CaliPopGen: A genetic and life history database for the fauna and flora of California

CaliPopGen: A genetic and life history database for the fauna and flora of California

CaliPopGen is a database of population genetic data for native and naturalized eukaryotic species in California, USA. It summarizes the published literature (1985–2020) for 5,453 unique populations with genetic data from more than 187,394 individuals and 448 species (513 species plus subspecies) acr...

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Bibliographic Details
Published in:Scientific data Vol. 9; no. 1; p. 380
Main Authors: Beninde, Joscha, Toffelmier, Erin M., Andreas, Aarron, Nishioka, Celina, Slay, Meryl, Soto, Ashley, Bueno, Justin P, Gonzalez, Germar, Pham, Hannah V., Posta, Molly, Pace, Jordan L., Shaffer, H. Bradley
Format: Journal Article
Language:English
Published: London Nature Publishing Group UK 05-07-2022
Nature Publishing Group
Nature Portfolio
Subjects:
631/158/2452
631/158/670
631/158/672
631/181/2474
Animals
California
Data Descriptor
Databases, Factual
DNA sequencing
Ecosystem
Fecundity
Fishes - genetics
Genetic analysis
Genetic diversity
Genetics, Population
Humanities and Social Sciences
Humans
Indigenous species
Isoenzymes
Life history
Life span
Microsatellite Repeats
Microsatellites
Mitochondrial DNA
multidisciplinary
Population genetics
Science
Science (multidisciplinary)
Single-nucleotide polymorphism
Taxonomy
California
United States > US
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Description
Summary:CaliPopGen is a database of population genetic data for native and naturalized eukaryotic species in California, USA. It summarizes the published literature (1985–2020) for 5,453 unique populations with genetic data from more than 187,394 individuals and 448 species (513 species plus subspecies) across molecular markers including allozymes, RFLPs, mtDNA, microsatellites, nDNA, and SNPs. Terrestrial habitats accounted for the majority (46.4%) of the genetic data. Taxonomic groups with the greatest representation were Magnoliophyta (20.31%), Insecta (13.4%), and Actinopterygii (12.85%). CaliPopGen also reports life-history data for most included species to enable analyses of the drivers of genetic diversity across the state. The large number of populations and wide taxonomic breadth will facilitate explorations of ecological patterns and processes across the varied geography of California. CaliPopGen covers all terrestrial and marine ecoregions of California and has a greater density of species and georeferenced populations than any previously published population genetic database. It is thus uniquely suited to inform conservation management at the regional and state levels across taxonomic groups. Measurement(s) genetic variation Technology Type(s) DNA sequencing Factor Type(s) Kingdom • Phylum • TaxonGroup • MarkerType • SampleSize • GeneTarget • NumMarkers • YearStart • YearEnd • PopName • LongitudeDD • LatitudeDD • CoordError • HabitatType • Lifespan • Fecundity • LifetimeReprodOutput • AgeSexMat • NumBreedingEvents • ReprodMode • BodyLength • AdultMass • CANativeStatus • CESAStatus • SSCStatus • ESAStatus • LifeCycle • AdultHeight • SelfCompatibility • MonoeciousDioecious • Asexual • PollinationMode • SeedDispMode • MassPerSeed • CAEndemicStatus Sample Characteristic - Organism eukaryota Sample Characteristic - Location California
Bibliography:ObjectType-Article-1
SourceType-Scholarly Journals-1
ObjectType-Feature-2
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ObjectType-Undefined-3
ISSN:2052-4463
2052-4463
DOI:10.1038/s41597-022-01479-z