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Bodies found in a 200 year-old Hungarian crypt have revealed the secrets of how tuberculosis (TB) took hold in 18th century Europe, according to a research team led by the University of Warwick.

A new study published in Nature Communications details how samples taken from naturally mummified bodies found in an 18th century crypt in the Dominican church of Vác in Hungary have yielded 14 tuberculosis genomes, suggesting that mixed infections were common when TB was at peak prevalence in Europe.

The research team included collaborators from the Universities of Warwick and Birmingham, University College London, the Hebrew University in Jerusalem and the Hungarian Natural History Museum in Budapest. Lead author Professor Mark Pallen, from Warwick Medical School, said the discovery was significant for current and future infection control and diagnosis.

Professor Pallen said: “Microbiological analyses of samples from contemporary TB patients usually report a single strain of tuberculosis per patient. By contrast, five of the eight bodies in our study yielded more than one type of tuberculosis – remarkably from one individual we obtained evidence of three distinct strains.”

The team used a technique called “metagenomics” to identify TB DNA in the historical specimens—that is direct sequencing of DNA from samples without growing bacteria or deliberately fishing out TB DNA. This approach draws on the remarkable throughput and ease of use of modern DNA sequencing technologies.

Gemma Kay, first author on the paper says: “Poignantly, we found evidence of an intimate link between strains from in a middle-aged mother and her grown-up daughter, suggesting both family members died from this devastating infection.”

The team used the 18th century sequences to date the origin of the lineage of TB strains commonly found in Europe and America to the late Roman period, which fits in with the recent controversial suggestion that the most recent common ancestor of all TB strains occurred as recently as six thousand years ago.

Professor Pallen said: “By showing that historical strains can be accurately mapped to contemporary lineages, we have ruled out, for early modern Europe, the kind of scenario recently proposed for the Americas—that is wholesale replacement of one major lineage by another—and have confirmed the genotypic continuity of an infection that has ravaged the heart of Europe since prehistoric times.”

Professor Pallen added that with TB resurgent in many parts of the world, the struggle to contain this ancient infection was far from over. He concludes: “We have shown that metagenomic approaches can document past infections. However, we have also recently shown that metagenomics can identify and characterize pathogens in contemporary samples, so such approaches might soon also inform current and future infectious disease diagnosis and control.”

For more photos of the Hungarian mummies visit the website Morbid Anatomy.

Source: University of Warwick [April 07, 2015]

The appearance of infectious diseases in new places and new hosts, such as West Nile virus and Ebola, is a predictable result of climate change, says a noted zoologist affiliated with the Harold W. Manter Laboratory of Parasitology at the University of Nebraska-Lincoln.

In an article published online today in conjunction with a special issue of the Philosophical Transactions of the Royal Society B, Daniel Brooks warns that humans can expect more such illnesses to emerge in the future, as climate change shifts habitats and brings wildlife, crops, livestock, and humans into contact with pathogens to which they are susceptible but to which they have never been exposed before.

"It's not that there's going to be one 'Andromeda Strain' that will wipe everybody out on the planet," Brooks said, referring to the 1971 science fiction film about a deadly pathogen. "There are going to be a lot of localized outbreaks putting pressure on medical and veterinary health systems. It will be the death of a thousand cuts."

Brooks and his co-author, Eric Hoberg, a zoologist with the U.S. National Parasite Collection of the USDA's Agricultural Research Service, have personally observed how climate change has affected very different ecosystems. During his career, Brooks has focused primarily on parasites in the tropics, while Hoberg has worked primarily in Arctic regions.

Each has observed the arrival of species that hadn't previously lived in that area and the departure of others, Brooks said.

"Over the last 30 years, the places we've been working have been heavily impacted by climate change," Brooks said in an interview last week. "Even though I was in the tropics and he was in the Arctic, we could see something was happening." Changes in habitat mean animals are exposed to new parasites and pathogens.

For example, Brooks said, after humans hunted capuchin and spider monkeys out of existence in some regions of Costa Rica, their parasites immediately switched to howler monkeys, where they persist today. Some lungworms in recent years have moved northward and shifted hosts from caribou to muskoxen in the Canadian Arctic.

But for more than 100 years, scientists have assumed parasites don't quickly jump from one species to another because of the way parasites and hosts co-evolve.

Brooks calls it the "parasite paradox." Over time, hosts and pathogens become more tightly adapted to one another. According to previous theories, this should make emerging diseases rare, because they have to wait for the right random mutation to occur.

However, such jumps happen more quickly than anticipated. Even pathogens that are highly adapted to one host are able to shift to new ones under the right circumstances.

Brooks and Hoberg call for a "fundamental conceptual shift" recognizing that pathogens retain ancestral genetic capabilities allowing them to acquire new hosts quickly.

"Even though a parasite might have a very specialized relationship with one particular host in one particular place, there are other hosts that may be as susceptible," Brooks said.

In fact, the new hosts are more susceptible to infection and get sicker from it, Brooks said, because they haven't yet developed resistance.

Though resistance can evolve fairly rapidly, this only changes the emergent pathogen from an acute to a chronic disease problem, Brooks adds.

"West Nile Virus is a good example - no longer an acute problem for humans or wildlife in North America, it nonetheless is hhere to stay," he said.

The answer, Brooks said, is for greater collaboration between the public and veterinary health communities and the "museum" community - the biologists who study and classify life forms and how they evolve.

In addition to treating human cases of an emerging disease and developing a vaccine for it, he said, scientists need to learn which non-human species carry the pathogen.

Knowing the geographic distribution and the behavior of the non-human reservoirs of the pathogen could lead to public health strategies based on reducing risk of infection by minimizing human contact with infected animals, much likethose that reduced the incidence of malaria and yellow fever by reducing human contact with mosquitos.

Museum scientists versed in understanding the evolutionary relationships among species could use this knowledge to anticipate the risk of the pathogen becoming established outside of its native range.

Brooks, who earned his bachelor's and master's degrees from the University of Nebraska-Lincoln, was a zoology professor at the University of Toronto for 30 years until he retired early in 2011 to devote more time to his study of emerging infectious disease. In addition to being a senior research fellow with UNL's Manter Laboratory, he is a visiting senior fellow at the Universidade Federal do Parana, Brazil, funded by the Ciencias sem Fronteiras (Sciences without Borders) of the Brazilian government, and a visiting scholar with Debrecen University in Hungary.

Brooks' and Hoberg's article, "Evolution in action: climate change, biodiversity dynamics and emerging infectious disease," is part of a Philosophical Transactions of the Royal Society B issue on "Climate change and vector-borne diseases of humans," edited by Paul Parham, a specialist in infectious disease epidemiology at Imperial College in London.

"We have to admit we're not winning the war against emerging diseases," Brooks said. "We're not anticipating them. We're not paying attention to their basic biology, where they might come from and the potential for new pathogens to be introduced."

Source: University of Nebraska-Lincoln [February 16, 2015]

A remarkable archaeological discovery in a Co. Clare cave has pushed back the date of human existence in Ireland by 2,500 years.

This discovery re-writes Irish archaeology and adds an entirely new chapter to human colonisation of the island – moving Ireland’s story into a new era.

Radiocarbon dating of a butchered brown bear bone, which has been stored in a cardboard box at the National Museum of Ireland for almost 100 years, has established that humans were on the island of Ireland some 12,500 years ago – 2,500 earlier than previously believed.

Since the 1970s, the oldest evidence of human occupation on the island of Ireland has been at Mount Sandel in Co. Derry. This site has been dated at 8,000 BC, which is in the Mesolithic period, indicating that humans had occupied the island for some 10,000 years.

However, new analysis of the bear patella – or knee bone – originally found in Co. Clare in 1903 gives us undisputed evidence that people existed in Ireland during the preceding Palaeolithic period at 10,500 BC, some 12,500 years ago.

This is a major breakthrough for archaeologists who have spent decades searching for earlier signs of human occupation on the island.

The discovery was made by Dr Marion Dowd, an archaeologist at IT Sligo, and Dr Ruth Carden, a Research Associate with the National Museum of Ireland.

“Archaeologists have been searching for the Irish Palaeolithic since the 19th century, and now, finally, the first piece of the jigsaw has been revealed. This find adds a new chapter to the human history of Ireland,” said Dr Dowd.

Dowd and Carden’s paper on the discovery was published in the journal Quaternary Science Reviews. Dr Dowd is a lecturer in Prehistoric Archaeology at the School of Science in IT Sligo and is a specialist in Irish cave archaeology.

The adult bear bone was one of thousands of bones originally discovered in Alice and Gwendoline Cave, Co. Clare in 1903 by a team of early scientists. They published a report on their investigations and noted that the bear bone had knife marks.

The bone was stored in a collection at the National Museum of Ireland since the 1920s. In 2010 and 2011, animal osteologist Dr Ruth Carden, a Research Associate at the museum, was re-analysing its animal bone collections from early cave excavations. She came across the bear bone and documented it along with many others.

As a specialist in cave archaeology, Dr Dowd, became interested in the butchered bear patella and, together with Dr Carden, the pair sought funding from the Royal Irish Academy for radiocarbon dating, which was carried out by the Chrono Centre at Queen’s University Belfast.

“When a Palaeolithic date was returned, it came as quite a shock. Here we had evidence of someone butchering a brown bear carcass and cutting through the knee probably to extract the tendons. Yes, we expected a prehistoric date, but the Palaeolithic result took us completely by surprise,” says Dr Dowd.

A second sample was sent to the University of Oxford for radiocarbon dating to test the validity of the initial result. Both dates indicated human butchery of the bear about 12,500 years ago.

The bone was then sent to three bone specialists for independent analysis of the cut marks. These were Dr Jill Cook at the British Museum in London; Prof. Terry O’Connor at the University of York and Prof. Alice Choyke at the Central European University in Hungary.

The experts were unaware of the radiocarbon dating results prior to their examinations but all determined that the cut marks were made on fresh bone, confirming that the cut marks were of the same date as the patella, and therefore that humans were in Ireland during the Palaeolithic period.

“This made sense as the location of the marks spoke of someone trying to cut through the tough knee joint, perhaps someone who was inexperienced,” explains Dr Dowd. “In their repeated attempts, they left seven marks on the bone surface. The implement used would probably have been something like a long flint blade.”

“The bone was in fresh condition meaning that people were carrying out activities in the immediate vicinity – possibly butchering a bear inside the cave or at the cave entrance,” said Dr Dowd.

Dr Ruth Carden said:  “From a zoological point of view, this is very exciting, since up to now we have not factored in a possible ‘human-dimension’ when we are studying patterns of colonisation and local extinctions of species to Ireland.

“This paper should generate a lot of discussion within the zoological research world and it’s time to start thinking outside the box…or even dismantling it entirely!”

Dr Dowd and Dr Carden are now hoping to get funding to carry out further analysis of other material recovered during the 1903 excavations, the cave itself and other potential cave sites around the country.

Professor Vincent Cunnane, President of IT Sligo said: “Academic research is often lauded for helping to shape new concepts and innovations of the future, but this ground-breaking discovery for Irish archaeology highlights the vital role it can play in challenging and deepening our understanding of our heritage and history.”

Nigel T. Monaghan, Keeper, Natural History Division of the National Museum of Ireland said: “The National Museum of Ireland – Natural History, holds collections of approximately two million specimens, all are available for research and we never know what may emerge. Radiocarbon dating is something never imagined by the people who excavated these bones in caves over a century ago, and these collections may have much more to reveal about Ireland’s ancient past.”

The remarkable discovery comes just three years after the first evidence of Palaeolithic occupation of Scotland was uncovered. In 2013, a cache of flint tools was unearthed on the Isle of Islay, pushing the date of human existence in Scotland from the Mesolithic into the Palaeolithic era.

Source: Institute of Technology Sligo [March 20, 2016]