Slashdot Mirror
Domain: sanger.ac.uk
Stories and comments across the archive that link to sanger.ac.uk.
Stories · 6
-
Researchers Launch Plan To Sequence 66,000 Species In the UK (sciencemag.org)
An anonymous reader quotes a report from Science Magazine: In the first attempt of its kind, researchers plan to sequence all known species of eukaryotic life -- 66,000 species of animals, plants, fungi, and protozoa -- in a single country, the United Kingdom. The announcement was made here today at the official launch of an even grander $4.7 billion global effort, called the Earth BioGenome Project (EBP), to sequence the genomes of all of Earth's known 1.5 million species of eukaryotes within a decade.
The U.K. sequencing effort -- dubbed The Darwin Tree of Life project -- will now become part of the EBP mix. The Wellcome Sanger Institute in Hinxton, U.K., says it plans to sequence all known 66,000 species of eukaryotes found within the United Kingdom, except for its overseas territories. Collaborators will include the European Molecular Biology Laboratory in Hinxton, the Royal Botanic Gardens, Kew in the United Kingdom, and the Natural History Museum in London. Sanger will spend up to 50 million British pounds over 8 years, about 4% of its annual budget, on the first phase of the project, which will focus on developing the processes for sample collection, R&D on sequencing, and computational methods for assembling the genomes. Sanger director Mike Stratton said he expects another 100 million British pounds will be needed over the next 5 to 7 years for the bulk of sample collections and sequencing. -
New Study Claims That the 'Black Death' Was Spread By Humans, Not Rats (bbc.com)
dryriver shares a report from BBC: Rats were not to blame for the spread of plague during the Black Death, according to a study. The rodents and their fleas were thought to have spread a series of outbreaks in 14th-19th Century Europe. But a team from the universities of Oslo and Ferrara now says the first, the Black Death, can be "largely ascribed to human fleas and body lice." The study, in the Proceedings of the National Academy of Science, uses records of its pattern and scale. The Black Death claimed an estimated 25 million lives, more than a third of Europe's population, between 1347 and 1351. "We have good mortality data from outbreaks in nine cities in Europe," Prof Nils Stenseth, from the University of Oslo, told BBC News. "So we could construct models of the disease dynamics [there]." He and his colleagues then simulated disease outbreaks in each of these cities, creating three models where the disease was spread by: rats, airborne transmission, and fleas and lice that live on humans and their clothes. In seven out of the nine cities studied, the "human parasite model" was a much better match for the pattern of the outbreak. It mirrored how quickly it spread and how many people it affected. "The conclusion was very clear," said Prof Stenseth. "The lice model fits best. It would be unlikely to spread as fast as it did if it was transmitted by rats. It would have to go through this extra loop of the rats, rather than being spread from person to person." Plague is still endemic in some countries of Asia, Africa and the Americas, where it persists in "reservoirs" of infected rodents. According to the World Health Organization, from 2010 to 2015 there were 3,248 cases reported worldwide, including 584 deaths. And, in 2001, a study that decoded the plague genome used a bacterium that had come from a vet in the U.S. who had died in 1992 after a plague-infested cat sneezed on him as he had been trying to rescue it from underneath a house. -
All Humans Are Mutants, Say Scientists
Hugh Pickens writes "In 1935, JBS Haldane, one of the founders of modern genetics, studied a group of men with the blood disease hemophilia and speculated that there would be about 150 new mutations in each human being. Now BBC reports that scientists have used next generation sequencing technology to produce a far more direct and reliable estimate of the number of mutations by looking at thousands of genes belonging to two Chinese men who are distantly related, having shared a common ancestor who was born in 1805. To establish the rate of mutation, the team examined an area of the Y chromosome which is unique because, apart from rare mutations, the Y chromosome is passed unchanged from father to son so mutations accumulate slowly over the generations. Despite many generations of separation, researchers found only 12 differences among all the DNA letters examined. The two Y chromosomes were still identical at 10,149,073 of the 10,149,085 letters examined." -
Genetic Database Hits One Billion Entries
ChocSnorfler writes to tell us that the Sanger Institute is reporting that their Genetic Record Database has hit one billion entries, making it the world's largest. From the announcement: "The Trace Archive is a store of all the sequence data produced and published by the world scientific community, including the Sanger Institute's own prodigious output as a world-leading genomics institution. To grasp how much data is in the Archive, if it were printed out as a single line of text, it would stretch around the world more than 250 times. Printing it out on pages of A4 would produce a stack of paper two-and-a-half times as high as Mount Everest. The Archive is 22 Terabytes in size and doubling every ten months." -
Genetic Database Hits One Billion Entries
ChocSnorfler writes to tell us that the Sanger Institute is reporting that their Genetic Record Database has hit one billion entries, making it the world's largest. From the announcement: "The Trace Archive is a store of all the sequence data produced and published by the world scientific community, including the Sanger Institute's own prodigious output as a world-leading genomics institution. To grasp how much data is in the Archive, if it were printed out as a single line of text, it would stretch around the world more than 250 times. Printing it out on pages of A4 would produce a stack of paper two-and-a-half times as high as Mount Everest. The Archive is 22 Terabytes in size and doubling every ten months." -
Decoding the Genome: Serious Infrastructure
Roland Piquepaille writes "The Wellcome Trust Sanger Institute is one of the largest genomics data centers in the world. In "The Hum and the Genome," the Scientist writes about the IT infrastructure needed to handle the avalanche of data that researchers have to analyze. With its 2,000 processors and its 300 terabytes of storage, the data center uses today about 0.75 megawatts (MW) of power at a cost of 140,000 per year (about $170K). But the data center will need more than a petabyte of storage within three years, and its yearly electricity bill will reach 500,000 (more than $600K) for about 1.4 MW, enough to power more than a thousand homes. The original article gets all the facts, but this summary contains all the essential numbers."