Police in India have shut down two women’s shelters after reports of rape and missing women.

The first shelter, located in the town of Muzzafarpur in eastern India, was raided and closed in June after dozens of underage girls said they had been raped there.

The second – run in the same town by the same charity – was sealed by police on Tuesday amid reports from the Social Welfare Department that 11 women were missing.

The charity’s director and nine employees have been arrested on rape charges.

The investigation has been handed over to the federal government after a wave of protest and demands from human rights groups.

The charity, Seva Sanklap Ewam Vikas Samiti, reportedly received roughly $150,000 from the government annually to run shelters for women and girls.

Brajesh Thakur, who has run the group since 1987, has been held since authorities raided the girls’ shelter.

Concerns were first raised after the Mumbai-based Tata Institute of Social Sciences conducted an audit earlier this year.

India’s appalling record on rape and women’s rights has been in the spotlight since 2012 when 23-year-old student Jyoti Singh was gang-raped on a New Delhi bus and beaten with an iron bar.

She died later from her injuries, but not before telling her story to police.

Since then prison terms for rapists have doubled to 20 years and voyeurism, stalking and the trafficking of women has been criminalized.

In April, India’s Cabinet passed an executive order making the rape of a girl under 12 punishable by the death penalty.

However, despite these harsher punishments, women in India still often find their rights less than those of men and are often treated as second-class citizens by police.