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Scientific papers 2016

  1. Abarenkov K,…[ Larsson T],… ,[ Panova M],… ,[Svensson O, Töpel M],… et al. Annotating public fungal ITS sequences from the built environment according to the MIxS-Built Environment standard – a report from a May 23-24, 2016 workshop (Gothenburg, Sweden). MycoKeys 16: 1-15 (26 Sep 2016) doi: 10.3897/mycokeys.16.10000
     
  2. Adrian-Kalchhauser I, Burkhardt-Holm P. (2016) An eDNA Assay to Monitor a Globally Invasive Fish Species from Flowing Freshwater. PLoS ONE 11(1): e0147558. doi:10.1371/journal.pone.0147558
     
  3. André C, Svedäng H, Knutsen H, Dahle G, Jonsson P, Ring AK, Sköld M, Jorde PE.
    Population structure in Atlantic cod in the eastern North Sea-Skagerrak-Kattegat: early life stage dispersal and adult migration. BMC Research Notes 2016, 9:63  doi:10.1186/s13104-016-1878-9
     
  4. Antonelli A, Hettling H, Condamine FL, Vos K, Nielsson RH, Sanderson J, Sauquet H, Schaarn R, Silvestro D, Töpel M, Bacon CD, Oxelman B, Vos RA. Towards a Self-Updating Platform for Estimating Rates of Speciation and Migration, Ages, and Relationships of Taxa. Systematic Biology (2016), doi:10.1093/sysbio/syw066
    More information about the project: http://www.supersmart-project.org/
     
  5. Appelqvist C, Havenhand JNA phenological shift in the time of recruitment of the shipworm, Teredo navalis L., mirrors marine climate change. Ecology and Evolution 
    doi:10.1002/ece3.2126
     
  6. Ardehed A, Johansson D, Sundqvist L, Schagerström E, Zagrodzka Z, Kovaltchouk NA, Bergström L, Kautsky L, Rafajlovic M, Pereyra RT, Johannesson K. (2016) Divergence within and among Seaweed Siblings (Fucus vesiculosus and F. radicans) in the Baltic Sea. PLoS ONE 11(8): e0161266. doi:10.1371/journal.pone.0161266
     
  7. Blom EL, Mück I, Heubel K, Svensson O. Acoustic and visual courtship traits in two sympatric marine Gobiidae species – Pomatoschistus microps and Pomatoschistus minutusEnvironmental Biology of Fishes (2016). doi:10.1007/s10641-016-0550-5

  8. Borcier E, Charrier G, Amérand A., Théron, M., Loizeau V., Pédron, N., Laroche J. (2016) Bioenergetic transcriptomic responses of European flounder (Platichthys flesus) populations in contrasted environments: impacts of pollution and global warming. Journal of Xenobiotics 6:6586, 28-32. doi:10.4081/xeno.2016.6586
     
  9. Bourlat SJ (Ed). Marine Genomics - Methods and Protocols. ISBN: 978-1-4939-3772-1 (Print) 978-1-4939-3774-5 (Online) Methods in Molecular Biology, Volume 1452, 2016
     
  10. Bourlat SJ , Haenel Q, Finnman J, Leray M. Preparation of Amplicon Libraries for Metabarcoding of Marine Eukaryotes Using Illumina MiSeq: The Dual-PCR Method. Marine Genomics, 2016. Volume 1452 of the series Methods in Molecular Biology pp 197-207
     
  11. Bunse C, Bertos-Fortis M, Sassenhagen I, Sildever S, Sjöqvist C, Godhe A, Gross S, Kremp A, Lips I, Lundholm N, Rengefors K, Sefbom J, Pinhassi J, Legrand C.  Spatio-Temporal Interdependence of Bacteria and Phytoplankton during a Baltic Sea Spring Bloom. Frontiers in Microbiology (2016) 7:517. doi: 10.3389/fmicb.2016.00517
     
  12. Calosi P, De Wit P, Thor P, Dupont S. Will life find a way? Evolution of marine species under global change. Evolutionary Applications, (2016) 9: 1035–1042. doi:10.1111/eva.12418
     
  13. Caplat P, Edelaar P, Dudaniec RY, Green AJ, Okamura B, Cote J, Johan Ekroos J, Jonsson PR, Löndahl J, Tesson SVM, Petit EJ. Looking beyond the mountain: dispersal barriers in a changing world. Frontiers in Ecology and the Environment 2016; 14(5): 261–268, doi:10.1002/fee.1280
     
  14. Carey N, Dupont S, Sigwart JD. Sea Hare Aplysia punctata (Mollusca: Gastropoda) Can Maintain Shell Calcification under Extreme Ocean AcidificationThe Biological Bulletin 2016 231:2, 142-151
     
  15. Carvalho J, Sotelo G, Galindo J, Faria R. (2016). Genetic characterization of flat periwinkles (Littorinidae) from the Iberian Peninsula reveals interspecific hybridization and different degrees of differentiation. Biological Journal of the Linnean Society 118, 503-¬519.

  16. Chan KYK, Grünbaum D, Arnberg M, Dupont S. Impacts of ocean acidification on survival, growth, and swimming
    behaviours differ between larval urchins and brittlestars
    . ICES Journal of Marine Science, 2016, doi: 10.1093/icesjms/fsv073.
     
  17. Day JG, Tytor S, Egardt J, Applegren M, Rad-Menéndez C, Chepurnova O, Vyverman W, Godhe A. Challenges for the Maintenance and Cryopreservation of Multiple Isolates of Model Microorganisms: An Example Using the Marine Diatom Skeletonema marinoi. Biopreservation and Biobanking. 2016 Nov 29.
     
  18. De Wit P.  SNP Discovery Using Next Generation Transcriptomic Sequencing. Marine Genomics, 2016. Volume 1452 of the series Methods in Molecular Biology pp 81-95.
     
  19. De Wit P, Dupont S, Thor P. Selection on oxidative phosphorylation and ribosomal structure as a multigenerational response to ocean acidification in the common copepod Pseudocalanus acuspes. Evolutionary Applications, (2016) 9: 1112–1123.
     
  20. Dylus DV, Czarkwiani A, Stångberg J, Ortega-Martinez O, Dupont S, Oliveri P. Large-scale gene expression study in the ophiuroid Amphiura filiformis provides insights into evolution of gene regulatory networks. EvoDevo 2016 7:2,
    doi: 10.1186/s13227-015-0039-x
     
  21. Eriander L, Wrange AL, Havenhand JN. Simulated diurnal pH fluctuations radically increase variance in—
    but not the mean of—growth in the barnacle Balanus improvisus
    . ICES Journal of Marine Science (2016),
    doi:10.1093/icesjms/fsv214
     
  22. Fernandez-Ricaud L, Kourtchenko O, Zackrisson M, Warringer J, Blomberg A.
    PRECOG: a tool for automated extraction and visualization of fitness components in microbial growth phenomics. BMC Bioinformatics. 2016 17:249
     
  23. Franco-Belussi L, Nilsson Sköld H, de Oliveira C. Internal pigment cells respond to external UV radiation in frogs. Journal of Experimental Biology (2016)  doi: 10.1242/jeb.134973
     
  24. Frommel AY, Margulies D, Wexler JB, Stein MS, Scholey VP, Williamson JE, Bromhead D, Nicol S, Havenhand JNOcean acidification has lethal and sub-lethal effects on larval development of yellowfin tuna, Thunnus albacaresJournal of Experimental Marine Biology and Ecology,
    Volume 482, 2016, Pages 18–24
     
  25. Georgian SE, Dupont S, Kurman M, Butle, A, Strömberg  SM, Larsson AI, Cordes EE. (2016), Biogeographic variability in the physiological response of the cold-water coral Lophelia pertusa to ocean acidification. Marine Ecology
    doi:10.1111/maec.12373
     
  26. Godhe A, Sjöqvist C, Sildever S, Sefbom J, Harðardóttir S, Bertos-Fortis M, Bunse C, Gross S, Johansson E, Jonsson PR, Khandan S, Legrand C, Lips I, Lundholm N, Rengefors KE, Sassenhagen I, Suikkanen S, Sundqvist L, Kremp A. (2016). Physical barriers and environmental gradients cause spatial and temporal genetic differentiation of an extensive algal bloom. Journal of Biogeography (2016) doi: 10.1111/jbi.12722
     
  27. Hamilton PB, Cowx IG, Oleksiak MF, Griffiths AM, Grahn M, Stevens JR, Carvalho GR, Nicol E, Tyler CR. 2016. Population‐level consequences for wild fish exposed to sublethal concentrations of chemicals–a critical review. Fish and Fisheries 17 (3): 545-566. [doi: 10.1111/faf.12125]
     
  28. Hardisty AR,..[Bourlat S]…[Leidenberger S]…[Obst M]…et.al. BioVeL a virtual laboratory for data analysis and modelling in biodiversity science and ecologyBMC Ecology (2016) 16:49
    doi: 10.1186/s12898-016-0103-y
     
  29. Heuschele J, Nemming L, Tolstrup L, Kiørboe T, Nylund GM, Selander E. The sex specific metabolic footprint of Oithona davisaeJournal of Sea Research 117 (2016) 1–6
     
  30. Hu MY, Michael K, Kreiss CM, Stumpp M, Dupont S, Tseng Y and Lucassen M. Temperature modulates the effects of ocean acidification on intestinal ion transport in Atlantic cod, Gadus morhua. Frontiers in Physiology (2016) 7:198. doi: 10.3389/fphys.2016.00198
     
  31. Huyse T, Oeyen M, Larmuseau MH, Volckaert FA. Co-phylogeographic study of the flatworm Gyrodactylus gondae and its goby host Pomatoschistus minutus. Parasitology International, 2016 Dec 24;66(2):119-125. doi: 10.1016/j.parint.2016.12.008.
     
  32. Infantes E, Crouzy C, Moksnes P-O (2016) Seed Predation by the Shore Crab Carcinus maenas: A Positive Feedback Preventing Eelgrass Recovery? PLoS ONE 11(12): e0168128. doi:10.1371/journal.pone.0168128
     
  33. Jackson B, Butlin R, Navarro A, Faria R. (2016) Chromosomal Rearrangements and Speciation. pp. 149¬158. In: Encyclopedia of Evolutionary Biology (Editors: R. Kliman & D. Ortiz¬Barrientos), Elsevier. (Book chapter)
    ISBN: 9780128000496
     
  34. Jager T, Ravagnan E, Dupont S. Near-future ocean acidification impacts maintenance costs in sea-urchin larvae: Identification of stress factors and tipping points using a DEB modelling approach. Journal of Experimental Marine Biology and Ecology (2016) 474:11-17
     
  35. Johannesson K, Saltin S H, Charrier G, Panova M, Ring A-K, Kvarnemo C, André C. (2016) Non-random paternity of offspring in a highly promiscuous marine snail suggests postcopulatory sexual selection. Behavioral Ecology and Sociobiology.70, 1357-1366. doi:10.1007/s00265-016-2143-x
     
  36. Jonsson PR, Nilsson Jacobi M, Moksnes PO. How to select networks of marine protected areas for multiple
    species with different dispersal strategies
    . Diversity and Distributions. 2016, doi: 10.1111/ddi.12394
     
  37. Larsson J, Lönn M, Lind EE, Świeżak J, Smolarz K, Grahn M.  2016. Sewage treatment plant associated genetic differentiation in the blue mussel from the Baltic Sea and Swedish west coast. PeerJ, 4, p.e2628. [DOI 10.7717/peerj.2628]
     
  38. Leray  M, Haenel Q, Bourlat SJ. Preparation of Amplicon Libraries for Metabarcoding of Marine Eukaryotes Using Illumina MiSeq: The Adapter Ligation Method. Marine Genomics, 2016.
    Volume 1452 of the series Methods in Molecular Biology pp 209-218
     
  39. Liti G, Warringer J, Blomberg A. (2016) Budding Yeast Strains and Genotype-Phenotype mapping. Book chapter in CSHL protocol series “Budding Yeast: A Laboratory Manual
    Eds. Fields, S, Andrew, B, Davis, T., and Boone, C. doi:10.1101/pdb.top077735
     
  40. Michael K, Kreiss CM, Hu MY, Koschnick N, Bickmeyer U, Dupont S, Pörtner HO, Lucassen M. Adjustments of molecular key components of branchial ion and pH regulation in Atlantic cod (Gadus morhua) in response to ocean acidification and warming. Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology (2016) doi:10.1016/j.cbpb.2015.12.006
     
  41. Morvezen R, Boudry P, Laroche J, Charrier G. (2016) Stock enhancement or sea ranching? Insights from monitoring the genetic diversity, relatedness and effective population size in a seeded great scallop population (Pecten maximus). Heredity 117, 142-148. doi:10.1038/hdy.2016.42
     
  42. Morvezen R, Charrier G, Boudry P, Chauvaud L, Breton F, Strand Ø, Laroche J. (2016) Genetic structure of a commercially exploited bivalve, the great scallop Pecten maximus, along the European coasts. Conservation Genetics 17, 57-67. doi:10.1007/s10592-015-0760-y
     
  43. Nasrolahi A , Havenhand J, Wrange AL,  Pansch C.
    Population and life-stage specific sensitivities to temperature and salinity stress in barnacles. Scientific Reports 6, Article number: 32263 (2016)
     
  44. Nilsson Sköld H, Aspengren S, Cheney KL, Wallin M. Fish Chromatophores - From Molecular Motors to Animal Behavior. International Review of Cell and Molecular Biology (2016) doi:10.1016/bs.ircmb.2015.09.005
     
  45. Olsen J,...[Töpel M]... et al. The genome of the seagrass Zostera marina reveals angiosperm adaptation to the seaNature (2016) doi:10.1038/nature16548
     
  46. Panova M , Aronsson H, Cameron RA, Dahl P, Godhe A, Lind U, Ortega-Martinez O, Pereyra R, Tesson SVM, Wrange AL, Blomberg A, Johannesson K. DNA Extraction Protocols for Whole-Genome Sequencing in Marine Organisms.
    Marine Genomics, 2016. Volume 1452 of the series Methods in Molecular Biology pp 13-44.
     
  47. Pinho C, Faria R. (2016). Magadi tilapia ecological specialization: filling the early gap in the speciation continuum. Molecular Ecology 25, 1420¬-1422. (News and Views)
     
  48. Prantoni, A. L., De Wit, P. and Erséus, C. (2016), First reports of Grania (Clitellata: Enchytraeidae) from Africa and South America: molecular phylogeny and descriptions of nine new species. Zoological Journal of the Linnean Society, 176: 485–510. doi: 10.1111/zoj.12333
     
  49. Rafajlović M, Emanuelsson A, Johannesson K, Butlin RK, Mehlig B. A universal mechanism generating clusters of differentiated loci during divergence-with-migrationEvolution 2016, doi: 10.1111/evo.12957
     
  50. Selander E, Heuschele J, Nylund GM, Pohnert G, Pavia H, Bjærke O, Pender-Healy LA, Tiselius P, Kiørboe T. (2016), Solid phase extraction and metabolic profiling of exudates from living copepods. PeerJ 4:e1529; DOI 10.7717/peerj.1529
     
  51. Sildever S, Sefbom J, Lips I, Godhe A. (2016), Competitive advantage and higher fitness in native populations of genetically structured planktonic diatoms. Environmental Microbiology. doi:10.1111/1462-2920.13372
     
  52. Sui Y, Kong H, Huang X, Dupont S, Hu M, Storch D, Pörtner HO, Lu W, Youji Wang Y. Combined effects of short-term exposure to elevated CO2 and decreased O2 on the physiology and energy budget of the thick shell mussel Mytilus coruscus. Chemosphere 2016, 155:207-216. doi:10.1016/j.chemosphere.2016.04.054
     
  53. Sunday JM,…[Dupont S], … et al. Ocean acidification can mediate biodiversity shifts by changing biogenic habitat. Nature Climate Change (2016) doi:10.1038/nclimate3161
     
  54. Sundqvist L, Keenan K, Zackrisson M, Prodöhl P, Kleinhans D. (2016), Directional genetic differentiation and relative migration. Ecology and Evolution. doi: 10.1002/ece3.2096
     
  55. Svensson O, Smith A, García-Alonso J, van Oosterhout C. (2016) Hybridization generates a hopeful monster: a hermaphroditic selfing cichlid. Royal Society Open Science
    doi: 10.1098/rsos.150684
     
  56. Turner LM, Alsterberg C, Turner AD, Girisha SK, Rai A, Havenhand JN, Venugopal MN, Karunasagar I, Godhe A.
    Pathogenic marine microbes influence the effects of climate change on a commercially important tropical bivalve.
    Scientific Reports 6, Article number: 32413 (2016)
    doi:10.1038/srep32413
     
  57. Ventura A, Schulz S, Dupont S. Maintained larval growth in mussel larvae exposed to acidified under-saturated seawater. 
    Scientific Reports 6, Article number: 23728 (2016). doi:10.1038/srep23728
     
  58. Vihtakari M, Havenhand J, Renaud PE, Hendriks IE. Variable Individual- and Population- Level Responses to Ocean Acidification, Frontiers in Marine Sciences, 29 April 2016 | http://dx.doi.org/10.3389/fmars.2016.00051
     
  59. Westram AM, Johannesson K. (2016) Parallel Speciation. In: Kliman, R.M. (ed.), Encyclopedia of Evolutionary Biology. vol. 3, pp. 212–219. Oxford: Academic Press.
     
  60. Wood HL, Sundell K, Almroth BC, Sköld HN, Eriksson SP. 2016 Population-dependent effects of ocean acidification. Proceedings Royal Society B 283: 20160163. http://dx.doi.org/10.1098/rspb.2016.0163
     
  61. Wolff FE, Eriksson A, Manica A, Mehlig B. How Levins’ dynamics emerges from a Ricker metapopulation model on the brink of extinction. Theoretical Ecology (2016) 9: 173. https://doi.org/10.1007/s12080-015-0271-y
     
  62. Wrange A-L, Charrier G, Thonig A, Alm Rosenblad M, Blomberg A, Havenhand JN, Jonsson PR, André C. (2016) The Story of a Hitchhiker: Population Genetic Patterns in the Invasive Barnacle Balanus(Amphibalanus) improvisus Darwin 1854. PLoS ONE 11(1): e0147082. doi:10.1371/journal.pone.0147082
     
  63. Zackrisson M, Hallin J, Ottosson LG, Dahl P, Fernandez-Parada E, Ländström E, Fernandez-Ricaud L, Kaferle P, Skyman A, Stenberg S, Omholt S, Petrovič U, Warringer J, Blomberg A. Scan-o-matic: High-Resolution Microbial Phenomics at a Massive Scale.
    G3:Genes, Genomes, Genetics 2016 Sep 8; 6:3003
     
  64. Zimmerman J, Wentrup C, Sadowski M, Blazejak A, Gruber-Vodicka H, Ott J, Cronholm B, De Wit P, Erséus C, Dubilier N. Closely coupled evolutionary history of ecto- and endosymbionts from two distantly-related animal phylaMolecular Ecology (2016) doi: 10.1111/mec.13554

 
 

Scientific publications

 

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