ddRADSeq of Coccinella septempunctata: whole body - SRA

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SRX22415160: ddRADSeq of Coccinella septempunctata: whole body
1 ILLUMINA (Illumina NovaSeq 6000) run: 3.3M spots, 634.5M bases, 199Mb downloads

Design: We used NucleoSpin Tissue kits (Macherey-Nagel, Duren, Germany) to extract and purify genomic DNA from the whole body of each individual. We processed genomic DNA into different genomic libraries (72 individuals/library) using the double-digestion restriction-site associated DNA sequencing procedure (ddRAD-seq) described in Peterson et al. (2012) (PLOS One, 7: e37135). In brief, we digested DNA with the restriction enzymes MseI and EcoRI (New England Biolabs, Ipswich, MA, USA) and ligated Illumina adaptors including unique 7-bp barcodes to the digested fragments of each individual. We pooled ligation products and size-selected them between 350-450 bp with a Pippin Prep machine (Sage Science, Beverly, MA, USA). We amplified the fragments by PCR with 12 cycles using the iProofTM High-Fidelity DNA Polymerase (BIO-RAD, Hercules, CA, USA) and sequenced the libraries in single-read 201-bp lanes on an Illumina NovaSeq6000 platform at Centro Andaluz de Biologa Molecular y Medicina Regenerativa (CABIMER, Seville, Spain).

Submitted by: Estacion Biologica de Donana (EBD-CSIC)

Study: RADseq for Coccinella septempunctata (Coleoptera: Coccinellidae) and Andrena flavipes (Hymenoptera: Andrenidae)

PRJNA1036856 • SRP470682 • All experiments • All runs

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The goal of this project is to use next generation sequencing (NGS) data to study gene flow between populations established in agricultural and semi-natural landscapes of two key ecosystem service-providing insects, the pest predator Coccinella septempunctata (Coleoptera: Coccinellidae) and the pollinator Andrena flavipes (Hymenoptera: Andrenidae).

Sample:

SAMN38154303 • SRS19446992 • All experiments • All runs

Organism: Coccinella septempunctata

Library:

Name: CSepNLNa03

Instrument: Illumina NovaSeq 6000

Strategy: RAD-Seq

Source: GENOMIC

Selection: Restriction Digest

Layout: SINGLE

Runs: 1 run, 3.3M spots, 634.5M bases, 199Mb

Run	# of Spots	# of Bases	Size	Published
SRR26716171	3,270,786	634.5M	199Mb	2023-12-27

ID:: 30397729

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