# Phenotypic, Genetic, and Metabolite Variability among Genotypes of _Vicia sativa_ L.
## 3 Results
### Genetic Diversity Estimated by SCoT Markers  
To assess the genetic diversity at different loci for 30 individuals from the six _V. sativa_ populations, 11 SCoT markers were analyzed (Table S2, Supplementary Material). The allele size ranged from 250 bp at the ScoT13 loci to 4000 bp at the ScoT61, ScoT30, ScoT34, ScoT51, and ScoT70 loci (Table 4). The number of different alleles (_Na_) per locus were on average from 0.904 for the ScoT13 locus to 1.717 for the ScoT6 locus (Table 4). The effective alleles number (_Ne_) ranged from 1.225 at the ScoT13 locus to 1.496 at the ScoT66 locus (Table 4). The highest diversity (_H_) value was observed for the ScoT61 locus (0.384), while the ScoT13 locus showed the lowest value (0.170) (Table 4). All of the analyzed markers exhibited moderate polymorphism, indicated by the polymorphic information content (PIC) values that ranged from 0.375 (SCoT1, ScoT61, ScoT30 and ScoT15) to 0.409 (SCoT6) (Table 4). A total of 187 loci were obtained from the 11 selected ScoT primers. Of all the loci analyzed, 55.26% were polymorphic and 44.74% were monomorphic within or between the commercial cultivars and the populations. The BK27 population had the highest number of private bands (four), followed by the rest of the _V. sativa_ populations. The genetic diversity estimates revealed that across the studied _V. sativa_ populations, the number of different alleles (Na) ranged from 1.316 in BK29 to 1.449 in BK45, whilst the number of effective alleles (Ne) ranged from 1.326 in BK27 to 1.425 in BK45 (Table 5). The gene diversity (GD) within the studied genetic material of _V. sativa_ ranged from 0.242 to 0.307 and the Shannon's \begin{table}
\begin{tabular}{l c c c c c c c} \hline \hline \multirow{2}{*}{**Locus**} & \multicolumn{2}{c}{**Fragment Size**} & \multirow{2}{*}{**Na**} & \multirow{2}{*}{**Ne**} & \multirow{2}{*}{**I**} & \multirow{2}{*}{**GD**} & \multirow{2}{*}{**H**} & \multirow{2}{*}{**PIC**} \\  & & & & & & & & \\ \hline ScoT1 & 450–3000 & 1.237 & 1.371 & 0.313 & 0.213 & 0.267 & 0.375 \\ ScoT61 & 600–4000 & 1.676 & 1.533 & 0.452 & 0.307 & 0.384 & 0.375 \\ ScoT30 & 300–4000 & 1.104 & 1.300 & 0.248 & 0.170 & 0.213 & 0.375 \\ ScoT13 & 250–3000 & 0.904 & 1.225 & 0.204 & 0.136 & 0.170 & 0.403 \\ ScoT15 & 300–3000 & 1.346 & 1.378 & 0.321 & 0.218 & 0.273 & 0.375 \\ ScoT66 & 500–3000 & 1.510 & 1.496 & 0.416 & 0.284 & 0.355 & 0.376 \\ ScoT33 & 300–3500 & 1.343 & 1.361 & 0.307 & 0.209 & 0.261 & 0.379 \\ ScoT34 & 300–4000 & 1.353 & 1.288 & 0.261 & 0.174 & 0.218 & 0.392 \\ ScoT51 & 500–4000 & 1.472 & 1.466 & 0.393 & 0.264 & 0.331 & 0.388 \\ ScoT70 & 300–4000 & 1.358 & 1.401 & 0.332 & 0.227 & 0.284 & 0.376 \\ ScoT6 & 700–3500 & 1.717 & 1.488 & 0.422 & 0.285 & 0.357 & 0.409 \\ Average & & 1.365 & 1.390 & 0.334 & 0.226 & 0.283 & 0.384 \\ \hline \hline \end{tabular}  
* Na = number of different alleles, Ne = number of effective alleles = \(1/(\text{p2}+\text{q2})\), I = [PERSON]’s information index = \(-1\times(\text{p}\times\text{Ln}\,(\text{p})+\text{q}\times\text{Ln}(\text{q}))\), GD = gene diversity, H = diversity = \(1-(\text{p2}+\text{q2})\), uh = unbiased diversity = \((\text{N}/(\text{N}-1))\times\text{h}\), PIC = polymorphism information content = \(1-\text{Z}(\text{p})\)2.  
\end{table} 
Table 4: Characteristics of the SCoT markers used in this study for analyzing the diversity of the _V. sativa_ populations. Figure 3: PCA results visualized graphically. (**a**) A plot with the percentage of the variation explained by the first two principal components (63.1%) and the contribution of the varieties to each dimension. (**b**) A bar plot depicting the contribution of the _V. sativa_ varieties to the first two principal components. information index (I) ranged from 0.287 to 0.361. Additionally, BK45 showed higher levels of genetic diversity for the [PERSON]'s information index (0.307) compared to commercials and to other populations. Also, BK45 exhibited the highest level of polymorphism (P = 62.03%), and BK27 exhibited the lowest (P = 50.80%) (Table 5).