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SRX20555841: Sorghum day 21 RT RNAlater treatment: low coverage WGS
1 OXFORD_NANOPORE (PromethION) run: 2.1M spots, 3.2G bases, 2.9Gb downloads

Design: SQK-NBD114.96
Submitted by: Salk
Study: Generating high quality reference genomes from field collected specimens by optimizing preservation
show Abstracthide Abstract
Sample preservation challenges efforts to generate high-quality reference genomes or pangenomes for all 2 million+ plant and animal species. Here we compare the impacts of storage methods including solutions, temperature, and time on DNA quality and long-read sequencing quality in 10 fish and 4 plant species. We show 95 percent ethanol protects against sample degradation for fish blood (22 C, less than or equal to 6 weeks) and plant tissue (4 C, less than or equal to 3 weeks). Using Nanopore, we assemble high quality reference genomes from three fish and two plant species (contig N50: 6.5-13.8Mb; BUSCO completeness: 94.4-99.2 percent; QV: 43.8 for M. esculenta).
Sample: Sorghum day 21 RT RNAlater treatment
SAMN35546957 • SRS17862400 • All experiments • All runs
Organism: Sorghum bicolor
Library:
Name: L001-722
Instrument: PromethION
Strategy: WGS
Source: GENOMIC
Selection: RANDOM
Layout: SINGLE
Runs: 1 run, 2.1M spots, 3.2G bases, 2.9Gb
Run# of Spots# of BasesSizePublished
SRR247828572,078,3353.2G2.9Gb2023-09-07

ID:
27979900

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