Blar i forfatter "Johansen, Steinar Daae"

Viser treff 1-16 av 16

    • Accumulation of stable full-length circular group i intron RNAs during heat-shock 

      Andersen, Kasper L.; Beckert, Bertrand; Masquida, Benoît; Johansen, Steinar Daae; Nielsen, Henrik (Journal article; Tidsskriftartikkel; Peer reviewed, 2016-10-31)
      Group I introns in nuclear ribosomal RNA of eukaryotic microorganisms are processed by splicing or circularization. The latter results in formation of full-length circular introns without ligation of the exons and has been proposed to be active in intron mobility. We applied qRT-PCR to estimate the copy number of circular intron RNA from the myxomycete Didymium iridis . In ...

    • Blood Transcriptome Analysis of Septic Patients Reveals a Long Non-Coding Alu-RNA in the Complement C5a Receptor 1 Gene 

      Emblem, Åse; Knutsen, Erik; Jørgensen, Tor Erik; Fure, Hilde; Johansen, Steinar Daae; Brekke, Ole Lars; Mollnes, Tom Eirik; Karlsen, Bård Ove (Journal article; Tidsskriftartikkel; Peer reviewed, 2022-03-29)
      Many severe inflammation conditions are complement-dependent with the complement component C5a-C5aR1 axis as an important driver. At the RNA level, the blood transcriptome undergoes programmed expression of coding and long non-coding RNAs to combat invading microorganisms. Understanding the expression of long non-coding RNAs containing Alu elements in inflammation is important for reconstructing ...

    • Blood Transcriptome Analysis of Septic Patients Reveals a Long Non-Coding Alu-RNA in the Complement C5a Receptor 1 Gene 

      Emblem, Åse; Knutsen, Erik; Jørgensen, Tor Erik; Fure, Hilde; Johansen, Steinar Daae; Brekke, Ole Lars; Mollnes, Tom Eirik; Karlsen, Bård Ove (Journal article; Tidsskriftartikkel; Peer reviewed, 2022-03-29)
      Many severe inflammation conditions are complement-dependent with the complement component C5a-C5aR1 axis as an important driver. At the RNA level, the blood transcriptome undergoes programmed expression of coding and long non-coding RNAs to combat invading microorganisms. Understanding the expression of long non-coding RNAs containing Alu elements in inflammation is important for reconstructing ...

    • Characterization of mitochondrial mRNAs in codfish reveals unique features compared to mammals 

      Coucheron, Dag-Hugo; Nymark, Marianne; Breines, Ragna; Karlsen, Bård Ove; Andreassen, morten; Jørgensen, Tor Erik; Moum, Truls; Johansen, Steinar Daae (Journal article; Tidsskriftartikkel; Peer reviewed, 2011)
      Expression and processing of mitochondrial gene transcripts are fundamental to mitochondrial function, but information from early vertebrates like teleost fishes is essentially lacking. We have analyzed mitogenome sequences of ten codfishes (family Gadidae), and provide complete sequences from three new species (Saithe, Pollack and Blue whiting). Characterization of the mitochondrial mRNAs in Saithe ...

    • Characterization of novel precursor miRNAs using next generation sequencing and prediction of miRNA targets in Atlantic halibut 

      Bizuayehu, Teshome; Fernandes, Jorge; Johansen, Steinar Daae; Babiak, Igor (Journal article; Tidsskriftartikkel; Peer reviewed, 2013)
      microRNAs (miRNAs) are implicated in regulation of many cellular processes. miRNAs are processed to their mature functional form in a step-wise manner by multiple proteins and cofactors in the nucleus and cytoplasm. Many miRNAs are conserved across vertebrates. Mature miRNAs have recently been characterized in Atlantic halibut (Hippoglossus hippoglossus L.). The aim of this study was to identify and ...

    • Direct small RNA signatures in extracellular vesicles from breast cancer cell lines 

      Fiskaa, Tonje; Knutsen, Erik; Nikolaisen, Malene; Jørgensen, Tor Erik; Johansen, Steinar Daae; Perander, Maria; Seternes, Ole Morten (Journal article; Tidsskriftartikkel; Peer reviewed, 2016-08-31)
      Breast cancer is a heterogeneous disease, and different subtypes of breast cancer show distinct cellular morphology, gene expression, metabolism, motility, proliferation, and metastatic potential. Understanding the molecular features responsible for this heterogeneity is important for correct diagnosis and better treatment strategies. Extracellular vesicles (EVs) and their associated molecules ...

    • Elucidating the small regulatory RNA repertoire of the sea anemone Anemonia viridis based on whole genome and small RNA sequencing 

      Urbarova, Ilona; Patel, Hardip; Forêt, Sylvain; Karlsen, Bård Ove; Jørgensen, Tor Erik; Hall-Spencer, Jason M.; Johansen, Steinar Daae (Journal article; Tidsskriftartikkel; Peer reviewed, 2018-01-27)
      Cnidarians harbor a variety of small regulatory RNAs that include microRNAs (miRNAs) and PIWI-interacting RNAs (piRNAs), but detailed information is limited. Here, we report the identification and expression of novel miRNAs and putative piRNAs, as well as their genomic loci, in the symbiotic sea anemone <i>Anemonia viridis</i>. We generated a draft assembly of the <i>A. viridis</i> genome with ...

    • An evolutionary preserved intergenic spacer in gadiform mitogenomes generates a long noncoding RNA 

      Jørgensen, Tor Erik; Bakke, Ingrid; Ursvik, Anita; Andreassen, morten; Moum, Truls; Johansen, Steinar Daae (Journal article; Tidsskriftartikkel; Peer reviewed, 2014-08-22)

    • The genome sequence of Atlantic cod reveals a unique immune system 

      Star, Bastiaan; Nederbragt, Alexander Johan; Jentoft, Sissel; Grimholt, Unni; Malmstrøm, Martin; Gregers, Tone Fredsvik; Rounge, Trine Ballestad; Paulsen, Jonas; Solbakken, Monica Hongrø; Sharma, Animesh; Wetten, Ola Frang; Lanzén, Anders; Winer, Roger; Knight, James; Vogel, Jan-Hinnerk; Aken, Bronwen; Andersen, Øivind; Lagesen, Karin; Tooming-Klunderud, Ave; Edvardsen, Rolf; Kirubakaran, G. Tina; Espelund, Mari; Nepal, Chirag; Previti, A. Christopher; Karlsen, Bård Ove; Moum, Truls; Skage, Morten; Berg, Paul Ragnar; Gjøen, Tor; Kuhl, Heiner; Thorsen, Jim; Malde, Ketil; Reinhardt, Richard; Du, Lei; Johansen, Steinar Daae; Searle, Steve; Lien, Sigbjørn; Nilsen, Frank; Jonassen, Inge; Omholt, Stig W; Stenseth, Nils Christian; Jakobsen, Kjetill Sigurd (Journal article; Tidsskriftartikkel; Peer reviewed, 2011-08-10)
      Atlantic cod (Gadus morhua) is a large, cold-adapted teleost that sustains long-standing commercial fisheries and incipient aquaculture1, 2. Here we present the genome sequence of Atlantic cod, showing evidence for complex thermal adaptations in its haemoglobin gene cluster and an unusual immune architecture compared to other sequenced vertebrates. The genome assembly was obtained exclusively by 454 ...

    • Identification of a core EMT signature that separates basal-like breast cancers into partial- and post-EMT subtypes 

      Knutsen, Erik; Sajib, Saikat Das; Fiskaa, Tonje; Lorens, James Bradley; Gudjonsson, Thorarinn; Mælandsmo, Gunhild Mari; Johansen, Steinar Daae; Seternes, Ole Morten; Perander, Maria (Journal article; Tidsskriftartikkel; Peer reviewed, 2023-12-04)
      Epithelial-mesenchymal transition (EMT) is a cellular plasticity program critical for embryonic development and tissue regeneration, and aberrant EMT is associated with disease including cancer. The high degree of plasticity in the mammary epithelium is reflected in extensive heterogeneity among breast cancers. Here, we have analyzed RNA-sequencing data from three different mammary epithelial cell ...

    • The Mitochondrial Genome of the Sea Anemone Stichodactyla haddoni Reveals Catalytic Introns, Insertion-Like Element, and Unexpected Phylogeny 

      Johansen, Steinar Daae; Chi, Sylvia Ighem; Dubin, Arseny; Jørgensen, Tor Erik (Journal article; Tidsskriftartikkel; Peer reviewed, 2021-04-28)
      A hallmark of sea anemone mitochondrial genomes (mitogenomes) is the presence of complex catalytic group I introns. Here, we report the complete mitogenome and corresponding transcriptome of the carpet sea anemone Stichodactyla haddoni (family Stichodactylidae). The mitogenome is vertebrate-like in size, organization, and gene content. Two mitochondrial genes encoding NADH dehydrogenase subunit 5 ...

    • Mitochondrial genome variation of Atlantic cod 

      Jørgensen, Tor Erik; Karlsen, Bård Ove; Emblem, Åse; Breines, Ragna; Andreassen, morten; Rounge, Trine Ballestad; Nederbragt, Alexander Johan; Jakobsen, Kjetill Sigurd; Nymark, Marianne; Ursvik, anita; Coucheron, Dag H; Jakt, Lars Martin; Nordeide, Jarle Tryti; Moum, Truls Borg; Johansen, Steinar Daae (Journal article; Tidsskriftartikkel; Peer reviewed, 2018-06-19)
      Objective:<br> The objective of this study was to analyse intraspecifc sequence variation of Atlantic cod mitochondrial DNA, based on a comprehensive collection of completely sequenced mitochondrial genomes. <br>Results:<br> We determined the complete mitochondrial DNA sequence of 124 cod specimens from the eastern and western part of the species’ distribution range in the North Atlantic Ocean. ...

    • Mobile group I introns at nuclear rDNA position L2066 harbor sense and antisense homing endonuclease genes intervened by spliceosomal introns 

      Lian, Kjersti; Furulund, Betty Martine Normann; Tveita, Anders Aune; Haugen, Peik; Johansen, Steinar Daae (Journal article; Tidsskriftartikkel; Peer reviewed, 2022-10-08)
      Background: Mobile group I introns encode homing endonucleases that confer intron mobility initiated by a double-strand break in the intron-lacking allele at the site of insertion. Nuclear ribosomal DNA of some fungi and protists contain mobile group I introns harboring His-Cys homing endonuclease genes (HEGs). An intriguing question is how protein-coding genes embedded in nuclear ribosomal DNA ...

    • Ocean acidification at a coastal CO2 vent induces expression of stress-related transcripts and transposable elements in the sea anemone Anemonia viridis 

      Urbarova, Ilona; Forêt, Sylvain; Dahl, Mikael Per; Emblem, Åse E.; Milazzo, Marco; Hall-Spencer, Jason M.; Johansen, Steinar Daae (Journal article; Peer reviewed, 2019-05-08)
      Ocean acidification threatens to disrupt interactions between organisms throughout marine ecosystems. The diversity of reef-building organisms decreases as seawater CO2 increases along natural gradients, yet soft-bodied animals, such as sea anemones, are often resilient. We sequenced the polyA-enriched transcriptome of adult sea anemone Anemonia viridis and its dinoflagellate symbiont sampled along ...

    • Structural Organization of S516 Group I Introns in Myxomycetes 

      Furulund, Betty Martine Normann; Karlsen, Bård Ove; Babiak, Igor; Haugen, Peik; Johansen, Steinar Daae (Journal article; Tidsskriftartikkel; Peer reviewed, 2022-05-25)
      Group I introns are mobile genetic elements encoding self-splicing ribozymes. Group I introns in nuclear genes are restricted to ribosomal DNA of eukaryotic microorganisms. For example, the myxomycetes, which represent a distinct protist phylum with a unique life strategy, are rich in nucleolar group I introns. We analyzed and compared 75 group I introns at position 516 in the small subunit ...

    • Transcriptome and proteome profiling reveal complementary scavenger and immune features of rat liver sinusoidal endothelial cells and liver macrophages 

      Bhandari, Sabin; Li, Ruomei; Simon-Santamaria, Jaione; McCourt, Peter Anthony; Johansen, Steinar Daae; Smedsrød, Bård; Martinez, Inigo Zubiavrre; Sørensen, Karen Kristine (Journal article; Tidsskriftartikkel; Peer reviewed, 2020-11-27)
      <i>Background</i> - Liver sinusoidal endothelial cells (LSECs) and Kupffer cells (KCs; liver resident macrophages) form the body’s most effective scavenger cell system for the removal of harmful blood-borne substances, ranging from modified self-proteins to pathogens and xenobiotics. Controversies in the literature regarding the LSEC phenotype pose a challenge when determining distinct functionalities ...