This Dec. 8, 2013 photo shows Devyani Khobragade, India's deputy consul general, during the India Studies Stony Brook University fund raiser event at Long Island, New York. (Mohammed Jaffer/AP Photo )

Secretary of State John Kerry was pulled into an increasingly heated diplomatic row after an Indian consular official working in New York was arrested, strip searched, and accused of paying a housemaid slave wages.

The treatment of India's Deputy Consul General Devyani Khobragade has infuriated India and today a spokesman for Kerry said he "empathizes" with the woman and "expressed his regret."

"As a father of two daughters about the same age as Devyani Khobragade, the secretary empathizes with the sensitivities we are hearing from India about the events that unfolded after Ms. Khobragade's arrest, and in his conversation with National Security Adviser Menon he expressed his regret, as well as his concern that we not allow this unfortunate public issue to hurt our close and vital relationship with India," the State Department said in a statement today.

Kerry struck the conciliatory tone after Khobragade was handcuffed last Thursday by the State Department's Diplomatic Security Service and turned over to the U.S. Marshals Service which placed the diplomat in a "general population" cell alongside drug addicts.

In a statement issued Wednesday evening, Manhattan U.S. Attorney Preet Bharara also addressed the "inflammatory atmosphere" the incident and the reporting of it has created. He defended his office's actions, attempting to correct "inaccuracies" in how Khobragade was handled.

She was arrested in the "most discreet way possible, and unlike most defendants, she was not then handcuffed or restrained," Bharara wrote. She was "offered the opportunity to make numerous calls to arrange personal matters," including child care; she was also brought coffee and offered food. "It is true that she was fully searched by a female Deputy Marshal," but it was in private and is "standard practice for every defendant."

Khobragade is accused of submitting false documents to obtain a work visa for an Indian woman working as her housemaid in her New York City home. Federal prosecutors accuse Khobragade of filing documents saying she would pay the woman $4,500 a month, but instead paid her only $573 a month, a paltry $3.31 an hour, well below the U.S. minimum wage.

Khobragade said through a lawyer, and in an email published today in India, that she was protected from prosecution under diplomatic immunity. She claims she was unlawfully arrested and searched.

She appeared in court last week when she pleaded not guilty to the charges. She was released on $250,000 bond.

The arrest raised the ire of Indian politicians that the female diplomat was strip searched and jailed with common criminals. In retaliation, they called for an investigation into the salaries of Indian domestics working in the homes of U.S. diplomats assigned to India. In addition, police today also removed the anti-terror barriers outside the U.S. embassy in Delhi, a move many saw as retaliatory.

The State Department maintains that Khobragade does not have fully diplomatic immunity, but only consular immunity from prosecution with respect to acts she performs as part of her job.

ABC News' Aaron Katersky contributed to this report