Genomes and Genes
Experts and Doctors on biological models in Worcester, Massachusetts, United States
Locale: Worcester, Massachusetts, United States
Topic: biological models
- Nickerson J. The biochemistry of RNA metabolism studied in situ. RNA Biol. 2009;6:25-30 pubmed..A newer technique--in vitro FRAP--assesses the regulation of binding and complex formation by co-factors in the nucleus. ..
- Kambara T, Komaba S, Ikebe M. Human myosin III is a motor having an extremely high affinity for actin. J Biol Chem. 2006;281:37291-301 pubmed..The present results suggest that myosin IIIA can spend a majority of its ATP hydrolysis cycling time on actin. ..
- Morton J, Lewis B. Shh signaling and pancreatic cancer: implications for therapy?. Cell Cycle. 2007;6:1553-7 pubmed..Here we discuss the significance of these findings and the implications for therapy. ..
- Moir D, Ming Di -, Opperman T, Schweizer H, Bowlin T. A high-throughput, homogeneous, bioluminescent assay for Pseudomonas aeruginosa gyrase inhibitors and other DNA-damaging agents. J Biomol Screen. 2007;12:855-64 pubmed..This convenient, inexpensive screen will be useful for rapidly identifying DNA gyrase inhibitors and other DNA-damaging agents, which may lead to potent new antibacterials...
- Doxsey S, McCollum D, Theurkauf W. Centrosomes in cellular regulation. Annu Rev Cell Dev Biol. 2005;21:411-34 pubmed..These new liaisons between MTOCs and cellular regulation are the focus of this review. Elucidation of these and other previously unappreciated centrosome functions promises to yield exciting scientific discovery for some time to come...
- Mukhopadhyay A, Pan X, Lambright D, Tissenbaum H. An endocytic pathway as a target of tubby for regulation of fat storage. EMBO Rep. 2007;8:931-8 pubmed..We propose that TUB-1 controls receptor or sensory molecule degradation in neurons by regulating a RAB-7-mediated endocytic pathway. ..
- González Guerrero M, Hong D, ARGUELLO J. Chaperone-mediated Cu+ delivery to Cu+ transport ATPases: requirement of nucleotide binding. J Biol Chem. 2009;284:20804-11 pubmed publisher..Interestingly, independent of TM-MBS Cu(+) loading, nucleotide binding also prevents the regulatory interaction of the N-terminal cytoplasmic metal-binding domain with the nucleotide binding domain. ..
- Blodgett D, Carruthers A. Quench-flow analysis reveals multiple phases of GluT1-mediated sugar transport. Biochemistry. 2005;44:2650-60 pubmed..These data support a transport mechanism in which newly bound sugars are transiently sequestered within the translocation pathway where they become inaccessible to extra- and intracellular water. ..
- Koga Y, Ikebe M. p116Rip decreases myosin II phosphorylation by activating myosin light chain phosphatase and by inactivating RhoA. J Biol Chem. 2005;280:4983-91 pubmed..Based upon these findings, we propose that p116Rip is an important regulatory component that controls the RhoA signaling pathway, thus regulating MLCP activity and myosin phosphorylation in cells. ..
- Guilherme A, Soriano N, Bose S, Holik J, Bose A, Pomerleau D, et al. EHD2 and the novel EH domain binding protein EHBP1 couple endocytosis to the actin cytoskeleton. J Biol Chem. 2004;279:10593-605 pubmed..Thus EHD2 appears to connect endocytosis to the actin cytoskeleton through interactions of its N-terminal domain with membranes and its C-terminal EH domain with the novel EHBP1 protein. ..
- Fornaro M, Plescia J, Chheang S, Tallini G, Zhu Y, King M, et al. Fibronectin protects prostate cancer cells from tumor necrosis factor-alpha-induced apoptosis via the AKT/survivin pathway. J Biol Chem. 2003;278:50402-11 pubmed..These findings indicate that survivin is required to maintain a critical anti-apoptotic threshold in prostate cancer cells and identify integrin signaling as a crucial survival pathway against death receptor-mediated apoptosis. ..
- Souret F, Kim Y, Wyslouzil B, Wobbe K, Weathers P. Scale-up of Artemisia annua L. hairy root cultures produces complex patterns of terpenoid gene expression. Biotechnol Bioeng. 2003;83:653-67 pubmed
- Wang H, Liu F, Millette C, Kilpatrick D. Expression of a novel, sterol-insensitive form of sterol regulatory element binding protein 2 (SREBP2) in male germ cells suggests important cell- and stage-specific functions for SREBP targets during spermatogenesis. Mol Cell Biol. 2002;22:8478-90 pubmed..This may reflect unique roles for cholesterol synthesis and other functional targets of SREBPs during spermatogenesis. ..
- Bond A, Mangus D, He F, Jacobson A. Absence of Dbp2p alters both nonsense-mediated mRNA decay and rRNA processing. Mol Cell Biol. 2001;21:7366-79 pubmed
- Mukhopadhyay R, Huang K, Wingreen N. Lipid localization in bacterial cells through curvature-mediated microphase separation. Biophys J. 2008;95:1034-49 pubmed publisher..This observation is consistent with recent experiments showing that in Escherichia coli cells with reduced cardiolipin concentrations, cardiolipin and the osmoregulatory protein ProP fail to localize to the poles. ..
- Ramachandran P, Barria R, Ashley J, Budnik V. A critical step for postsynaptic F-actin organization: regulation of Baz/Par-3 localization by aPKC and PTEN. Dev Neurobiol. 2009;69:583-602 pubmed publisher..Given the conservation of these proteins from worms to mammals, these results are likely to provide new insight into actin organization pathways. (c) 2009 Wiley Periodicals, Inc. Develop Neurobiol 2009. ..
- Fan W, Luo J. RecQ4 facilitates UV light-induced DNA damage repair through interaction with nucleotide excision repair factor xeroderma pigmentosum group A (XPA). J Biol Chem. 2008;283:29037-44 pubmed publisher..Taken together, our findings suggest a role of RecQ4 in the repair of UV-induced DNA damages in human cells. ..
- Watanabe S, Watanabe T, Sato O, Awata J, Homma K, Umeki N, et al. Human myosin Vc is a low duty ratio nonprocessive motor. J Biol Chem. 2008;283:10581-92 pubmed..Our findings suggest that myosin Vc fulfills its function as a cargo transporter by different mechanisms from other myosin V isoforms. ..
- Pratap J, Wixted J, Gaur T, Zaidi S, Dobson J, Gokul K, et al. Runx2 transcriptional activation of Indian Hedgehog and a downstream bone metastatic pathway in breast cancer cells. Cancer Res. 2008;68:7795-802 pubmed publisher..Thus, our studies define a novel role of Runx2 in up-regulating the vicious cycle of metastatic bone disease, in addition to Runx2 regulation of genes related to progression of tumor metastasis. ..
- Mruk K, Kobertz W. Discovery of a novel activator of KCNQ1-KCNE1 K channel complexes. PLoS ONE. 2009;4:e4236 pubmed publisher..Furthermore, the commercial availability of numerous PBA derivatives provides a large class of compounds to investigate the gating mechanisms of KCNQ1-KCNE complexes. ..
- Guilherme A, Tesz G, Guntur K, Czech M. Tumor necrosis factor-alpha induces caspase-mediated cleavage of peroxisome proliferator-activated receptor gamma in adipocytes. J Biol Chem. 2009;284:17082-91 pubmed publisher..We suggest that activation of the caspase cascade by TNFalpha down-regulates PPARgamma protein and PPARgamma-mediated metabolic processes in adipose cells. ..
- ..If their regulatory functions were to be confirmed, these newly revealed RNAs would add to the expanding repertoire of small noncoding RNAs and would also provide new perspectives on the coevolution of transfer RNA and messenger RNA. ..
- Ghildiyal M, Xu J, Seitz H, Weng Z, Zamore P. Sorting of Drosophila small silencing RNAs partitions microRNA* strands into the RNA interference pathway. RNA. 2010;16:43-56 pubmed publisher..Our findings provide the first genome-wide test for the idea that Drosophila small RNAs are sorted between Ago1 and Ago2 according to their duplex structure and the identity of their first nucleotide. ..
- Bangs P, Burke B, Powers C, Craig R, Purohit A, Doxsey S. Functional analysis of Tpr: identification of nuclear pore complex association and nuclear localization domains and a role in mRNA export. J Cell Biol. 1998;143:1801-12 pubmed
- Gong P, Han J, Reddig K, Li H. A potential dimerization region of dCAMTA is critical for termination of fly visual response. J Biol Chem. 2007;282:21253-8 pubmed..Our data suggest that dCAMTA may function as a dimer during fly visual regulation and that the CG-1 domain may mediate dimerization of CAMTA transcription factors. ..
- Potter M, Shah S, Elbirt K, Callery M. Endotoxin (LPS) stimulates 4E-BP1/PHAS-I phosphorylation in macrophages. J Surg Res. 2001;97:54-9 pubmed..LPS stimulates 4E-BP1 phosphorylation in macrophages through FRAP/mTOR signaling. This pathway may contribute to the translational control of cytokine gene expression in macrophages. ..
- Young D, Hassan M, Pratap J, Galindo M, Zaidi S, Lee S, et al. Mitotic occupancy and lineage-specific transcriptional control of rRNA genes by Runx2. Nature. 2007;445:442-6 pubmed..Our results suggest that lineage-specific control of ribosomal biogenesis may be a fundamental function of transcription factors that govern cell fate. ..
- Bae J, Gutierrez S, Narla R, Pratap J, Devados R, Van Wijnen A, et al. Reconstitution of Runx2/Cbfa1-null cells identifies a requirement for BMP2 signaling through a Runx2 functional domain during osteoblast differentiation. J Cell Biochem. 2007;100:434-49 pubmed..Therefore, the Runx2 391-432 domain is essential for execution of the BMP2 osteogenic signal. ..
- Mendez R, Richter J. Translational control by CPEB: a means to the end. Nat Rev Mol Cell Biol. 2001;2:521-9 pubmed..What are the features and functions of this multifaceted protein? ..
- Fonseca S, Fukuma M, Lipson K, Nguyen L, Allen J, Oka Y, et al. WFS1 is a novel component of the unfolded protein response and maintains homeostasis of the endoplasmic reticulum in pancreatic beta-cells. J Biol Chem. 2005;280:39609-15 pubmed..These results indicate that the pathogenesis of Wolfram syndrome involves chronic ER stress in pancreatic beta-cells caused by the loss of function of WFS1. ..
- Schoenemeyer A, Barnes B, Mancl M, Latz E, Goutagny N, Pitha P, et al. The interferon regulatory factor, IRF5, is a central mediator of toll-like receptor 7 signaling. J Biol Chem. 2005;280:17005-12 pubmed..IRF5 and IRF7, therefore, emerge from these studies as critical mediators of TLR7 signaling. ..
- Levine K, Robichaud T, Hamill S, Sultzman L, Carruthers A. Properties of the human erythrocyte glucose transport protein are determined by cellular context. Biochemistry. 2005;44:5606-16 pubmed..Net uptake of subsaturating 3-O-methylglucose by RE700A-GLUT1-HA-H6 is a simple, first-order process. These findings support the hypothesis that red cell sugar transport complexity is host cell-specific. ..
- Chacko B, Qin B, Correia J, Lam S, de Caestecker M, Lin K. The L3 loop and C-terminal phosphorylation jointly define Smad protein trimerization. Nat Struct Biol. 2001;8:248-53 pubmed..We propose that the phosphorylated C-terminal residues interact with the L3 loop of the neighboring subunit to stabilize the trimer interaction. ..
- Lin C, Evans V, Shen S, Xing Y, Richter J. The nuclear experience of CPEB: implications for RNA processing and translational control. RNA. 2010;16:338-48 pubmed publisher..We propose that CPEB, together with Maskin, binds mRNA in the nucleus to ensure tight translational repression upon export to the cytoplasm. In addition, we propose that nuclear CPEB regulates specific pre-mRNA alternative splicing. ..
- Cao Q, Padmanabhan K, Richter J. Pumilio 2 controls translation by competing with eIF4E for 7-methyl guanosine cap recognition. RNA. 2010;16:221-7 pubmed publisher..Thus, in addition to its suggested role in regulating poly(A) tail length and mRNA stability, our results suggest that vertebrate Pumilio can repress translation by blocking the assembly of the essential initiation complex on the cap...
- Chen Y, Takizawa N, Crowley J, Oh S, Gatto C, Kambara T, et al. F-actin and myosin II binding domains in supervillin. J Biol Chem. 2003;278:46094-106 pubmed..Taken together, these results suggest that supervillin may mediate actin and myosin II filament organization at cholesterol-rich membrane domains. ..
- Dutta C, Rhind N. The role of specific checkpoint-induced S-phase transcripts in resistance to replicative stress. PLoS ONE. 2009;4:e6944 pubmed publisher..These results demonstrate the general importance of checkpoint regulation of G1/S transcription in response to replicative stress and elucidate the specific roles of Mik1 and Mrc1 in the checkpoint. ..
- Page R, Ambady S, Holmes W, Vilner L, Kole D, Kashpur O, et al. Induction of stem cell gene expression in adult human fibroblasts without transgenes. Cloning Stem Cells. 2009;11:417-26 pubmed publisher..This would alleviate the need for forced expression by transgenesis, thus eliminating the risk of mutagenic effects due to genetic manipulation. ..
- Slot J, Hibbett D. Horizontal transfer of a nitrate assimilation gene cluster and ecological transitions in fungi: a phylogenetic study. PLoS ONE. 2007;2:e1097 pubmed..reesei in a new niche. Horizontal transmission of this cluster of functionally integrated genes supports the "selfish operon" hypothesis for maintenance of gene clusters. ..
- Shirayama M, Soto M, Ishidate T, Kim S, Nakamura K, Bei Y, et al. The Conserved Kinases CDK-1, GSK-3, KIN-19, and MBK-2 Promote OMA-1 Destruction to Regulate the Oocyte-to-Embryo Transition in C. elegans. Curr Biol. 2006;16:47-55 pubmed
- Padmanabhan K, Richter J. Regulated Pumilio-2 binding controls RINGO/Spy mRNA translation and CPEB activation. Genes Dev. 2006;20:199-209 pubmed..These results demonstrate that a reversible Pum2 interaction controls RINGO/Spy mRNA translation and, as a result, CPEB-mediated cytoplasmic polyadenylation. ..
- Pagano J, Farley B, McCoig L, Ryder S. Molecular basis of RNA recognition by the embryonic polarity determinant MEX-5. J Biol Chem. 2007;282:8883-94 pubmed..This residue is variable in nematode TZF proteins, but is invariant in other metazoans. Therefore, the divergence of TZF proteins and their critical role in early development is likely a nematode-specific adaptation. ..
- González Guerrero M, Eren E, Rawat S, Stemmler T, ARGUELLO J. Structure of the two transmembrane Cu+ transport sites of the Cu+ -ATPases. J Biol Chem. 2008;283:29753-9 pubmed publisher..3 fM(-1), Site II K(a)=1.1 fM(-1)), in conjunction with reversible direct Cu(+) transfer from chaperones, points to a transport mechanism where backward release of free Cu(+) to the cytoplasm is largely prevented. ..
- Kim J, Richter J. RINGO/cdk1 and CPEB mediate poly(A) tail stabilization and translational regulation by ePAB. Genes Dev. 2007;21:2571-9 pubmed..Subsequent ePAB binding to the poly(A) tail is necessary to protect the homopolymer from degradation by deadenylating enzymes. Poly(A)-bound ePAB also interacts with eIF4G, which instigates translation initiation of CPEB-bound mRNAs. ..