Cenostigma pyramidale
is a native legume of the Brazilian semiarid region which performs symbiotic association with arbuscular mycorrhizal fungi (AMF), being an excellent model for studying genes associated with tolerance against abiotic and biotic stresses. In RT-qPCR approach, the use of reference genes is mandatory to avoid incorrect interpretation of the relative expression. This study evaluated the stability of ten candidate reference genes (CRGs) from
C
.
pyramidale
root tissues under salt stress (three collection times) and associated with AMF (three different times of salinity). The
de novo
transcriptome was obtained via RNA-Seq sequencing. Three algorithms were used to calculate the stability of CRGs under different conditions: (i) global (Salt, Salt+AMF, AMF and Control, and collection times), (ii) only non-inoculated plants, and (iii) AMF (only inoculated plants).
HAG2
,
SAC1
,
aRP3
were the most stable CRGs for global and AMF assays, whereas
HAG2
,
SAC1
,
RHS1
were the best for salt stress assay. This CRGs were used to validate the relative expression of two up-regulated transcripts in Salt2h (
RAP2-3
and
PIN8
). Our study provides the first set of reference genes for
C
.
pyramidale
under salinity and AMF, supporting future researches on gene expression with this species.