The statement - issued less than two weeks before Trump is set to take office - expressed fears that the most vulnerable in society will be in jeopardy if he goes ahead with proposed policy changes.
The signatories include the Conference of National Black Churches, Ecumenical Poverty Initiative, The National Council of Churches of Christ in the USA and the Samuel DeWitt Proctor Conference.
The statement urges reconciliation between groups divided over the election and emplores "President-Elect Donald Trump, who has said he shares our Christian faith, to take seriously his responsibility to bring our nation together and to heed the oath he will take to preserve, protect and defend America. He can start this work before the oath of office is taken with his policy agenda and political appointments."
The organisation members raise concerns about proposed policy changes to the Affordable Care Act which has given 30 million people access to affordable health coverage.The statement says that repealing the act is dangerous and reckless and "certainly no way to make America great."
In addition, the signatories say they are troubled by Cabinet selections; particularly for Chief Strategist, Attorney General, and National Security Advisor.
The statement calls Trump's choices for the roles "objectionable nominees [who] represent a bygone era of hatred that we have denounced and worked tirelessly to eradicate."
"Stephen Bannon, Jefferson Beauregard Sessions and Michael Flynn epitomize extremist, racist and fringe world views that we believe are morally inconsistent with Christian principles of loving neighbor and antithetical to American values of "liberty and justice for all," the statement continues.
Finally, the organisations call on the president elect of protect the vulnerable and protect against people who have "a documented history of racial hatred, bigotry, and xenophobia."
The National Council of Churches was founded in 1950 to promote ecumenical understanding between churches.