Literature

Authors	Year	Title
A. Jorgensen, Kristensen R. M.	2004	Molecular phylogeny of Tardigrada - investigation of the monophyly of Heterotardigrada
B. H. M. Meldal, Debenham, N. J., De Ley, P., De Ley, I. Tandingan, Vanfleteren, J. R., Vierstraete, A. R., Bert, W., Borgonie, G., Moens, T., Tyler, P. A., Austen, M. C., Blaxter, M. L., Rogers, A. D., Lambshead, P. J. D.	2007	An improved molecular phylogeny of the Nematoda with special emphasis on marine taxa
A. D. Roe, Sperling F. A. H.	2007	Patterns of evolution of mitochondrial cytochrome c oxidase I and II DNA and implications for DNA barcoding
A. K. K. Strandberg, Salter L. A.	2004	A comparison of methods for estimating the transition: transversion ratio from DNA sequences
M. Holterman, Holovachov, O., van den Elsen, S., van Megen, H., Bongers, T., Bakker, J., Helder, J.	2008	Small subunit ribosomal DNA-based phylogeny of basal Chromadoria (Nematoda) suggests that transitions from marine to terrestrial habitats (and vice versa) require relatively simple adaptations
S. A. Subbotin, Vierstraete, A., De Ley, P., Rowe, J., Waeyenberge, L., Moens, M., Vanfleteren, JR	2001	Phylogenetic relationships within the cyst-forming nematodes (Nematoda, Heteroderidae) based on analysis of sequences from the ITS regions of ribosomal DNA
J. G. Baldwin, Frisse, L. M., Vida, J. T., Eddleman, C. D., Thomas, W. K.	1997	An evolutionary framework for the study of developmental evolution in a set of nematodes related to \emph{Caenorhabditis} \emph{elegans}
O. R. P. Bininda-Emonds	2000	Factors influencing phylogenetic inference: A case study using the mammalian carnivores
R. A. Dewey, Semorile, L. C., Grau, O., Crisci, J. V.	1997	Cladistic analysis of Tospovirus using molecular characters
J. Gatesy, DeSalle, R., Wheeler, W.	1993	Alignment ambiguous nucleotide sites and the exclusion of systematic data
L. R. Goertzen, Cannone, J. J., Gutell, R. R., Jansen, R. K.	2003	{ITS} secondary structure derived from comparative analysis: Implications for sequence alignement and phylogeny of the {Asteraceae}
C. Hudelot, Gowri-Shankar, V., Jow, H., Rattray, M.and Higgs, P.G.	2003	{RNA}-based phylogenetic methods: Application to mammalian mitochondrial {RNA} sequences
K. M. Kjer	1995	Use of r{RNA} secondary structure in phylogenetic studies to identify homologous positions: an example of alignment and data presentationfrom the frogs
S. A. Nadler, Hudspeth D. S. S.	1998	Ribosomal {DNA} and phylogeny of the {Ascaridoidea (Nemata: Secernentea}): Implications for morphological evolution and classification
S. A. Nadler, De Ley, P., Mundo-Ocampo, M., Smythe, A. B., Stock, S. P., Bumbarger, D., Adams, B. J., De Ley, I. T., Holovachov, A., Baldwin, J. G.	2006	Phylogeny of {Cephalobina ({Nematoda})}: Molecular evidence for recurrent evolution of probolae and incongruence with traditional classifications
T. J. Near, Garey, J. R., Nadler, S. A.	1998	Phylogenetic relationships of the Acanthocephala inferred from 18S ribosomal DNA sequences
J. B. Slowinski	1998	The number of multiple alignments
J. B. Slowinski	2001	Molecular polytomies
R. Tarrio, Rodriguez-Trelles, F., Ayala, F. J.	2000	Tree rooting with outgroups when they differ in their nucleotide composition from the ingroup: The Drosophila saltans and willistoni groups, a case study.