Bella's decision to delete her account comes just over a month after her mother did the same, amid a storm of negative criticism in the comments sections on her posts.
Meanwhile, Bella's younger sister, 19-year-old Olivia Jade Giannulli -- a popular social media star and Instagram influencer -- has yet to deactivate her account, which currently still has 1.4 million followers.
However, Olivia's last post came on Feb. 28, nearly two weeks before the news of her parents' alleged involvement in the bribery scam broke on March 12.
Loughlin and husband Mossimo Giannulli are accused of paying $500,000 in bribes to get their daughters, 19-year-old Olivia and 20-year-old Bella, admitted to the University of Southern California as recruits for the crew team, even though neither of them participated in the sport.
The couple pleaded not guilty to multiple charges on Monday, including a recently added superseding indictment on conspiring to commit fraud and money laundering as well as previous the charges of conspiracy to commit mail and wire fraud and honest services mail and wire fraud.
A source told ET last month that Olivia and Bella are having a tough time in their personal lives and at USC in the wake of the scandal.
"Bella and Olivia are suffering in their own ways from the fallout of their parents' decisions," a source said. "Bella and Olivia have a very tight knit group of friends who have been there to support them. They've needed that support because they're being attacked at every turn."
According to the source, Bella is "far more invested" in her studies than her sister, but that both sisters are upset with their parents for the slew of negative press that has befallen the family.