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The European Molecular Biology Laboratory Magazine Issue 91 Summer 2018

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The European Molecular Biology Laboratory Magazine Issue 91 Summer 2018 The European Molecular Biology Laboratory Magazine Issue 91 Summer 2018 Origins Synapse Nibbling on brain cells Nucleus Ocean origins Cultures Seven new scientists Contents Synapse News stories 5 Belgian PhD student decodes DNA and wins a bitcoin 6 Commonly used drugs affect our 9 Wet-lab e-learning courses go live gut bacteria 9 Slovakia becomes EMBL member 6 New target could stop spread of state drug resistance 10 News in brief 7 How antibiotic resistance spreads 15 Captured: microglia nibbling on 8 Molecular cuisine for gut bacteria brain synapses 8 Synchronised waves control 16 Cambridge selected for Health Data Nucleus embryonic patterning Research UK site Feature stories 18 Ocean origins Cultures EMBL community stories EMBL alumna Èlia Benito-Gutiérrez on how her research and career evolved after searching the seas 32 Welcome to EMBL 36 The scientific origins of Edith Heard 22 38 Exploring genetic variation On the orchids of Darwin 39 PhD goals: why not start a company? 40 Humans of EMBL: Past lives How Darwin’s work revealed the intimate 44 Awards & honours relationship between orchids and insects Alumni 45 The EMBL launch pad 24 28 45 Harnessing alumni expertise The rise of GPU Mapping molecules computing in science on people, fields and 46 Powering up ATMs 48 Alumni award winners Discover how EMBL scientists are using A free, standardised 50 Twenty years of building teams GPU computing to push method is raising interest and sites biology forward in forensics, agriculture and microbiome studies 51 Guess who! 2 EMBLetc. SUMMER 2018 THE EUROPEAN MOLECULAR BIOLOGY LABORATORY MAGAZINE 3 Contents Synapse News stories 5 Belgian PhD student decodes DNA and wins a bitcoin 6 Commonly used drugs affect our 9 Wet-lab e-learning courses go live gut bacteria 9 Slovakia becomes EMBL member 6 New target could stop spread of state drug resistance 10 News in brief 7 How antibiotic resistance spreads 15 Captured: microglia nibbling on 8 Molecular cuisine for gut bacteria brain synapses 8 Synchronised waves control 16 Cambridge selected for Health Data Nucleus embryonic patterning Research UK site Feature stories 18 Ocean origins Cultures EMBL community stories EMBL alumna Èlia Benito-Gutiérrez on how her research and career evolved after searching the seas 32 Welcome to EMBL 36 The scientific origins of Edith Heard 22 38 Exploring genetic variation On the orchids of Darwin 39 PhD goals: why not start a company? 40 Humans of EMBL: Past lives How Darwin’s work revealed the intimate 44 Awards & honours relationship between orchids and insects Alumni 45 The EMBL launch pad 24 28 45 Harnessing alumni expertise The rise of GPU Mapping molecules computing in science on people, fields and 46 Powering up ATMs 48 Alumni award winners Discover how EMBL scientists are using A free, standardised 50 Twenty years of building teams GPU computing to push method is raising interest and sites biology forward in forensics, agriculture and microbiome studies 51 Guess who! 2 EMBLetc. SUMMER 2018 THE EUROPEAN MOLECULAR BIOLOGY LABORATORY MAGAZINE 3 MARIETTA SCHUPP/EMBL MARIETTA Word to remember Belgian PhD student Microglia decodes DNA and wins Noun, pronunciation: /ˌm a ɪ k r əˈɡl ɪə / a bitcoin Microglia are immune system cells that keep the brain and PhD student Sander Wuyts won the DNA Storage Bitcoin spinal cord healthy by ‘eating Editorial up’ pathogens, dead and dying Challenge issued by EMBL-EBI’s Nick Goldman in 2015 neurons, and other cellular debris. Microglia also nibble Some of the most fascinating questions in science are about on synapses to strengthen origins. For biologists, perhaps the biggest question is: how did connections between neurons BY MARY TODD BERGMAN distributed DNA samples in test following a recipe. After one failed (p. 15). tubes. The first person to decode the attempt and an essential pause over life begin? But the history of life is also full of smaller origin The challenge DNA and find the ‘private key’ would Christmas, he worked tirelessly to stories – moments of biological innovation that each contribute On 21 January 2015 at the World win the bitcoin. put the data from sequencing into Economic Forum’s annual meeting the right order and decode the files. to the complexity of the living world. Publisher in Davos, Switzerland, Nick European Molecular Biology Laboratory Good timing In this issue, we follow an EMBL alumna’s rediscovery of an Goldman from EMBL-EBI described One week before the deadline, “I was extremely surprised and a new method for storing digital Sander Wuyts, a PhD student at the excited when the decoded files Managing editors elusive species in the Indian Ocean, which is providing key information in DNA. At the end of University of Antwerp and Vrije appeared, perfectly readable. There Edward Dadswell his talk, he issued a challenge. Universiteit Brussel, in Belgium, were the instructions on how to insights into the origin of animals with backbones (p. 18), and we Sonia Furtado Neves explore how the study of co-evolution had its origins in Darwin’s was the first to master the method claim the bitcoin, a drawing of James “Bitcoin is a form of money that and decode the private key, taking Joyce and some other things.” Editors observations of orchids and insects (p. 22). now only exists on computers, and possession of the bitcoin. Berta Carreño with cryptography, that’s something He revealed his uncertainty about Mehrnoosh Rayner EMBL is a place where many ideas and technologies have their we can easily store in DNA,” Its value on 19 January 2018: around whether his efforts would actually Emma Steer explained Goldman. “We’ve bought €9500. pay off: “Before participating in this origin or are further developed. We talk to our scientists about Oana Stroe a bitcoin for €200 and encoded its challenge, I had my doubts about the how GPU computing is revolutionising their research (p. 24), and information into DNA.” Goldman feasibility of such a DNA technology Design The contender report on a method for mapping molecules on surfaces (p. 28). Now completing his PhD in – but now I don’t.” Designyard microbiology – exploring the We delve into the scientific origins and current research of universe of bacteria through DNA Wuyts intends to sell his bitcoin and Printed by – Wuyts has the right balance of use the proceeds to invest in science EMBL’s next Director General, Edith Heard (p. 36), and EMBL ColorDruck Solutions passion, coding skills and great projects, thank the people who group leader Jan Korbel (p. 38). colleagues to tackle complex puzzles helped him, and celebrate earning Contact like Goldman’s DNA Storage Bitcoin his PhD in style. [email protected] Finally, we celebrate new beginnings: whether it’s Slovakia Challenge. joining us as a member state (p. 9), the company co-founded by Goldman, N et al. Nature, 23 January Cover illustration Wuyts saw Goldman issue the 2013. DOI: 10.1038/nature11875 EMBL-EBI PhD student Daniel Elías Martín Herranz (p. 39), Aad Goudappel challenge on YouTube back in 2015, or the seven new scientists who will head groups or facilities at WUYTSSANDER but it was a tweet about the deadline FULL VERSION ONLINE: EMBL (p. 32). We look forward to the new ideas and innovations NEWS.EMBL.DE in December 2017 – plus the skills he BIT.LY/embl-91-01 had acquired in the meantime – that that will follow. made him swing into action. READ SANDER'S BLOG POST ABOUT HOW HE DID IT: Edward Dadswell Sample of DNA in which one bitcoin Once he started, Wuyts became BIT.LY/embl-91-01b (and some other files) were encoded, Editor aware that decoding the bitcoin as posted to Sander Wuyts. wouldn’t be quite as simple as 4 EMBLetc. SUMMER 2018 THE EUROPEAN MOLECULAR BIOLOGY LABORATORY MAGAZINE 5 MARIETTA SCHUPP/EMBL MARIETTA Word to remember Belgian PhD student Microglia decodes DNA and wins Noun, pronunciation: /ˌm a ɪ k r əˈɡl ɪə / a bitcoin Microglia are immune system cells that keep the brain and PhD student Sander Wuyts won the DNA Storage Bitcoin spinal cord healthy by ‘eating Editorial up’ pathogens, dead and dying Challenge issued by EMBL-EBI’s Nick Goldman in 2015 neurons, and other cellular debris. Microglia also nibble Some of the most fascinating questions in science are about on synapses to strengthen origins. For biologists, perhaps the biggest question is: how did connections between neurons BY MARY TODD BERGMAN distributed DNA samples in test following a recipe. After one failed (p. 15). tubes. The first person to decode the attempt and an essential pause over life begin? But the history of life is also full of smaller origin The challenge DNA and find the ‘private key’ would Christmas, he worked tirelessly to stories – moments of biological innovation that each contribute On 21 January 2015 at the World win the bitcoin. put the data from sequencing into Economic Forum’s annual meeting the right order and decode the files. to the complexity of the living world. Publisher in Davos, Switzerland, Nick European Molecular Biology Laboratory Good timing In this issue, we follow an EMBL alumna’s rediscovery of an Goldman from EMBL-EBI described One week before the deadline, “I was extremely surprised and a new method for storing digital Sander Wuyts, a PhD student at the excited when the decoded files Managing editors elusive species in the Indian Ocean, which is providing key information in DNA. At the end of University of Antwerp and Vrije appeared, perfectly readable. There Edward Dadswell his talk, he issued a challenge. Universiteit Brussel, in Belgium, were the instructions on how to insights into the origin of animals with backbones (p.
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