UK virus strain has been in Germany since November
This is the same strain "responsible for a large proportion of the infections detected in the south of England," it said.
The variant was found in an elderly patient with underlying health conditions who has since died. His wife was also infected but survived.
Teams from the Hannover Medical School (MHH) were able to identify the new strain after sequencing the genome.
The results were then confirmed by a team at Berlin's Charite hospital, which included top German virologist Christian Drosten.
Britain sounded the alarm earlier this month over the variant, which authorities say is significantly more contagious.
Concerns over the strain have prompted many countries to suspend travel to and from Britain.
It has since been detected in several other nations, including Portugal, France, Jordan and South Korea.