Yam is an important staple starchy crop associated with food security and income generation. There are diverse yam species that respond differently to various manipulations under the aeroponic system. Particularly farmerpreferred varieties (landrace) have a slow growth rate in vitro and as well as when subjected to an aeroponic system. This study investigated how some nine housekeeping genes were regulated in yam accessions. Ribonucleic acid (RNA) was extracted, converted to complimentary Deoxyribonucleic acid (cDNA), and subjected to Real-Time PCR analysis. The results revealed that most reference genes used were upregulated in the improved varieties. The genes β-tubulin, Elongation factor 1-α, Malate dehydrogenase, Ubiquitin, and Tip41-Like Family Protein were upregulated in the landrace which was farmer-preferred. However, 18S Ribosomal RNA and Cycloartenol Synthase Contig7815 consistently showed low expression across all genotypes. This study has provided necessary information vital for selecting a suitable reference gene for yam gene expression analysis for researchers.