Augustine Goba, Vladimir Putin, Good and bad actors in the play of the world

Our World Today:

As in the world of the past there are those who use their own lives to better the lives of others, and there are those who use the lives of others to further their own mad schemes.

Harvard lab delves into Ebola outbreak
By Carolyn Y. Johnson
August 28, 2014

courtesy of Stephen Gire, Harvard University.

Augustine Goba, laboratory director at Kenema Government Hospital Lassa fever laboratory, diagnosed the first case of Ebola in Sierra Leone.Early this summer, tubes of inactivated Ebola virus from Sierra Leone began arriving at Harvard University, packed in dry ice. Scientists on the Cambridge campus worked in round-the-clock shifts to analyze the contents of the vials.Their work was urgent — and deadly serious. The researchers oscillated between a rush to unravel the genetic fingerprint of the lethal virus and the futile wish that time would slow down, as they learned that the same scientists and medical workers in Africa who had collaborated with them were now being felled by the disease.“We wake up, we learn some news, we bawl our eyes out, and we try and figure out what we can do,” said Pardis Sabeti, a computational biologist at Harvard who supervised the work.On Thursday in the journal Science, the team of scientists — including five African colleagues who died from Ebola before the research could appear — published the richest and most detailed portrait yet of the virus that is ravaging West Africa.The researchers’ analysis of Ebola samples taken from 78 patients in Sierra Leone reveals myriad small ways the pathogen has changed, accumulating 341 mutations that set it apart from past outbreaks.EbolaLundi 25 août, à Monrovia, capitale du Liberia, pays le plus touché par le virus Ebola. | AFP/ZOOM DOSSOThe study also tracks how the virus spread into Sierra Leone in late May, when 14 women attended the funeral of a healer who had been working in Guinea. Researchers analyzed samples taken from a dozen of those women and found they carried back from the funeral two slightly different strains of the virus, the researchers concluded.As the scientists made their discoveries, those findings were made available nearly in real time. Ebola samples would arrive in Cambridge, and within two weeks highly specialized equipment at the Broad Institute would generate genomic blueprints — a remarkable timeline, outside researchers said.A decade ago, “if we had outbreaks, whatever the outbreak was — dengue or chikungunya — two years after the epidemic you would say scientists working for the past two years have now shown this original strain originated in Indonesia.ebolamap“Whereas now, in real time, as the epidemic is going on, we’re able to do that pinpointing in the most elegant, specific, and sensitive manner,” said Dr. Anthony Fauci, director of the National Institute of Allergy and Infectious Diseases. “From a scientific standpoint, that is phenomenal.”Because the findings are being generated and made public at such lightning speed, scientists have had little time to draw many conclusions. Keeping the genomes private so that Sabeti and her lab could be the first to examine them fully — as is traditionally done in science — wasn’t an option. They began posting the genome sequences of the virus online in late June, hoping that crowd-sourcing the problems to laboratories around the world could more rapidly yield insights to help halt the spread of the outbreak, believed to be responsible for more than 1,500 deaths.“There are two sides of it,” said Sabeti, who led the research with a scientist from Tulane University, Robert Garry, and the late Dr. Sheik Humarr Khan of Sierra Leone, a specialist in treating viral hemorrhagic fevers who was infected with the virus and died in July. “My lab has never been this sad and never been this motivated since I started it.”Outside scientists said the genomes will provide clues that could help check whether tests used to detect the disease are keeping up with the mutating virus and allow scientists to trace the lineage of the virus, which they believe diverged from a Middle African strain of Ebola in 2004.The data also show how rapidly the virus is mutating. Past outbreaks have burned out quickly and, therefore, have not given the virus as much of an opportunity to change in ways that make it more of a public health threat.The durability of the ongoing outbreak means it is vital to keep an eye on how it is changing, Fauci said. So far, researchers have not seen evidence that the mutations are making the virus more dangerous.But the researchers have already discovered that five standard tests used to diagnose Ebola in blood samples are not a perfect match for this strain. Now, they are testing whether those differences would have an effect on the test being able to certify someone has the virus.“A small degree of variation can have a significant public health impact, depending on where it is and what it causes in the virus,” said Dr. Daniel Bausch, an associate professor in the department of tropical medicine at Tulane School of Public Health. He was not involved in the work.Bausch compared the diagnostic tests and the virus to a lock and key that need to match up in order to work. If there’s a nick in the part of the key that goes into the lock, the door may not open, but if the nick resides on the handle of the key, it will still work. Right now, it’s not clear whether the genetic changes the researchers have detected are in the handle or the body of the key and, thus, whether they would affect the tests.Thomas Geisbert, a professor of microbiology and immunology at the University of Texas Medical Branch in Galveston, said he didn’t immediately see any mutations that would affect the ability of ZMapp, an experimental therapy that has been used in several patients, to work.The collaboration was made possible by relationships that developed for entirely different reasons. Years ago, Sabeti combed the human genome looking for genes that had been shaped by evolution. One of the genes highlighted in that study was known to be involved in infection with Lassa fever, a deadly viral hemorrhagic disease present in West Africa.She began forging partnerships and setting up the laboratory infrastructure and training to study that virus on the ground in Sierra Leone and Nigeria, with an interest in how the virus and people had co-evolved. Over the years and after many trips to the Kenema Government Hospital in Sierra Leone, that academic interest developed into a rich collaboration and a network of friendships.When Sabeti and colleagues got word that Ebola had been detected in Guinea, two scientists from her laboratory traveled to the hospital to bring with them primers, short strands of genetic material that would allow for early detection of the disease.Stephen Gire, a research scientist in Sabeti’s laboratory, returned with a team in July to streamline lab procedures.“The burden of cases was overwhelming,” Gire said, especially in the laboratory, where the workload had increased tenfold. He helped adjust procedures to ensure that workers would have time to drink water and take breaks, because working 18- to 20-hour days in protective coveralls was taking a toll on researchers.Members of Sabeti’s laboratory have not been able to travel back to Sierra Leone since July because of restrictions, but have been doing what they can to support friends and collaborators from afar.“We can honor those who have died by making sure that we do everything we can to contribute to stopping this outbreak and understanding more about it for the future,” Gire wrote in an e-mail. “And so that is why we have pushed and pushed to get this data out as quickly as possible.”

Russia escalates incursion, Ukraine says
By Annie Gowen and Anne Gearan
August 29, 2014
KIEV — Russian soldiers, tanks, and heavy artillery began rolling into southeastern Ukraine in earnest Thursday, the Ukrainian government said, as well-armed detachments captured key towns, burned buildings, and sent the under-equipped Ukrainian forces into full retreat — a show of military force that the United States now considers an invasion in all but name.poutine2US officials began saying privately for the first time Thursday that they consider the escalation of recent days tantamount to a Russian invasion, but President Obama stopped short of using the term at a news conference late in the afternoon. He said the United States would continue to rely on sanctions in an effort to deter Russia.‘‘Russia is responsible for the violence in eastern Ukraine,’’ he said. ‘‘Russia has deliberately and repeatedly violated the sovereignty and territorial integrity of Ukraine.’’But he said the problem will not be solved with US or outside military action. ‘‘A military solution to this problem is not going to be forthcoming,’’ he said. Buttressing the Ukrainian accounts, NATO released satellite images Thursday of what it said were Russian artillery, vehicles, and troops in and around eastern Ukraine. One image showed what NATO officials said was a convoy with self-propelled artillery in the area ofKrasnodon, inside territory controlled by Russian-backed separatists, on Aug. 21.‘‘There is no doubt that this is not a homegrown, indigenous uprising in eastern Ukraine. The separatists are backed, trained, armed, financed by Russia,’’ Obama said.Russian actions will be a main topic for the summit of NATO leaders next week in Wales, Obama said.The Russian defense ministry reiterated its position again Thursday, saying no Russian military units had taken part in action in Ukraine, according to the Russian news agencyInterfax. Major General IgorKonashenkov said that lists of Russian military units circulating on the Internet are fake. Russia has previously admitted that 10 of its paratroopers were captured in Ukraine but said they wandered into the country by mistake.Russian and American diplomats clashed during an emergency meeting of the United Nations Security Council Thursday, with Samantha Power, the US ambassador to the United Nations, saying that Russia has ‘‘outright lied’’ about its involvement in the conflict.She said that President Vladimir Putin of Russia had spoken of the need to ‘‘end the bloodshed as soon as possible’’ in a meeting with President PetroPoroshenko of Ukraine just Tuesday. At the same time, she noted — citing the NATO satellite imagery — Russian combat units were rolling into the Ukrainian city of Donetsk.Ambassador VitalyChurkin of Russia countered that Washington should stop interfering and called the Russian soldiers in Ukraine ‘‘volunteers.’’ ‘‘There are Russian volunteers in eastern parts of Ukraine. No one is hiding that,’’ he said. He suggested Ukraine was supported by Western advisers and funding.In Washington, State Department spokeswoman Jen Psaki would not publicly brand Russian actions as an invasion, although other US officials said privately that is the conclusion the United States has made.‘‘Our focus is more on what Russia is doing, what we’re going to do about it, than what we’re calling it,’’ Psaki said. ‘‘What they’re doing is an incursion. It’s a violation of Ukraine’s sovereignty.’’Russia, she said, has ‘‘stepped up its presence in eastern Ukraine,’’ intervened ‘‘directly with combat forces, armored vehicles, artillery, and surface-to-air systems,’’ and is ‘‘actively fighting Ukrainian forces as well as playing a direct supporting role to the separatists proxies and mercenaries.’’
UkraineAnother US official, speaking on condition of anonymity to describe the behind-the-scenes diplomacy, said the purpose of Russia’s ‘‘armed intervention’’ may be to try to open a land route to Crimea, which Russia annexed from Ukraine earlier this year. It may also be to test Ukrainian and western responses in preparation for such a land grab later, that official and Western diplomats said.In a statement posted on the Kremlin’s website early Friday, Putin urged the separatists in the east ‘‘to open a humanitarian corridor to Ukrainian soldiers that are surrounded, in order to avoid pointless victims and provide them the an opportunity to freely withdraw from the area of operations.’’In Kiev, a grim-faced Poroshenko stood in the rain at the airport and addressed the nation Thursday, saying he had canceled his working visit to Turkey after ‘‘sharp aggravation’’ of the situation in the east, ‘‘as Russian troops were brought into Ukraine.’’ He remained closeted with his national security council for much of the day.porochenkoAround Ukraine, locals reacted in varying degrees of disbelief and shock. In the capital, Kiev, where pro-European protesters unseated the former president in February, which led to the separatist uprising, residents grouped around television sets in cafes to see the latest news from the front. News filtered out that the country would be stepping up its military draft.In Mariupol, a southern port city not far from the new fighting, a sense of normal life prevailed, to a degree, one businessman said. But hundreds of protesters gathered to call for peace.

Alexander KHUDOTEPLY/AFP/Getty Images

Several thousand people protested Russian actions during a rally in the center of the southern Ukrainian city of Mariupol in the Donetsk region on Thursday.The situation continued to be grim in the rebel-controlled strongholds of Luhansk and Donetsk, where 11 civilians were killed within the last day. More than 2,200 people have died in the last five months in a conflict that has left more than 35,000 in temporary camps, with other residents doing without food and sufficient water. Ukrainians are worried that Russia could cut off gas supplies to the country as the winter months approach.The Ukrainian military said that around 12:30 p.m. Thursday, two Russian columns of tanks and armored fighting vehicles entered the town of Novoazovsk on the Sea of Azov after firing on Ukrainian army positions with rockets launched from Russian territory, according to a Ukrainian military spokesman.newputinhatThe spokesman, Colonel Andriy Lysenko, said that after a pitched battle the Ukrainian military forces retreated about 20 miles away to a position near Mariupol.

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