Taxonomic Databases
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Taxonomic Databases
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 (for example in museums and herbaria); 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. Goals Taxonomic databases digitize scientific biodiversity data and provide access to taxonomic data for research. Taxonomic databases vary in breadth of the groups of taxa and geographical space they seek to include, for example: beetles ...
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Database
In computing, a database is an organized collection of data or a type of data store based on the use of a database management system (DBMS), the software that interacts with end users, applications, and the database itself to capture and analyze the data. The DBMS additionally encompasses the core facilities provided to administer the database. The sum total of the database, the DBMS and the associated applications can be referred to as a database system. Often the term "database" is also used loosely to refer to any of the DBMS, the database system or an application associated with the database. Before digital storage and retrieval of data have become widespread, index cards were used for data storage in a wide range of applications and environments: in the home to record and store recipes, shopping lists, contact information and other organizational data; in business to record presentation notes, project research and notes, and contact information; in schools as flash c ...
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Vascular Plant
Vascular plants (), also called tracheophytes (, ) or collectively tracheophyta (; ), are plants that have lignin, lignified tissues (the xylem) for conducting water and minerals throughout the plant. They also have a specialized non-lignified Tissue (biology), tissue (the phloem) to conduct products of photosynthesis. The group includes most embryophyte, land plants ( accepted known species) excluding mosses. Vascular plants include the clubmosses, Equisetum, horsetails, ferns, gymnosperms (including conifers), and angiosperms (flowering plants). They are contrasted with nonvascular plants such as mosses and green algae. Scientific names for the vascular plants group include Tracheophyta, Tracheobionta and Equisetopsida sensu lato, Equisetopsida ''sensu lato''. Some early land plants (the rhyniophytes) had less developed vascular tissue; the term eutracheophyte has been used for all other vascular plants, including all living ones. Historically, vascular plants were known as "hi ...
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List Of Biodiversity Databases
This is a list of biodiversity databases. Biodiversity databases store taxonomic information alone or more commonly also other information like distribution (spatial) data and ecological data, which provide information on the biodiversity of a particular area or group of living organisms. They may store specimen-level information, species-level information, information on nomenclature, or any combination of the above. Most are available online. Specimen-focused databases contain data about individual specimens, as represented by vouchered museum specimens, collections of specimen photographs, data on field-based specimen observations and morphological or genetic data. Species-focused databases contain information summarised at the species-level. Some species-focused databases attempt to compile comprehensive data about particular species (FishBase), while others focus on particular species attributes, such as checklists of species in a given area (FEOW) or the conservation status ...
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Biodiversity Information Standards (TDWG)
Biodiversity Information Standards (TDWG), originally called the Taxonomic Databases Working Group, is a non-profit scientific and educational association that works to develop open standards for the exchange of biodiversity data, facilitating biodiversity informatics. It is affiliated with the International Union of Biological Sciences. It is best known for the Darwin Core standard for exchanging biodiversity, which has been used by the Global Biodiversity Information Facility to collect millions of biological observations from museums and other organizations from around the world. History TDWG was founded in 1985 as the Taxonomic Databases Working Group; the first meeting took place on September 28–30, 1985, at the Conservatory and Botanical Garden of the City of Geneva in Switzerland. The organisation was formed as an international collaboration to promote the wider and more effective dissemination of information about biological organisms. Its name was changed to Taxonomic Da ...
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Synonym (taxonomy)
In taxonomy, the scientific classification of living organisms, a synonym is an alternative scientific name for the accepted scientific name of a taxon. The Botanical nomenclature, botanical and Zoological nomenclature, zoological codes of nomenclature treat the concept of synonymy differently. * In nomenclature, botanical nomenclature, a synonym is a Binomial nomenclature, scientific name that applies to a taxon that now goes by a different scientific name. For example, Carl Linnaeus, Linnaeus was the first to give a scientific name (under the currently used system of scientific nomenclature) to the Norway spruce, which he called ''Pinus abies''. This name is no longer in use, so it is now a synonym of the current scientific name, ''Picea abies''. * In zoology, moving a species from one genus to another results in a different Binomial nomenclature, binomen, but the name is considered an alternative combination rather than a synonym. The concept of synonymy in zoology is reserved f ...
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Homonym (biology)
In biology, a homonym is a name for a taxon that is identical in spelling to another such name, that belongs to a different taxon. The rule in the International Code of Zoological Nomenclature is that the first such name to be published is the senior homonym and is to be used (it is "valid name (zoology), valid"); any others are junior homonyms and must be replaced with new names. It is, however, possible that if a senior homonym is archaic, and not in "prevailing usage," it may be declared a ''nomen oblitum'' and rendered unavailable, while the junior homonym is preserved as a ''nomen protectum''. :For example: :*Georges Cuvier, Cuvier proposed the genus ''Echidna'' in 1797 for the echidna, spiny anteater. :*However, Johann Reinhold Forster, Forster had already published the name ''Echidna'' in 1777 for a genus of moray eels. :*Forster's use thus has Priority (biology), priority, with Cuvier's being a junior homonym. :*Johann Karl Wilhelm Illiger, Illiger published the replace ...
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Fauna Europaea
Fauna Europaea is a database of the scientific names and distribution of all living multicellular European land and fresh-water animals. It serves as a standard taxonomic source for animal taxonomy within the Pan-European Species directories Infrastructure (PESI). , Fauna Europaea reported that their database contained 235,708 taxon names and 173,654 species names. Its construction was initially funded by the European Commission (2000–2004). The project was co-ordinated by the University of Amsterdam The University of Amsterdam (abbreviated as UvA, ) is a public university, public research university located in Amsterdam, Netherlands. Established in 1632 by municipal authorities, it is the fourth-oldest academic institution in the Netherlan ... which launched the first version in 2004. The Museum für Naturkunde in Berlin took over the hosting of the web portal in 2013, and a new web portal was launched in 2015. References External links * * * * PESI – a taxonomic ba ...
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Catalogue Of Life
The Catalogue of Life (CoL) is an online database that provides an index of known species of animals, plants, fungi, and microorganisms. It was created in 2001 as a partnership between the global Species 2000 and the American Integrated Taxonomic Information System. The Catalogue is used by research scientists, citizen scientists, educators, and policy makers. The Catalogue is also used by the Biodiversity Heritage Library, the Barcode of Life Data System, '' Encyclopedia of Life'', and the Global Biodiversity Information Facility. The Catalogue currently compiles data from 165 peer-reviewed taxonomic databases that are maintained by specialist institutions around the world. the COL Checklist lists 2,067,951 of the world's 2.2m extant species known to taxonomists on the planet at present time. Structure The Catalogue of Life employs a simple data structure to provide information on synonymy, grouping within a taxonomic hierarchy, common names, distribution and ecological e ...
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Integrated Taxonomic Information System
The Integrated Taxonomic Information System (ITIS) is an American partnership of federal agencies designed to provide consistent and reliable information on the taxonomy of biological species. ITIS was originally formed in 1996 as an interagency group within the US federal government, involving several US federal agencies, and has now become an international body, with Canadian and Mexican government agencies participating. The database draws from a large community of taxonomic experts. Primary content staff are housed at the Smithsonian National Museum of Natural History and IT services are provided by a US Geological Survey facility in Denver. The primary focus of ITIS is North American species, but many biological groups exist worldwide and ITIS collaborates with other agencies to increase its global coverage. Reference database ITIS provides an automated reference database of scientific and common names for species. it contains over 839,000 scientific names, synonyms, and ...
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Relational Database
A relational database (RDB) is a database based on the relational model of data, as proposed by E. F. Codd in 1970. A Relational Database Management System (RDBMS) is a type of database management system that stores data in a structured format using rows and columns. Many relational database systems are equipped with the option of using SQL (Structured Query Language) for querying and updating the database. History The concept of relational database was defined by E. F. Codd at IBM in 1970. Codd introduced the term ''relational'' in his research paper "A Relational Model of Data for Large Shared Data Banks". In this paper and later papers, he defined what he meant by ''relation''. One well-known definition of what constitutes a relational database system is composed of Codd's 12 rules. However, no commercial implementations of the relational model conform to all of Codd's rules, so the term has gradually come to describe a broader class of database systems, which at a ...
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Biological Classification
In biology, taxonomy () is the scientific study of naming, defining ( circumscribing) and classifying groups of biological organisms based on shared characteristics. Organisms are grouped into taxa (singular: taxon), and these groups are given a taxonomic rank; groups of a given rank can be aggregated to form a more inclusive group of higher rank, thus creating a taxonomic hierarchy. The principal ranks in modern use are domain, kingdom, phylum (''division'' is sometimes used in botany in place of ''phylum''), class, order, family, genus, and species. The Swedish botanist Carl Linnaeus is regarded as the founder of the current system of taxonomy, having developed a ranked system known as Linnaean taxonomy for categorizing organisms. With advances in the theory, data and analytical technology of biological systematics, the Linnaean system has transformed into a system of modern biological classification intended to reflect the evolutionary relationships among organisms, ...
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International Code Of Zoological Nomenclature
The International Code of Zoological Nomenclature (ICZN) is a widely accepted Convention (norm), convention in zoology that rules the formal scientific name, scientific naming of organisms treated as animals. It is also informally known as the ICZN Code, for its formal author, the International Commission on Zoological Nomenclature (which shares the acronym "ICZN"). The rules principally regulate: * How names are correctly established in the frame of Binomial nomenclature, binominal nomenclature * How to determine whether a given name is Available name, available * Which available name must be used in case of name conflicts (Valid name (zoology), valid name) * How scientific literature must cite names Zoological nomenclature is independent of other systems of nomenclature, for example botanical nomenclature. This implies that animals can have the same generic names as plants (e.g. there is a genus ''Abronia (other), Abronia'' in both animals and plants). The rules and re ...
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