The manifestation of the dark Universe begun with unexpected large-scale astronomical observations. Here we are investigating the possible origin of small-scale anomalies, like that of the annually observed temperature anomalies in the stratosphere (38.5 - 47.5 km). Unexpectedly within known physics, we observe a planetary relationship of the daily stratospheric temperature distribution. Interestingly, its spectral shape does not match concurrent solar activity (F10.7 line), or Sun's EUV emission, whose impact on the atmosphere is unequivocal; this different behaviour points at an additional energy source of exo-solar origin. A viable concept behind such observations is based on possible gravitational focusing by the Sun and its planets towards the Earth of low-speed invisible (streaming) matter. When the Sun-Earth direction aligns with an invisible stream, its influx towards the Earth gets temporally enhanced. We denote generic constituents from the dark Universe as "invisible matter'', in order to distinguish them from ordinary dark matter candidates like axions or WIMPs, which cannot have any noticeable impact. Moreover, the observed peaking planetary relations exclude on their own any conventional explanation, be it due to any remote planetary interaction, or, intrinsic to the atmosphere. Only a somehow "strongly'' interacting invisible streaming matter with the little screened upper stratosphere (rho(overhead) approximate to 1 gr/cm(3)) can be behind the occasionally observed temperature increases. We also estimate an associated energy deposition O(similar to W/m(2)), which is variable over the 11-years solar cycle. For the widely assumed picture of a quasi not-interacting dark Universe, this new exo-solar energy is enormous. Noticeably, our observationally derived conclusions are not in conflict with the null results of underground dark matter experiments, given that a similar planetary relationship is not observed even underneath the stratosphere (16-31 km). Interestingly, the atmosphere is uninterruptedly monitored since decades. Therefore, it can serve also parasitically as a novel (low threshold) detector for the dark Universe, with built-in spatiotemporal resolution and the Sun acting temporally as signal amplifier. Known phenomena (e.g., NAO, QBO and ENSO) influencing the general atmospheric circulation do not interfere with this work, since they occur geographically elsewhere, and, they have different periodicities. In future, analysing more observations, for example, from the anomalous ionosphere, or, the transient sudden stratospheric warmings, the nature of the assumed "invisible streams'' could be deciphered.