Combined genotype and phenotype analyses reveal patterns of genomic adaptation to local environments in the subtropical oak Quercus acutissima
Cite this dataset
Gao, Jie et al. (2020). Combined genotype and phenotype analyses reveal patterns of genomic adaptation to local environments in the subtropical oak Quercus acutissima [Dataset]. Dryad. https://doi.org/10.5061/dryad.q2bvq83fv
The RAD-seq library was prepared using 200ng DNA from each individual tree; after extraction, DNA samples were digested with the restriction enzyme EcoRI. Illumina sequencing adaptor and a unique barcode were ligated to EcoRI-digested fragments. All the individual libraries were pooled and randomly sheared, and amplified by PCR using Illumina sequencing primers. DNA fragments with insert fragment sizes from 200–400 bp were isolated from a 2.0% agarose gel using QiaQuick gel extraction kits (Qiagen, Inc., Hilden, Germany). These fragments were then double–end sequenced on an Illumina HiSeq2500 (Illumina Inc., San Diego, USA).
We scored the phenotypic traits of three 1-year-old seedlings that were randomly selected from each population grown in the common garden.The traits that we measured included total mass, leaf area, leaf mass fraction (LMF, g leaf mass g-1 total mass), stem mass fraction (SMF, g stem mass g-1 total mass), root mass fraction (RMF, g root mass g-1 total mass), and specific taproot length (STRL, mm root length g-1 root mass), which measures the root extension achieved per unit root mass. LMF, SMF, and RMF represent biomass partitioning among the major organs, and STRL represents the efficiency of soil depth penetration to access deeper water.
National Natural Science Foundation of China, Award: 31300560
National Natural Science Foundation of China, Award: 31470436
National Natural Science Foundation of China, Award: 31770701