It is alleged that Shanif, a native of Chakarakal in Kannur, fatally struck the child's head with his knee.
As per the official statement issued by Nanded district collectorate, between September 30 and October 1,24 deaths have been reported
Manjeshwar police have taken the woman into custody and launched an investigation into the infant's death.
The accused told the police that she had left the newborn in the water-filled plastic bucket to hide the matter from her husband.
The woman, who was estranged from her husband earlier, was recently brought to Thodupuzha from Gudaloor in Tamil Nadu with the help of police.
The deceased was Aishwarya, aged 25, of Thathamangalam in Chittur in the district.
After checking the batch number on the cover, agency officials realised that the garbage was collected from the Kottayam Medical College Hospital.
The woman, who is differently abled, forced her eldest daughter, a class 10 student, drown the baby in the water in a can, according to the confession made by the girl.
The state health minister visited the tribal settlement in the wake of reports about recent infant deaths in the region.
Health minister Veena George directed the Directorate of Health Services (DHS) to investigate the incident.