Galaxies have different morphology, gas content, and star formation rate (SFR) in dense environments like galaxy clusters. The impact of environmental density extends to several virial radii, and galaxies are pre-processed in filaments and groups, before falling into the cluster. Our goal is to quantify this pre-processing, in terms of gas content and SFR, as a function of density in cosmic filaments. We have observed the two first CO transitions in 163 galaxies with the IRAM-30m telescope, and added 82 measurements from the literature, for a sample of 245 galaxies in the filaments around Virgo. We gathered HI-21cm measurements from the literature, and observed 69 galaxies with the Nanc{c}ay telescope, to complete our sample. We compare our filament galaxies with comparable samples from the Virgo cluster and with the isolated galaxies of the AMIGA sample. We find a clear progression from field, to filament, and cluster galaxies for decreasing SFR, increasing fraction of galaxies in the quenching phase, increasing proportion of early-type galaxies and decreasing gas content. Galaxies in the quenching phase, defined as having SFR below 1/3 of the main sequence rate, are between 0-20% in the isolated sample, while they are 20-60% in the filaments and 30-80% in the Virgo cluster. Processes that lead to star formation quenching are already at play in filaments. They depend mostly on the local galaxy density, while the distance to filament spine is a secondary parameter. While the HI to stellar mass ratio decreases with local density by ~1 dex in the filaments, and ~2 dex in the Virgo cluster with respect to the field, the decrease is much less for the H$_2$ to stellar mass ratio. As the environmental density increases, the gas depletion time decreases, since the gas content decreases faster than the SFR. This suggests that gas depletion significantly precedes star formation quenching.
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