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SRX4374610: Whole genome sequencing of Cedrela fissilis
1 ILLUMINA (Illumina HiSeq 3000) run: 2.9M spots, 588.5M bases, 200.7Mb downloads

Design: Shotgun whole genome sequencing of Cedrela species. Libraries were multiplexed for sequencing of 96 individuals per lane.
Submitted by: Oregon State University
Study: Cedrela spp. Hybridization and Targeted Enrichment, short read sequencing, partial genome assembly, transcriptome assembly, probe design
show Abstracthide Abstract
This project is part of the dissertation research of Kristen Noelle Finch at Oregon State University, and involves many parts:1. RNA-seq of C. odorata, transcriptome assembly, and hybridization probe selection.2. DNA-seq of C. odorata to supplement hybridization probe selection and for the assembly of organellar genomes.3. Hybridization capture, targeted enrichment, and short-read sequencing of six sympatric species: C. angustifolia, C. fissilis, C. montana, C. nebulosa, C. odorata, and C. saltensis. Resulting reads will be used for multiple alignment, variant calling (SNPs), and statistical analysis.4. Short-read low coverage sequencing of six sympatric species: C. angustifolia, C. fissilis, C. montana, C. nebulosa, C. odorata, and C. saltensis. Resulting reads will be used for partial-complete organellar genome assembly.The purpose of this project is to define the population structure across the southern distribution of Cedrela spp. The goal of analysis is to identify spatially and taxonomically informative regions for subsequent marker development for wood specimen identification to the species and provenance levels.
Sample: DNA of a leaflet from herbarium specimen. Hybridization capture, targeted enrichment, and PE-100 sequencing Illumina HiSeq 3000.
SAMN06290839 • SRS3532104 • All experiments • All runs
Library:
Name: CEFI_258_ced219_wgs
Instrument: Illumina HiSeq 3000
Strategy: WGS
Source: GENOMIC
Selection: RANDOM
Layout: PAIRED
Runs: 1 run, 2.9M spots, 588.5M bases, 200.7Mb
Run# of Spots# of BasesSizePublished
SRR75054452,913,368588.5M200.7Mb2018-07-12

ID:
5939528

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