Many make their way by land to Libya where they pay smugglers to ferry them to Europe's nearest shores Lampedusa or the island nation of Malta. Libya has been riven by turmoil and has been struggling with militias since the ouster of dictator Moammar Gadhafi.
Another survivor, Emd Hassan, told The Sunday Times of Malta that he paid $1,000 for the boat trip from Zwara, Libya, but said refugees who left from Egypt paid as much as $3,000 to $4,000.
The 38-year-old Damascus University graduate said he could not travel via normal routes because he has no travel documents and could not get any due to the conflict in Syria. "I had no alternative," the paper quoted him as saying.
The boat left Zwara at midnight and, apart from the early shooting incident, experienced smooth sailing until the weather conditions changed and the vessel started taking on water, capsizing at 4 p.m. Friday, according to Hassan.
"It was horrible. I had three children with me and I could not see them, even though they were right beside me," he said.
On Sunday, Malta's prime minister, Joseph Muscat, made an unannounced visit in Tripoli to discuss the refugee flow with Libya's prime minister, Ali Zidan.
The prime minister's office said the leaders stressed the importance of better cooperation between Europe and Libya, but the statement did not identify any concrete proposals.
"Smugglers have gained long experience," Zidan told reporters in the capital Tripoli, but "we are determined to solve illegal immigration and we have asked the European Union to train and help supply us with equipment."
Muscat said there were conflicting reports about the shooting, but he pledged an investigation. "Some people say the naval forces and others say militias," he said.
The U.N. High Commissioner for Refugees Antonio Guterres called for an investigation into the shooting incident to bring the perpetrators to justice. He also expressed concern that Syrians fleeing conflict have sought to reach Europe by such a perilous route, calling it "inhumane."
"They escaped bullets and bombs only to perish before they could ever claim asylum," he said.
The tragedy came just eight days after at least 365 people, mostly Eritreans, died when their boat sank within sight of Lampedusa, in one of the worst verified migrant sea tragedies in the Mediterranean. A ferry with 150 caskets of the victims arrived in Sicily on Sunday.
Despite the dangers, the boats keep coming. Authorities have rescued hundreds more at sea this weekend.
Italian Prime Minister Letta has announced that Italy will reinforce its naval and aircraft presence along the most-traveled corridors this week.
"The operation is needed in order to guarantee that the Mediterranean Sea could became a safer sea, especially where the Mediterranean Sea has become a graveyard these days," Letta said this weekend.
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Colleen Barry in Milan, Maggie Michael in Tripoli, Libya, and Andrea Rosa in Agrigento, Sicily, contributed to this report.