ITS2 is a double-edged tool for eukaryote evolutionary comparisons

AW Coleman - TRENDS in Genetics, 2003 - cell.com
The internal transcribed spacer (ITS) region of the nuclear rDNA cistrons is one of the more
frequently utilized regions for phylogenetic analyses at the genus and species levels. It has …

Is there a molecular key to the level of “biological species” in eukaryotes? A DNA guide

AW Coleman - Molecular phylogenetics and evolution, 2009 - Elsevier
DNA sequences, powerful for phylogeny, have not yet proven as rewarding for taxonomic
categorization purposes. However, further analyses of one locus, the second Internal …

5.8 S-28S rRNA interaction and HMM-based ITS2 annotation

A Keller, T Schleicher, J Schultz, T Müller, T Dandekar… - Gene, 2009 - Elsevier
The internal transcribed spacer 2 (ITS2) of the nuclear ribosomal repeat unit is one of the
most commonly applied phylogenetic markers. It is a fast evolving locus, which makes it …

4SALE–a tool for synchronous RNA sequence and secondary structure alignment and editing

PN Seibel, T Müller, T Dandekar, J Schultz, M Wolf - BMC bioinformatics, 2006 - Springer
Background In sequence analysis the multiple alignment builds the fundament of all
proceeding analyses. Errors in an alignment could strongly influence all succeeding …

Pan-eukaryote ITS2 homologies revealed by RNA secondary structure

AW Coleman - Nucleic acids research, 2007 - academic.oup.com
For evolutionary comparisons, phylogenetics and evaluation of potential interbreeding taxa
of a species, various loci have served for animals and plants and protistans. One [second …

Distinguishing species

T Müller, N Philippi, T Dandekar, J Schultz, M Wolf - Rna, 2007 - rnajournal.cshlp.org
Given two organisms, how can one distinguish whether they belong to the same species or
not? This might be straightforward for two divergent organisms, but can be extremely difficult …

Nuclear ribosomal spacer regions in plant phylogenetics: problems and prospects

P Poczai, J Hyvönen - Molecular biology reports, 2010 - Springer
The nuclear ribosomal locus coding for the large subunit is represented in tandem arrays in
the plant genome. These consecutive gene blocks, consisting of several regions, are widely …

Phylogeography of the pantropical sea urchin Tripneustes: contrasting patterns of population structure between oceans

HA Lessios, J Kane, DR Robertson - Evolution, 2003 - Wiley Online Library
To understand how allopatric speciation proceeds, we need information on barriers to gene
flow, their antiquity, and their efficacy. For marine organisms with planktonic larvae, much of …

ITS2 sequence–structure analysis in phylogenetics: a how-to manual for molecular systematics

J Schultz, M Wolf - Molecular phylogenetics and evolution, 2009 - Elsevier
The information that can be obtained from the secondary structure of the nuclear ribosomal
internal transcribed spacer 2 (ITS2) is substantial, and yet many studies exploit this …

Compensatory base changes in ITS2 secondary structures correlate with the biological species concept despite intragenomic variability in ITS2 sequences–a proof of …

M Wolf, S Chen, J Song, M Ankenbrand, T Müller - PloS one, 2013 - journals.plos.org
Compensatory base changes (CBCs) in internal transcribed spacer 2 (ITS2) rDNA
secondary structures correlate with Ernst Mayr's biological species concept. This hypothesis …