This question is based on a category mistake and is therefore nonsensical. The universe is a place, not an act. Presumably, you meant to ask something like “it is true that the creation of the universe itself was not a natural act?” But this question, while not based on a category mistake, is nevertheless still confused. Why? Because a naturalistic universe is not created by any act whatsoever (and may not be created at all). Either it just is and always has been, or it came about as a result of other (as yet unknown) naturalistic processes.
“Every bit of advanced mathematics applied to our universe is suggesting that it’s holographic in nature. Think about it, the numbers, the symmetry of the universe around us, the way in which it reacts to our observations but remains inert without us.”
inert
adjective
1 Lacking the ability or strength to move.
‘she lay inert in her bed’
1.1 Lacking vigor.
‘an inert political system’
1.2 Chemically inactive.
The universe is most definitely not inert without us.
In any case, your claims about numbers and symmetry is just a variation on the age old (and long discredited) watchmaker analogy. But there are plenty of instances in which the numbers of the universe are irregular and asymmetrical. For all of the elegance of equations involving e and π, there’s also the fact that e and π themselves are irrational and transcendental. Indeed, we use symbols for them precisely because the actual numbers are inconvenient and unwieldy. And as for the actual physical contents of the universe, there’s also the baryon asymmetry problem.
And this is all before we get to the standard objections about how utterly unsurprising it should be that a universe containing intelligent life is structured in such a way that intelligent life is possible. Because if the universe were not structured in such a way, we wouldn’t be here to observe that fact (and the universe would go on, decidedly not inert despite the lack of our observations). Furthermore, even if some aspects of the universe really did suggest the existence of a designer or a creator, none of them entail that said design or creation is holographic. This is a further step that you have not come close to justifying.
This brings us to the paper you linked, which does not say anything close to what you seem to think it says. Before looking at the paper itself, let’s try to understand what it is about. The holographic principle “is a tenet of string theories and a supposed property of quantum gravity that states that the description of a volume of space can be thought of as encoded on a lower-dimensional boundary to the region—such as a light-like boundary like a gravitational horizon.” In other words, it’s about a way of representing the universe on paper. But the map is not the territory. The universe might actually be that way, of course, but we’re not there yet.
Now here is how Ahmed and Rafat describe the problem their paper is about: “In spite of the increasing importance of [the holographic principle] in theoretical physics, there is no solid mathematical base for this principle” (emphasis added). In other words, they are trying to give the idea some actual grounding in other aspects of our knowledge—which necessarily entails that the idea is not yet fully integrated into our broader understanding of the universe. This shouldn’t be surprising given that string theory and quantum gravity are both very much still under construction. Even if they are successful, though, let us remember that what they are trying to do is show that representing the universe two-dimensionally is mathematically sound. This is a far step from showing that the universe is in fact two-dimensional.