. 2023 Jun 12;14:1172816. doi: 10.3389/fpls.2023.1172816

Table 2.

Traits analyzed in a genome-wide association study (GWAS) for a panel of 470 Oryza sativa accessions, composed of rice diversity panel 1 (RDP1, n = 379) (Eizenga et al., 2014) and the aus subset (n = 91) of the 3,000 rice genome project (Li et al., 2014a).

Trait	Abbreviations	Experiment(s) with trait	Descriptions and notes
Emergence (%)	Emerg	Field	$Emergence(%) = (\frac{Total seedlings emerged}{Total seeds sown}) \times 100$
Speed of emergence	SOE	Field	$SOE = (\frac{S_{1}}{t_{1}} + \frac{S_{2}}{t_{2}} + \dots + \frac{S_{n}}{t_{n}}) \div T$ where S₁, S₂, and S_n are the total number of emerged seedlings time t₁, t₂, and t_n corresponding to the days after sowing when emergence count was taken. T represents the total number of counting days (Simon et al., 2012).
Shoot dry weight (g)	SDW	Field	Roots and shoots separated by cutting at scutellar node using four-week-old seedlings. The dry weight was recorded on oven-dried (80°C for 72 h) shoot samples.
Mesocotyl length (cm)	ML	Field, test tube	Length of the axis between the scutellar node and coleoptile node, also described as the first internode. ML was measured on four-week-old seedlings.

Traits were measured in a field trial at Los Baños, Philippines in which seeds were planted at 2 or 8 cm deep (control and stress, respectively), or in a test tube experiment after five days of incubation in the dark at 30°C in a controlled environment chamber.