Zika virus (ZIKV) is a mosquito-borne and sexually transmitted flavivirus, associated with fetal CNS-damaging malformations during pregnancy in humans. This study documents the viral kinetics, and immune responses in rhesus macaques infected with a clinical ZIKV Brazilian isolate. We evaluated the viral kinetics and immune responses induced after an i.v. infection with a Brazilian ZIKV clinical isolate (HS-2015-BA-01) in rhesus macaques for up to 142 days. ZIKV-specific antibody-secreting cells (ASCs), germinal center (GC) reactions as well as monocyte, DC, NK and T cell frequencies were monitored. ZIKV loads were readily detected in plasma (until day 5 or 7), semen and urine (until day 7 and 14), and saliva (until day 42), but the viremia was rapidly controlled. No detectable clinical manifestations were observed. However, lymph node (LN) hyperplasia was clearly visible post viremia, but associated with low frequencies of ZIKV-specific ASCs in LNs and bone marrow (BM), correlating with low antibody titers. CD14+/CD16- monocytes and myeloid CD11chi DCs decreased in blood, while NK and T cell numbers were only marginally altered during the course of the study. ZIKV infection caused a significant lymphoid tissue activation but limited induction of ZIKV-specific B cells, suggesting that these parameters need to be considered for ZIKV vaccine design.