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https://www.readbyqxmd.com/read/28431042/cis-regulatory-divergence-in-gene-expression-between-two-thermally-divergent-yeast-species
#1
Xueying C Li, Justin C Fay
Gene regulation is a ubiquitous mechanism by which organisms respond to their environment. While organisms are often found to be adapted to the environments they experience, the role of gene regulation in environmental adaptation is not often known. In this study, we examine divergence in cis-regulatory effects between two Saccharomyces species, S. cerevisiae and S. uvarum, that have substantially diverged in their thermal growth profile. We measured allele specific expression (ASE) in the species' hybrid at three temperatures, the highest of which is lethal to S...
April 14, 2017: Genome Biology and Evolution
https://www.readbyqxmd.com/read/28426722/interactions-between-mitoneet-and-naf-1-in-cells
#2
Ola Karmi, Sarah H Holt, Luhua Song, Sagi Tamir, Yuting Luo, Fang Bai, Ammar Adenwalla, Merav Darash-Yahana, Yang-Sung Sohn, Patricia A Jennings, Rajeev K Azad, Jose' N Onuchic, Faruck Morcos, Rachel Nechushtai, Ron Mittler
The NEET proteins mitoNEET (mNT) and nutrient-deprivation autophagy factor-1 (NAF-1) are required for cancer cell proliferation and resistance to oxidative stress. NAF-1 and mNT are also implicated in a number of other human pathologies including diabetes, neurodegeneration and cardiovascular disease, as well as in development, differentiation and aging. Previous studies suggested that mNT and NAF-1 could function in the same pathway in mammalian cells, preventing the over-accumulation of iron and reactive oxygen species (ROS) in mitochondria...
2017: PloS One
https://www.readbyqxmd.com/read/28425505/novel-interactions-of-the-von-hippel-lindau-pvhl-tumor-suppressor-with-the-cdkn1-family-of-cell-cycle-inhibitors
#3
Giovanni Minervini, Raffaele Lopreiato, Raissa Bortolotto, Antonella Falconieri, Geppo Sartori, Silvio C E Tosatto
Germline inactivation of the von Hippel-Lindau (VHL) tumor suppressor predisposes patients to develop different highly vascularized cancers. pVHL targets the hypoxia-inducible transcription factor (HIF-1α) for degradation, modulating the activation of various genes involved in hypoxia response. Hypoxia plays a relevant role in regulating cell cycle progression, inducing growth arrest in cells exposed to prolonged oxygen deprivation. However, the exact molecular details driving this transition are far from understood...
April 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28423184/the-differentiated-and-conserved-roles-of-swi5-sfr1-in-homologous-recombination
#4
REVIEW
Bilge Argunhan, Yasuto Murayama, Hiroshi Iwasaki
Homologous recombination (HR) is the process whereby two DNA molecules that share high sequence similarity are able to recombine to generate hybrid DNA molecules. Throughout evolution, the ability of HR to identify highly similar DNA sequences has been adopted for numerous biological phenomena including DNA repair, meiosis, telomere maintenance, ribosomal DNA amplification, and immunological diversity. Although Rad51 and Dmc1 are the key proteins that promote HR in mitotic and meiotic cells, respectively, accessory proteins that allow Rad51 and Dmc1 to effectively fulfil their functions have been identified in all examined model systems...
April 19, 2017: FEBS Letters
https://www.readbyqxmd.com/read/28421365/grass-carp-reovirus-outer-capsid-proteins-vp5-and-vp7-interact-in-vitro
#5
Weisha Liu, Hao Wang, Fei Yu, Liqun Lu
Grass carp reovirus (GCRV) causes viral hemorrhagic disease in cultured grass carp. However, there is no effective means of controlling GCRV. Previous studies have shown, by cryoelectron microscopy, that the outer capsid of GCRV is composed of 200 trimers of VP5-VP7 heterodimers. However, confirmation of this interaction between VP5 and VP7 through molecular biochemistry is still lacking. This study characterized the interactions between VP5 and VP7 in vitro. VP5 was shown to interact with VP7 in a commercial yeast-two-hybrid screen...
April 18, 2017: Archives of Virology
https://www.readbyqxmd.com/read/28419469/the-endoplasmic-reticulum-associated-protein-os-9-behaves-as-a-lectin-in-targeting-the-immature-calcium-sensing-receptor
#6
Bryan K Ward, Sarah L Rea, Aaron L Magno, Bernadette Pedersen, Suzanne J Brown, Shelby Mullin, Ajanthy Arulpragasam, Evan Ingley, Arthur D Conigrave, Thomas Ratajczak
The mechanisms responsible for the processing and quality control of the calcium-sensing receptor (CaSR) in the endoplasmic reticulum (ER) are largely unknown. In a yeast two-hybrid screen of the CaSR C-terminal tail (residues 865 -1078), we identified osteosarcoma-9 (OS-9) protein as a binding partner. OS-9 is an ER-resident lectin that targets misfolded glycoproteins to the ER-associated degradation (ERAD) pathway through recognition of specific N-glycans by its mannose-6-phosphate receptor homology (MRH) domain...
April 17, 2017: Journal of Cellular Physiology
https://www.readbyqxmd.com/read/28419377/gene-tree-reconciliation-with-mul-trees-to-resolve-polyploidy-events
#7
Gregg W C Thomas, S Hussain Ather, Matthew W Hahn
Polyploidy can have a huge impact on the evolution of species, and it is a common occurrence, especially in plants. The two types of polyploids - autopolyploids and allopolyploids - differ in the level of divergence between the genes that are brought together in the new polyploid lineage. Because allopolyploids are formed via hybridization, the homoeologous copies of genes within them are at least as divergent as orthologs in the parental species that came together to form them. This means that common methods for estimating the parental lineages of allopolyploidy events are not accurate, and can lead to incorrect inferences about the number of gene duplications and losses...
April 13, 2017: Systematic Biology
https://www.readbyqxmd.com/read/28412242/14-3-3%C3%AE-regulates-copine1-mediated-neuronal-differentiation-in-hib5-hippocampal-progenitor-cells
#8
Jae Cheal Yoo, Nammi Park, Boah Lee, Abdullateef Nashed, Young-Sun Lee, Tae Hwan Kim, Da Yong Lee, Ajung Kim, Eun Mi Hwang, Gwan-Su Yi, Jae-Yong Park
Copine1 (CPNE1), known as a calcium-dependent membrane-binding protein, has tandem C2 domains and an A domain. We previously demonstrated that CPNE1 directly induces neuronal differentiation via Protein kinase B (AKT) phosphorylation in the hippocampal progenitor cell line, HiB5. To better understand its cellular function, we carried out a yeast two-hybrid screening to find CPNE1 binding partners. Among the identified proteins, 14-3-3γ appears to directly interact with CPNE1. Between CPNE1 and 14-3-3γ, the physical interaction as well as the specific binding regions of CPNE1 was confirmed in vitro and in vivo...
April 12, 2017: Experimental Cell Research
https://www.readbyqxmd.com/read/28411489/kale-borack1-is-involved-in-the-plant-response-to-salt-stress-and-peronospora-brassicae-gaumann
#9
Da-Hong Li, Fu-Jia Shen, Hong-Yan Li, Wei Li
The receptor for activated C kinase 1 (RACK1) belongs to a protein subfamily containing a tryptophan-aspartic acid-domain (WD) repeat structure. Compelling evidence indicates that RACK1 can interact with many signal molecules and affect different signal transduction pathways. In this study, a kale (Brassica oleracea var. acephala f.tricolor) RACK1 gene (BoRACK1) was cloned by RT-PCR. The amino acid sequence of BoRACK1 had seven WD repeats in which there were typical GH (glycine-histidine) and WD dipeptides...
March 24, 2017: Journal of Plant Physiology
https://www.readbyqxmd.com/read/28403169/osteopontin-activates-the-diabetes-associated-potassium-channel-talk-1-in-pancreatic-%C3%AE-cells
#10
Matthew T Dickerson, Nicholas C Vierra, Sarah C Milian, Prasanna K Dadi, David A Jacobson
Glucose-stimulated insulin secretion (GSIS) relies on β-cell Ca2+ influx, which is modulated by the two-pore-domain K+ (K2P) channel, TALK-1. A gain-of-function polymorphism in KCNK16, the gene encoding TALK-1, increases risk for developing type-2 diabetes. While TALK-1 serves an important role in modulating GSIS, the regulatory mechanism(s) that control β-cell TALK-1 channels are unknown. Therefore, we employed a membrane-specific yeast two-hybrid (MYTH) assay to identify TALK-1-interacting proteins in human islets, which will assist in determining signaling modalities that modulate TALK-1 function...
2017: PloS One
https://www.readbyqxmd.com/read/28402264/fhl2-interacts-with-iaspp-and-impacts-the-biological-functions-of-leukemia-cells
#11
Wenting Lu, Tengteng Yu, Shuang Liu, Saisai Li, Shouyun Li, Jia Liu, Yingxi Xu, Haiyan Xing, Zheng Tian, Kejing Tang, Qing Rao, Jianxiang Wang, Min Wang
iASPP is an inhibitory member of apoptosis-stimulating proteins of p53 (ASPP) family, which inhibits p53-dependent apoptosis. iASPP was highly expressed in acute leukemia, inhibited leukemia cells apoptosis and promoted leukemogenesis. In order to clarify its mechanism, a yeast two-hybrid screen was performed and FHL2 was identified for the first time as one of the binding proteins of iASPP. FHL2 was highly expressed in K562 and Kasumi-1 cells. FHL2 and iASPP interacted with each other and co-localized in both nucleus and cytoplasm...
March 28, 2017: Oncotarget
https://www.readbyqxmd.com/read/28396433/molecular-basis-for-the-interaction-between-integrator-subunits-ints9-and-ints11-and-its-functional-importance
#12
Yixuan Wu, Todd R Albrecht, David Baillat, Eric J Wagner, Liang Tong
The metazoan Integrator complex (INT) has important functions in the 3'-end processing of noncoding RNAs, including the uridine-rich small nuclear RNA (UsnRNA) and enhancer RNA (eRNA), and in the transcription of coding genes by RNA polymerase II. The INT contains at least 14 subunits, but its molecular mechanism of action is poorly understood, because currently there is little structural information about its subunits. The endonuclease activity of INT is mediated by its subunit 11 (IntS11), which belongs to the metallo-β-lactamase superfamily and is a paralog of CPSF-73, the endonuclease for pre-mRNA 3'-end processing...
April 10, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28393907/involvement-of-a-velvet-protein-clvelb-in-the-regulation-of-vegetative-differentiation-oxidative-stress-response-secondary-metabolism-and-virulence-in-curvularia-lunata
#13
Jin-Xin Gao, Chuan-Jin Yu, Meng Wang, Jia-Nan Sun, Ya-Qian Li, Jie Chen
The ortholog of Aspergillus nidulans VelB, which is known as ClVelB, was studied to gain a broader insight into the functions of a velvet protein in Curvularia lunata. With the expected common and specific functions of ClVelB, the deletion of clvelB results in similar though not identical phenotypes. The pathogenicity assays revealed that ΔClVelB was impaired in colonizing the host tissue, which corresponds to the finding that ClVelB controls the production of conidia and the methyl 5-(hydroxymethyl) furan-2-carboxylate toxin in C...
April 10, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28393218/p21-activated-kinase-4-binds-translation-elongation-factor-eef1a1-to-promote-gastric-cancer-cell-migration-and-invasion
#14
Xiang Li, Jiabin Li, Feng Li
P21 activated kinase 4 (PAK4), as an effector of Cdc42, playing important roles in regulating the processes of cytoskeleton organization. PAK4 has been considered to be an oncogenic protein, which has strong relationship with gastric cancer metastasis. However, the mechanism of PAK4 in regulating gastric cancer metastasis is still not fully understood. In this study, using yeast two-hybrid system, we identified that the eukaryotic elongation factor 1 α1 (eEF1A1) is a new binding partner of PAK4. The interaction between PAK4 and eEF1A1 was confirmed by GST pull-down and co-immunoprecipitation...
May 2017: Oncology Reports
https://www.readbyqxmd.com/read/28392445/identification-of-residues-or-motif-s-of-the-rice-stripe-virus-ns3-protein-required-for-self-interaction-and-for-silencing-suppressor-activity
#15
Hangil Kim, Won Kyong Cho, Sen Lian, Kook-Hyung Kim
Rice stripe virus (RSV) is an important pathogen of rice. The RSV genome consists of four single-stranded RNA segments that encode seven viral proteins. A previous report found that NS3 is a viral suppressor of RNA silencing and self interacts. Using a model that predicts protein structure, we identified amino acid residues or motifs, including four α-helix motifs, required for NS3 self-interaction. We then used yeast two-hybrid (Y2H) and bimolecular fluorescence complementation (BiFC) assays to study the interactions between full-length NS3 and its truncated and alanine substitution mutants...
April 6, 2017: Virus Research
https://www.readbyqxmd.com/read/28389570/bves-regulates-c-myc-stability-via-pp2a-and-suppresses-colitis-induced-tumourigenesis
#16
Bobak Parang, Andrew M Kaz, Caitlyn W Barrett, Sarah P Short, Wei Ning, Cody E Keating, Mukul K Mittal, Rishi D Naik, Mary K Washington, Frank L Revetta, J Joshua Smith, Xi Chen, Keith T Wilson, Thomas Brand, David M Bader, William P Tansey, Ru Chen, Teresa A Brentnall, William M Grady, Christopher S Williams
OBJECTIVE: Blood vessel epicardial substance (BVES) is a tight junction-associated protein that regulates epithelial-mesenchymal states and is underexpressed in epithelial malignancy. However, the functional impact of BVES loss on tumourigenesis is unknown. Here we define the in vivo role of BVES in colitis-associated cancer (CAC), its cellular function and its relevance to patients with IBD. DESIGN: We determined BVES promoter methylation status using an Infinium HumanMethylation450 array screen of patients with UC with and without CAC...
May 2017: Gut
https://www.readbyqxmd.com/read/28388946/acetolactate-synthase-regulatory-subunits-play-divergent-and-overlapping-roles-in-branched-chain-amino-acid-synthesis-and-arabidopsis-development
#17
Mohammad H Dezfulian, Curtis Foreman, Espanta Jalili, Mrinal Pal, Rajdeep K Dhaliwal, Don Karl A Roberto, Kathleen M Imre, Susanne E Kohalmi, William L Crosby
BACKGROUND: Branched-chain amino acids (BCAAs) are synthesized by plants, fungi, bacteria, and archaea with plants being the major source of these amino acids in animal diets. Acetolactate synthase (ALS) is the first enzyme in the BCAA synthesis pathway. Although the functional contribution of ALS to BCAA biosynthesis has been extensively characterized, a comprehensive understanding of the regulation of this pathway at the molecular level is still lacking. RESULTS: To characterize the regulatory processes governing ALS activity we utilized several complementary approaches...
April 7, 2017: BMC Plant Biology
https://www.readbyqxmd.com/read/28388505/overexpression-of-cotton-pyl-genes-in-arabidopsis-enhances-the-transgenic-plant-tolerance-to-drought-stress
#18
Yun Chen, Li Feng, Ning Wei, Zhi-Hao Liu, Shan Hu, Xue-Bao Li
PYR/PYL/RCAR proteins are putative abscisic acid (ABA) receptors that play important roles in plant responses to biotic and abiotic stresses. In this study, 27 predicted PYL proteins were identified in cotton (Gossypium hirsutum). Sequence analysis showed they are conserved in structures. Phylogenetic analysis showed that cotton PYL family could be categorized into three groups. Yeast two-hybrid assay revealed that the GhPYL proteins selectively interacted with some GhPP2C proteins. Quantitative RT-PCR analysis indicated that the most of nine GhPYL genes were down-regulated, while the other three were up-regulated in cotton under drought stress...
March 30, 2017: Plant Physiology and Biochemistry: PPB
https://www.readbyqxmd.com/read/28381481/fkbp8-recruits-lc3a-to-mediate-parkin-independent-mitophagy
#19
Zambarlal Bhujabal, Åsa B Birgisdottir, Eva Sjøttem, Hanne B Brenne, Aud Øvervatn, Sabrina Habisov, Vladimir Kirkin, Trond Lamark, Terje Johansen
Mitophagy, the selective removal of damaged or excess mitochondria by autophagy, is an important process in cellular homeostasis. The outer mitochondrial membrane (OMM) proteins NIX, BNIP3, FUNDC1, and Bcl2-L13 recruit ATG8 proteins (LC3/GABARAP) to mitochondria during mitophagy. FKBP8 (also known as FKBP38), a unique member of the FK506-binding protein (FKBP) family, is similarly anchored in the OMM and acts as a multifunctional adaptor with anti-apoptotic activity. In a yeast two-hybrid screen, we identified FKBP8 as an ATG8-interacting protein...
April 5, 2017: EMBO Reports
https://www.readbyqxmd.com/read/28379362/genetic-studies-on-the-physiological-role-of-corvet-in-aspergillus-nidulans
#20
Manuel S López-Berges, Herbert N Arst, Mario Pinar, Miguel A Peñalva
CORVET and HOPS are protein complexes mediating the maturation of early endosomes (EEs) into late endosomes (LEs)/vacuoles. These hetero-hexamers share four 'core' components, Vps11, Vps16, Vps18 and Vps33, and differ in two specific subunits, CORVET Vps8 and Vps3 and HOPS Vps39 and Vps41. Whereas ablating HOPS-specific components has minor growth effects, ablating any CORVET constituent severely debilitates Aspergillus nidulans growth, buttressing previous work indicating that maturation of EEs into LEs is physiologically crucial...
March 30, 2017: FEMS Microbiology Letters
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