Browsing Bergen Open Research Archive by Author "Lanzén, Anders"

Now showing items 1-13 of 13

    • Analysis of sequencing data in environmental genomics. Exploring the diversity of the microbial biosphere 

      Lanzén, Anders (Doctoral thesis, 2013-04-12)
      Most life on this planet is microbial and for the last two decades, environmental genomics has contributed to reveal an impressive biodiversity of this microbial life. This approach applies DNA sequencing to environmental ...

    • Characteristics of 454 pyrosequencing data—enabling realistic simulation with flowsim 

      Balzer, Susanne Mignon; Malde, Ketil; Lanzén, Anders; Sharma, Animesh; Jonassen, Inge (Peer reviewed; Journal article, 2010)
      Motivation: The commercial launch of 454 pyrosequencing in 2005was a milestone in genome sequencing in terms of performance and cost. Throughout the three available releases, average read lengths have increased to ∼500 ...

    • Characterization of the 18s rRNA gene for designing universal eukaryote specific primers 

      Hadziavdic, Kenan; Lekang, Katrine; Lanzén, Anders; Jonassen, Inge; Thompson, Eric; Troedsson, Christofer (Peer reviewed; Journal article, 2014-02-07)
      High throughput sequencing technology has great promise for biodiversity studies. However, an underlying assumption is that the primers used in these studies are universal for the prokaryotic or eukaryotic groups of interest. ...

    • CREST – Classification Resources for Environmental Sequence Tags 

      Lanzén, Anders; Jørgensen, Steffen Leth; Huson, Daniel H.; Gorfer, Markus; Grindhaug, Svenn Helge; Jonassen, Inge; Øvreås, Lise; Urich, Tim (Peer reviewed; Journal article, 2012-11-08)
      Sequencing of taxonomic or phylogenetic markers is becoming a fast and efficient method for studying environmental microbial communities. This has resulted in a steadily growing collection of marker sequences, most notably ...

    • Evaluation of a eukaryote phylogenetic microarray for environmental monitoring of marine sediments 

      Lekang, Katrine; Lanzén, Anders; Jonassen, Inge; Thompson, Eric; Troedsson, Christofer (Journal article; Peer reviewed, 2020)
      Increased exploitation of resources in sensitive marine ecosystems emphasizes the importance of knowledge regarding ecological impacts. However, current bio-monitoring practices are limited in terms of target-organisms and ...

    • 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 (Peer reviewed; Journal article, 2011-09)
      Atlantic cod (Gadus morhua) is a large, cold-adapted teleost that sustains long-standing commercial fisheries and incipient aquaculture. Here we present the genome sequence of Atlantic cod, showing evidence for complex ...

    • High-throughput metabarcoding of eukaryotic diversity for environmental monitoring of offshore oil-drilling activities 

      Lanzén, Anders; Lekang, Katrine; Jonassen, Inge; Thompson, Eric; Troedsson, Christofer (Peer reviewed; Journal article, 2016-09)
      As global exploitation of available resources increases, operations extend towards sensitive and previously protected ecosystems. It is important to monitor such areas in order to detect, understand and remediate environmental ...

    • Metagenomic analysis of ammonia-oxidizing archaea affiliated with the soil group 

      Bartossek, Rita; Spang, Anja; Weidler, Gerhard; Lanzén, Anders; Schleper, Christa Maria (Peer reviewed; Journal article, 2012-06-20)
      Ammonia-oxidizing archaea (AOA) have recently been recognized as a significant compo- nent of many microbial communities and represent one of the most abundant prokaryotic groups in the biosphere. H owever, only few AOA ...

    • Novel and Unexpected Microbial Diversity in Acid Mine Drainage in Svalbard (78° N), Revealed by Culture-Independent Approaches 

      Garcia-Moyano, Antonio; Austnes, Andreas Erling; Lanzén, Anders; Gonzalez-Toril, Elena; Aguilera, Ángeles; Øvreås, Lise (Peer reviewed; Journal article, 2015-10-13)
      Svalbard, situated in the high Arctic, is an important past and present coal mining area. Dozens of abandoned waste rock piles can be found in the proximity of Longyearbyen. This environment offers a unique opportunity for ...

    • Planctomycetes as a Vital Constituent of the Microbial Communities Inhabiting Different Layers of the Meromictic Lake Sælenvannet (Norway) 

      Storesund, Julia Endresen; Lanzén, Anders; Nordmann, Eva-Lena; Rief Armo, Hilde; Lage, Olga M.; Øvreås, Lise (Journal article; Peer reviewed, 2020)
      Meromictic lakes are permanently stratified lakes that display steep gradients in salinity, oxygen and sulphur compounds tightly linked to bacterial community structure and diversity. Lake Sælenvannet is a meromictic lake ...

    • Reconstructing ribosomal genes from large scale total RNA meta-transcriptomic data 

      Xue, Yaxin; Lanzén, Anders; Jonassen, Inge (Journal article; Peer reviewed, 2020-03-13)
      Motivation Technological advances in meta-transcriptomics have enabled a deeper understanding of the structure and function of microbial communities. ‘Total RNA’ meta-transcriptomics, sequencing of total reverse transcribed ...

    • Removing Noise From Pyrosequenced Amplicons 

      Quince, Christopher; Lanzén, Anders; Davenport, Russell J.; Turnbaugh, Peter J. (Peer reviewed; Journal article, 2011-01-28)
      Background: In many environmental genomics applications a homologous region of DNA from a diverse sample is first amplified by PCR and then sequenced. The next generation sequencing technology, 454 pyrosequencing, has ...

    • Simultaneous Assessment of Soil Microbial Community Structure and Function through Analysis of the Meta-Transcriptome 

      Urich, Tim; Lanzén, Anders; Qi, Ji; Huson, Daniel H.; Schleper, Christa Maria; Schuster, Stephan C. (Peer reviewed; Journal article, 2008-06-25)
      Background: Soil ecosystems harbor the most complex prokaryotic and eukaryotic microbial communities on Earth. Experimental approaches studying these systems usually focus on either the soil community’s taxonomic structure ...