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Abstract BackgroundCapturing the genetic diversity of wild relatives is crucial for improving crops because wild species are valuable sources of agronomic traits that are essential to enhance the sustainability and adaptability of domesticated cultivars. Genetic diversity across a genus can be captured in super-pangenomes, which provide a framework for interpreting genomic variations. ResultsHere we report the sequencing, assembly, and annotation of nine wild North American grape genomes, which are phased and scaffolded at chromosome scale. We generate a reference-unbiased super-pangenome using pairwise whole-genome alignment methods, revealing the extent of the genomic diversity among wild grape species from sequence to gene level. The pangenome graph captures genomic variation between haplotypes within a species and across the different species, and it accurately assesses the similarity of hybrids to their parents. The species selected to build the pangenome are a great representation of the genus, as illustrated by capturing known allelic variants in the sex-determining region and for Pierce’s disease resistance loci. Using pangenome-wide association analysis, we demonstrate the utility of the super-pangenome by effectively mapping short reads from genus-wide samples and identifying loci associated with salt tolerance in natural populations of grapes. ConclusionsThis study highlights how a reference-unbiased super-pangenome can reveal the genetic basis of adaptive traits from wild relatives and accelerate crop breeding research.
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A new species of Petalacmis firefly from Bolivia, with a key to species (Coleoptera, Lampyridae)
Petalacmis Olivier, 1908 is a poorly known genus of firefly endemic to South America and is currently the only member of the subfamily Lampyrinae, tribe Lampyrini known to occur on the continent. Here, we describe a new species, Petalacmis triplehorni sp. nov. from Bolivia and compare it to the two other described species in the genus. A key to Petalacmis species based on male traits, as well as illustrations of morphological features, are given in detail for the first time. We present unique, previously neglected traits of Petalacmis species and compare them to other Lampyrinae.
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- PAR ID:
- 10340655
- Date Published:
- Journal Name:
- ZooKeys
- Volume:
- 1092
- ISSN:
- 1313-2989
- Page Range / eLocation ID:
- 63 to 77
- Format(s):
- Medium: X
- Sponsoring Org:
- National Science Foundation
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- Free Publicly Accessible Full Text
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Accepted Manuscript1.0
- Journal Article:
- https://doi.org/10.3897/zookeys.1092.80464
