God's Breath is God. Hovering or brooding upon the flooded earth like a hen over her eggs. God is Breath, the Son of God, the embodiment of God, tells us in the New Testament (Jn 4:24). The word "Spirit" maybe better translates this Person.
The Holy Spirit is God. The same Spirit who started touching our lifeless buried planet in Gen 1:2. Mary is in need of saving too. Just like her people (Mt 1:21. Like all humanity, Rm 3:23). There's an A.D. 200s Christian hymn (author unknown to me) that states:
Though Christ a thousand times
In Bethlehem be born,
If He's not born in thee
Thy soul is still forlorn.
In keeping with this: Peter, an apostle of Jesus Christ, had written the sojourners of the dispersion of Pontus, Galatia, Cappadocia, Asia, and Bithynia, chosen according to the foreknowledge of God the Father in the sanctification of the Spirit unto the obedience and sprinkling of the blood of Jesus Christ: Grace to you and peace be multiplied (1 Pet 1:1-2).
Now Mary was already a believer into the living God, in Lk 1:35. Certainly not total darkness. Indeed the direct word to her concerned her coming son's kingdom of David His father. Not salvation from sins. Which is why 1 Pet 1:2 is the parallel; the allegorization of Gen 1:2.
Other details to caption Gen 1:2 are Paul's Eph 2:1-4: And you, though dead in your offenses and sins, in which you once walked according to the age of this world, according to the ruler of the authority of the air, of the spirit which is now operating in the sons of disobedience; among whom we also all conducted ourselves once in the lusts of our flesh, doing the desires of the flesh and of the thoughts, and were by nature children of wrath, even as the rest; but God, being rich in mercy...
Gen 1, accurate, nuanced, and true about our God's wonderful work of the old creation, still hasn't the physical realm as its purpose. But rather us. You. Your soul. Your response, if you want to begin this wonderful and only experience of salvation, from our alienation from God, even our hatred of God which we're born into, is to say "Yes" to His Son, our Lord Jesus Christ. Yes, amen, come into me Lord Jesus. Save me from my sin and death. Come and start Your life in me