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https://www.readbyqxmd.com/read/28340089/how-embryophytic-is-the-biosynthesis-of-phenylpropanoids-and-their-derivatives-in-streptophyte-algae
#1
Jan de Vries, Sophie de Vries, Claudio H Slamovits, Laura E Rose, John M Archibald
The origin of land plants from algae is a long-standing question in evolutionary biology. It is becoming increasingly clear that many characters that were once assumed to be "embryophyte-specific" can in fact be found in their closest algal relatives, the streptophyte algae. One such case is the phenylpropanoid pathway. While biochemical data indicate that streptophyte algae harbor lignin-like components, the phenylpropanoid core pathway, which serves as the backbone of lignin biosynthesis, has been proposed to have arisen at the base of the land plants...
March 13, 2017: Plant & Cell Physiology
https://www.readbyqxmd.com/read/28335007/a-class-of-circadian-long-non-coding-rnas-mark-enhancers-modulating-long-range-circadian-gene-regulation
#2
Zenghua Fan, Meng Zhao, Parth D Joshi, Ping Li, Yan Zhang, Weimin Guo, Yichi Xu, Haifang Wang, Zhihu Zhao, Jun Yan
Circadian rhythm exerts its influence on animal physiology and behavior by regulating gene expression at various levels. Here we systematically explored circadian long non-coding RNAs (lncRNAs) in mouse liver and examined their circadian regulation. We found that a significant proportion of circadian lncRNAs are expressed at enhancer regions, mostly bound by two key circadian transcription factors, BMAL1 and REV-ERBα. These circadian lncRNAs showed similar circadian phases with their nearby genes. The extent of their nuclear localization is higher than protein coding genes but less than enhancer RNAs...
March 8, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28334829/structure-of-the-sac3-rna-binding-m-region-in-the-saccharomyces-cerevisiae-trex-2-complex
#3
James M B Gordon, Shintaro Aibara, Murray Stewart
Transcription-export complex 2 (TREX-2, or THSC) facilitates localization of actively transcribing genes such as GAL1 to the nuclear periphery, contributes to the generation of export-competent mRNPs and influences gene expression through interactions with Mediator. TREX-2 is based on a Sac3 scaffold to which Thp1, Sem1, Cdc31 and Sus1 bind and consists of three modules: the N-region (Sac3∼1-100), which binds mRNA export factor Mex67:Mtr2; the M-region, in which Thp1 and Sem1 bind to Sac3∼100-550; and the CID region in which Cdc31 and two Sus1 chains bind to Sac3∼720-805...
March 15, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28334040/macrophage-origin-limits-functional-plasticity-in-helminth-bacterial-co-infection
#4
Dominik Rückerl, Sharon M Campbell, Sheelagh Duncan, Tara E Sutherland, Stephen J Jenkins, James P Hewitson, Tom A Barr, Lucy H Jackson-Jones, Rick M Maizels, Judith E Allen
Rapid reprogramming of the macrophage activation phenotype is considered important in the defense against consecutive infection with diverse infectious agents. However, in the setting of persistent, chronic infection the functional importance of macrophage-intrinsic adaptation to changing environments vs. recruitment of new macrophages remains unclear. Here we show that resident peritoneal macrophages expanded by infection with the nematode Heligmosomoides polygyrus bakeri altered their activation phenotype in response to infection with Salmonella enterica ser...
March 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28333296/stepwise-evolution-of-a-buried-inhibitor-peptide-over-45-million-years
#5
Achala S Jayasena, Mark F Fisher, Jose L Panero, David Secco, Kalia Bernath-Levin, Oliver Berkowitz, Nicolas L Taylor, Edward E Schilling, James Whelan, Joshua S Mylne
The de novo evolution of genes and the novel proteins they encode has stimulated much interest in the contribution such innovations make to the diversity of life. Most research on this de novo evolution focuses on transcripts, so studies on the biochemical steps that can enable completely new proteins to evolve and the time required to do so have been lacking. Sunflower PawS1 is an unusual albumin precursor because in addition to producing albumin it also yields a potent, bicyclic protease-inhibitor called SFTI-1...
March 8, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/28331386/phylogenetic-analysis-of-the-genus-laparocerus-with-comments-on-colonisation-and-diversification-in-macaronesia-coleoptera-curculionidae-entiminae
#6
Antonio Machado, Eduardo Rodríguez-Expósito, Mercedes López, Mariano Hernández
The flightless Entiminae weevil genus Laparocerus is the species-richest genus, with 237 species and subspecies, inhabiting Macaronesia (Madeira archipelago, Selvagens, Canary Islands) and the continental 'Macaronesian enclave' in Morocco (one single polytypic species). This is the second contribution to gain insight of the genus and assist in its systematic revision with a mitochondrial phylogenetic analysis. It centres on the Canarian clade, adding the 12S rRNA gene to the combined set of COII and 16S rRNA used in our first contribution on the Madeiran clade (here re-analysed)...
2017: ZooKeys
https://www.readbyqxmd.com/read/28328989/quorum-sensing-network-in-clinical-strains-of-a-baumannii-aida-is-a-new-quorum-quenching-enzyme
#7
María López, Celia Mayer, Laura Fernández-García, Lucía Blasco, Andrea Muras, Federico Martín Ruiz, German Bou, Ana Otero, María Tomás
Acinetobacter baumannii is an important pathogen that causes nosocomial infections generally associated with high mortality and morbidity in Intensive Care Units (ICUs). Currently, little is known about the Quorum Sensing (QS)/Quorum Quenching (QQ) systems of this pathogen. We analyzed these mechanisms in seven clinical isolates of A. baumannii. Microarray analysis of one of these clinical isolates, Ab1 (A. baumannii ST-2_clon_2010), previously cultured in the presence of 3-oxo-C12-HSL (a QS signalling molecule) revealed a putative QQ enzyme (α/ß hydrolase gene, AidA)...
2017: PloS One
https://www.readbyqxmd.com/read/28325561/a-new-slc12a3-founder-mutation-p-val647met-in-gitelman-s-syndrome-patients-of-roma-ancestry
#8
Helena Gil-Peña, Eliecer Coto, Fernando Santos, Mar Espino, Jose Mª Cea Crespo, Giannis Chantzopoulos, Filadelfia Komianou, Juan Gómez, Belén Alonso, Sara Iglesias, Cyrielle Treard, Rosa Vargas-Poussou
BACKGROUND: Gitelman's syndrome (GS) is an autosomal recessive disorder caused by mutations in the SLC12A3 gene. GS is characterized by hypokalaemic metabolic alkalosis, hypomagnesemia and hypocalciuria. Most of the reported patients of Roma ancestry are homozygous for an SLC12A3 intron 9 frameshifting mutation (c.1180+1G>T). Some forms of Bartter's syndrome result from mutations in the CLNCKB gene and clinically overlap with GS. OBJECTIVES: To characterize a second SLC12A3 mutation in Roma patients negative for the intron 9 variant...
March 18, 2017: Nefrología: Publicación Oficial de la Sociedad Española Nefrologia
https://www.readbyqxmd.com/read/28321046/tobacco-nitrosamine-nnk-increases-aldh-positive-cells-via-ros-wnt-signaling-pathway-in-a549-human-lung-cancer-cells
#9
Naoya Hirata, Shigeru Yamada, Yuko Sekino, Yasunari Kanda
Epidemiological studies suggest that lung cancer, which is a major cause of cancer death, has a critical association with cigarette smoking. Tobacco-specific nitrosamine 4-(methylnitrosamino)-1-(3-pyridyl)-1-butanone (NNK) in cigarette smoke is a major risk factor for carcinogenesis. However, the mechanisms by which NNK promotes cancer development have not been fully elucidated. Growing evidence suggests that lung cancer originates from cancer stem cells (CSCs), which are a minor population of lung cancer cells...
2017: Journal of Toxicological Sciences
https://www.readbyqxmd.com/read/28320832/g-csf-receptor-blockade-ameliorates-arthritic-pain-and-disease
#10
Ming-Chin Lee, James A McCubbin, Anne D Christensen, Daniel P Poole, Pradeep Rajasekhar, TinaMarie Lieu, Nigel W Bunnett, Sonia Garcia-Caraballo, Andelain Erickson, Stuart M Brierley, Reem Saleh, Adrian Achuthan, Andrew J Fleetwood, Robin L Anderson, John A Hamilton, Andrew D Cook
G-CSF or CSF-3, originally defined as a regulator of granulocyte lineage development via its cell surface receptor (G-CSFR), can play a role in inflammation, and hence in many pathologies, due to its effects on mature lineage populations. Given this, and because pain is an extremely important arthritis symptom, the efficacy of an anti-G-CSFR mAb for arthritic pain and disease was compared with that of a neutrophil-depleting mAb, anti-Ly6G, in both adaptive and innate immune-mediated murine models. Pain and disease were ameliorated in Ag-induced arthritis, zymosan-induced arthritis, and methylated BSA/IL-1 arthritis by both prophylactic and therapeutic anti-G-CSFR mAb treatment, whereas only prophylactic anti-Ly6G mAb treatment was effective...
March 20, 2017: Journal of Immunology: Official Journal of the American Association of Immunologists
https://www.readbyqxmd.com/read/28320321/evolution-of-group-i-introns-in-porifera-new-evidence-for-intron-mobility-and-implications-for-dna-barcoding
#11
Astrid Schuster, Jose V Lopez, Leontine E Becking, Michelle Kelly, Shirley A Pomponi, Gert Wörheide, Dirk Erpenbeck, Paco Cárdenas
BACKGROUND: Mitochondrial introns intermit coding regions of genes and feature characteristic secondary structures and splicing mechanisms. In metazoans, mitochondrial introns have only been detected in sponges, cnidarians, placozoans and one annelid species. Within demosponges, group I and group II introns are present in six families. Based on different insertion sites within the cox1 gene and secondary structures, four types of group I and two types of group II introns are known, which can harbor up to three encoding homing endonuclease genes (HEG) of the LAGLIDADG family (group I) and/or reverse transcriptase (group II)...
March 20, 2017: BMC Evolutionary Biology
https://www.readbyqxmd.com/read/28320309/correlated-duplications-and-losses-in-the-evolution-of-palmitoylation-writer-and-eraser-families
#12
Stijn Wittouck, Vera van Noort
BACKGROUND: Protein post-translational modifications (PTMs) change protein properties. Each PTM type is associated with domain families that apply the modification (writers), remove the modification (erasers) and bind to the modified sites (readers) together called toolkit domains. The evolutionary origin and diversification remains largely understudied, except for tyrosine phosphorylation. Protein palmitoylation entails the addition of a palmitoyl fatty acid to a cysteine residue. This PTM functions as a membrane anchor and is involved in a range of cellular processes...
March 20, 2017: BMC Evolutionary Biology
https://www.readbyqxmd.com/read/28319089/natural-variation-at-the-soybean-j-locus-improves-adaptation-to-the-tropics-and-enhances-yield
#13
Sijia Lu, Xiaohui Zhao, Yilong Hu, Shulin Liu, Haiyang Nan, Xiaoming Li, Chao Fang, Dong Cao, Xinyi Shi, Lingping Kong, Tong Su, Fengge Zhang, Shichen Li, Zheng Wang, Xiaohui Yuan, Elroy R Cober, James L Weller, Baohui Liu, Xingliang Hou, Zhixi Tian, Fanjiang Kong
Soybean is a major legume crop originating in temperate regions, and photoperiod responsiveness is a key factor in its latitudinal adaptation. Varieties from temperate regions introduced to lower latitudes mature early and have extremely low grain yields. Introduction of the long-juvenile (LJ) trait extends the vegetative phase and improves yield under short-day conditions, thereby enabling expansion of cultivation in tropical regions. Here we report the cloning and characterization of J, the major classical locus conferring the LJ trait, and identify J as the ortholog of Arabidopsis thaliana EARLY FLOWERING 3 (ELF3)...
March 20, 2017: Nature Genetics
https://www.readbyqxmd.com/read/28318117/transcriptional-regulation-of-cpsq-mfpabc-and-mfpabc-by-calr%C3%A2-in-vibrio-parahaemolyticus
#14
He Gao, Lingyu Zhang, George Osei-Adjei, Wenhui Yang, Dongsheng Zhou, Xinxiang Huang, Huiying Yang, Zhe Yin, Yiquan Zhang
The cpsQ-mfpABC locus is transcribed as two operons, i.e., cpsQ-mfpABC and mfpABC, in Vibrio parahaemolyticus, and both of them are all required for biofilm formation. CalR belongs to the LysR-type transcriptional regulator family, and was originally identified as a repressor of the swarming motility and T3SS1 genes expression in V. parahaemolyticus. In the present work, a combination of qRT-PCR, primer extension, LacZ fusion expression, electrophoretic mobility shift assay, and DNase I footprinting assays were employed to elucidate the regulatory mechanisms of cpsQ-mfpABC and mfpABC by CalR...
March 20, 2017: MicrobiologyOpen
https://www.readbyqxmd.com/read/28317250/epsps-gene-amplification-conferring-resistance-to-glyphosate-in-windmill-grass-chloris-truncata-in-australia
#15
The D Ngo, Jenna M Malone, Peter Boutsalis, Gurjeet Gill, Christopher Preston
BACKGROUND: Five glyphosate resistant populations of Chloris truncata originally collected from New South Wales were compared to one susceptible (S) population from South Australia, Australia to confirm glyphosate resistance and elucidate possible mechanisms of resistance. RESULTS: Based on the amounts of glyphosate required to kill 50% of treated plants (LD50 ), glyphosate resistance (GR) was confirmed in five populations of C. truncata (A536, A528, T27, A534 and A535...
March 20, 2017: Pest Management Science
https://www.readbyqxmd.com/read/28316889/functional-and-health-promoting-inherent-attributes-of-enterococcus-hirae-f2-as-a-novel-probiotic-isolated-from-the-digestive-tract-of-the-freshwater-fish-catla-catla
#16
Mohd Adnan, Mitesh Patel, Sibte Hadi
BACKGROUND: Probiotic microorganisms are gaining global importance because of their use in the preparation of a nutraceutical or in the treatment of infections. As per the health industry demand, there is an urgent need for exploring new indigenous probiotic strains with its specific origin due to variation in gut microflora, different food habits and specific host-microbial interactions. The main objective of the present study was to isolate and identify a novel probiotic Enterococcus strain from the gut of Catla catla fish and evaluate its potentiality as a potent probiotic...
2017: PeerJ
https://www.readbyqxmd.com/read/28315322/new-horizons-in-hypoxia-signaling-pathways
#17
Christopher W Pugh, Peter J Ratcliffe
Investigation into the regulation of the erythropoietin gene by oxygen led to the discovery of a process of direct oxygen sensing that transduces many cellular and systemic responses to hypoxia. The oxygen-sensitive signal is generated through the catalytic action of a series of 2-oxoglutarate-dependent oxygenases that regulate the transcription factor hypoxia-inducible factor (HIF) by the post-translational hydroxylation of specific amino acid residues. Here we review the implications of the unforeseen complexity of the HIF transcriptional cascade for the physiology and pathophysiology of hypoxia, and consider the origins of post-translational hydroxylation as a signaling process...
March 14, 2017: Experimental Cell Research
https://www.readbyqxmd.com/read/28314936/distribution-of-divo-in-coffea-genomes-a-poorly-described-family-of-angiosperm-ltr-retrotransposons
#18
Mathilde Dupeyron, Rogerio Fernandes de Souza, Perla Hamon, Alexandre de Kochko, Dominique Crouzillat, Emmanuel Couturon, Douglas Silva Domingues, Romain Guyot
Coffea arabica (the Arabica coffee) is an allotetraploid species originating from a recent hybridization between two diploid species: C. canephora and C. eugenioides. Transposable elements can drive structural and functional variation during the process of hybridization and allopolyploid formation in plants. To learn more about the evolution of the C. arabica genome, we characterized and studied a new Copia LTR-Retrotransposon (LTR-RT) family in diploid and allotetraploid Coffea genomes called Divo. It is a complete and relatively compact LTR-RT element (~5 kb), carrying typical Gag and Pol Copia type domains...
March 17, 2017: Molecular Genetics and Genomics: MGG
https://www.readbyqxmd.com/read/28306668/a-role-for-intracellular-and-extracellular-dek-in-regulating-hematopoiesis
#19
Maegan L Capitano, Hal E Broxmeyer
PURPOSE OF REVIEW: Hematopoietic stem/progenitor cell fate decision during hematopoiesis is regulated by intracellular and extracellular signals such as transcription factors, growth factors, and cell-to-cell interactions. In this review, we explore the function of DEK, a nuclear phosphoprotein, on gene regulation. We also examine how DEK is secreted and internalized by cells, and discuss how both endogenous and extracellular DEK regulates hematopoiesis. Finally, we explore what currently is known about the regulation of DEK during inflammation...
March 16, 2017: Current Opinion in Hematology
https://www.readbyqxmd.com/read/28304379/development-of-bioluminescent-chick-chorioallantoic-membrane-cam-models-for-primary-pancreatic-cancer-cells-a-platform-for-drug-testing
#20
Maria Rovithi, Amir Avan, Niccola Funel, Leticia G Leon, Valentina E Gomez, Thomas Wurdinger, Arjan W Griffioen, Henk M W Verheul, Elisa Giovannetti
The aim of the present study was to develop chick-embryo chorioallantoic membrane (CAM) bioluminescent tumor models employing low passage cell cultures obtained from primary pancreatic ductal adenocarcinoma (PDAC) cells. Primary PDAC cells transduced with lentivirus expressing Firefly-luciferase (Fluc) were established and inoculated onto the CAM membrane, with >80% engraftment. Fluc signal reliably correlated with tumor growth. Tumor features were evaluated by immunohistochemistry and genetic analyses, including analysis of mutations and mRNA expression of PDAC pivotal genes, as well as microRNA (miRNA) profiling...
March 17, 2017: Scientific Reports
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