Both ecology and evolution try to understand the diversity of life, including the diversity of species, their genetic inventory, the diversity of functions, interactions and communities; how species and communities evolve, expand, and demise. Many new ideas and methodological approaches are currently developed where these two disciplines merge, both at the level of micro- and macroevolution. Examples are the evolution of biodiversity hotspots, the impact of climate change on distribution and evolutionary adaptation, or adaptive population genomics. We aim at highlighting recent achievements in evolutionary ecology, their impact on phylogenetics and biodiversity research, and vice versa. Confirmed invited speakers are: Alexandre Antonelli (Göteborg), Christoph Bleidorn (Madrid), Erika Edwards (Providence, Rhode Island), Susanne Fritz (Frankfurt), Catherine Graham (New York), Christian Lexer (Vienna), Susanne Renner (Munich), Marten Winter (Leipzig). Poster presentations by students and postdocs are welcome. The deadline for abstract submission is September 15, 2016. Please submit your abstracts to Martin Schlegel. Please register online. Registration for this symposium is free of charge. We hope to see you soon here in Leipzig! ... [Information of the supplier]
"Phylogeny Programs" is a page describing all software for inferring phylogenies (evolutionary trees) the author knows about, with 334 phylogeny packages and 47 free servers. It is an attempt to be completely comprehensive; the author has not made any attempt to exclude programs that do not meet some standard of quality or importance. Many of the programs in these pages are available on the web, and some of the older ones are also available from ftp server machines. The programs listed include both free and non-free ones. ... [Information of the supplier, modified]
Phylogenetics is concerned with what is probably the most important problem in biology: reconstructing the evolutionary history of present-day organisms from molecular data, such as DNA, or morphological characters. Hidden from view, in phylogenetics software packages used by biologists, are algorithms implementing stochastic and combinatorial methods on binary trees, as well as more general network structures. The mathematics involved represent a unique confluence of probability theory, discrete mathematics, stochastic methods, and statistical inference, as well as algebraic methods such as group theory. There are many important theoretical and practical problems that arise, such as statistical identifiability of models, consistency and convergence of methods. These problems can only be solved using a multi-disciplinary approach. Phylomania brings together internationally recognised experts, with the aim of discussing the pressing research problems in phylogenetics. ... [Information of the supplier]
This database provides a snapshot of the current taxonomic distribution of nucleotide sequences in GenBank. Its purpose is to convey information about the potential phylogenetic data sets (clusters, or sets of homologous sequences) that can be constructed from the database for taxa of interest. It mirrors the NCBI taxonomy tree. The number of clusters is estimated by all-against-all BLAST searches and sequence clustering algorithms (for all nodes with < 35,000 sequences, and excluding sequences > 7500 nt in length). Model organisms are defined as any node (not subtree) having >100 clusters or more than 10,000 sequences. By default, sequence tallies for model organisms propogate upward in the tree along with nonmodel organisms, but this information can be excluded, so that users can get a sense of taxonomic breadth of the sequence diversity in the database. Note, however, that the bulk of "genomic" data for model organisms is not entered in the database at all (see below for types of sequences included). Cluster tallies are linked to a view of the data availability matrix for that node in the taxonomy tree, which can provide useful guidance for supermatrix and supertree construction. Sequences for each cluster can be downloaded as an unaligned FASTA file for further analysis. Provisional alignments and phylogenetic trees are also provided. ... [Information of the supplier]
Phytozome is a joint project of the Department of Energy's Joint Genome Institute and the Center for Integrative Genomics to facilitate comparative genomic studies amongst green plants. Families of orthologous and paralogous genes that represent the modern descendents of ancestral gene sets are constructed at key phylogenetic nodes. These families allow easy access to clade specific orthology/paralogy relationships as well as clade specific genes and gene expansions. As of release v8.0, Phytozome provides access to thirty-one sequenced and annotated green plant genomes which have been clustered into gene families at eleven evolutionarily significant nodes. Where possible, each gene has been annotated with PFAM, KOG, KEGG, and PANTHER assignments, and publicly available annotations from RefSeq, UniProt, TAIR, JGI are hyper-linked and searchable. ... [Information of the supplier]
The Hennig Society was founded in 1980 with the expressed purpose of promoting the field of Phylogenetic Systematics. Hennig's idea that groups of organisms, or taxa, should be recognized and formally named only in cases where they are evolutionarily real entities, that is "monophyletic", at first was controversial. It is now the prevailing approach to modern systematics. The Society has a strong international character meeting once a year. The journal Cladistics is the official publication of the Willi Hennig Society comprising a rich mixture of theortical and empirical peer-reviewed contributions to phylogenetic systematics. ... [Information of the supplier, modified]
The Tree of Life Web Project (ToL) is a collaborative effort of biologists from around the world. On more than 3000 World Wide Web pages, the project provides information about the diversity of organisms on Earth, their evolutionary history (phylogeny), and characteristics. Each page contains information about a particular group of organisms (e.g., echinoderms, tyrannosaurs, phlox flowers, cephalopods, club fungi, or the salamanderfish of Western Australia). ToL pages are linked one to another hierarchically, in the form of the evolutionary tree of life. Starting with the root of all Life on Earth and moving out along diverging branches to individual species, the structure of the ToL project thus illustrates the genetic connections between all living things. ... [Information of the supplier]
TreeBASE is a relational database designed to manage and explore information on phylogenetic relationships (Sanderson et al., 1993, 1994; Donoghue, 1994; Donoghue and Ackerly, 1996; Piel et al., 1996; Morel, 1996; Piel et al., 2000). Its main function is to store published phylogenetic trees and data matrices. It also includes bibliographic information on phylogenetic studies, and some details on taxa, characters, algorithms used, and analyses performed. The database is designed to allow retrieval and recombination of trees and data from different studies, and it can be explored interactively using trees included in the database. TreeBASE therefore provides a means of assessing and synthesizing phylogenetic knowledge. (...) The database currently includes 6106 authors, 2946 studies, 8462 trees, and 82043 taxa" (as of December 2011). ... [Information of the supplier]