Document Detail

The possibility of de novo assembly of the genome and population genomics of the mangrove rivulus, Kryptolebias marmoratus.
MedLine Citation:
PMID:  22723055     Owner:  NLM     Status:  MEDLINE    
How organisms adapt to the range of environments they encounter is a fundamental question in biology. Elucidating the genetic basis of adaptation is a difficult task, especially when the targets of selection are not known. Emerging sequencing technologies and assembly algorithms facilitate the genomic dissection of adaptation and population differentiation in a vast array of organisms. Here we describe the attributes of Kryptolebias marmoratus, one of two known self-fertilizing hermaphroditic vertebrates that make this fish an attractive genetic system and a model for understanding the genomics of adaptation. Long periods of selfing have resulted in populations composed of many distinct naturally homozygous strains with a variety of identifiable, and apparently heritable, phenotypes. There also is strong population genetic structure across a diverse range of mangrove habitats, making this a tractable system in which to study differentiation both within and among populations. The ability to rear K. marmoratus in the laboratory contributes further to its value as a model for understanding the genetic drivers for adaptation. To date, microsatellite markers distinguish wild isogenic strains but the naturally high homozygosity improves the quality of de novo assembly of the genome and facilitates the identification of genetic variants associated with phenotypes. Gene annotation can be accomplished with RNA-sequencing data in combination with de novo genome assembly. By combining genomic information with extensive laboratory-based phenotyping, it becomes possible to map genetic variants underlying differences in behavioral, life-history, and other potentially adaptive traits. Emerging genomic technologies provide the required resources for establishing K. marmoratus as a new model organism for behavioral genetics and evolutionary genetics research.
Joanna L Kelley; Muh-Ching Yee; Clarence Lee; Elizabeth Levandowsky; Minita Shah; Timothy Harkins; Ryan L Earley; Carlos D Bustamante
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Publication Detail:
Type:  Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't     Date:  2012-06-21
Journal Detail:
Title:  Integrative and comparative biology     Volume:  52     ISSN:  1557-7023     ISO Abbreviation:  Integr. Comp. Biol.     Publication Date:  2012 Dec 
Date Detail:
Created Date:  2012-11-20     Completed Date:  2013-05-14     Revised Date:  2013-12-05    
Medline Journal Info:
Nlm Unique ID:  101152341     Medline TA:  Integr Comp Biol     Country:  England    
Other Details:
Languages:  eng     Pagination:  737-42     Citation Subset:  IM    
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MeSH Terms
Adaptation, Physiological
Behavior, Animal
Cyprinodontiformes / genetics*,  physiology
Genetic Variation*
Hermaphroditic Organisms / genetics*,  physiology
Microsatellite Repeats
Molecular Sequence Annotation
Grant Support

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine

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