SB 5.12.9
evam niruktam ksiti-sabda-vrttam
asan nidhanat paramanavo ye
avidyaya manasa kalpitas te
yesam samuhena krto visesah
Translation by His Divine Grace A. C. Bhaktivedanta Swami Srila Prabhupada:
One may say that varieties arise from the planet earth itself. However, although the universe may temporarily appear to be the truth, it ultimately has no real existence. The earth was originally created by a combination of atomic particles, but these particles are impermanent. Actually the atom is not the cause of the universe, although some philosophers think so. It is not a fact that the varieties found in this material world simply result from atomic juxtaposition or combination.
Purport by His Divine Grace A. C. Bhaktivedanta Swami Srila Prabhupada:
Those who follow the atomic theory think that the protons and electrons of atoms combine in such a way as to bring all material existence into being. However, the scientists fail to discover the cause of atomic existence itself. Under these circumstances, we cannot accept that the atom is the cause of the universe. Such theories are advanced by unintelligent people. According to real intelligence, the real cause of the cosmic manifestation is the Supreme Lord. Janmady asya yatah: He is the original cause of all creation. As stated in Bhagavad-gita (10.8): aham sarvasya prabhavo mattah sarvam pravartate. Krsna is the original cause. Sarva-karana-karanam: He is the cause of all causes. Krsna is the cause of atoms, the material energy.
bhumir apo ’nalo vayuh
kham mano buddhir eva ca
ahankara itiyam me
bhinna prakrtir astadha
(Bg. 7.4)
The ultimate cause is the Supreme Personality of Godhead, and only those in ignorance try to find out other causes by posing different theories.