Large-Scale Genotyping-by-Sequencing Indicates High Levels of Gene Flow in the Deep-Sea Octocoral Swiftia simplex (Nutting 1909) on the West Coast of the United States
| Autor: | M. E. Clarke, M. V. Everett, Park Lk, Aimee A. Keller, C. E. Whitmire, Elz Ae, Berntson Ea |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2016 |
| Předmět: |
0106 biological sciences
0301 basic medicine Heredity Genotyping Techniques Molecular biology Restriction Mapping Biodiversity Marine and Aquatic Sciences lcsh:Medicine Biochemistry 01 natural sciences Geographical locations Gene flow Sequencing techniques lcsh:Science Energy-Producing Organelles Phylogeny Principal Component Analysis Panmixia education.field_of_study Multidisciplinary Geography Ecology Sequence analysis Anthozoa Mitochondria Genetic Mapping Corals Conservation biology Cellular Structures and Organelles Research Article Gene Flow Heterozygote Oceans and Seas Population Marine Biology Variant Genotypes Bioenergetics Biology Polymorphism Single Nucleotide 010603 evolutionary biology 03 medical and health sciences Species Specificity Genetics Animals education DNA sequence analysis Isolation by distance Evolutionary Biology Metadata Population Biology Base Sequence lcsh:R Biology and Life Sciences Reproducibility of Results Cell Biology Sequence Analysis DNA United States Research and analysis methods Molecular biology techniques Genetics Population 030104 developmental biology Haplotypes Sample Size North America Earth Sciences Biological dispersal lcsh:Q People and places Population Genetics |
| Zdroj: | PLoS ONE, Vol 11, Iss 10, p e0165279 (2016) PLoS ONE |
| ISSN: | 1932-6203 |
| Popis: | Deep-sea corals are a critical component of habitat in the deep-sea, existing as regional hotspots for biodiversity, and are associated with increased assemblages of fish, including commercially important species. Because sampling these species is so difficult, little is known about the connectivity and life history of deep-sea octocoral populations. This study evaluates the genetic connectivity among 23 individuals of the deep-sea octocoral Swiftia simplex collected from Eastern Pacific waters along the west coast of the United States. We utilized high-throughput restriction-site associated DNA (RAD)-tag sequencing to develop the first molecular genetic resource for the deep-sea octocoral, Swiftia simplex. Using this technique we discovered thousands of putative genome-wide SNPs in this species, and after quality control, successfully genotyped 1,145 SNPs across individuals sampled from California to Washington. These SNPs were used to assess putative population structure across the region. A STRUCTURE analysis as well as a principal coordinates analysis both failed to detect any population differentiation across all geographic areas in these collections. Additionally, after assigning individuals to putative population groups geographically, no significant FST values could be detected (FST for the full data set 0.0056), and no significant isolation by distance could be detected (p = 0.999). Taken together, these results indicate a high degree of connectivity and potential panmixia in S. simplex along this portion of the continental shelf. |
| Databáze: | OpenAIRE |
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