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Kai Müller

Prof. Kai Müller

E-Mail: kaimueller@uni-muenster.de
Phone: +49 251 83-21645
Fax: +49 251 83-24668
Room: 104
Office hours: on appointment

Positions

2009 Professor for Botany, Institute for Evolution and Biodiversity, WWU Münster
2006 - 2009 Assistent professor at the Nees Institute (Prof. Barthlott), head of the Systematics and Evolution working group and lab
2006 Postdoctoral research assistant at the lab of Prof. C. dePamphilis, Department of Biology, Institute of Molecular Evolutionary Genetics, and Huck Institutes of the Life Sciences, Pennsylvania State University, USA

Education

2005 Dr. rer. nat., University of Bonn; Evolution of Amaranthaceae - A case study integrating molecular phylogenetics and pollen data; summa cum laude
2002 - 2005 Doctoral studies, Nees-Institut für Biodiversität der Pflanzen, University of Bonn
2001 Graduation from Bonn University (Diploma in Biology); A phylogenetic analysis of Lentibulariaceae based on sequences of matK and adjacent non-coding regions; grade 1.0, mark of distinction
1996 - 2001 University studies in Biology, Bonn University

Honors

2008 Election as Member of the Young Academy of the North Rhine-Westphalian Academy of Sciences (Nordrhein-Westfälische Akademie der Wissenschaften).
2005 Scholarship of the Deutsche Telekom Stiftung
2004 Biodiversity Award 2004 of the Academy of Sciences Mainz
2001 PhD scholarship of the Eduard-Rhein-Stiftung
1996 Scholarship from the German National Academic Foundation (Studienstiftung des deutschen Volkes)

Research projects

Publications

Sort list:  by publication date  by type

Article in Journal

Kilian N, Henning T, Plitzner P, Müller A, Güntsch A, Stöver BC, Müller KF, Berendsohn WG, Borsch T: Sample data processing in an additive and reproducible taxonomic workflow by using character data persistently linked to preserved individual specimens. Database 2015, 2015:bav094 (Details)

Fleischmann A, Michael T, Rivadavia F, Wang W, Temsch E, Greilhuber J, Müller KF, Heubl G: Evolution of genome size and chromosome number in the carnivorous plant genus Genlisea (Lentibulariaceae), with a new estimate of the minimum genome size in angiosperms. Annals of Botany 2014, 114:1651--1663 (Details)

Wicke S, Schäferhoff B, dePamphilis CW, Müller KF: Disproportional plastome-wide increase of substitution rates and relaxed purifying selection in genes of carnivorous Lentibulariaceae. Molecular Biology and Evolution 2014, 31:529-545 (Details)

Röschenbleck J, Albers F, Müller KF, Weinl S, Kudla J: Phylogenetics, character evolution and a subgeneric revision of the genus Pelargonium (Geraniaceae). Phytotaxa 2014, 159:31-76 (Details)

Wicke S, Müller KF, dePamphilis CW, Quandt D, Wickett NJ, Zhang Y, Renner SS, Schneeweiss GM : Mechanisms of functional and physical genome reduction in photosynthetic and nonphotosynthetic parasitic plants of the broomrape family. The Plant Cell 2013, 25:3711-3725 (Details)

Fischer E, Schäferhoff B, Müller KF: The phylogeny of Linderniaceae - The new genus Linderniella, and new combinations within Bonnaya, Craterostigma, Lindernia, Torenia and Vandellia. Willdenowia 2013, 43:209-238 (Details)

Testroet P, Quandt D, Santos-Guerra A, Müller KF, Lobin W: Population genetics and conservation of Sideroxylon canariense (Sapotaceae) on the Canary Islands. Vieraea 2013, 41:295-308 (Details)

Fischer E, Schäferhoff B, Müller KF: The new monotypic genus Bardotia (Orobanchaceae) from Madagascar and remarks on the phylogenetic relationships of the African and Madagascan genera Micrargeria, Parastriga, Radamaea, Rhamphicarpa and Sieversandreas. Phytotaxa 2012, 46:19-33 (Details)

Barniske A, Borsch T, Müller KF, Krug M, Worberg A, Neinhuis C, Quandt D: Phylogenetics of early branching eudicots: comparing phylogenetic signal accross chloroplast introns, spacers, and genes. Journal of Systematics and Evolution 2012, 50:85-108 (Details)

Naumann J, Symmank L, Samain M, Müller KF, Neinhuis C, dePamphilis CW, Wanke S: Chasing the hare - Evaluating the phylogenetic utility of a nuclear single copy gene region at and below species level. BMC Evolutionary Biology 2011, 11:357 (Details)

Müller KF: McPherson S. (ed. by Fleischmann A. and Robinson A.): Carnivorous plants and their habitats. (Book review). Willdenowia 2011, 42:387-388 (Details)

Korotkova N, Borsch T, Quandt D, Taylor NP, Müller KF, Barthlott W: What does it take to resolve relationships and to identify species with molecular markers? An example from the epiphytic Rhipsalideae (Cactaceae). American Journal of Botany 2011, 98:1549-1572 (Details)

Wicke S, Schneeweiss GM, dePamphilis CW, Müller KF, Quandt D: The evolution of the plastid chromosome in land plants: gene content, gene order, gene function. Plant Molecular Biology 2011, 76:273-297 (Details)

Schäferhoff B, Fleischmann A, Fischer E, Albach DC, Borsch T, Heubl G, Müller KF: Towards resolving Lamiales relationships: insights from rapidly evolving chloroplast sequences. BMC Evolutionary Biology 2010, 10 (Details)

Simmons MP, Müller KF, Norton: Alignment of, and phylogenetic inference from, random sequences: the susceptibility of alternative methods to artifactual resolution and support. Molecular Phylogenetics and Evolution 2010, 57:1004-1016 (Details)

Fleischmann A, Schäferhoff B, Heubl G, Rivadavia F, Barthlott W, Müller KF: Phylogenetics and character evolution in the carnivorous plant genus Genlisea A. St.-Hil. (Lentibulariaceae). Molecular Phylogenetics and Evolution 2010, 56:768-783 (Details)

Simmons MP, Webb CT, Müller KF: The deterministic effects of alignment bias in phylogenetic inference. Cladistics 2010, 27:402-416 (Details)

Simmons MP, Zhang LB, Müller KF: Phylogenetic inference using non-redundant coding of dependent characters vs. alternative approaches when applied to protein-coding genes. Cladistics 2010, 27:186-196 (Details)

Stöver BC, Müller KF: TreeGraph 2: combining and visualizing evidence from different phylogenetic analyses. BMC Bioinformatics 2010, 11 (Details)

Müller KF, Albach DC: Evolutionary rates in Veronica L. (Plantaginaceae): Disentangling the influence of life history and breeding system. Journal of Molecular Evolution 2010, 70:44-56 (Details)

Schäferhoff B, Müller KF, Borsch T: Caryophyllales phylogenetics: disentangling Phytolaccaceae and Molluginaceae and description of Microteaceae as a new isolated family. Willdenowia 2009, 39:209-228 (Details)

Simmons MP, Müller KF, Webb CT: The relative sensitivity of different alignment methods and character codings in sensitivity analysis. Cladistics 2008, 24:1039-1050 (Details)

Beck SG, Fleischmann A, Huaylla H, Müller KF, Borsch T: Pinguicula chuquisacensis (Lentibulariaceae), a new species from the Bolivian Andes, and first insights on phylogenetic relationships among South American Pinguicula. Willdenowia 2008, 38:201-212 (Details)

Wahrmund U, Rein T, Frahm, Müller KF, Groth-Malonek M, Knoop V: Fifty mosses on five trees: Comparing phylogenetic information in three types of non-coding mitochondrial DNA and two chloroplast loci. Plant Systematics and Evolution 2008, 282:241-255 (Details)

Wall PK, Leebens-Mack J, Müller KF, Field D, Altman NS, dePamphilis CW: PlantTribes: A gene and gene family resource for comparative genomics in plants. Nucleic Acids Research 2007, 36:D970-D976 (Details)

Jansen RK, Cai Z, Daniell H, Raubeson L, DePamphilis CW, Leebens-Mack J, Müller KF, Guisinger-Bellian M, Haberle RC, Hansen AK, Chumley TW, Lee, Peery R, McNeal JR, Kuehl JV, Boore JL: Analysis of 81 Genes from 64 Chloroplast Genomes Resolves Relationships in Angiosperms and Identifies Genome-Scale Evolutionary Patterns. Proceedings of the National Academy of Sciences of the United States of America 2007, 104:19369-19374 (Details)

Barakat A, Müller KF, Sáenz de Miera: Molecular evolutionary analysis of the Arabidopsis L7 ribosomal protein gene family. Gene 2007, 403:143-150 (Details)

Simmons MP, Müller KF, Norton AP: The relative performance of indel-coding methods in simulations. Molecular Phylogenetics and Evolution 2007, 44:724-740 (Details)

Simmons MP, Zhang, Webb CT, Müller KF: A penalty of using anonymous dominant markers (AFLPs, ISSRs, and RAPDs) for phylogenetic inference. Molecular Phylogenetics and Evolution 2007, 42:528-542 (Details)

Müller K, Borsch T, Legendre L, Porembski S, Barthlott W: Recent progress in understanding the evolution of Lentibulariaceae. Plant Biology 2006, 8:748-757 (Details)

Greilhuber J, Borsch T, Müller KF, Worberg A, Porembski S, Barthlott W: Smallest angiosperm genomes found in Lentibulariaceae, with chromosomes of bacterial size. Plant Biology 2006, 8:770-777 (Details)

Müller KF, Borsch T, Hilu KW: Phylogenetic utility of rapidly evolving DNA at high taxonomical levels: contrasting matK, trnT-F and rbcL in basal angiosperms. Molecular Phylogenetics and Evolution 2006, 41:99-117 (Details)

Müller KF: Incorporating information from length-mutational events into phylogenetic analysis. Molecular Phylogenetics and Evolution 2006, 38:667-76 (Details)

Müller KF, Borsch T: Multiple origins of a unique pollen feature: stellate pore ornamentation in Amaranthaceae. Grana 2005, 44:266-281 (Details)

Müller KF: The efficiency of different search strategies in estimating parsimony jackknife, bootstrap, and Bremer support. BMC Evolutionary Biology 2005, 5:58 (Details)

Cieslack T, Polepalli, White A, Müller KF, Borsch T, Barthlott W, Steiger J, Marchand A, Legendre L: Phylogenetic Analysis of Pinguicula (Lentibulariaceae): Chloroplast DNA Sequences and Morphology Support Several Geographically Distinct Radiations. American Journal of Botany 2005, 92:1723-1736 (Details)

Borsch T, Löhne C, Müller KF, Hilu KW, Wanke S, Worberg A, Barthlott W, Neinhuis C, Quandt D: Towards Understanding Basal Angiosperm Diversification: Recent Insights Using Rapidly Evolving Genomic Regions. Nova Acta Leopoldina 92 2005, 342:85-110 (Details)

Müller KF, Borsch T: Phylogenetics of Amaranthaceae based on matK/trnK sequence data - evidence from parsimony, likelihood, and Bayesian analyses. Annals of the Missouri Botanical Garden 2005, 92:66-102 (Details)

Müller KF: SeqState - primer design and sequence statistics for phylogenetic DNA data sets. Applied Bioinformatics 2005, 4:65-69 (Details)

Rahmanzadeh R, Müller KF, Fischer E, Bartels D, Borsch T: The Linderniaceae and Gratiolaceae (Lamiales) are further lineages distinct from Scrophulariaceae. Plant Biology 2005, 7:67-78 (Details)

Müller KF, Borsch T: Phylogenetics of Utricularia (Lentibulariaceae) and molecular evolution of the trnK intron in a lineage with high substitutional rates. Plant Systematics and Evolution 2005, 250:39-67 (Details)

Neinhuis C, Wanke S, Hilu KW, Müller KF, Borsch T: Phylogeny of Aristolochiaceae based on parsimony, likelihood, and Bayesian analyses of trnL-trnF sequences. Plant Systematics and Evolution 2004, 250:7-26 (Details)

Müller J, Müller KF: TreeGraph: automated drawing of complex tree figures using an extensible tree description format. Molecular Ecology Notes 2004, 4:786-788 (Details)

Müller KF, Borsch T, Legendre L, Porembski S, Theisen I, Barthlott W: Evolution of carnivory in Lentibulariaceae and the Lamiales. Plant Biology 2004, 6:477-490 (Details)

Müller KF: PRAP - computation of Bremer support for large data sets. Molecular Phylogenetics and Evolution 2004, 31:780-782 (Details)

Hilu KW, Borsch T, Müller KF, Soltis DE, Soltis PS, Savolainen V, Chase M, Powell M, Alice, Evans R, Sauquet H, Neinhuis C, Slotta, Rohwer, Campbell, Chatrou L: Angiosperm phylogeny based on matK sequence information. American Journal of Botany 2003, 90:1758-1776 (Details)

Quandt D, Müller KF, Huttunen S: Characterisation of the chloroplast DNA psbT-H region and the influence of dyad symmetrical elements on phylogenetic reconstructions. Plant Biology 2003, 5:400-410 (Details)

Müller J, Müller KF: QuickAlign: A New Alignment Editor. Plant Molecular Biology Reporter 2003, 21:1-5 (Details)

Müller KF, Borsch T, Legendre L, Theisen I, Barthlott W: Evolution of carnivory in the Lentibulariaceae: considerations based on molecular, morphological, and physiological evidence. Proceedings of the 4th International Carnivorous Plant Conference, Tokyo, Japan 2002 2002, 63-73 (Details)

Frahm, Müller KF, Stech M: The taxonomic status of Eurhynchium crassinervium from river banks based on ITS sequence data. Journal of Bryology 2000, 22:291-306 (Details)

Book (Monograph)

Knoop V, Müller KF: Gene und Stammbäume: Ein Handbuch zur molekularen Phylogenetik. 2008, Spektrum Akademischer Verlag, 397 (Details)

Knoop V, Müller KF: Gene und Stammbäume. Ein Handbuch zur molekularen Phylogenetik. 2006, Spektrum Akademischer Verlag, 310 (Details)

Chapter in Book

Müller KF: Biodiversität und Evolution. In Behler J, Fischer S, Funke A, Hartmann B, Heimhofer U, Martens W, Müller KF, Schmidt K, Schuchart C, Spehr M, Trapp O, Wagner M, Zwierlein C: Perspektiven - Forschungsfragen der Zukunft, 2011, Verlag Ferdinand Schöningh; 1-10 (Details)

Quandt D, Müller KF, Stech M, Hilu KW, Frey W, Frahm J-P, Borsch T: Molecular evolution of the chloroplast trnL-F region in land plants. In Goffinet B, Hollowell V, Magill R: Molecular Systematics of Bryophytes, 2004, Missouri Botanical Garden Press; 13-37 (Details)

Huttunen S, Ignatov MS, Müller KF, Quandt D: The phylogeny and evolution of epiphytism in three moss families Meteoriaceae, Brachytheciaceae, and Lembophyllaceae. In Goffinet B, Hollowell V, Magill R: Molecular Systematics of Bryophytes, 2004, Missouri Botanical Garden Press; 328-364 (Details)

Conference abstract (poster)

Wiechers S, Müller KF, Stöver BC: New comparison and annotation methods of the phylogenetic tree editor TreeGraph 2. 5th annual Münster Graduate School of Evolution Symposium; Münster, Germany; 2015 (Details)

Stöver BC, Wiechers S, Müller KF: Recent development of the phylogenetic tree editor TreeGraph 2. German Conference on Bioinformatics (GCB); Dortmund, Germany; 2015 (Details)

Stöver BC, Müller KF: LibrAlign - A powerful Java GUI library for MSA and attached raw and meta data. IPAM Multiple Sequence Alignment Workshop; Los Angeles, USA; 2015 (Details)

Stöver BC, Müller KF: AlignmentComparator - Comparing and annotating alternative alignments of the same data set. IPAM Multiple Sequence Alignment Workshop; Los Angeles, USA; 2015 (Details)

Stöver BC, Müller KF: LibrAlign - A Java library with powerful GUI components for multiple sequence alignment and attached raw and meta data. German Conference on Bioinformatics (GCB); Bielefeld, Germany; 2014 (Details)

Stöver BC, Müller KF: AlignmentComparator - A GUI application to efficiently visualize and annotate differences between alternative multiple sequence alignments. 4th annual Münster Graduate School of Evolution Symposium; Münster, Germany; 2014 (Details)

Stöver BC, Müller KF: LibrAlign - A GUI library for displaying and editing multiple sequence alignments and attached data. BioDivEvo 2014; Dresden, Germany; 2014 (Details)

Stöver BC, Müller KF: Software in the BioInfWeb project. 2nd annual Münster Graduate School of Evolution Symposium; Münster, Germany; 2012 (Details)

Stöver BC, Quandt D, Müller KF: Complex mutations and multiple sequence alignment - Example: Hairpin-initiated repeats (HIRs). 2nd annual Münster Graduate School of Evolution Symposium; Münster, Germany; 2012 (Details)

Theses

Developed Software


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