Information on genetic diversity and its relationship is fundamental for the preservation and improvement of orchid germplasm. For Dendrobium, such information, particularly by a meta-analysis, was limited. The study aimed to assess the genetic diversity and relationships of Dendrobium germplasm based on bioactive compounds, their biological activities, and plant organs by a meta-analysis approach. A total of 51 species of Dendrobium have been collected and identified as producing bioactive compounds, including their biological activities and plant organs (parts). In this case, the highest genetic diversity was shown by polyphenols (H' index = 0.90) as substances, neuroprotective (H' = 0.80) for activity, and the leaf organ with an H' index of 0.89. The UPGMA analysis showed that Dendrobium grouped into seven clusters, where the furthest relationship was presented by D. moschatum and D. catenatum. However, the closest relation was by D. scabrilingue with D. delacourii, including D. snowflake and D. ovatum. Following these parameters, Dendrobium shows unique genetic diversity and relationships. Thus, it is valuable for future preservation and improvement programs of Dendrobium.