Using the hydrolysis of tetraethylorthosilicate, a uniform and conformal layer of porous SiO2 with controlled thickness has been coated onto the oblique angle deposited Ag nanorod (AgNR) array to form an aligned AgNR-SiO2 core-shell array nanostructure. The morphology, optical property, SERS response, and surface wettability of the AgNRs with different SiO2 shell thicknesses have been obtained by multiple characterization techniques. The morphological characterization shows that each AgNR on the array is coated with a uniform and porous silica shell independently and the growth of shell thickness follows a linear function versus the coating time. Thickening of the shell induces a monotonic decrease of the apparent contact angle, red-shift: of the transverse mode of the localized surface plasmon resonance peak, and makes the SiO2 shell more compact. The SERS response of 4-Mercaptophenol on these substrates exhibits an exponential decay behavior with the increasing coating time, which is ascribed to the decreasing Ag surface coverage of core-shell nanorods. Under the assumption that the Ag surface coverage is proportional to the SERS intensity, one can estimate the evolution of SiO2 coverage on AgNRs. Such coverage evolution can be used to qualitatively explain the LSPR wavelength change and quantitatively interpret the contact angle change based on a double Cassie's law.