We hear from the Vedic version that the Supreme Brahman exhibits His effulgence and therefore everything becomes illuminated. We can understand from the Brahma-saṁhitā that the brahma-jyotir, or the Brahman effulgence, emanates from the body of the Supreme Lord. And from the Brahman effulgence, all creation takes place. It is also stated in the Bhagavad-gītā that the Lord is the support of the Brahman effulgence. Therefore, originally He is the root cause of everything. But persons who are less intelligent think that when the Supreme Personality of Godhead comes within this material world He accepts the material qualities. Such conclusions are not very mature but are made by the less intelligent.
The Supreme Personality of Godhead is directly and indirectly existing everywhere; He is outside this material creation, and He is also within it. He is within this material creation not only as Garbhodakaśāyī Viṣṇu; He is also within the atom. The existence of the atom is due to His presence. Nothing can be separated from His existence. In the Vedic injunctions we find that the Supreme Soul, or the root cause of everything, has to be searched out because nothing exists independently of the Supreme Soul. Therefore the material manifestation is also a transformation of His potency. Both inert matter and the living force—the soul—are emanations from Him. Only the foolish conclude that when the Supreme Lord appears He accepts the conditions of matter. Even if He appears to have accepted a material body, He is still not subjected to any material condition. Kṛṣṇa has therefore appeared and defeated all imperfect conclusions about the appearance and disappearance of the Supreme Personality of Godhead.
“My Lord, Your appearance, existence and disappearance are beyond the influence of the material qualities. Because Your Lordship is the Supreme Brahman and the controller of everything, there is nothing inconceivable or contradictory in You. As You have said, material nature works under Your superintendence, just like a government officer working under the orders of the chief executive. The influence of subordinate activities cannot affect You. Since You are the Supreme Brahman, everything is existing within You, and since all the activities of material nature are controlled by Your Lordship, none of these activities affect You.