Target enrichment sequencing of Rhynchospora affinis (Sample I11883) - SRA

SRX11548962: Target enrichment sequencing of Rhynchospora affinis (Sample I11883)
1 ILLUMINA (Illumina HiSeq 2500) run: 2.2M spots, 667.7M bases, 333.1Mb downloads

Design: Genomic DNA was extracted using the DNEasy Plant Mini Kit (Qiagen, Valencia, California, USA). The protocol was modified following suggestions (Costa and Roberts 2014) to compensate for frequent low yields obtained with the standard protocol. After extraction, genomic DNA was sonicated to a fragment size of ~300-800 bp using a Covaris E220 Focused-ultrasonicator with Covaris microTUBES. Subsequently, library preparation and indexing were performed on a Beckman-Coulter Biomek FXp liquid-handling robot following a protocol modified from Meyer and Kircher (2010). A size-selection step was also applied after blunt-end repair using SPRI select beads (Beckman-Coulter Inc.; 0.9x ratio of bead to sample volume). Indexed samples were then pooled at approximately equal quantities (typically 16-18 samples per pool), and then each pool was enriched using the Angiosperm v.1 kit (Agilent Technologies Custom SureSelect XT kit ELID 623181). After enrichment, 34 enrichment reactions were pooled in equal quantities for each sequencing lane and sequenced on PE150 Illumina HiSeq 2500 lanes at the Translational Science Laboratory in the College of Medicine at Florida State University

Submitted by: Universidade Federal de Pernambuco

Study: A VIEW OF RHYNCHOSPOREAE (CYPERACEAE) DIVERSIFICATION BEFORE AND AFTER THE APPLICATION OF ANCHORED PHYLOGENOMICS ACROSS THE ANGIOSPERMS

PRJNA672127 • SRP288642 • All experiments • All runs

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Use of anchored phylogenomics to investigate evolutionary relationships, morphological diversification (insect versus wind pollination, C4 photosynthesis, achene morphology), habitat shifts, biogeography and repetitive DNA in beaksedges (tribe Rhynchosporeae, family Cyperaceae).

Sample:

SAMN20350079 • SRS9584433 • All experiments • All runs

Organism: Rhynchospora affinis

Library:

Name: I11883

Instrument: Illumina HiSeq 2500

Strategy: Targeted-Capture

Source: GENOMIC

Selection: Hybrid Selection

Layout: PAIRED

Runs: 1 run, 2.2M spots, 667.7M bases, 333.1Mb

Run	# of Spots	# of Bases	Size	Published
SRR15243134	2,225,799	667.7M	333.1Mb	2021-07-26

ID:: 15461111

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