BIO-info

Author: huldah

Forskning – Uke 46

 

QIAGEN Bioinformatics Microbial Genomics hands-on workshop the 7th of Dec. from 9.30 – 16.00.
QIAGEN BIOINFORMATICS HANDS-ON WORKSHOP (7th of Dec from 9.30 to 16.00): From data to discovery with the QIAGEN Microbial Genomics Pro Suite.
The expanding field of metagenomics leaves researchers struggling to convert data generated with a wide range of open source tools into meaningful insights. The Microbial Genomics Pro Suite integrates a comprehensive set of tools for metagenomics into a scalable and user friendly platform.
Metagenomics applications are supported with workflows for the analysis of 16S-, 18S rRNA, or other amplicon data. Further included are workflows for whole metagenome assembly, and the functional analysis of metagenomic data. The recent launch of the CosmosID plugin completes the range of metagenomics applications. The plugin offers best in class taxonomic profiling and pathogen identification and can handle shotgun metagenomics data as input.
To convert microbiome data into biologically meaningful insights, all metagenomics applications are completed with workflows for the statistical analysis of differential abundance in the context of metadata. The user can explore changes in composition or function associated for instance with health or dysbiosis.
A package of workflows for the analysis of outbreaks based on isolate genome data extends the utility of the Microbial Genomics Pro Suite for researchers focusing on epidemiology, food safety and public health.

If you are interested, then join our workshop the 7th of Dec 2016 and learn more about the QIAGEN Microbial Genomics Pro Suite and try it out yourself. You will get a 6 weeks license for you to try out the software with your own data after the workshop

Sign up here

Deadline is 2nd of Dec at 16.00. There is a limit of 20 people for the workshop and registration will be on a first come, first served basis.

Hope to see you there.

Kommende aktiviteter – Uke 46

 

Disputas Alexander Plotkin: “Phylogeny and taxonomy of Polymastiidae (Porifera: Demospongiae)”
Veiledere: Hans Tore Rapp og Endre Willassen.
Bedømmelseskomite: Head of Department Tim J. Littlewood, Department of Life Sciences, Natural History Museum , UK, Associate professor Tomas Cedhagen, Department of Bioscience, Århus University, Denmark, Associate Professor Svein Rune Erga, Department of Biology, University of Bergen.
Leder av disputasen: Professor emeritus Petter Larsson, Universitetet i Bergen
Tid og sted: Tirsdag 22. november, kl 12:15, Auditoriet Vil Vite, Thormøhlens gt. 51.

 

Disputas Oliver Vöcking:The larval photoreceptors of the mollusk Leptochiton asellus”
Veiledere: Harald Hausen og Jon Vidar Helvik.
Bedømmelseskomite: Professor Dan-Erik Nilsson, Lund Universitet, Sverige, Gruppeleder Juan Ramón Martinez Morales, Pablo de Olavide Universitet, Spania, Førsteamanuensis Ståle Ellingsen. Institutt for biologi, Universitetet i Bergen.
Leder av disputasen: Professor Audrey Geffen, Universitetet i Bergen
Tid og sted: Mandag 28. november, kl. 10:15, Auditoriet Vil Vite, Thormøhlens gt. 51.

 

Phd. Midtveisevaluering Oliver Müller: “Microbial communities in arctic environments. The effects of thawing permafrost soils on biogeochemical processes driving the terrestrial and marine carbon cycle development ”
Oliver Müller vil presentere status og fremdrift for sitt ph.d. prosjekt.
Veiledere: Lise Øvreås, Janet Jansson og Gunnar Bratbak.
Evalueringspanel: Førsteamanuensis Anne Bjune(leder), Professor Frede Thingtad, Forsker Sigrunn Eliassen.
Tid og sted: Fredag 25. november, kl. 14:15, Seminarrom K1, Biologen.
Alle interesserte er velkommen!

Nye Artikler – Uke 46

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Brietzke A, Borchel A, Altmann S, Nipkow M, Rebl A, Brunner RM, Goldammer T(2016) Transcriptome sequencing of maraena whitefish (Coregonus maraena). Marine Genomics 29:27-29 http://dx.doi.org/10.1016/j.margen.2016.05.006

Hestetun JT, Pomponi SA, Rapp HT (2016) The cladorhizid fauna (Porifera, Poecilosclerida) of the Caribbean and adjacent waters. Zootaxa 4175 http://dx.doi.org/10.11646/zootaxa.4175.6.2

Imsland AK, Reynolds P, Nytrø AV, Eliassen G, Hangstad TA, Jonsdottir ODB, Emaus P-A, , Elvegård TA, Lemmens SCA, Rydland R, Jonassen TM (2016) Effects of lumpfish size on foraging behaviour and co-existence with sea lice infected Atlantic salmon in sea cages. Aquaculture 465:19-27 http://dx.doi.org/10.1016/j.aquaculture.2016.08.015

Routti H, Lille-Langøy R, Berg MK, Fink T, Harju M, Kristiansen K, Rostkowski P, Rusten M, Sylte I, Øygarden L, Goksøyr A (2016) Environmental Chemicals Modulate Polar Bear (Ursus maritimus) Peroxisome Proliferator-Activated Receptor Gamma (PPARG) and Adipogenesis in Vitro. Environmental Science & Technology 50:10708-10720 http://dx.doi.org/10.1021/acs.est.6b03020

Van Ekert E,Chauvigne F, Finn RN, Mathew LG, Hull JJ, Cerda J, Fabrick JA (2016) Molecular and functional characterization of Bemisia tabaci aquaporins reveals the water channel diversity of hemipteran insects. Insect Biochemistry and Molecular Biology 77:39-51 http://dx.doi.org/10.1016/j.ibmb.2016.07.010

Hamre K, Sissener NH, Lock E-J, Olsvik PA, Espe M, Torstensen BE, Silva J, Johansen J, Waagbø R, Hemre G-I.(2016) Antioxidant nutrition in Atlantic salmon(Salmo salar) parr and post-smolt,fed diets with high inclusion of plantingredients and graded levels ofmicronutrients and selected amino acids.
PeerJ 4:e2688 https://doi.org/10.7717/peerj.2688

 

 

 

Kommende aktiviteter – Uke 42

 

bioCEED seminar

Lage (bruk av) videoer i undervisning og læring, les mer her!
Tid og sted: 26. oktober, kl: 14:15-15:00, Biologen, Seminar room K1.

Alle er velkommen!

 

Mastereksamen – Andreas Gilje Sjøberg: Physiological characterization of a novel strain within Rhodobacteracea, isolated from a biolfilm sample on a barite chimney at the Loki’s Castle Vent Field
Andreas Gilje Sjøberg holder torsdag 27. oktober avsluttende presentasjon av sin masteroppgave i Biologi – mikrobiologi (geobiologi)
Veiledere: Ida H. Steen, Håkon Dahle
Eksternsensor: Mette Svenning, UiT
Internsensor: Gunnar Bratbak
Tid og sted: 27. oktober kl 13:00 på Senter for geobiologi, lunchrommet.

 


Mastereksamen –
Roar Leksen: Traceable lice strain of Lepeophtheirus salmonis (Krøyer 1837) as a tool for studying lice dispersion
Roar Leksen holder fredag 28. oktober avsluttende presentasjon av sin masteroppgave i havbruksbiologi.
Veileder: Frank Nilsen.
Internsensor: Kristin Hamre.
Sensor: Ørjan Karlsen, HI
Tid og sted: Fredag 28. oktober, kl. 10:15, Seminarrom K3, Biologen.

Alle interesserte er velkommen!

Nye Artikler – Uke 42

 

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Lanzen A, Lekang K, Jonassen I, Thompson EM, Troedsson C (2016) High-throughput metabarcoding of eukaryotic diversity for environmental monitoring of offshore oil-drilling activities. Molecular Ecology 25:4392-4406 http://dx.doi.org/10.1111/mec.13761

Nima C, Frette Ø,Hamre B,Erga SR,Chen Y-C, Zhao L, Sørensen K, Norli M, Stamnes K, Stamnes JJ (2016) Absorption properties of high-latitude Norwegian coastal water: The impact of CDOM and particulate matter. Estuarine Coastal and Shelf Science 178:158-167 http://dx.doi.org/10.1016/j.ecss.2016.05.012

Sandlund L, Nilsen F, Male R, Dalvin S (2016) The ecdysone receptor (EcR) is a major regulator of tissue development and growth in the marine salmonid ectoparasite, Lepeophtheirus salmonis (Copepoda, Caligidae). Molecular and Biochemical Parasitology 208:65-73 http://dx.doi.org/ 10.1016/j.molbiopara.2016.06.007

Steinbauer MJ, Field R, Grytnes J-A, Trigas P, Ah-Peng C, Attorre F, Birks HJB, Borges PAV, Cardoso P, Chou C-H, Sanctis MD, Sequeira MM, Duarte MC, Elias RB, Fernandes- Palacios JM, Gabriel R, Gereau RE, Gillespie RG, Greimler J, Harter DE, Huang T-J, Irl SDH, Jeanmonod D, Jentsch A, Jump AS, Kueffer C, Nogue S, Otto R, Price J, Romeiras MM, Strasberg D, Stuessy T, Svenning J-C, Vetaas OR, Beierkuhnlein C(2016) Topography-driven isolation, speciation and a global increase of endemism with elevation. Global Ecology and Biogeography 25:1097-1107 http://dx.doi.org/10.1111/geb.12469

 

 

Nye Artikler – Uke 40

 

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Andersen BS, Jorgensen C, Eliassen S, Giske J (2016) The proximate architecture for decision-making in fish. Fish and Fisheries 17:680-695 http://dx.doi.org/10.1111/faf.12139

 

Bargmann T, Heegaard E, Hatteland BA, Chipperfield JD, Grytnes JA (2016) Species trait selection along a prescribed fire chronosequence. Insect Conservation and Diversity 9:446-455 http://dx.doi.org/10.1111/icad.12182

 

Bauer, S LM, Roalkvam, I, Steen, IH,Dahle, H 2016.Lutibacter profundi sp. nov., isolated from a deep-sea hydrothermal system on the Arctic Mid-Ocean Ridge and emended description of the genus Lutibacter.Int J Syst Evol Microbiol,  66: 2671-2677, http://dx.doi.org/ 10.1099/ijsem.0.001105

 

Bizarro C, Eide M, Hitchcock DJ, Goksoyr A, Ortiz-Zarragoitia M (2016) Single and mixture effects of aquatic micropollutants studied in precision-cut liver slices of Atlantic cod (Gadus morhua). Aquatic Toxicology 177:395-404 http://dx.doi.org/10.1016/j.aquatox.2016.06.013

 

Handeland SO, Imsland AK, Nilsen TO, Ebbesson LOE, Hosfeld CD, Pedrosa C, Toften H, Stefansson SO (2014). Osmoregulation in Atlantic salmon Salmo salar smolts transferred to seawater at different temperatures.Journal of Fish Biology1163-1176 http://dx.doi.org/10.1111/jfb.12481

 

Law R, Plank MJ, Kolding J (2016) Balanced exploitation and coexistence of interacting, size-structured, fish species. Fish and Fisheries 17:281-302 http://dx.doi.org/10.1111/faf.12098

 

Qu Y, Gharbi N,Yuan X, Olsen JR , Blicher P, Dalhus B, Brokstad KA, Lin B, Øyan AM, Zhang W, Kalland K-H, Ke X(2016) Axitinib blocks Wnt/beta-catenin signaling and directs asymmetric cell division in cancer. Proceedings of the National Academy of Sciences of the United States of America 113:9339-9344 http://dx.doi.org/10.1073/pnas.1604520113

 

Werner KM, Staby A, Geffen AJ (2016) Temporal and spatial patterns of reproductive indices of European hake (Merluccius merluccius) in the northern North Sea and Norwegian coastal areas. Fisheries Research 183:200-209 http://dx.doi.org/10.1016/j.fishres.2016.06.008

 

Yadetie F, Bjørneklett S, Garberg HK, Oveland E, Berven F, Goksøyr A, Karlsen OA(2016) Quantitative analyses of the hepatic proteome of methylmercury-exposed Atlantic cod (Gadus morhua) suggest oxidative stress-mediated effects on cellular energy metabolism. Bmc Genomics 17 http://dx.doi.org/10.1186/s12864-016-2864-2

 

 

 

 

 

Kommende aktiviteter – Uke 40

 

Mastereksamen – Kåre Andreas Thorsen: Wash away or chase away – the effect of mucus cells and larger salmon lice to control new chalimus infection
Kåre Andreas Thorsen holder fredag 7. oktober avsluttende presentasjon av sin masteroppgave i havbruksbiologi
Veileder: Karin Pittman.
Intern sensor: Ole Bent Samuelsen.
Sensor: Geir Lasse Taranger, HI
Tid og sted: Fredag 7. oktober, kl. 13:15, Seminarrom K1, Biologen.
Alle interesserte er velkommen!