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Items: 46

1.

To assemble or not to resemble-A validated Comparative Metatranscriptomics Workflow (CoMW).

Anwar MZ, Lanzen A, Bang-Andreasen T, Jacobsen CS.

Gigascience. 2019 Aug 1;8(8). pii: giz096. doi: 10.1093/gigascience/giz096.

2.

The microbiota of technosols resembles that of a nearby forest soil three years after their establishment.

Epelde L, Lanzén A, Martín I, Virgel S, Mijangos I, Besga G, Garbisu C.

Chemosphere. 2019 Apr;220:600-610. doi: 10.1016/j.chemosphere.2018.12.164. Epub 2018 Dec 24.

PMID:
30597368
3.

Embracing Environmental Genomics and Machine Learning for Routine Biomonitoring.

Cordier T, Lanzén A, Apothéloz-Perret-Gentil L, Stoeck T, Pawlowski J.

Trends Microbiol. 2019 May;27(5):387-397. doi: 10.1016/j.tim.2018.10.012. Epub 2018 Dec 13. Review.

PMID:
30554770
4.

Links between data on chemical and biological quality parameters in wastewater-impacted river sediment and water samples.

Martínez-Santos M, Lanzén A, Unda-Calvo J, Martín I, Garbisu C, Ruiz-Romera E.

Data Brief. 2018 May 19;19:616-622. doi: 10.1016/j.dib.2018.05.068. eCollection 2018 Aug.

5.

Treated and untreated wastewater effluents alter river sediment bacterial communities involved in nitrogen and sulphur cycling.

Martínez-Santos M, Lanzén A, Unda-Calvo J, Martín I, Garbisu C, Ruiz-Romera E.

Sci Total Environ. 2018 Aug 15;633:1051-1061. doi: 10.1016/j.scitotenv.2018.03.229. Epub 2018 Mar 28.

PMID:
29758858
6.

Diversity patterns and isolation of Planctomycetes associated with metalliferous deposits from hydrothermal vent fields along the Valu Fa Ridge (SW Pacific).

Storesund JE, Lanzèn A, García-Moyano A, Reysenbach AL, Øvreås L.

Antonie Van Leeuwenhoek. 2018 Jun;111(6):841-858. doi: 10.1007/s10482-018-1026-8. Epub 2018 Feb 8.

PMID:
29423768
7.

Correction: DNA extraction replicates improve diversity and compositional dissimilarity in metabarcoding of eukaryotes in marine sediments.

Lanzén A, Lekang K, Jonassen I, Thompson EM, Troedsson C.

PLoS One. 2018 Jan 30;13(1):e0192337. doi: 10.1371/journal.pone.0192337. eCollection 2018.

8.

Mobile genetic elements and antibiotic resistance in mine soil amended with organic wastes.

Garbisu C, Garaiyurrebaso O, Lanzén A, Álvarez-Rodríguez I, Arana L, Blanco F, Smalla K, Grohmann E, Alkorta I.

Sci Total Environ. 2018 Apr 15;621:725-733. doi: 10.1016/j.scitotenv.2017.11.221. Epub 2017 Dec 18.

PMID:
29207350
9.

Short-term effects of non-grazing on plants, soil biota and aboveground-belowground links in Atlantic mountain grasslands.

Epelde L, Lanzén A, Mijangos I, Sarrionandia E, Anza M, Garbisu C.

Sci Rep. 2017 Nov 8;7(1):15097. doi: 10.1038/s41598-017-15345-1.

10.

DNA extraction replicates improve diversity and compositional dissimilarity in metabarcoding of eukaryotes in marine sediments.

Lanzén A, Lekang K, Jonassen I, Thompson EM, Troedsson C.

PLoS One. 2017 Jun 16;12(6):e0179443. doi: 10.1371/journal.pone.0179443. eCollection 2017. Erratum in: PLoS One. 2018 Jan 30;13(1):e0192337.

11.

Long-term effects of aided phytostabilisation on microbial communities of metal-contaminated mine soil.

Garaiyurrebaso O, Garbisu C, Blanco F, Lanzén A, Martín I, Epelde L, Becerril JM, Jechalke S, Smalla K, Grohmann E, Alkorta I.

FEMS Microbiol Ecol. 2017 Mar;93(3). pii: fiw252. doi: 10.1093/femsec/fiw252. Epub 2016 Dec 22.

PMID:
28011599
12.

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

Lanzén A, Lekang K, Jonassen I, Thompson EM, Troedsson C.

Mol Ecol. 2016 Sep;25(17):4392-406. doi: 10.1111/mec.13761. Epub 2016 Aug 26.

PMID:
27454455
13.

Multi-targeted metagenetic analysis of the influence of climate and environmental parameters on soil microbial communities along an elevational gradient.

Lanzén A, Epelde L, Blanco F, Martín I, Artetxe U, Garbisu C.

Sci Rep. 2016 Jun 20;6:28257. doi: 10.1038/srep28257.

14.

The Community Structures of Prokaryotes and Fungi in Mountain Pasture Soils are Highly Correlated and Primarily Influenced by pH.

Lanzén A, Epelde L, Garbisu C, Anza M, Martín-Sánchez I, Blanco F, Mijangos I.

Front Microbiol. 2015 Nov 27;6:1321. doi: 10.3389/fmicb.2015.01321. eCollection 2015.

15.

Prokaryotic Community Diversity Along an Increasing Salt Gradient in a Soda Ash Concentration Pond.

Simachew A, Lanzén A, Gessesse A, Øvreås L.

Microb Ecol. 2016 Feb;71(2):326-38. doi: 10.1007/s00248-015-0675-7. Epub 2015 Sep 26.

PMID:
26408190
16.

Adaptation of soil microbial community structure and function to chronic metal contamination at an abandoned Pb-Zn mine.

Epelde L, Lanzén A, Blanco F, Urich T, Garbisu C.

FEMS Microbiol Ecol. 2015 Jan;91(1):1-11. doi: 10.1093/femsec/fiu007. Epub 2014 Dec 5.

17.

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

García-Moyano A, Austnes AE, Lanzén A, González-Toril E, Aguilera Á, Øvreås L.

Microorganisms. 2015 Oct 13;3(4):667-94. doi: 10.3390/microorganisms3040667.

18.

Characterization of the 18S rRNA gene for designing universal eukaryote specific primers.

Hadziavdic K, Lekang K, Lanzen A, Jonassen I, Thompson EM, Troedsson C.

PLoS One. 2014 Feb 7;9(2):e87624. doi: 10.1371/journal.pone.0087624. eCollection 2014.

19.

Microbial community structure and functioning in marine sediments associated with diffuse hydrothermal venting assessed by integrated meta-omics.

Urich T, Lanzén A, Stokke R, Pedersen RB, Bayer C, Thorseth IH, Schleper C, Steen IH, Ovreas L.

Environ Microbiol. 2014 Sep;16(9):2699-710. doi: 10.1111/1462-2920.12283. Epub 2013 Oct 27.

PMID:
24112684
20.

Surprising prokaryotic and eukaryotic diversity, community structure and biogeography of Ethiopian soda lakes.

Lanzén A, Simachew A, Gessesse A, Chmolowska D, Jonassen I, Øvreås L.

PLoS One. 2013 Aug 30;8(8):e72577. doi: 10.1371/journal.pone.0072577. eCollection 2013.

21.

Naphthalene biodegradation in temperate and arctic marine microcosms.

Bagi A, Pampanin DM, Lanzén A, Bilstad T, Kommedal R.

Biodegradation. 2014 Feb;25(1):111-25. doi: 10.1007/s10532-013-9644-3. Epub 2013 Apr 30.

PMID:
23624724
22.

Metagenomics of Kamchatkan hot spring filaments reveal two new major (hyper)thermophilic lineages related to Thaumarchaeota.

Eme L, Reigstad LJ, Spang A, Lanzén A, Weinmaier T, Rattei T, Schleper C, Brochier-Armanet C.

Res Microbiol. 2013 Jun;164(5):425-38. doi: 10.1016/j.resmic.2013.02.006. Epub 2013 Mar 5.

PMID:
23470515
23.

CREST--classification resources for environmental sequence tags.

Lanzén A, Jørgensen SL, Huson DH, Gorfer M, Grindhaug SH, Jonassen I, Øvreås L, Urich T.

PLoS One. 2012;7(11):e49334. doi: 10.1371/journal.pone.0049334. Epub 2012 Nov 8.

24.

Global transcriptome analysis of Atlantic cod (Gadus morhua) liver after in vivo methylmercury exposure suggests effects on energy metabolism pathways.

Yadetie F, Karlsen OA, Lanzén A, Berg K, Olsvik P, Hogstrand C, Goksøyr A.

Aquat Toxicol. 2013 Jan 15;126:314-25. doi: 10.1016/j.aquatox.2012.09.013. Epub 2012 Oct 8.

PMID:
23103053
25.

Correlating microbial community profiles with geochemical data in highly stratified sediments from the Arctic Mid-Ocean Ridge.

Jorgensen SL, Hannisdal B, Lanzén A, Baumberger T, Flesland K, Fonseca R, Ovreås L, Steen IH, Thorseth IH, Pedersen RB, Schleper C.

Proc Natl Acad Sci U S A. 2012 Oct 16;109(42):E2846-55. doi: 10.1073/pnas.1207574109. Epub 2012 Oct 1.

26.

Genomic sequence and analysis of EhV-99B1, a new coccolithovirus from the Norwegian fjords.

Pagarete A, Lanzén A, Puntervoll P, Sandaa RA, Larsen A, Larsen JB, Allen MJ, Bratbak G.

Intervirology. 2013;56(1):60-6. doi: 10.1159/000341611. Epub 2012 Sep 14.

27.

Environmental microbiology through the lens of high-throughput DNA sequencing: synopsis of current platforms and bioinformatics approaches.

Logares R, Haverkamp TH, Kumar S, Lanzén A, Nederbragt AJ, Quince C, Kauserud H.

J Microbiol Methods. 2012 Oct;91(1):106-13. doi: 10.1016/j.mimet.2012.07.017. Epub 2012 Jul 28. Review.

PMID:
22849829
28.

Bacterial diversity in relation to secondary production and succession on surfaces of the kelp Laminaria hyperborea.

Bengtsson MM, Sjøtun K, Lanzén A, Ovreås L.

ISME J. 2012 Dec;6(12):2188-98. doi: 10.1038/ismej.2012.67. Epub 2012 Jul 5.

29.

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

Bartossek R, Spang A, Weidler G, Lanzen A, Schleper C.

Front Microbiol. 2012 Jun 20;3:208. doi: 10.3389/fmicb.2012.00208. eCollection 2012.

30.

Integrated metagenomic and metaproteomic analyses of an ANME-1-dominated community in marine cold seep sediments.

Stokke R, Roalkvam I, Lanzen A, Haflidason H, Steen IH.

Environ Microbiol. 2012 May;14(5):1333-46. doi: 10.1111/j.1462-2920.2012.02716.x. Epub 2012 Mar 9.

PMID:
22404914
31.

Metatranscriptomics of the marine sponge Geodia barretti: tackling phylogeny and function of its microbial community.

Radax R, Rattei T, Lanzen A, Bayer C, Rapp HT, Urich T, Schleper C.

Environ Microbiol. 2012 May;14(5):1308-24. doi: 10.1111/j.1462-2920.2012.02714.x. Epub 2012 Feb 24.

PMID:
22364353
32.

Freshwater bacterioplankton richness in oligotrophic lakes depends on nutrient availability rather than on species-area relationships.

Logue JB, Langenheder S, Andersson AF, Bertilsson S, Drakare S, Lanzén A, Lindström ES.

ISME J. 2012 Jun;6(6):1127-36. doi: 10.1038/ismej.2011.184. Epub 2011 Dec 15.

33.

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

Star B, Nederbragt AJ, Jentoft S, Grimholt U, Malmstrøm M, Gregers TF, Rounge TB, Paulsen J, Solbakken MH, Sharma A, Wetten OF, Lanzén A, Winer R, Knight J, Vogel JH, Aken B, Andersen O, Lagesen K, Tooming-Klunderud A, Edvardsen RB, Tina KG, Espelund M, Nepal C, Previti C, Karlsen BO, Moum T, Skage M, Berg PR, Gjøen T, Kuhl H, Thorsen J, Malde K, Reinhardt R, Du L, Johansen SD, Searle S, Lien S, Nilsen F, Jonassen I, Omholt SW, Stenseth NC, Jakobsen KS.

Nature. 2011 Aug 10;477(7363):207-10. doi: 10.1038/nature10342.

34.

New insight into stratification of anaerobic methanotrophs in cold seep sediments.

Roalkvam I, Jørgensen SL, Chen Y, Stokke R, Dahle H, Hocking WP, Lanzén A, Haflidason H, Steen IH.

FEMS Microbiol Ecol. 2011 Nov;78(2):233-43. doi: 10.1111/j.1574-6941.2011.01153.x. Epub 2011 Jul 14.

35.

Exploring the composition and diversity of microbial communities at the Jan Mayen hydrothermal vent field using RNA and DNA.

Lanzén A, Jørgensen SL, Bengtsson MM, Jonassen I, Øvreås L, Urich T.

FEMS Microbiol Ecol. 2011 Sep;77(3):577-89. doi: 10.1111/j.1574-6941.2011.01138.x. Epub 2011 Jul 4.

36.

Characterisation of the coccolithovirus intein.

Allen MJ, Lanzén A, Bratbak G.

Mar Genomics. 2011 Mar;4(1):1-7. doi: 10.1016/j.margen.2010.11.001. Epub 2010 Nov 24.

PMID:
21429459
37.

Removing noise from pyrosequenced amplicons.

Quince C, Lanzen A, Davenport RJ, Turnbaugh PJ.

BMC Bioinformatics. 2011 Jan 28;12:38. doi: 10.1186/1471-2105-12-38.

38.

Effects of short-term starvation on ghrelin, GH-IGF system, and IGF-binding proteins in Atlantic salmon.

Hevrøy EM, Azpeleta C, Shimizu M, Lanzén A, Kaiya H, Espe M, Olsvik PA.

Fish Physiol Biochem. 2011 Mar;37(1):217-32. doi: 10.1007/s10695-010-9434-3. Epub 2010 Sep 29.

PMID:
20878468
39.

Characteristics of 454 pyrosequencing data--enabling realistic simulation with flowsim.

Balzer S, Malde K, Lanzén A, Sharma A, Jonassen I.

Bioinformatics. 2010 Sep 15;26(18):i420-5. doi: 10.1093/bioinformatics/btq365. Erratum in: Bioinformatics. 2011 Aug 1;27(15):2171.

40.

Homologues of nitrite reductases in ammonia-oxidizing archaea: diversity and genomic context.

Bartossek R, Nicol GW, Lanzen A, Klenk HP, Schleper C.

Environ Microbiol. 2010 Apr;12(4):1075-88. doi: 10.1111/j.1462-2920.2010.02153.x. Epub 2010 Feb 3.

PMID:
20132279
41.

Identification of immune related genes in Atlantic halibut (Hippoglossus hippoglossus L.) following in vivo antigenic and in vitro mitogenic stimulation.

Patel S, Malde K, Lanzén A, Olsen RH, Nerland AH.

Fish Shellfish Immunol. 2009 Dec;27(6):729-38. doi: 10.1016/j.fsi.2009.09.008. Epub 2009 Sep 12.

PMID:
19751833
42.

Accurate determination of microbial diversity from 454 pyrosequencing data.

Quince C, Lanzén A, Curtis TP, Davenport RJ, Hall N, Head IM, Read LF, Sloan WT.

Nat Methods. 2009 Sep;6(9):639-41. doi: 10.1038/nmeth.1361. Epub 2009 Aug 9.

PMID:
19668203
43.

Gene expression profiling in Atlantic cod (Gadus morhua L.) from two contaminated sites using a custom-made cDNA microarray.

Lie KK, Lanzen A, Breilid H, Olsvik PA.

Environ Toxicol Chem. 2009 Aug;28(8):1711-21. doi: 10.1897/08-517.1. Epub 2009 Apr 13.

PMID:
19364188
44.

Simultaneous assessment of soil microbial community structure and function through analysis of the meta-transcriptome.

Urich T, Lanzén A, Qi J, Huson DH, Schleper C, Schuster SC.

PLoS One. 2008 Jun 25;3(6):e2527. doi: 10.1371/journal.pone.0002527.

45.

The Taverna Interaction Service: enabling manual interaction in workflows.

Lanzén A, Oinn T.

Bioinformatics. 2008 Apr 15;24(8):1118-20. doi: 10.1093/bioinformatics/btn082. Epub 2008 Mar 12.

PMID:
18337261
46.

MADGE: scalable distributed data management software for cDNA microarrays.

McIndoe RA, Lanzen A, Hurtz K.

Bioinformatics. 2003 Jan;19(1):87-9.

PMID:
12499297

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