UCE target enrichment of Allorhogas_vulgaris_CNIN3906: whole organism - SRA

SRX11210901: UCE target enrichment of Allorhogas_vulgaris_CNIN3906: whole organism
1 ILLUMINA (NextSeq 500) run: 4M spots, 1G bases, 440.5Mb downloads

Design: DNA was extracted from voucher specimens following a nondestructive technique using the EZ-10 Spin Mini preps Kit (Bio Basic, Toronto, Canada). We followed Branstetter et al.s (2017) protocol for library preparation and capture and enrichment of UCE loci. All DNA extractions were quantified using Qubit 2.0 (Life Technologies). For each sample, up to 50 ng of extracted DNA was fragmented to an average fragment distribution of 400600 bp using either a Bioruptor Pico sonication device (Diagenode Inc., Danville, NJ, USA) or a Qsonica Q800R sonicator (Qsonica LLC, Newton, CT, USA). Genomic libraries were constructed using the Kapa Hyper Prep library preparation kit (Kapa Biosystems Inc., Wilmington, MA, USA) and TruSeq-style dual-indexing barcodes (Glenn et al., 2019). Target enrichment of the DNA libraries was performed using the two enhanced commercial myBaits UCE sets (1.5Kv1 and 2.5Kv2; ArborBiosciences, Ann Arbor, MI, USA) that were specifically designed for the order Hymenoptera and developed by Faircloth et al. (2015) and Branstetter et al. (2017). Pooled enriched libraries were sent to two different locations for sequencing services. Sequencing was performed for a first pool with an Illumina NextSeq v2 300 cycle kit (150-bp pairedend, Illumina Inc., San Diego, CA, USA), whereas the remaining enriched libraries were sequenced using an Illumina NovaSeq 6000 (150-bp paired-end, Illumina Inc., San Diego, CA, USA).

Submitted by: Instituto de Biologia, UNAM

Study: Ultraconserved elements-based systematics reveals evolutionary patterns of host-plant family shifts and phytophagy within a predominantly parasitoid wasp family

PRJNA733199 • SRP325387 • All experiments • All runs

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We conducted a comprehensive phylogenomic study for the doryctine gall-associated genera, with an emphasis on Allorhogas, using ultraconserved elements (UCEs). Based on this estimate of phylogeny we evaluated their taxonomic composition, estimated the timing of origin of the gall-associated clade and divergence of its main subclades, and performed ancestral state reconstruction analyses for life history traits related to their host-plant association.

Sample:

SAMN19775213 • SRS9265208 • All experiments • All runs

Organism: Allorhogas vulgaris

Library:

Name: Allorhogas_vulgaris_CNIN3906

Instrument: NextSeq 500

Strategy: WGS

Source: GENOMIC

Selection: Hybrid Selection

Layout: PAIRED

Runs: 1 run, 4M spots, 1G bases, 440.5Mb

Run	# of Spots	# of Bases	Size	Published
SRR14895590	4,022,790	1G	440.5Mb	2021-06-24

ID:: 14953045

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