Publications

2016

Metfies K, Schroeder F, Hessel J, Wollschlaeger J, Micheller S, Wolf C, Kilias E, Sprong P, Neuhaus S, Frickenhaus S, Petersen W. (2016) High resolution monitoring of marine protists based on an observation strategy integrating automated on board ship filtration and molecular analyses. Ocean Sci. Dicuss. DOI:10.5194/os-2016-23, Online 2016 May 23, in review

Dahlke FT, Leo E, Felix CM, Frickenhaus S, Bickmeyer U, Pörtner HO, Storch D. (2016) Thermal specialisation of embryos entails vulnerability of Atlantic cod, Gadus morhua, to projected ocean acidification and warming. Global Change Biology, in review, GCB-16-0961

Hardge K, Neuhaus S, Kilias E, Wolf C, Metfies K, Frickenhaus S. (2016) Impact of sequence processing and taxonomic classification approaches on eukaryotic community structure fromenvironmental samples with emphasis on diatoms. Molecular Ecology Ressources, in review, MER-16-0133


Kunz K, Frickenhaus S, Hardenberg S, Johansen T, Leo E, Pörtner HO, Schmidt M, Windisch HS, Knust R, Mark FC. (2016): New encounters in Arctic waters: a comparison of metabolism and performance of polar cod (Boreogadus saida) and Atlantic cod (Gadus morhua) under ocean acidification and warming , Polar Biology, 39 (6), pp. 1137-1153. DOI:10.1007/s00300-016-1932-z, online 2016 Matrch 24

2015

Heinrich S, Valentin K, Frickenhaus S, Wiencke C. (2016) Origin matters - comparative transcriptomics in Saccharina latissima (Phaeophyceae). J. Exp. Mar. Biol. Ecol. 476 pp 22:30, DOI: 10.1016/j.jembe.2015.12.006

Stecher A, Neuhaus S, Lange B, Frickenhaus S, Beszteri B, Kroth PG, Valentin K. (2015) rRNA and rDNA based assessment of sea ice protist biodiversity from the central Arctic Ocean. European Journal of Phycology, DOI: 10.1080/09670262.2015.1077395, online 2015 Oct 22

Heinrich S, Valentin K, Frickenhaus S, Wiencke C. (2014) Temperature and light interactively modulate gene expression in Saccharina Latissima (Phaeophycaea), Journal of Phycology, 51:1, 93-108, DOI: 10.1111/jpy.12255, online 2015 Jan 

Meyer B, Martini P, Biscontin A, Depitta C, Romualdi C, Teschke M, Frickenhaus S, Harms L, Freier U, Spahic S, Kawaguchi S. (2015) Pyrosequencing and de novo assembly of Antarctic krill (Euphausia superba) transcriptome to study the adaptability of krill to climate induced environmental changes. Molecular Ecology Resources, DOI: 10.1111/1755-0998.12408, online 2015  Mar 27

Uhlig C, Kilpert F, Frickenhaus S, Kegel J, Krell A, Mock T, Valentin K, Beszteri B (2015) In situ expression of eukaryotic ice-binding proteins in microbial communities of Arctic and Antarctic sea ice, ISMEJ, DOI:10.1038/ismej.2015.43, online 2015 Apr 17

Papetti C, Harms L, Windisch HS, Frickenhaus S, Sandersfeld T, Jürgens J, Koschnick N, Knust R, Pörtner HO, Lucassen M. (2015) A first insight into the spleen transcriptome of the notothenioid fish Lepidonotothen nudifrons: Resource description and functional overview. Marine Genomics, DOI:10.1016/j.margen.2015.06.006, online 2015 Jun 23

2014

Harms L, Frickenhaus S, Schiffer M, Mark FC, Storch D, Held C, Pörtner HO, Lucassen M. (2014) Gene expression profiling in gills of the great spider crab Hyas araneus in response to ocean acidification and warming, BMC Genomics 15(1):789, DOI:10.1186/1471-2164-15-789, online 2014 Sept 12

Brenner M, Broeg K, Frickenhaus S, Buck BH, Koehler A (2014) Multi-Biomarker approach using the blue mussel (Mytilus edulis L.) to assess the quality of marine environments: season and habitat-related impacts. Marine Environmental Research 95, April 2014,13–27, DOI: 10.1016/j.marenvres.2013.12.009, online 2014 Dec 27

Windisch HS, Frickenhaus S, John U, Knust R, Pörtner HO, Lucassen M (2014) Stress response or beneficial temperature acclimation: Transcriptomic signatures in Antarctic fish (Pachycara brachycephalum) Molecular Ecology, DOI:10.1111/mec.12822, online 2014 Jun 25

Kilias E, Kattner G, Wolf C, Frickenhaus S, Metfies K (2014) A molecular survey of protist diversity through the central Arctiv Ocean. Polar Biology 37(9):1271-1287, DOI:10.1007/s00300-014-1519-5, online 2014 May 22

Storch D, Menzel L, Frickenhaus S, Poertner HO (2014) Climate sensitivity across marine domains of life: Limits to evolutionary adaptation shape species interactions. Global Change Biology, DOI:10.1111/gcb.12645, online 2014 Jun 25

Bombosch A, Zitterbart DP, Van Opzeeland I, Frickenhaus S, Burkhardt E, Wiszc MS, Boebel O. (2014) Predictive habitat modelling of Humpback (Megaptera novaeangliae) and Antarctic Minke (Balaenoptera boaerensis) Whales in the Southern Ocean as a planning tool for seismic surveys. Deep-Sea Research Part I, DOI:10.1016/j.dsr.2014.05.017, online 2014 Jun 12

Wolf, C, Frickenhaus S, Kilias ES, Peeken I, Metfies K (2014) Protist community composition in the Pacific sector of teh Southern Ocean during austral summer 2010. Polar Biology 37:3, March 2014, 375-389 DOI: 10.1007/s00300-013-1438-x, online 2013 Dec 21

2013

Wolf C, Frickenhaus S, Kilias ES, Peeken I, Metfies K.(2013) Regional variability in eukaryotic protist communities in the Amundsen Sea, Antarctic Science 25 6, 741-751. doi:10.1017/S0954102013000229, online  2013 Apr 16

Kegel J, John U, Valentin K, Frickenhaus S. (2013) Genome variations associated with viral susceptibility and calcification in Emiliania huxleyi. PLOS ONE 8(11):e80684, doi:10.1371/journal.pone.0080684, online 2013 Nov 19

Harms L, Frickenhaus S, Schiffer M, Mark FC, Storch D, Pörtner HO, Held C, Lucassen M. (2013) Characterization and analysis of a transcriptome from the boreal spider crab Hyas araneus. Comparative Biochemistry and Physiology, Part D 8 2013, 344-351, doi:10.1016/j.cbd.2013.09.004, online 2013 Oct 10

Vergin KL, Beszteri B, Monier A, Thrash JC, Temperton B, Treusch AH, Kilpert F, Worden AZ, Giovannoni SJ. (2013) High-resolution SAR11 ecotype dynamics at the Bermuda Atlantic Time-series Study site by phylogenetic placement of pyrosequences. ISME J. 7, July 2013, 1322-1332. doi: 10.1038/ismej.2013.32. online 2013 Mar 7

Kilpert F, Meyer JM, Toebe K, Gottschling M, Tillmann U, Cembella A, John U. Molecular diversity of dinoflagellates from the North Sea: Detecting new clades of Amphidomataceae by OTU clustering and phylogenetic placement of LSU rDNA sequences. Environmental Microbiology. in review

Read BA, Kegel J, Klute MJ, Kuo A, Lefebvre SC, Maumus F, Mayer C, Miller J, Monier A, Salamov A, Young J, Aguilar M, Claverie JM, Frickenhaus S, Gonzalez K, Herman EK, Lin YC, Napier J, Ogata H, Sarno AF, Schmutz J, Schroeder D, de Vargas C, Verret F,von Dassow P, Valentin K, Van de Peer Y, Wheeler G, Allen AE, Bidle K, Borodovsky M, Bowler C, Brownlee C, Cock JM, Elias M, Gladyshev VN, Groth M,  Guda C, Hadaegh A, Iglesias-Rodriguez D, Jenkins J, Jones BM, Lawson T, Leese F, Lindquist E, Lobanov A, Lomsadze A, Lucas S, Malik SB, Marsh ME, Mock T, Mueller-Roeber B, Pagarete A, Parker M, Probert I, Quesneville H, Raines C, Rensing SA, Riano-Pachon DM, Richier S, Rokitta S, Shiraiwa Y, Soanes DM, van der Giezen M, Wahlund TM, Williams B, Wilson W, Wolfe G , Wurch LL, Dacks JB, Delwiche CF, Dyhrman ST, Glöckner G, John U, Richards T, Worden AZ, Zhang X, Grigoriev IV (2013) Pan genome of the phytoplankton Emiliania underpins its global distribution, Nature 499, 209-213 (11 July 2013), doi:10.1038/nature12221, online 2013 June 12

2012

Windisch SH, Lucassen M, Frickenhaus S. (2012) Evolutionary force in confamiliar marine vertebrates of different temperature realms: adaptive trends in zoarcid fish transcriptomes, BMC Genomics13:549, DOI:10.1186/1471-2164-13-549, online 2012 Oct 11

Beszteri S, Yang I, Jäckisch N, Tillmann U, Frickenhaus S, Glöckner G, Cembella A, John U. (2012)  Transcriptomic response of the toxic prymnesiophyte Prymnesium parvum (N. Carter) to phosphorus and nitrogen starvation, Harmful algae, 18:June 2012, 1-15, DOI: 10.1016/j.hal.2012.03.003

Hüning AK, Melzner F, Thomsen J, Gutowska MA, Krämer L, Frickenhaus S, Rosenstiel P, Pörtner HO, Philipp EER, Lucassen M. (2012) Impacts of seawater acidification on mantle gene expression patterns of the Baltic Sea blue mussel: implications for shell formation and energy metabolism. Marine Biology 160:8, 1845-1861, DOI: 10.1007/s00227-012-1930-9

Heinrich S, Frickenhaus S, Glöckner G, Valentin K. (2012) A comprehensive cDNA library of light- and temperature-stressed Saccharina latissima (Phaeophyceae), European Journal of Phycology, 47:2, 83-94, DOI:10.1080/09670262.2012.660639, online 2012 Apr 10

Heinrich S, Valentin K, Frickenhaus S, John U, Wiencke C. (2012) Transcriptomic Analysis of Acclimation to Temperature and Light Stress in Saccharina latissima (Phaeophyceae) PLoS ONE, DOI: 10.1371/journal.pone.0044342, online 2012 Aug 28

Kilpert F. (2012) Alignancer. Software developed by AWI-Bioinformatics. hdl:10013/epic.39981.d001

2011

Windisch SH, Kathöver R, Pörtner H-O, Frickenhaus S, Lucassen M (2011) Thermal acclimation in Antarctic fish: Transcriptomic profiling of metabolic pathways. Am J Physiol Regul Integr Comp Physiol 301:R1453-R1466, DOI:10.1152/ajpregu.00158.2011 online 2011 Nov 1

Van Opzeeland I C,  van Parijs S M, Frickenhaus S, Kreiss C M, Boebel O (2011) Individual variation in pup vocalizations and absence of behavioral signs of maternal vocal recognition in Weddell seals (Leptonychotes weddellii). Marine Mammal Science, DOI:10.1111/j.1748-7692.2011.00505.x, online 2011 July 7

Jubaer H, Tamahrajah J,  Schütz W, Frickenhaus S (2011) Students in Science - A result of Bologna convention. Joint Proceedings Akademia Morska Gdynia and University of applied sciences Bremerhaven, 2011, p.17, ISSN-0176-1323

 

2010

Beszteri B, Temperton B, Frickenhaus S, Giovannoni S J. (2010). Average genome size: a potential source of bias in comparative metagenomics,  The ISME Journal 4, 1075–1077, DOI:10.1038/ismej.2010.29. online 2010 March 25

Van Opzeeland I, Van Parijs S, Bornemann H, Frickenhaus S, Kindermann L, Klinck H, Plötz J, Boebel O (2010) Acoustic Ecology of Antarctic Pinnipeds. MEPS 414:267-291, DOI: 10.3354/meps08683, online 2010 Sept 13

Cock M, Sterck L, Rouzé P, Scornet D, Allen A, Amoutzias G, Anthouard V, Artiguenave F, Aury J, Badger J, Beszteri B, Billiau K, Bonnet E, Bothwell J, Bowler C, Boyen C, Brownlee C, Carrano C, Charrier B, Youn Cho G, Coelho A, Colln J, Corre E, Da Silva C, Delage L, Delaroque N, Dittami S, Doulbeau S, Elias M, Farnham G, Gachon C, Gschloessl B, Heesch S, Jabbari K, Jubin C, Kawai H, Kimura K, Kloareg B, Küpper F, Lang D, Le Bail A, Leblanc C, Lerouge P, Lohr M, Lopez P, Martens C, Maumus F, Michel G, MirandaSaavedra D, Morales J, Moreau H, Motomura T, Nagasato C, Napoli C, Nelson D, Nyvall Colln P, Peters S, Pommier C, Potin P, Poulain J, Quesneville H, Read B, Rensing S A, Ritter A, Rousvoal S, Samanta M, Samson G, Schroeder D, Sgurens B, Strittmatter M, Tonon T, Tregear J, Valentin K, von Dassow P, Yamagishi T, Van de Peer Y, Wincker P (2010) The Ectocarpus genome and the independent evolution of multicellularity in the brown algae. Nature 465, 617-621 (3 June 2010) DOI:10.1038/nature09016 Letter

Metfies K, Gescher C, Frickenhaus S, Niestroy R, Wichels A, Gerdts G, Knefelkamp B, Wiltshire K, Medlin L M (2010) Contribution of the Class Cryptophycaea to the Phytoplankton Structure in the German Bight. Journal of Phycology 46 (6) 1152-1160, DOI:10.1111/j.1529-8817.2010.00902.x, online 2010 Oct 15

2009

Alpermann T, Tillmann U, Beszteri B, Cembella AD & John U (2009)  Phenotypic variation and genotypic diversity in a planktonic population of the toxigenic marine dinoflagellate Alexandrium tamarense (Dinophyceae). Journal of Phycology. 46:1,18-32, DOI:10.1111/j.1529-8817.2009.00767.x, online 2009 Nov 24,

Supplementary material: R functions for testing marker saturation

Moustafa A, Beszteri B, Maier U, Bowler C, Valentin K & Bhattacharya D (2009) Genomic footprints of a cryptic plastid endosymbiosis in diatoms. Science 324:5935, 1724-1726. DOI: 10.1126/science.1172983, online 2009 June 26

Kegel JU, John U, Frickenhaus S, Metfies K, Valentin K. (2009) Comparative Functional Genomics of Virus-Susceptible and Virus-Resistant Strains of Emiliania huxleyi, Phycologia, 48 (4, Supplement), 59. DOI: 10.2216/0031-8884-48.sp4.1 online 2009 July

Frickenhaus S, Beszteri B. Quicktree-SD. Software developed by AWI-Bioinformatics. hdl:10013/epic.33164

Alpermann T, Beszteri B, John U, Tillmann U & Cembella A. (2009) Implications of life history transitions on the population genetic structure of the toxigenic marine dinoflagellate Alexandrium tamarense.  Molecular Ecology 18:10,2122–2133. DOI: 10.1111/j.1365-294X.2009.04165.x, online 2009 Apr 14

Kraemer L, Beszteri B, Gäbler-Schwarz S, Held C, Leese F, Mayer C, Pöhlmann K, Frickenhaus S.  (2009) STAMP: Extensions to the STADEN sequence analysis package for high throughput interactive microsatellite marker design. BMC Bioinformatics 10:41, DOI:10.1186/1471-2105-10-41, online 2009 Jan 30

Coyer JA, Hoarau G, Beszteri B, Pearson G, Olsen JL (2009) Expressed sequence tag derived polymorphic SSR markers for Fucus serratus and amplification in other species of Fucus. Molecular Ecology Resources 9:1 168-170, DOI:10.1111/j.1755-0998.2008.02406.x, online 2008 Oct 21

Frickenhaus S, Kannan S, Zacharias M. (2009) Efficient evaluation of sampling quality of molecular dynamics simulations by clustering of dihedral torsion angles and Sammon mapping, Jornal of Computational Chemistry, 30, p. 479-492 DOI:10.1002/jcc.21076

2008

Krell A, Beszteri B, Dieckmann G, Glöckner G, Valentin K & Mock T (2008). A new class of ice-binding proteins discovered in a salt-stress-induced cDNA library of the psychrophilic diatom Fragilariopsis cylindrus (Bacillariophyceae). European Journal of Phycology 43: 423-433. DOI:10.1080/09670260802348615, online 2008 Nov 27

Bowler C, Allen AE, Badger JH, Grimwood J, Jabbari K, Kuo A, Maheswari U, Martens C, Maumus F, Otillar RP, Rayko E, Salamov A, Vandepoele K, Beszteri B, Gruber A, Heijde M, Katinka M, Mock T, Valentin K, Verret K, Berges JA, Brownlee C, Cadoret J-P, Chiovitti A, Choi CJ, Coesel S, De Martino A, Detter JC, Durkin C, Falciatore A, Fournet J, Haruta M, Huysman MJJ, Jenkins BD, Jiroutova K, Jorgensen RE, Joubert J, Kaplan A, Kröger N, Kroth PG, La Roche J, Lindquist E, Lommer M, Martin–Jézéquel V, Lopez PJ, Lucas S, Mangogna M, McGinnis K, Medlin LK, Montsant A, Oudot–Le Secq M-P, Napoli C, Obornik M, Schnitzler Parker M, Petit J-L, Porcel BM, Poulsen N, Robison M, Rychlewski L, Rynearson TA, Schmutz J, Shapiro H, Siaut M, Stanley M, Sussman MR, Taylor AR, Vardi A, von Dassow P, Vyverman W, Willis A, Wyrwicz LS, Rokhsar DS, Weissenbach J, Armbrust EV, Green BR, Van de Peer Y & Grigoriev IV (2008). The Phaeodactylum genome reveals the evolutionary history of diatom genomes. Nature 456: 239-244, DOI:10.1038/nature07410.

Gescher C, Metfies K, Frickenhaus S, Knefelkamp B, Wiltshire K, Medlin LK. (2008) Assessing Community Composition of Prasinophytes at the Helgoland Reede Sampling Site with a DNA-Microarray: A Feasibility Study, Applied and Environmental Microbiology 74:17, 5305-5316, DOI:10.1128/AEM.01271-08, online 2008 July 11 

John U, Beszteri B, Derelle E, Van de Peer Y, Read B, Moreau H, Cembella A (2008). Novel insights into evolution of protistan polyketide synthases through phylogenomic analysis. Protist 159(1): 21-30, DOI:10.1016/j.protis.2007.08.001. online 2008 January 7

Metfies K, Borsutzki P, Gescher C, Medlin LK, Frickenhaus S  (2008) PhylochipAnalyzer - A Program for Analysing Hierarchical Probe-Sets.  Molecular Ecology Resources 8, 99-102. DOI:10.1111/j.1471-8286.2007.01927.x, online 2008 June 28

2007

Hanekamp K, Bohnebeck U, Beszteri B, Valentin K (2007). PhyloGena – a user-friendly system for automated phylogenetic annotation of unknown sequences. Bioinformatics 23: 793-801, DOI:10.1093/bioinformatics/btm016. online 2007 March 1

Läuter M, Handorf D, Rakowsky N, Behrens J, Frickenhaus S, Best M, Dethloff K & Hiller W. (2007): A Parallel Adaptive Barotropic Model of the Atmosphere, Journal of Computational Physics 223:609-628. DOI:10.1016/j.jcp.2006.09.029, online 2007 May 1

Supplementary Material

JCC-0047-08 Dihedral Clustering   Frickenhaus, Kannan, Zacharias (JCC 30(3) 2009)

Supplementary information to Cock et al. The Ectocarpus genome and the independent evolution of multicellularity in the brown algae: lists of Ectocarpus genes with red and green algal phylogenetic affinities, and green genes shared with oomycetes.

title page of JCC, showing our cluster analysis

Marker saturation

R functions for testing genetic marker (AFLP or microsatellite) saturation for the following paper:

Alpermann T, Tillmann U, Beszteri B, Cembella AD & John U (2009)  Phenotypic variation and genotypic diversity in a planktonic population of the toxigenic marine dinoflagellate Alexandrium tamarense (Dinophyceae). Journal of Phycology. 46:1, 18-32, doi:10.1111/j.1529-8817.2009.00767.x

Download R functions

aflp-simple+MS-dice-plot
aflp.mantel-simple-50reps-to50