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SRX19793620: RADcap target enrichment of cv_pectoralis_MLZ_35867
1 ILLUMINA (Illumina NovaSeq 6000) run: 2.2M spots, 660.8M bases, 234.1Mb downloads

Design: We used 250 ng of DNA in 25 uL volume to prepare dual-indexed genomic libraries of each sample at volume reactions using the KAPA Hyper Prep library preparation kit and custom indexes (Glenn et al., 2019). We combined the libraries into pools containing between six and eight samples for enrichment, and we kept tissues and toepads in separate pools. We enriched each library pool for a set of 2,351 genus-specific RAD loci (Salter et al. 2023) using a MYbaits Custom Kit from Daicel Arbor Biosciences. After enrichment, we performed 14-16 cycles of PCR recovery, removed adapter-dimers using a Qiagen GeneRead Size Selection Kit, and collected paired-end 150 bp sequence data two lanes on an Illumina NovaSeq 6000.
Submitted by: Louisiana State University
Study: An island endemic born out of hybridization between introduced lineages
show Abstracthide Abstract
Humans have profoundly impacted the distribution of plant and animal species over thousands of years. The most direct example of these effects is human-mediated movement of individuals, either through translocation of individuals within their range or the introduction of species to new habitats. While human involvement may be suspected in species with obvious range disjunctions, it can be difficult to detect natural versus human-mediated dispersal events for populations at the edge of a species' range, and this uncertainty muddles how we understand the evolutionary history of populations and broad biogeographic patterns. Studies combining genetic data with archeological, linguistic, and historical evidence have confirmed prehistoric examples of human-mediated dispersal; however, it is unclear whether these methods can disentangle recent dispersal events, such as species translocated by European colonizers during the past 500 years. We use genomic DNA from historical specimens and historical records to evaluate three hypotheses regarding the timing and origin of Northern Bobwhites (Colinus virginianus) in Cuba, whose status as an endemic or introduced population has long been debated. We discovered that bobwhites from southern Mexico arrived in Cuba between the 12th and 16th centuries, followed by the subsequent introduction of bobwhites from the southeastern USA to Cuba between the 18th and 20th centuries. These dates suggest the introduction of bobwhites to Cuba was human-mediated and concomitant with Spanish colonial shipping routes between Veracruz, Mexico and Havana, Cuba during this period. Our results identify endemic Cuban bobwhites as a genetically distinct population born of hybridization between divergent introduced lineages.
Sample: Colinus virginianus pectoralis MLZ 35867
SAMN33905332 • SRS17155992 • All experiments • All runs
Library:
Name: cv_pectoralis_MLZ_35867
Instrument: Illumina NovaSeq 6000
Strategy: WGS
Source: GENOMIC
Selection: Hybrid Selection
Layout: PAIRED
Runs: 1 run, 2.2M spots, 660.8M bases, 234.1Mb
Run# of Spots# of BasesSizePublished
SRR239896552,202,699660.8M234.1Mb2023-05-04

ID:
27138292

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