Meaning of Rect and Train of Rect Spectra
Why does repeating periodically a signal means removing some frequency intervals from the single pulse spectrum?

Because your signal is periodic. A periodic signal only contains frequencies that are integer multiples of the signal's repetition frequency. In other words, if the signal is periodic all of it's constituent parts must be periodic as well.

In time domain, frequency may be seen as the speed of variation of the signal.

Not really. &quot;speed of variation&quot; would be the first derivate of the signal. It's somewhat related to higher frequencies since the Fourier Transform of a differentiator is proportional to the frequency itself but it's not the same thing. If you look at a square wave you also need high frequency to keep the flat parts nice and flat.

So, my question is a about the physical meaning of this.

That's always a tricky proposition. One possible answer is &quot;there is no physical meaning since it's physically impossible to have a signal that's infinite in time&quot;. Sine waves are a useful mathematical concept but they DO NOT EXIST in reality. Of course, for practical purposes you can always generate something that's &quot;close enough&quot; for your specific application.
Another explanation
Let's look at what happens if you repeat the rect just once. In the time domain you can represent this as a convolution with two pulses, i.e.
$$h(t) = \delta(t) + \delta(t-T_0) $$
So you add a delayed copy to the original signal. In the frequency domain this looks like
$$H(\omega) = 1 + e^{-j\omega T_0}$$
The delay turns into a phase shift so you add add a phase shifted copy of the spectrum the original one. If the phase shift at a certain frequency is 0 degree, they will just add. But if the phase shift at a different frequency is 180 degrees they will actually cancel. So some frequencies will be amplified others will be cancelled that's called a &quot;comb filter&quot; a graph of the amplitude with these notches looks like the teeth of a comb.
The more you repeat the original rectangle, the more &quot;combing&quot; you get and eventually all frequencies are gone except the ones that line up exactly with the period of the repetition.