Draft Genome Assembly and Population Genetics of an Agricultural Pollinator, the Solitary Alkali Bee (Halictidae: Nomia melanderi).

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State: Public
Version: Final published version
License: CC BY 4.0
Serval ID
serval:BIB_403A684B1A7B
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
Draft Genome Assembly and Population Genetics of an Agricultural Pollinator, the Solitary Alkali Bee (Halictidae: Nomia melanderi).
Journal
G3
Author(s)
Kapheim K.M., Pan H., Li C., Blatti C., Harpur B.A., Ioannidis P., Jones B.M., Kent C.F., Ruzzante L., Sloofman L., Stolle E., Waterhouse R.M., Zayed A., Zhang G., Wcislo W.T.
ISSN
2160-1836 (Electronic)
ISSN-L
2160-1836
Publication state
Published
Issued date
07/03/2019
Peer-reviewed
Oui
Volume
9
Number
3
Pages
625-634
Language
english
Notes
Publication types: Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S.
Publication Status: epublish
Abstract
Alkali bees (Nomia melanderi) are solitary relatives of the halictine bees, which have become an important model for the evolution of social behavior, but for which few solitary comparisons exist. These ground-nesting bees defend their developing offspring against pathogens and predators, and thus exhibit some of the key traits that preceded insect sociality. Alkali bees are also efficient native pollinators of alfalfa seed, which is a crop of major economic value in the United States. We sequenced, assembled, and annotated a high-quality draft genome of 299.6 Mbp for this species. Repetitive content makes up more than one-third of this genome, and previously uncharacterized transposable elements are the most abundant type of repetitive DNA. We predicted 10,847 protein coding genes, and identify 479 of these undergoing positive directional selection with the use of population genetic analysis based on low-coverage whole genome sequencing of 19 individuals. We found evidence of recent population bottlenecks, but no significant evidence of population structure. We also identify 45 genes enriched for protein translation and folding, transcriptional regulation, and triglyceride metabolism evolving slower in alkali bees compared to other halictid bees. These resources will be useful for future studies of bee comparative genomics and pollinator health research.
Keywords
Animals, Bees/genetics, Female, Genetics, Population, Genome, Insect, Male, Molecular Sequence Annotation, Phylogeny, Whole Genome Sequencing, alternative pollinators, population genetics, sociogenomics, solitary bee, transposable elements
Pubmed
Web of science
Open Access
Yes
Funding(s)
Swiss National Science Foundation / Careers / PP00P3_170664
Create date
18/01/2019 10:14
Last modification date
04/01/2020 7:17
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