SeaView version 4: A multiplatform graphical user interface for sequence alignment and phylogenetic tree building.
- M. Gouy, S. Guindon, O. Gascuel
- Biology, Computer ScienceMolecular biology and evolution
- 1 February 2010
SeaView version 4 combines all the functions of the widely used programs SeaView and Phylo_win, and expands them by adding network access to sequence databases, alignment with arbitrary algorithm, maximum-likelihood tree building with PhyML, and display, printing, and copy-to-clipboard of rooted or unrooted, binary or multifurcating phylogenetic trees.
Multiple sequence alignment with Clustal X.
SEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny
SEAVIEW and PHYLO_WIN are two graphic tools for X Windows-Unix computers dedicated to sequence alignment and molecular phylogenetics. SEAVIEW is a sequence alignment editor allowing manual or…
Genome sequence and gene compaction of the eukaryote parasite Encephalitozoon cuniculi
The DNA sequences of the 11 chromosomes of the ∼2.9-megabase (Mb) genome of Encephalitozoon cuniculi are reported and it is hypothesize that microsporidia have retained a mitochondrion-derived organelle.
WWW-query: an on-line retrieval system for biological sequence banks.
Relationship between morphological taxonomy and molecular divergence within Crustacea: proposal of a molecular threshold to help species delimitation.
Date of the monocot-dicot divergence estimated from chloroplast DNA sequence data.
- K. H. Wolfe, M. Gouy, Y. Yang, P. Sharp, W. Li
- BiologyProceedings of the National Academy of Sciences…
- 1 August 1989
The results imply that the angiosperm lineage emerged in Jurassic-Triassic time, which considerably predates its appearance in the fossil record (approximately 120 Myr ago), which can be taken as an upper bound for the age of angiosperms.
Sensitivity of the relative-rate test to taxonomic sampling.
- M. Robinson, M. Gouy, C. Gautier, D. Mouchiroud
- BiologyMolecular biology and evolution
- 1 September 1998
It is shown that comparing large numbers of species significantly improves the power of the relative-rate test, and results are more accurate when phylogenetic relationships between the investigated sequences are taken into account.
Codon catalog usage and the genome hypothesis.
This work indicates that the main factors distinguishing between mRNA sequences relate to choices among degenerate bases, and systematic third base choices can therefore be used to establish a new kind of genetic distance, which reflects differences in coding strategy.
Codon usage in bacteria: correlation with gene expressivity.
Analysis of genetic code usage in the 83 sequenced genes of the Escherichia coli genome is presented, taking into account new data on gene expressivity and regulation as well as iso-tRNA specificity and cellular concentration.