The OneZoom Tree of Life Explorer is a web-based phylogenetic tree software. It aims to map the evolutionary connection of all known life. As of 2023 it includes over 2.2 million species. [1] [2]
The OneZoom Tree of Life Explorer is a web-based phylogenetic tree software. It aims to map the evolutionary connection of all known life. As of 2023 it includes over 2.2 million species. [1] [2]
OneZoom was originally invented by James Rosindell [3] and is a charity registered in London. [4] It is sponsored by individuals such as Richard Dawkins. [3] [5]
The design is based on the pythagoras tree; beside a default spiral design there are other options, such as polytomy. [6] [7]
Leaves and nodes provide links to other websites, such as Wikipedia, Encyclopedia of Life or the NCBI taxonomy browser. The leaves representing single species are colour-coded according to their IUCN extinction risk, with red indicating a threatened species, black representing a recently extinct species, and grey representing species with unknown extinction risk. [1]
In biological phylogenetics, a clade, also known as a monophyletic group or natural group, is a grouping of organisms that are monophyletic – that is, composed of a common ancestor and all its lineal descendants – on a phylogenetic tree. In the taxonomical literature, sometimes the Latin form cladus is used rather than the English form. Clades are the fundamental unit of cladistics, a modern approach to taxonomy adopted by most biological fields.
An eared seal, otariid, or otary is any member of the marine mammal family Otariidae, one of three groupings of pinnipeds. They comprise 15 extant species in seven genera and are commonly known either as sea lions or fur seals, distinct from true seals (phocids) and the walrus (odobenids). Otariids are adapted to a semiaquatic lifestyle, feeding and migrating in the water, but breeding and resting on land or ice. They reside in subpolar, temperate, and equatorial waters throughout the Pacific and Southern Oceans, the southern Indian, and Atlantic Oceans. They are conspicuously absent in the north Atlantic.
A phylogenetic tree, phylogeny or evolutionary tree is a graphical representation which shows the evolutionary history between a set of species or taxa during a specific time. In other words, it is a branching diagram or a tree showing the evolutionary relationships among various biological species or other entities based upon similarities and differences in their physical or genetic characteristics. In evolutionary biology, all life on Earth is theoretically part of a single phylogenetic tree, indicating common ancestry. Phylogenetics is the study of phylogenetic trees. The main challenge is to find a phylogenetic tree representing optimal evolutionary ancestry between a set of species or taxa. Computational phylogenetics focuses on the algorithms involved in finding optimal phylogenetic tree in the phylogenetic landscape.
The molecular clock is a figurative term for a technique that uses the mutation rate of biomolecules to deduce the time in prehistory when two or more life forms diverged. The biomolecular data used for such calculations are usually nucleotide sequences for DNA, RNA, or amino acid sequences for proteins.
Colugos are arboreal gliding mammals that are native to Southeast Asia. Their closest evolutionary relatives are primates. There are just two living species of colugos: the Sunda flying lemur and the Philippine flying lemur. These two species make up the entire family Cynocephalidae and order Dermoptera.
The Ancestor's Tale: A Pilgrimage to the Dawn of Life is a science book by Richard Dawkins and Yan Wong that delves into the topic of evolution. The book adopts a unique approach, retracing the path of humans in reverse chronological order through evolutionary history. Along the way, it introduces readers to various species, referred to as humanity's cousins, as they converge on shared common ancestors. Drawing on scientific principles and research, "The Ancestor's Tale" offers an accessible and thought-provoking exploration of life's origins and the intricate relationships that connect all living beings.
Coextinction and cothreatened refer to the phenomenon of the loss or decline of a host species resulting in the loss or endangerment of another species that depends on it, potentially leading to cascading effects across trophic levels. The term was originated by the authors Stork and Lyal (1993) and was originally used to explain the extinction of parasitic insects following the loss of their specific hosts. The term is now used to describe the loss of any interacting species, including competition with their counterpart, and specialist herbivores with their food source. Coextinction is especially common when a keystone species goes extinct.
Ordination or gradient analysis, in multivariate analysis, is a method complementary to data clustering, and used mainly in exploratory data analysis. In contrast to cluster analysis, ordination orders quantities in a latent space. In the ordination space, quantities that are near each other share attributes, and dissimilar objects are farther from each other. Such relationships between the objects, on each of several axes or latent variables, are then characterized numerically and/or graphically in a biplot.
A phylogenetic network is any graph used to visualize evolutionary relationships between nucleotide sequences, genes, chromosomes, genomes, or species. They are employed when reticulation events such as hybridization, horizontal gene transfer, recombination, or gene duplication and loss are believed to be involved. They differ from phylogenetic trees by the explicit modeling of richly linked networks, by means of the addition of hybrid nodes instead of only tree nodes. Phylogenetic trees are a subset of phylogenetic networks. Phylogenetic networks can be inferred and visualised with software such as SplitsTree, the R-package, phangorn, and, more recently, Dendroscope. A standard format for representing phylogenetic networks is a variant of Newick format which is extended to support networks as well as trees.
The Tree of Life Web Project is an Internet project providing information about the diversity and phylogeny of life on Earth.
Ancestral reconstruction is the extrapolation back in time from measured characteristics of individuals, populations, or species to their common ancestors. It is an important application of phylogenetics, the reconstruction and study of the evolutionary relationships among individuals, populations or species to their ancestors. In the context of evolutionary biology, ancestral reconstruction can be used to recover different kinds of ancestral character states of organisms that lived millions of years ago. These states include the genetic sequence, the amino acid sequence of a protein, the composition of a genome, a measurable characteristic of an organism (phenotype), and the geographic range of an ancestral population or species. This is desirable because it allows us to examine parts of phylogenetic trees corresponding to the distant past, clarifying the evolutionary history of the species in the tree. Since modern genetic sequences are essentially a variation of ancient ones, access to ancient sequences may identify other variations and organisms which could have arisen from those sequences. In addition to genetic sequences, one might attempt to track the changing of one character trait to another, such as fins turning to legs.
Bird extinction is the complete elimination of all species members under the taxonomic class, Aves. Out of all known bird species,, 159 (1.4%) have become extinct, with 226 (2%) being critically endangered. There is a general consensus among ornithologists that if anthropogenic activities continue as current trends suggest, one-third of all bird species, and an even greater proportion of bird populations, will be rendered extinct by the end of the 21st century.
A taxonomic database is a database created to hold information on biological taxa – for example groups of organisms organized by species name or other taxonomic identifier – for efficient data management and information retrieval. Taxonomic databases are routinely used for the automated construction of biological checklists such as floras and faunas, both for print publication and online; to underpin the operation of web-based species information systems; as a part of biological collection management ; as well as providing, in some cases, the taxon management component of broader science or biology information systems. They are also a fundamental contribution to the discipline of biodiversity informatics.
A supertree is a single phylogenetic tree assembled from a combination of smaller phylogenetic trees, which may have been assembled using different datasets or a different selection of taxa. Supertree algorithms can highlight areas where additional data would most usefully resolve any ambiguities. The input trees of a supertree should behave as samples from the larger tree.
DNA barcoding is a method of species identification using a short section of DNA from a specific gene or genes. The premise of DNA barcoding is that by comparison with a reference library of such DNA sections, an individual sequence can be used to uniquely identify an organism to species, just as a supermarket scanner uses the familiar black stripes of the UPC barcode to identify an item in its stock against its reference database. These "barcodes" are sometimes used in an effort to identify unknown species or parts of an organism, simply to catalog as many taxa as possible, or to compare with traditional taxonomy in an effort to determine species boundaries.
The Open Tree of Life is an online phylogenetic tree of life – a collaborative effort, funded by the National Science Foundation. The first draft, including 2.3 million species, was released in September 2015. The Interactive graph allows the user to zoom in to taxonomic classifications, phylogenetic trees, and information about a node. Clicking on a species will return its source and reference taxonomy.
A selection gradient describes the relationship between a character trait and a species' relative fitness. A trait may be a physical characteristic, such as height or eye color, or behavioral, such as flying or vocalizing. Changes in a trait, such as the amount of seeds a plant produces or the length of a bird's beak, may improve or reduce their relative fitness. Changes in traits may accumulate in a population under an ongoing process of natural selection. Understanding how changes in a trait affect fitness helps evolutionary biologists understand the nature of evolutionary pressures on a population.
Phylogenetic signal is an evolutionary and ecological term, that describes the tendency or the pattern of related biological species to resemble each other more than any other species that is randomly picked from the same phylogenetic tree.