After 41 strides, he crossed the line at 43.92 kilometres per hour.
"The enormous amount of work that Bolt developed in 2009, and the amount that was absorbed by drag, is truly extraordinary,'' said scientist Jorge Hernandez from the National Autonomous University of Mexico.
"It is so hard to break records nowadays, even by hundredths of a second, as the runners must act very powerfully against a tremendous force which increases massively with each bit of additional speed they are able to develop.
"This is all because of the `physical barrier' imposed by the conditions on Earth. Of course, if Bolt were to run on a planet with a much less dense atmosphere, he could achieve records of fantastic proportions.''
The team compared Bolt's time in Berlin with his previous world-record time, of 9.69sec, set during the 2008 Beijing Olympics.
In Berlin, he benefited from a tiny tailwind of 3.23 kph, the researchers found.
Without this boost, he would have come in at 9.68sec, thus beating the previous mark by 0.01sec.
The analysis was made from data provided by the International Association of Athletics Federations (IAAF), whose laser tracker recorded Bolt's position and speed every 0.1 of a second in Berlin.
-AAP