Target enrichment of Lobelia tupa - SRA

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SRX27122745: Target enrichment of Lobelia tupa
1 ILLUMINA (Illumina NovaSeq 6000) run: 3.9M spots, 899M bases, 365.8Mb downloads

Design: Two hundred to 500 mg of dried leaf tissue was homogenized using a FastPrep-24TM 5G bead beating and lysis system (MP Biomedicals, 237 Solon, Ohio, United States). DNA extraction followed a modified sorbitol extraction protocol (torchov et al. 2000). Double-stranded DNA concentration was quantified using a Qubit 4 Fluorometer (Invitrogen, Waltham, Massachusetts, United States). Fragment size was assessed on a 2% agarose gel. Extractions from samples with low DNA concentrations were repeated and subsequently pooled to obtain a sufficient DNA quantity (250 ng) for successful library preparation. However, twelve successfully sequenced samples were below this threshold. Library preparation, target enrichment, and sequencing of 150-bp paired-end reads were carried out at RAPiD Genomics LLC (Gainesville, Florida, USA) using an Illumina HiSeq 3000 (Illumina Inc., San Diego, California, USA). Samples with a high concentration of high molecular weight DNA were sheared during library preparation. Shearing of DNA extracts with degraded DNA (as confirmed by gel electrophoresis) was bypassed. A probe set specifically designed to target 745 low-copy nuclear loci within Burmeistera, a closely related genus, was used for target enrichment (Bageley et al., 2020) and 150 bp paired-end reads were sequenced in an Illumina HiSeq 3000.

Submitted by: Louisiana State University

Study: Neotropical Bellflowers (Campanulaceae)

PRJNA1199556 • SRP552338 • All experiments • All runs

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Target sequence capture data with a probeset specifically designed for Neotropical bellflowers. Samples include species from Centropogon subgenus Centropogon (ingroup) and Siphocampylus species as well as other Centropogon species (outgroups)

Sample: not applicable

SAMN45881205 • SRS23580180 • All experiments • All runs

Organism: Lobelia tupa

Library:

Name: LL350_L_tupa

Instrument: Illumina NovaSeq 6000

Strategy: Targeted-Capture

Source: GENOMIC

Selection: Reduced Representation

Layout: PAIRED

Runs: 1 run, 3.9M spots, 899M bases, 365.8Mb

Run	# of Spots	# of Bases	Size	Published
SRR31760923	3,928,927	899M	365.8Mb	2024-12-18

ID:: 36602952

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