Publications

Peer-Reviewed Publications

• Michie KA, Harrop SJ, Rathbone HW, Wilk KE, Teng CY, Hoef-Emden K, Hiller RG, Green BR, Curmi PMG (2023) Molecular structures reveal the origin of spectral variation in cryptophyte light harvesting antenna proteins. Protein Science 32: e4586 Abstract and PDF
• Hoef-Emden K (2018) Revision of the genus Chroomonas Hansgirg: The benefits of DNA-containing specimens. Protist 169: 662–681 Abstract
• Arpin PC, Turner DB, McClure SD, Jumper CC, Mirkovic T, Challa JR, Lee J, Teng CY, Green BR, Wilk KE, Curmi PM, Hoef-Emden K, McCamant DW, Scholes GD (2015) Spectroscopic Studies of Cryptophyte Light Harvesting Proteins: Vibrations and Coherent Oscillations. J Phys Chem B 119: 10025–10034. Abstract
• Słomka A, Godzik B, Szarek-Łukaszewska G, Shuka L, Hoef-Emden K, Bothe H (2015) Albanian violets of the section Melanium, their morphological variability, genetic similarity and their adaptations to serpentine or chalk soils. J Plant Physiol 174: 110–123. Abstract
• Overkamp KE, Langklotz S, Aras M, Helling S, Marcus K, Bandow JE, Hoef-Emden K, Frankenberg-Dinkel N (2014) Chromophore composition of the phycobiliprotein Cr-PC577 from the cryptophyte Hemiselmis pacifica. Photosynth Res 122: 293–304. Abstract
• Harrop SJ, Wilk KE, Dinshaw R, Collini E, Mirkovic T, Teng CY, Oblinsky DG, Green BR, Hoef-Emden K, Hiller RG, Scholes GD, Curmi PMG (2014) Single-residue insertion switches the quaternary structure and exciton states of cryptophyte light-harvesting proteins. PNAS 111: E2666–E2675. Abstract – PDF
• Hoef-Emden K (2014) Osmotolerance in the Cryptophyceae: Jacks-of-all-trades in the Chroomonas clade. Protist 165: 123–143. Abstract
• Hoef-Emden K (2012) Pitfalls of establishing DNA barcoding systems in protists: The Cryptophyceae as a test case. PLoS One 7(8): e43652. HTML and PDF
• Boenigk J, Ereshefsky M, Hoef-Emden K, Mallet J, Bass D (2012) Concepts in protistology: Species definitions and boundaries. Eur J Protistol 48: 96–102. Abstract
• Becker B, Hoef-Emden K (2009) Evolution of vacuolar targeting in algae. Bot Mar 52: 117–128. Abstract
• Hoef-Emden K (2008) Molecular phylogeny of the phycocyanin-containing cryptophytes: Evolution of biliproteins and geographical distribution. J Phycol 44: 985–993. Abstract
• Becker B, Hoef-Emden K, Melkonian M (2008) Chlamydial genes shed light on the evolution of photoautotrophic eukaryotes. BMC Evolutionary Biology 8: 203. Abstract – Full text
• Tyge Christensen Prize from the International Phycological Society in recognition of the best algal paper published in Phycologia during 2007:
  Hoef-Emden K (2007) Revision of the genus Cryptomonas (Cryptophyceae) II: Incongruences between the classical morphospecies concept and molecular phylogeny in smaller pyrenoid-less cells. Phycologia 46: 402–428. Abstract
• Finlay BJ, Esteban GF, Brown S, Fenchel T, Hoef-Emden K (2006) Multiple cosmopolitan ecotypes within a microbial eukaryote morphospecies. Protist 157: 377–390. Abstract
• Lundholm N, Moestrup Ø, Kotaki Y, Hoef-Emden K, Scholin C, Miller P (2006) Inter- and intraspecific variation of the Pseudo-nitzschia delicatissima complex (Bacillariophyceae) illustrated by rRNA probes, morphological data and phylogenetic analyses. J Phycol 42: 464–481. Abstract
• Hildebrandt U, Hoef-Emden K, Backhausen S, Bothe H, Bożek M, Siuta A, Kuta E (2006). The rare, endemic zinc violets of Central Europe originate from Viola lutea Huds. Plant Syst Evol 257: 205–222. Abstract
• Hoef-Emden K, Tran H-D, Melkonian M (2005) Lineage-specific variations of congruent evolution among DNA sequences from three genomes, and relaxed selective constraints on rbcL in Cryptomonas (Cryptophyceae). BMC Evol Biol 5: 56. Abstract – Full text
• Hoef-Emden K, Shrestha RP, Lapidot M, Weinstein Y, Melkonian M, Arad S (2005). Actin phylogeny and intron distribution in bangiophyte red algae (Rhodoplantae). J Mol Evol 61: 360–371. Abstract
• Hoef-Emden K (2005). Multiple independent losses of photosynthesis in the genus Cryptomonas (Cryptophyceae) – combined phylogenetic analyses of DNA sequences of the nuclear and the nucleomorph ribosomal operons. J Mol Evol 60: 183–195. Abstract
• Hoef-Emden K, Melkonian M (2003) Revision of the genus Cryptomonas (Cryptophyceae): a combination of molecular phylogeny and morphology provides insights into a long-hidden dimorphism. Protist 154: 371–409. Abstract. Corrigendum: Hoef-Emden K, Melkonian M (2008) Protist 159: 507.
• Lundholm N, Moestrup Ø, Hasle GR, Hoef-Emden K (2003) A study of the P. pseudodelicatissima/cuspidata complex (Bacillariophyceae): What is Pseudo-nitzschia pseudodelicatissima? J Phycol 39: 797–813. Abstract
• Hoef-Emden K, Marin B, Melkonian M (2002). Nuclear and nucleomorph SSU rDNA phylogeny in the Cryptophyta and the evolution of cryptophyte diversity. J Mol Evol 55: 161–179. Abstract
• Vickerman K, Le Ray D, Hoef-Emden K, De Jonckheere J (2002) The soil flagellate Proleptomonas faecicola: Cell organisation and phylogeny suggest that the only described free-living trypanosomatid is not a kinetoplastid but has cercomonad affinities. Protist 153: 9–24. Abstract
• Marin B, Hoef-Emden K, Melkonian M (1996) Light and electron microscope observations on Tetraselmis desikacharyi sp. nov. (Chlorodendrales, Chlorophyta). Nova Hedwigia Beih. 112: 461–475

Books and Book Chapters

• Hoef-Emden, Archibald JM (2016) Cryptophyta (Cryptomonads). In: Archibald JM, Simpson AGB, Slamovits CH, Margulis L, Melkonian M, Chapman DJ, Corliss JO (eds) Handbook of the Protists. Springer International Publishing, Cham, Switzerland
  ISBN: 978-3-319-32669-6 (Online), Abstract
• Becker B, Hoef-Emden K (2012) Evolution of vacuolar targeting. In: Heimann K, Katsaros C (eds) Advances in Algal Cell Biology. De Gruyter, Berlin/Boston, pp 105-121.
  ISBN: 978-3-11-022960-8
• Linne von Berg K-H, Hoef-Emden K, Marin B, Melkonian M (2012) Der Kosmos-Algenführer. Süßwasseralgen im Mikroskop. 2. Auflage. Serie Kosmos Naturführer, Kosmos-Verlag, Stuttgart.
  ISBN: 978-3-440-13173-2
• Linne von Berg K-H, Hoef-Emden K, Marin B, Melkonian M (2004) Der Kosmos-Algenführer. Die wichtigsten Süßwasseralgen im Mikroskop. 1. Auflage. Serie Kosmos Naturführer, Kosmos-Verlag, Stuttgart.
  ISBN: 3-440-09719-6

Diverse Non-Reviewed Publications

• Hoef-Emden K, Archibald JM (2008) Cryptomonads = Goniomonas + plastid-containing cryptophytes. Cryptophyta (Version 02 April 2010). In The Tree of Life Web Project
• Hoef-Emden K, Küpper FC, Andersen RA (2007) Meeting report: Sloan Foundation Workshop to resolve problems relating to the taxonomy of microorganisms and to culture collections arising from the barcoding initiatives; Portland ME, November 6-7, 2006. Protist 158: 135–137. Report
• Hoef-Emden K (2005) Molecular phylogenetic analyses and real-life data. Comp Sci Eng 7: 86–91 (minireview). Abstract

Invited Talks or Workshop Participations

• Hoef-Emden K (2012) Pitfalls of DNA Barcoding Methods: The Cryptophyceae as a Test Case. Workshop on DNA Barcoding. 14. Wissenschaftliche Tagung der Sektion Phykologie in der Deutschen Botanischen Gesellschaft and 31. Wissenschaftliche Tagung der Deutschen Gesellschaft für Protozoologie, Wuppertal, Germany

• Hoef-Emden K (2011) Species concepts – a practical approach. Topic lectures Concepts in Protistology. 6^th European Congress of Protistology, Berlin, Germany
• Hoef-Emden K (2009) Phylogenetic trees: More than just branches and nodes. Symposium Talk. 9^th International Phycological Congress, 2-8 August 2009, Tokyo, Japan
• Hoef-Emden K (2009) Evolution of Molecular and Phenotypic Characters within the Class Cryptophyceae, an Algal Group with Four Genomes. SFB Colloquium Molecular Biology of Complex Functions in Botanical Systems (Molekulare Biologie komplexer Leistungen von botanischen Systemen). Sonderforschungsbereich 480, Ruhr-Universität, Bochum, Germany
• Hoef-Emden K (2008) Diversity and systematics of the Cryptophyceae: Dimorphism, hidden genetic diversity and undersampling. International Symposium on Protistology: Evolution and Diversity, November 8-9, 2008. Laboratory of Advanced Research D, University of Tsukuba, Japan
• Sloan Foundation Workshop to Resolve Microorganism Taxonomic and Culture Collection Problems Arising from the New Barcoding Initiatives, November 6-7, 2006. Portland, Maine, USA
• Hoef-Emden K (2005) Systematics and ecology of cryptomonads. Institut für Süßwasserökologie und Binnenfischerei, Abt. Limnologie Geschichteter Seen, Neuglobsow, Germany
• Hoef-Emden K (2004) What do molecular phylogeny and morphology tell us about evolution in the Cryptophyceae? Botanical Colloquium at the University of Göttingen, Albrecht-von-Haller-Institut für Pflanzenwissenschaften, Göttingen, Germany