"***** Only by the aid of that Spirit who in the beginning “was brooding upon the face of the waters;” of that Word by whom “all things were made;” of that “true Light, which lighteth every man that cometh into the world” ( Genesis 1:2 , R.V., margin; John 1:3, 9 ), can the testimony of science be rightly interpreted. Only by their guidance can its deepest truths be discerned. Only under the direction of the Omniscient One shall we, in the study of His works, be enabled to think His thoughts after Him. CT 530.2"
"All things were made by him; and without him was not any thing made that was made."
EGW directly quotes John 1:3.
"That was the true Light, which lighteth every man that cometh into the world."
EGW directly quotes John 1:9.
"And the earth was without form and void; and darkness was upon the face of the deep. And the Spirit of God moved upon the face of the waters."
The EGW passage explicitly quotes Genesis 1:2, making the connection undeniable.