2007

Borsch T , KW Hilu, JH Wiersema, C Löhne, W Barthlott, V Wilde (2007). Phylogeny of Nymphaea (Nymphaeaceae): evidence from substitutions and microstructural changes in the chloroplast trnT-trnF region. Int. J. Pl. Sci. 168, 639-671.

Löhne C, T Borsch, JH Wiersema (2007). Phylogenetic analysis of Nymphaeales using fast-evolving and non-coding chloroplast markers. Bot. J. Linn. Soc. 154, 141-163.

Worberg A, Quandt D, Barniske A-M, Löhne C, Hilu KW, Borsch T (2007) Phylogeny of basal eudicots: insights from non-coding and rapidly evolving DNA. Organisms, Diversity and Evolution 7 (1), 55-77.

Wanke S, Jaramillo MA, Borsch T, Samain M-S, Quandt D and Neinhuis C (2007) Evolution of Piperales - combined matK gene and trnK intron sequence data reveal lineage specific resolution contrast. Molecular Phylogenetics and Evolution 42, 477-497.

Simmons M P, Zhang L-B, Webb C T, Müller K (2007) A penalty of using anonymous dominant markers (AFLPs, ISSRs, and RAPDs) for phylogenetic inference. Molecular Phylogenetics and Evolution 42, 528-542.

2006

Greilhuber J, Borsch T, Müller K, Worberg A, Porembski S, Barthlott W (2006) Smallest angiosperm genomes found in Lentibulariaceae, with chromosomes of bacterial size. Plant Biology 8, 1-8.

Wanke S, Gonzalez F & Neinhuis C (2006) Systematics of pipevines: Combining morphological and fast-evolving molecular characters to investigate the relationships within subfamily Aristolochioideae (Aristolochiaceae). Inter. J. Pl. Sci. 167, 1215-1227.

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

Müller K (2006) Incorporating information from length-mutational events into phylogenetic analysis. Molecular Phylogenetics and Evolution 38, 667-676.

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

2005

Borsch T , C Löhne, K Müller, K W Hilu, S Wanke, A Worberg, W Barthlott, C Neinhuis, D. Quandt (2005). Towards understanding basal angiosperm diversification: recent insights using rapidly evolving genomic regions. Nova Acta Leopoldina N.F. 92 (342), 85-110.

Cieslack T, J S Polepalli, A White, K Müller, T Borsch, W Barthlott, J Steiger, A Marchant, L Legendre (2005). Phylogenetic analysis of Pinguicula ( Lentibulariaceae): chloroplast DNA sequences and morphology reveal several geographically distinct radiations. American Journal of Botany 92, 1723-1736.

Löhne C, Borsch T (2005) Phylogenetic utility and molecular evolution of the petD group II intron in basal angiosperms. Molecular Biology and Evolution 22, 317-332.

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

Müller K, Borsch T (2005) Phylogenetics of Amaranthaceae based on matK/trnK sequence data - evidence from parsimony, likelihood, and Bayesian analyses. Annals of the Missouri Botanical Garden 92(1), 96-102.

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

Müller K, Borsch T (2005) Multiple origins of a unique pollen aperture type: stellate pore ornamentation in Amaranthaceae. Grana 44 (4),266-281.

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

Quandt D, Stech M. (2005) Molecular evolution and secondary structure of the chloroplast trnL intron in bryophytes. Molecular Phylogenetics and Evolution 36: 429-443. (15)

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

Stech M, Quandt D. Molecular evolution and phylogenetic utility of the chloroplast atpB-rbcL spacer in bryophytes . In: Sharma AK, Sharma A. eds. Plant Genome: Biodiversity and Evolution, Vol. 2, pp. . Enfield, New Hampshire, Science Publishers. (18)

2004

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

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

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

Quandt D, Müller K, Stech M, Hilu K W, Frey W, Frahm J-P, Borsch T (2004) Molecular evolution of the chloroplast trnL-F region in land plants. In: Molecular Systematics of Bryophytes ( eds. Goffinet B, Hollowell V, Magill R)

2003

Borsch T, Hilu W, Quandt D, Wilde V, Neinhuis C, Barthlott W (2003) Non-coding plastid trnT-trnF sequences reveal a well resolved phylogeny of basal angiosperms. Journal of Evolutionary Biology 16, 558-576.

Hilu K W, Borsch T, Müller K, Soltis D E, Soltis P S, Savolainen V, Chase M, Powell M, Alice L A, Evans R, Sauquet H, Neinhuis C, Slotta T A, Rohwer J G, Campbell C S, Chatrou L (2003) Angiosperm phylogeny based on matK sequence information. American Journal of Botany, 90, 1758-1776.

Müller J, Müller K (2003) QuickAlign: A New Alignment Editor. Plant Molecular Biology Reporter 21, 5.

Quandt D, Stech M (2003) Molecular systematics of bryophytes in context of land plant phylogeny. In: Plant Genome ( eds. Sharma A K, Sharma A), Oxford & IBH Publishing, New Delhi.

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

Stech M, Quandt D, Frey W (2003) Molecular evolution of the chloroplast DNA trnL-trnF region in the hornworts (Anthocerotophyta) and its phylogenetic implications. Journal of Plant Research 116, 389-398.

Sauquet H, Doyle J A, Scharaschkin T, Borsch T, Hilu K W, Chatrou L, Le Thomas A (2003) Phylogenetic analysis of Magnoliales and Myristicaceae based on multiple data sets: implications for character evolution. Botanical Journal of the Linnean Society 142, 125-186.

in press, review or submitted

Simmons M P, Müller K, Norton AP (in press) The relative performance of indel-coding methods in simulations. Molecular Phylogenetics and Evolution

Korotkova N, JV Schneider, D Quandt, A Worberg, G Zizka, T Borsch (in press). Phylogeny of the eudicot order Malpighiales - Analysis of a recalcitrant clade with sequences of the petD group II intron. Pl. Syst. Evol. [Special issue “Molecular evolution and phylogenetic utility of non-coding DNA – applications from species to deep level questions.”]

Tesfaye G K, T Borsch, K Govers, E Bekele (in press). Characterisation of Coffea chloroplast microsatellites and evidence for the recent divergence of C. arabica and C. eugenioides cp genomes. Genome

Müller K, Worberg A, Legendre L, Borsch T (in review) High DNA substitution rates in carnivorous Lentibulariaceae (Lamiales, angiosperms) and possible underlying causes.

Sánchez del-Pino I, T Borsch, T Motley (subm.). Non-coding rpl16 and trnL-F sequence data reveal three major clades within the monophyletic Gomphrenoideae (Amaranthaceae). Mol. Phylogenet. Evol.