied transcription factor","authors":"Zachary Renfro ,&nbsp;Bryan E. White ,&nbsp;Kimberly E. Stephens","doi":"10.1016/j.jbior.2022.100861","DOIUrl":"10.1016/j.jbior.2022.100861","url":null,"abstract":"<div><p><span>The CCAAT enhancer binding protein (C/EBP) family of transcription factors are important transcriptional mediators of a wide range of physiologic processes. C/EBP-</span><em>γ</em> is the shortest C/EBP protein and lacks a canonical activation domain for the recruitment of transcriptional machinery. Despite its ubiquitous expression and ability to dimerize with other C/EBP proteins, C/EBP-<em>γ</em> has been studied far less than other C/EBP proteins, and, to our knowledge, no review of its functions has been written. This review seeks to integrate the current knowledge about C/EBP-<em>γ</em><span> and its physiologic roles, especially in cell proliferation<span>, the integrated stress response, oncogenesis, hematopoietic and nervous system development, and metabolism, as well as to identify areas for future research.</span></span></p></div>","PeriodicalId":7214,"journal":{"name":"Advances in biological regulation","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2022-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9747211","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Biochemical basis for an interaction between SNX27 and the flexible SNX1 N-terminus","authors":"Mintu Chandra ,&nbsp;Brett M. Collins ,&nbsp;Lauren P. Jackson","doi":"10.1016/j.jbior.2021.100842","DOIUrl":"10.1016/j.jbior.2021.100842","url":null,"abstract":"<div><p><span><span>Metazoans require the sorting nexin (SNX) protein, </span>SNX27<span><span>, to recycle hundreds of important transmembrane protein receptors from endosomes to the plasma membrane. Cargo recycling by SNX27 requires its interaction with </span>retromer<span>, a heterotrimer known to assemble on membranes with multiple sorting nexins, including SNX-BAR proteins and SNX3<span>. SNX27 has also been functionally linked to SNX-BARs, but the molecular basis of this interaction has been unknown. We identify a direct biochemical interaction between the conserved and flexible SNX1/SNX2 N-terminus and full-length SNX27 using purified proteins in pulldown experiments. Sequence alignments<span> indicate both SNX1 and SNX2 contain two short and conserved stretches of acidic residues bearing a DxF motif in their flexible N-terminal regions. Biochemical pulldown and mapping experiments reveal forty residues in the N-terminus of either SNX1 or SNX2 can mediate binding to SNX27. SNX27 truncation analysis demonstrates the SNX27 FERM domain<span> binds the SNX1 N-terminus. Calorimetry experiments quantified binding between the SNX1 N-terminus and SNX27 in the low micromolar affinity range (K</span></span></span></span></span></span>_D ∼10 μM) and suggest the second DxF motif may play a more prominent role in binding. Mutation of either DxF sequence in SNX1 abrogates measurable binding to SNX27 in the calorimeter. Modelling from both predicted and experimentally determined structures suggests the SNX27 FERM domain could accommodate both DxF motifs simultaneously. Together, these data suggest SNX27 is directly linked to specific SNX-BAR proteins through binding acidic motifs in the SNX1 or SNX2 N-terminus.</p></div>","PeriodicalId":7214,"journal":{"name":"Advances in biological regulation","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10456835","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The inositol pyrophosphate metabolism of Dictyostelium discoideum does not regulate inorganic polyphosphate (polyP) synthesis","authors":"Yann Desfougères ,&nbsp;Paloma Portela-Torres ,&nbsp;Danye Qiu ,&nbsp;Thomas M. Livermore ,&nbsp;Robert K. Harmel ,&nbsp;Filipy Borghi ,&nbsp;Henning J. Jessen ,&nbsp;Dorothea Fiedler ,&nbsp;Adolfo Saiardi","doi":"10.1016/j.jbior.2021.100835","DOIUrl":"10.1016/j.jbior.2021.100835","url":null,"abstract":"<div><p>Initial studies on the inositol phosphates metabolism were enabled by the social amoeba <em>Dictyostelium discoideum.</em> The abundant amount of inositol hexakisphosphate (IP₆ also known as Phytic acid) present in the amoeba allowed the discovery of the more polar inositol pyrophosphates, IP₇ and IP₈, possessing one or two high energy phosphoanhydride bonds, respectively. Considering the contemporary growing interest in inositol pyrophosphates, it is surprising that in recent years <em>D. discoideum</em>, has contributed little to our understanding of their metabolism and function. This work fulfils this lacuna, by analysing the <em>ip6k, ppip5k</em> and <em>ip6k-ppip5K</em> amoeba null strains using PAGE, ¹³C-NMR and CE-MS analysis. Our study reveals an inositol pyrophosphate metabolism more complex than previously thought. The amoeba Ip6k synthesizes the 4/6-IP₇ in contrast to the 5-IP₇ isomer synthesized by the mammalian homologue. The amoeba Ppip5k synthesizes the same 1/3-IP₇ as the mammalian enzyme. In <em>D. discoideum</em>, the <em>ip6k</em> strain possesses residual amounts of IP₇. The residual IP₇ is also present in the <em>ip6k-ppip5K</em> strain, while the <em>ppip5k</em> single mutant shows a decrease in both IP₇ and IP₈ levels. This phenotype is in contrast to the increase in IP₇ observable in the yeast <em>vip1</em>Δ strain. The presence of IP₈ in <em>ppip5k</em> and the presence of IP₇ in <em>ip6k-ppip5K</em> indicate the existence of an additional inositol pyrophosphate synthesizing enzyme. Additionally, we investigated the existence of a metabolic relationship between inositol pyrophosphate synthesis and inorganic polyphosphate (polyP) metabolism as observed in yeast. These studies reveal that contrary to the yeast, Ip6k and Ppip5k do not control polyP cellular level in amoeba.</p></div>","PeriodicalId":7214,"journal":{"name":"Advances in biological regulation","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8885430/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39627613","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Mechanistic roles of mutant p53 governing lipid metabolism","authors":"Ryan M. Loughran,&nbsp;Brooke M. Emerling","doi":"10.1016/j.jbior.2021.100839","DOIUrl":"10.1016/j.jbior.2021.100839","url":null,"abstract":"<div><p>Metabolic reprogramming of cancer cells by various acquired mutations provides support for rapid proliferation and growth in the tumor microenvironment. Mutations in the <em>TP53</em><span><span><span> gene are the most common mutation found across all human cancers. Commonly referred to as “the guardian of the genome”, p53 has a well-established role as a tumor suppressor by mediating checkpoint integrity and protecting cells from DNA damage. To date, the many functional roles of p53 extending beyond its classical function and exerting control over metabolic processes continues to confound the field. Recently, emerging roles for p53 in mediating lipid metabolism have come to light with intriguing metabolic roles in regulating cholesterol </span>homeostasis<span> and lipid droplet<span> formation. Herein, we will seek to unify the mechanisms by which absence of functional p53, as well as stable mutant forms of p53, exert control over these lipid metabolism programs. Of equal importance, synthetic lethal phenotypes in the context of mutant p53 and aberrant lipid homeostasis offer new possible targets in the therapeutic landscape. This review aims to characterize the mechanisms by which p53 exerts control over these pathways and examine how precision medicine may benefit from tumor </span></span></span>subtyping of p53 mutations.</span></p></div>","PeriodicalId":7214,"journal":{"name":"Advances in biological regulation","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10824743","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Elusive structure of mammalian DGKs","authors":"Qianqian Ma ,&nbsp;Lakshmi Srinivasan ,&nbsp;Sandra B. Gabelli ,&nbsp;Daniel M. Raben","doi":"10.1016/j.jbior.2021.100847","DOIUrl":"10.1016/j.jbior.2021.100847","url":null,"abstract":"<div><p><span><span>Mammalian diacylglycerol kinases (DGKs) are a group of </span>enzymes<span> that catalyze the ATP-dependent phosphorylation of diacylglycerol (DAG) to produce phosphatidic acid (PtdOH). In doing so, they modulate the levels of these two important </span></span>signaling lipids. Currently, ten mammalian DGKs are organized into five classes that vary with respect to domain organization, regulation, and cellular/subcellular distribution.</p><p>As lipids<span> play critical roles in cells, it is not surprising that there is increasing interest in understanding the mechanism underlying the catalysis and regulation of lipid modulating enzymes such as DGKs. However, there are no solved 3D structures for any of the eukaryotic DGKs. In this review, we summarize what is known and the current challenges in determining the structures of these important enzymes. In addition to gain critical insights into their mechanisms of catalysis and regulation, DGK structures will provide a platform for the design of isoform specific inhibitors.</span></p></div>","PeriodicalId":7214,"journal":{"name":"Advances in biological regulation","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10456866","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"List of Participants","authors":"","doi":"10.1016/S2212-4926(22)00008-2","DOIUrl":"https://doi.org/10.1016/S2212-4926(22)00008-2","url":null,"abstract":"","PeriodicalId":7214,"journal":{"name":"Advances in biological regulation","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2212492622000082/pdfft?md5=c899dab14078dc09033790b8dc90cbaa&pid=1-s2.0-S2212492622000082-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138374742","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Phosphoinositide 3-kinase signalling in the nucleolus","authors":"Andrea Papdiné Morovicz,&nbsp;Fatemeh Mazloumi Gavgani,&nbsp;Rhîan G. Jacobsen,&nbsp;Malene Skuseth Slinning,&nbsp;Diana C. Turcu,&nbsp;Aurélia E. Lewis","doi":"10.1016/j.jbior.2021.100843","DOIUrl":"10.1016/j.jbior.2021.100843","url":null,"abstract":"<div><p>The phosphoinositide 3-kinase (PI3K) signalling pathway<span><span> plays key roles in many cellular processes and is altered in many diseases. The function and mode of action of the pathway have mostly been elucidated in the cytoplasm. However, many of the components of the PI3K pathway are also present in the nucleus at specific sub-nuclear sites including nuclear speckles, nuclear lipid islets and the </span>nucleolus<span>. Nucleoli are membrane-less subnuclear structures where ribosome biogenesis<span> occurs. Processes leading to ribosome biogenesis are tightly regulated to maintain protein translation capacity of cells. This review focuses on nucleolar PI3K signalling and how it regulates rRNA synthesis, as well as on the identification of downstream phosphatidylinositol (3,4,5)trisphosphate effector proteins.</span></span></span></p></div>","PeriodicalId":7214,"journal":{"name":"Advances in biological regulation","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39612450","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}