If Rias betrays Naruto, she herself could potentially be the main antagonist. Since Naruto is usually seen as a protagonist, Rias' actions of betrayal would put her in direct opposition to him. Her motives and actions would then drive the conflict in the story.
It could be the one who is manipulating Rias. If there is an external force or character that is making Rias betray Naruto, then that entity would be the main antagonist. For example, a powerful and evil ninja who has a vendetta against Naruto might use Rias as a pawn to achieve his goals.
The Konoha elders could be the main antagonists. They are often shown to be quite traditional and set in their ways in the original series. If Naruto goes against their old - fashioned ideas about the village's future and ninja code, they would likely oppose him strongly and could be the driving force behind making Naruto an outcast, which in turn could lead to his 'betrayal'.
Rias herself could be the main antagonist in a way. Since she is the one neglecting Naruto, she stands in the way of Naruto's growth and acceptance in this new setting. Her actions and lack of recognition towards Naruto can be seen as antagonistic.
It could be the one who manipulated Grayfia into betraying Naruto. Maybe it's a powerful and cunning villain from Naruto's world or even from another dimension. This antagonist could have a hidden agenda that involves getting rid of Naruto by using Grayfia.
Well, it could be that Rias betrays Issei for power. Maybe she is offered something extremely tempting, like a high - ranking position in the devil hierarchy, which makes her turn her back on Issei. It could also be that she is forced to betray him under some sort of blackmail or threat.
It could be a new villain that we haven't seen in the original Marvel universe. This villain might be able to manipulate Natasha's emotions and loyalty, making her betray Tony. For example, a powerful sorcerer who uses dark magic to control her.
Voldemort himself could be the main antagonist in this scenario. He might offer Hermione something she desperately wants in exchange for her betrayal. Maybe he promises to spare her Muggle - born friends if she gives up the Order's plans and secrets. His powerful and intimidating presence could easily force Hermione into a difficult situation where she feels she has no choice but to betray.
Well, it could be that Rias betrays Naruto for power. Maybe she makes a deal with a powerful enemy of Naruto in order to gain more influence in the ninja world or some other realm. Another possibility is that she betrays him out of jealousy if Naruto has something she desires deeply, like a special technique or a strong bond with someone she wants to break.
Well, if Misato betrays Shinji, she could herself become the main antagonist, at least from Shinji's perspective. Her actions of betrayal would put her in direct opposition to Shinji's goals and well - being.
The Organization in the Claymore world could be the main antagonist. They already have a lot of secrets and do some morally ambiguous things. If Naruto shows up and starts changing the status quo, like teaching Claymore warriors to be more independent, the Organization might see him as a threat and try to eliminate him.
It could be a rogue ninja who was once a student of Orochimaru and has now developed his own dangerous jutsu. He wants to take over the ninja world and believes the old ways are holding everyone back.