The Army statement said Maj. Gen. Jeffrey Buchanan, the commanding general of the military district of Washington, approved the convictions and the sentence on Thursday.
"His decision to approve the results of the court-martial, which concluded on Aug. 21, 2013, means that no clemency was granted in the case," the Army said. The statement offered no insight into the general's thinking or rationale.
Manning was convicted of sending hundreds of thousands of diplomatic cables and military reports to WikiLeaks in 2010 in what was considered at the time to be the largest leak of classified information in U.S. history.
Col. Denise Lind, the military judge who heard the case instead of the military equivalent of a jury, found Manning guilty on 20 charges but acquitted her of the most serious: aiding the enemy. She imposed the 35-year sentence, the longest ever for a leaker in U.S. history.
Buchanan had the authority to lower the sentence or set aside any or all of the convictions, but he did not do so. An appeal to the Army Court of Criminal Appeals is automatic, the Army said.
A lawyer who recently agreed to represent Manning for the appeals process, Nancy Hollander, said the decision was not a surprise.
"We did not expect any relief" from the convening authority, Hollander said via email, using Buchanan's formal title in connection with the case. "We are going forward with the appeal."
At a public event Sunday night, Hollander charged the Obama administration with abusing the Espionage Act by using the law's severe penalties to go after leakers whose conduct is not the equivalent of espionage.
Manning's lawyers are also seeking clemency from President Barack Obama, but the White House has said such a request will not be considered until all appeals are exhausted.
Manning's trial revealed gender identity issues. The Army intelligence analyst was formerly known as Bradley but has filed for a name change to Chelsea.