Iran's scientific community is reeling after the assassination on 12 January of Masoud Alimohammadi, a particle physicist at the University of Tehran.

Alimohammadi was killed by a bomb as he got into his car to go to work. "Everyone is worried that this may be only the start, and that there may be more killings of academics to come," one researcher says.

Nature interviewed half a dozen scientists in Iran who knew Alimohammadi, all of whom requested anonymity. They are mystified as to why he was singled out. "I could expect that some influential political figure be assassinated, but not him," says one. Like many intellectuals in Iran, he was politically engaged, but far from being a political activist, the researchers say.

Credit: A. TAHERKENAREH/EPA/Corbis

Iran's President Mahmoud Ahmadinejad and supreme leader Ayatollah Ali Khamenei have said that the killing was perpetrated by the country's "enemies" and was designed to hamper its scientific and technological progress. State media portrayed Alimohammadi as a "martyr" (pictured) and a "committed revolutionary professor".

Scientists in Iran hotly contest the official picture of Alimohammadi as a supporter of the Ahmadinejad regime. They say that he opposed both the current regime and the violent crackdown on protests that followed the disputed presidential elections last June. They also question the regime's implication that Alimohammadi was involved in Iran's nuclear programme, making him a target.

Alimohammadi supported the 1979 Islamic Revolution from the outset and had links in the past with the Islamic Revolutionary Guard Corps. But he opposed the hardline crackdown on student demonstrations in 1999. Last year, he was among hundreds of academics who signed a petition endorsing Mir Hossein Mousavi, the reformist presidential candidate.

Alimohammadi was also an organizer and first signatory of a 4 January letter by 88 academics at Tehran University to Ayatollah Khamenei, protesting against the regime's post-election repression and attacks on universities and students. Friends say that he did not endorse overthrow of the regime, but was "keen to find solutions for a way out of the crisis".

The scientists also say that, to their knowledge, Alimohammadi had nothing to do with Iran's nuclear efforts or any military programme. Although the regime last week described him as a nuclear scientist, he was a theoretical particle physicist; his PhD was on string theory, and he then moved on to the quantum effects of gravity and gauge theories, and more recently to research on dark energy and modified Newtonian dynamics.

"I can see no reason why or how Iran's military or nuclear programmes could benefit from Alimohammadi's expertise," says Moshe Paz-Pasternak, a physicist at Tel Aviv University in Israel who worked with Alimohammadi on the Middle East synchrotron SESAME (see 'Physicist was part of 'science for peace' project').

All of which leaves the killer's identity and motives a mystery. The regime has blamed Israel, the United States and "their lackeys", as well as various dissident groups. Others speculate that hardliners in the regime itself might have staged the killing as a warning to opposition supporters.

"If Alimohammadi was murdered by hardliners, then the message would be clear: that they are willing even to assassinate well-known and well-respected academics," says materials scientist Muhammad Sahimi of the University of Southern California in Los Angeles, "and that other academics must think twice before they participate in political activities to support Mousavi".

Many Iranian researchers say they would like the international scientific community to speak out and condemn the assassination.