{"id":64007,"date":"2023-11-15T13:00:00","date_gmt":"2023-11-15T12:00:00","guid":{"rendered":"https:\/\/www.embl.org\/news\/?post_type=embletc&#038;p=64007"},"modified":"2023-11-16T10:26:34","modified_gmt":"2023-11-16T09:26:34","slug":"advocating-for-a-generalist-approach-to-science-and-life","status":"publish","type":"embletc","link":"https:\/\/www.embl.org\/news\/embletc\/issue-101\/advocating-for-a-generalist-approach-to-science-and-life\/","title":{"rendered":"Advocating for a generalist approach to science and life"},"content":{"rendered":"\n<p><em>By Sara Fahs,<\/em> <em>Associate Director, BioNTech<\/em> <em>SE<\/em><\/p>\n\n\n\n<p>My curiosity about the origins of everyday things, like how medicines are made or why some cultures are extremely different from others, can be traced back to my childhood. My early years were also marked by diverse interests, including acting, interior architecture, philosophy, sociology, and understanding human connections. My journey in science has thus been remarkable, transitioning from a high school background in literature and philosophy to the natural sciences in college. My ambitions led me to a career in academia and industry, which I now reflect upon with pride.<\/p>\n\n\n\n<p>Towards the start of this career, my initial decision to pursue a medical career in Lebanon gradually evolved into a fascination with drug design and medicinal chemistry. I narrowed down my research interests to medicinal chemistry during my MSc in the UK. My journey took a unique turn with a PhD fellowship at EMBL, a special but challenging experience given my background in organic chemistry.<\/p>\n\n\n\n<p>My move to EMBL posed a multitude of new layers to adapt to, including completely new cultures; new technologies, scientific disciplines, and concepts; and working in a field where generating extensive data quickly was impossible. Despite the challenges, I learned to focus on my learning path and avoid comparisons, even when surrounded by the &#8220;buzz of abundance&#8221;, all the while expanding my technical and theoretical knowledge.<\/p>\n\n\n\n<figure class=\"vf-figure wp-block-image  | vf-figure--align vf-figure--align-inline-end  size-large is-resized\"><img loading=\"lazy\" decoding=\"async\" width=\"990\" height=\"1024\" class=\"vf-figure__image\" src=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/P88A6043-Kopie-990x1024.jpg\" alt=\"\" class=\"wp-image-64113\" style=\"aspect-ratio:0.966796875;width:336px;height:auto\" srcset=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/P88A6043-Kopie-990x1024.jpg 990w, https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/P88A6043-Kopie-290x300.jpg 290w, https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/P88A6043-Kopie-768x795.jpg 768w\" sizes=\"auto, (max-width: 990px) 100vw, 990px\" \/><figcaption class=\"vf-figure__caption\">Sara Fahs during her time at EMBL. Credit: Photolab\/EMBL<\/figcaption><\/figure>\n\n\n\n<p>During my time at EMBL, I had the privilege of working with key mentors. I was lucky to work with Maja K\u00f6hn, who introduced me to the power of interdisciplinarity. Prof. K\u00f6hn&#8217;s brilliant science and leadership skills, along with her determination and ambition, inspired me to seek answers using many tools. Additionally, I was mentored by David Will, who then headed the medicinal chemistry lab at the chemical biology core facility in EMBL. David&#8217;s deep intellect, wide insights, and rich experience in both academia and industry, in addition to the inspiring industry-standard MedChem Lab he helped build at EMBL, provided me with valuable insights into the bigger picture.<\/p>\n\n\n\n<p>In light of this \u201ccriss-cross\u201d approach to growing knowledge and skills in scientific theory, practice, and ideas, my journey was distinguished by an absence of long-term, strict, and explicit goals, but a deep appreciation for, and delight in, the short-term ones. At the same time, I kept crafting a specialisation in the field I was passionate about \u2013 medicinal chemistry.<\/p>\n\n\n\n<h2 class=\"wp-block-heading\"><strong>Why the world needs generalists<\/strong><\/h2>\n\n\n\n<p>Originally specialised as a chemist, I found fulfilment in embracing a generalist approach to science. I strongly believe being spontaneous and open to different subjects has expanded my creativity. While specialisation is essential, building a range of skills and knowledge areas enhances problem-solving abilities. For instance, in my career, whenever a research problem needed to be addressed via a different discipline, I would not hesitate to research that discipline and then contact the right people.&nbsp;<\/p>\n\n\n\n<p>Some problems need generalists, some problems need specialists, and we must be open to both and know when to assign which of the two for a task. This way, I think we could avoid a lot of time and resources being wasted. In fact,\u00a0in today&#8217;s highly complex world, developing a palette of assorted experience across many fields is perhaps more pertinent than (hyper)specialisation. The perpetually troublesome challenges\u00a0of today (be it financial, geological, computational etc.) necessitate associating skills and expertise from various domains to promote solutions.<\/p>\n\n\n\n<h2 class=\"wp-block-heading\"><strong>Research careers in industry: myths and opportunities<\/strong><\/h2>\n\n\n\n<p>I joined the company BioNTech after my PhD, a move motivated not only by my desire to apply my skills in a translational medicinal chemistry role but also by the need to be quick in finding a new position. Back then, I was still on a limited visa and did not have time to find the perfect academic position (or roam the world for a gap year). I was also unsure whether I wished to remain in academia. Within a few months, I wrote my research paper, wrote my thesis, defended it, applied for jobs, all the while taking care of bureaucratic chores. Hence, I didn\u2019t have much time or mind space for the common fears that some may have about switching to industry.<\/p>\n\n\n\n<p>The most common fear I heard about during that time is permanent project instability. Projects in industry do change, which is sometimes sad, especially when one has developed an attachment to it. But the charming thing about changing projects is the transferability of skills and experiences into the next. And this is beneficial in the long term, as one only gets better and more efficient with time. Also, projects do not change <em>that<\/em> fast. The lifetime of a project can be prolonged as long as its efficacy remains promising.\u00a0And this makes sense.<br \/>On the positive side, the possibility of bringing an academic flair to industry while enjoying a different setting and staying scientifically curious can really act in one\u2019s best interest. Not to mention the amount of space that regular\/flexible working hours can make so one can grow other interests and\/or work on extracurricular projects. This especially benefits me who, as a generalist, constantly needs time and energy for pursuing multiple avenues, especially in an increasingly complex and intersected world.<\/p>\n\n\n\n<p>I would stress, however, the challenges of finding a position that combines translational medicinal chemistry with an academic touch and emphasise the need for improved job positions and networks in this context.<\/p>\n\n\n\n<p>During my time at BioNTech, I have transitioned from postdoc to staff scientist, to team leader, to Associate Director in medicinal chemistry, while witnessing the company\u2019s own transition from private to public. While participating in multiple projects across departments and sites, I could see first-hand how it had to grow its own structural foundations to match its rapid growth. I am lucky to have had this medium to mature.<\/p>\n\n\n\n<h2 class=\"wp-block-heading\"><strong>Pushing the frontiers of medicinal chemistry<\/strong><\/h2>\n\n\n\n<p>\u201cI have been involved in multiple research projects over the last several years, which illustrate both the interdisciplinary and generalist approaches to science I like to advocate for. The first of these was a discovery project, which aimed, in the long run, to make cancer cells more sensitive to the immune system, and eventually less resistant to therapy. This discovery project grew by\u00a0imbuing a classical medicinal chemistry project with interdisciplinarity (using technologies like proteomics, sequencing, novel in vitro assays, and others). From a small local project, this grew into to a larger collaborative one, and I have found that diverse perspectives always make more impact.<\/p>\n\n\n\n<p>A second project aimed to make delivery of anticancer drugs and immunomodulators more specific. It involved various fields of chemistry and life sciences. Due to my experience, I could serve, in the words of a colleague, as \u201cthe glue that bound together scientists\u201d from different fields. As a \u201cscientific translator\u201d in this project, who brought together experimental biologists and computational scientists, I grew a lot, learned about many techniques, and could contribute better.<\/p>\n\n\n\n<p>Afterwards, I worked on lipid carrier systems for mRNA delivery in vaccines, a project that required further use of my adaptability and expanding specialisation and helped me contribute to scientific improvements. Now I am creating my own project, combining years of varied experience and knowledge as a driving force. This is very exciting, especially as it also pursues a long-standing research interest.<\/p>\n\n\n\n<p>Chemistry was a driver in all those projects and endeavours, and I saw chemistry being tailored to apply differently to each problem, with subfields such as peptide chemistry, small molecule chemistry, lipid chemistry, probes, dyes, etc. coming into play in various ways. It is very interesting to study the therapeutic potential of small molecules. &nbsp;After all, to quote a friend, chemistry can also help \u201cmake therapeutic molecules that have never been made in the history of the universe\u201d. In the light of this, I am happy to push chemistry further in today\u2019s biotech environments.<\/p>\n\n\n\n<p>I have also grown people management skills in science throughout this whole journey and would love to grow them even further. It is the soft skill which most enhances meaningful conversations and learning from one another. And throughout the journey, my EMBL heritage and curiosity has helped me embrace new challenges and come up with new perspectives and ways of approaching scientific problems.<\/p>\n\n\n\n<h2 class=\"wp-block-heading\"><strong>Art, science, and beyond<\/strong><\/h2>\n\n\n\n<p>My passion for connecting art and science is evident in my involvement in music production, theatre, DJ&#8217;ing, writing, and science communication, even during my days at EMBL. I have always highlighted the importance of keeping my inner artist alive, as creativity can be a valuable outlet for both emotions and innovative thinking. Also, I never knew this was a \u201cpassion\u201d, until I observed my patterns and decisions retrospectively after almost fifteen years of working in science. My point is that a passion, or whatever you would like to call it, doesn\u2019t have to be pre-determined; it can be discovered, and at one\u2019s own rhythm.<\/p>\n\n\n\n<p>Finally<strong>, <\/strong>I would like to emphasise the importance of regular drive, courage, and perseverance in the scientific journey. I advise future scientists to reclaim their attention spans (it has been stolen from us in this world of hyper information and exposure) and advocate for diversity of backgrounds, personalities, and thinking patterns. I advise making general interest a habit when listening to a peer, instead of competition. It teaches us much more. And I believe that genuine openness to different ideas and perspectives, coupled with trusting one\u2019s process of development (background, experiences, lessons, hardship etc.) but at the same time questioning one\u2019s own narratives, is crucial for growth and success.<\/p>\n","protected":false},"excerpt":{"rendered":"<p>Sara Fahs, who did her PhD from EMBL Heidelberg and is one of the newest members of the EMBL alumni association board, writes about key insights from her journey in science and her work on medicinal chemistry, during a career spanning academia and industry.<\/p>\n","protected":false},"author":16,"featured_media":64087,"parent":0,"menu_order":0,"template":"","tags":[80,50,71],"class_list":["post-64007","embletc","type-embletc","status-publish","has-post-thumbnail","hentry","tag-alumni","tag-biochemistry","tag-industry"],"acf":{"featured":true,"show_featured_image":false,"field_target_display":"embl","field_article_language":{"value":"english","label":"English"},"article_intro":"<p>Sara Fahs, who did her PhD from EMBL Heidelberg and is one of the newest members of the EMBL alumni association board, writes about key insights from her journey in science and her work on medicinal chemistry, during a career spanning academia and industry.<\/p>\n","related_links":[{"link_description":"Alumni Relations at EMBL","link_url":"https:\/\/www.embl.org\/about\/info\/alumni\/"}],"source_article":false,"in_this_article":false,"press_contact":"None","article_translations":false,"languages":"","embletc_issue":[{"ID":63969,"post_author":"72","post_date":"2023-11-15 10:00:00","post_date_gmt":"2023-11-15 09:00:00","post_content":"","post_title":"Issue 101","post_excerpt":"","post_status":"publish","comment_status":"closed","ping_status":"closed","post_password":"","post_name":"issue-101","to_ping":"","pinged":"","post_modified":"2024-05-29 12:02:08","post_modified_gmt":"2024-05-29 10:02:08","post_content_filtered":"","post_parent":0,"guid":"https:\/\/www.embl.org\/news\/?post_type=embletc-issue&#038;p=63969","menu_order":0,"post_type":"embletc-issue","post_mime_type":"","comment_count":"0","filter":"raw"}],"embletc_in_this_issue":[{"ID":63993,"post_author":"100","post_date":"2023-11-15 10:00:00","post_date_gmt":"2023-11-15 09:00:00","post_content":"<!-- wp:paragraph -->\n<p>A bassoon\u2019s rich timbre breaks the silence of a darkened auditorium, followed closely by flutes, violins, French horns, and a variety of percussion instruments. Singers enter the stage in costume, following precisely choreographed movements, their voices blending in perfect symphony. A spectacular operatic piece is underway.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>At the heart of this performance is a network of dynamical systems \u2013 systems that evolve over time according to precise rules. Unseen cues from the conductor and interactions between instruments and performers combine to create a magical performance that could have easily devolved into chaotic noise. And the key elements that govern this system are: time, timing, and transitions.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>The same three principles hold true for living systems, where even at a molecular level, thousands of processes happen at once \u2013 millions of tiny unseen operas. Developmental biologists in particular have long appreciated the critical importance of when things happen, at what pace, and how they correlate with the major transitional events of development.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>In living systems, there is an arrow of time \u2013 a history.&nbsp; For decades, scientists have recognised the importance of this notion of time, timing, and transitions in living systems. The difference these days is that technology can now not only make this \u2018time and timing\u2019 visible by revealing oscillations and rhythms, but scientists can also manipulate and therefore study these concepts in developing organisms.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>For example, a snapshot of a living system is unable to reveal \u2018timing\u2019. Instead, one must observe the systems over a long time. Over the past 10 to 20 years, this is why EMBL and other research institutes have been investing in finding ways to make timing visible, with microscopy and other tools that help us see the rhythms and associated dynamics within cells and within organisms.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>The progress in theory, imaging technology, and techniques like microfluidics, have given scientists ways to study developing systems in a much more dynamic manner \u2013 yielding findings that could even be drivers for preventing and treating developmental diseases and disorders. However, this research is fundamental, with the central goal of gaining a clearer understanding of living systems and the varied internal and external cues that provoke changes in form, function, and behaviour.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:heading -->\n<h2 class=\"wp-block-heading\"><strong>Where physics meets sea anemones<\/strong><\/h2>\n<!-- \/wp:heading -->\n\n<!-- wp:image {\"align\":\"left\",\"id\":64017,\"width\":\"291px\",\"height\":\"auto\",\"aspectRatio\":\"0.6513671875\",\"sizeSlug\":\"large\",\"linkDestination\":\"none\"} -->\n<figure class=\"wp-block-image alignleft size-large is-resized\"><img src=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/Soham-Basu_cropped-667x1024.jpg\" alt=\"Male scientist sitting on a chair inside a laboratory\" class=\"wp-image-64017\" style=\"aspect-ratio:0.6513671875;width:291px;height:auto\"\/><figcaption class=\"wp-element-caption\">Soham Basu's interest in the theoretical physics related to dynamical systems has found its place in developmental biology. Credit: Ivy Kupec\/EMBL<\/figcaption><\/figure>\n<!-- \/wp:image -->\n\n<!-- wp:paragraph -->\n<p>Dynamical systems are not new to Soham Basu, a PhD student who moved to EMBL from Kolkata, India, transitioning from studying astronomy and theoretical physics to doing hands-on experimental biology in Aissam Ikmi\u2019s research group.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Physicists have long applied dynamical systems to studying particles, or ensembles of particles, whose states vary over time, and this was the part of theoretical physics that most captivated Basu.&nbsp;&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>From his undergraduate days of coding, running simulations, and debugging theoretical suppositions, Basu moved on to observing the early morphogenesis of the starlet sea anemone <em>Nematostella vectensis<\/em> in the lab. <em>Nematostella<\/em>, an evolutionarily ancient, simple, yet distinctive genus, doesn\u2019t exhibit signs of ageing and has regenerative capabilities.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:image {\"align\":\"right\",\"id\":64063,\"width\":\"329px\",\"height\":\"auto\",\"aspectRatio\":\"1\"} -->\n<figure class=\"wp-block-image alignright is-resized\"><img src=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/image-2.jpeg\" alt=\"A microscopy image showing the mouth of a Nematostella larva. Four projections can be seen, with the endoskeleton and nuclei marked in blue and orange, respectively. \" class=\"wp-image-64063\" style=\"aspect-ratio:1;width:329px;height:auto\"\/><figcaption class=\"wp-element-caption\">The mouth of a young <em>Nematostella<\/em> larva becoming a polyp. The four projections will later form the tentacles that it would use to grab food. In blue is the endoskeleton (Collagen IV), essentially their bones to support their body structure. In orange are the nuclei that contain the genetic information. Credit: Soham Basu\/EMBL<\/figcaption><\/figure>\n<!-- \/wp:image -->\n\n<!-- wp:paragraph -->\n<p><em>Nematostella<\/em> constantly expand and contract while water is pumped through their body cavity. Basu wanted to understand how the anemones\u2019 very flexible skeletons couple with surrounding tissue and how the combination dictates the organism's tube-like shape. On small time scales, such as seconds, the continuous pumping of water doesn\u2019t have much impact on <em>Nematostella\u2019s <\/em>size, but it underlies their flexibility.&nbsp; However, on a longer time scale, the anemones keep growing incrementally, while also becoming less flexible. Basu refers to this phenomenon as a \u2018bridging of the scales\u2019.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>With support from EMBL\u2019s Advanced Light Microscopy Facility team and its microscopes, Basu follows the growth trajectory of <em>Nematostella <\/em>larvae over a 36-hour period, finding ways to zero in on specific points in the growth process and at key locations of their developing bodies and explain the incremental biophysical process that stabilises the shape of the sea anemone at each step.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cAt this point, we have a beautiful story of how interactions are happening,\u201d Basu said. \u201cAnd, in a way, I\u2019m coming full circle, now collaborating with a theoretical biophysicist, who is well known for his work in morphogenesis.\u201d<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:heading -->\n<h2 class=\"wp-block-heading\"><strong>Synchronicity and the rhythm of cells<\/strong><\/h2>\n<!-- \/wp:heading -->\n\n<!-- wp:paragraph -->\n<p>Each of us begins life as a single cell, which then divides into a mass of undifferentiated cells. Bit by bit, these undifferentiated cells get assigned functions and positions, and take these up to give rise to a specific shape per a body plan. This basic understanding is at the crux of the work of several researchers in Alexander Aulehla's research group, including Simona Gio\u00e8 and Sarkis Tafnakaji, both PhD students; and Simon Knoblich, a trainee who came to EMBL from medical school.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:image {\"id\":64061} -->\n<figure class=\"wp-block-image\"><img src=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/image-1.jpeg\" alt=\"Three scientists standing inside a laboratory. The female scientist on the left is holding what looks like a set of narrow tubing. \" class=\"wp-image-64061\"\/><figcaption class=\"wp-element-caption\">(Left to right) Simona Gio\u00e8, Simon Knoblich, and Sarkis Tafnakaji, from the Aulehla group, are particularly interested in the synchronicity of events that occur just as undifferentiated cells get assigned functions per the body plan. Credit: Kinga Lebowiecka\/EMBL<\/figcaption><\/figure>\n<!-- \/wp:image -->\n\n<!-- wp:paragraph -->\n<p>During development, each cell needs to know what to do and when to do it in coordination with everything that is going on. Gio\u00e8, Tafnakaji, and Knoblich are studying these timing cues and the larger impact they have on an organism\u2019s development.&nbsp;&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cIn my research, I am looking at the timing of somite formation (the precursors to vertebrae) and trying to figure out what else is being controlled by this timing \u2013 is it just the time when things form, or does it influence the shape they will have?\u201d said Gio\u00e8, who comes to EMBL from Italy.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Gio\u00e8 uses a technique called microfluidic entrainment to manipulate the tempo of a \u2018segmentation clock\u2019 that dictates the rate of skeletal formation in mice embryos.&nbsp; Microfluidics involves the precise control and manipulation of flows with miniaturised devices. Using such a system, she periodically flushes the embryo with drugs that slow down or speed up development and then observes developmental consequences, such as changes in shape in the developing mice. In her current work, she looks specifically at signalling via the Notch pathway that not only is central to normal development but has been connected to tumour development.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Gio\u00e8 follows skeletal development over 24 hours, taking images every 10 minutes. She then uses these images to reconstruct the time series and better understand the interconnectedness of the dynamics occurring at any given point. With this method, she is able to observe something not visible normally because it happens inside the uterus. The microfluidics bring it \u2018ex vivo\u2019 so she can capture a \u2018sweet spot\u2019 of imagery to see otherwise unknown nuances and analyse the dynamics in a manageable way.&nbsp;&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Likewise, Knoblich, who comes to EMBL from Austria, is applying this same microfluidics approach to Japanese rice fish (medaka) for his research. He hopes to better understand the segmentation clock in a non-mammal vertebrate model.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Medaka embryos usually develop in the brackish water of rice fields in Japan. While the average water temperature is 28\u00b0C, embryos can experience seasonal and daily temperature fluctuations ranging from 10\u00b0C to 35\u00b0C. Despite these drastic conditions, medaka embryonic development has been shown to be remarkably robust. Knoblich is trying to gain an understanding of the segmentation clock, which is typically set to produce a new segment or somite every 80 minutes at 27\u00b0C. This is a faster model organism than the mouse, and comes with a wide array of genetic tools that offer Knoblich a variety of options for manipulating and viewing the transparent fish embryos.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:image {\"align\":\"left\",\"id\":64021,\"width\":\"264px\",\"height\":\"auto\",\"aspectRatio\":\"0.5634765625\",\"sizeSlug\":\"large\",\"linkDestination\":\"none\"} -->\n<figure class=\"wp-block-image alignleft size-large is-resized\"><img src=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/Killifish-larvae-577x1024.jpg\" alt=\"A petri dish containing a large number of killfish embryos. \" class=\"wp-image-64021\" style=\"aspect-ratio:0.5634765625;width:264px;height:auto\"\/><figcaption class=\"wp-element-caption\">Simon Knoblich is expanding his research to include <em>Nothobranchius furzeri <\/em>killifish embryos that are able to enter diapause, which allows them to survive annual dry periods and environments hostile to other fish species, much like in this petri dish that contains killifish embryos for his research. He is interested in connecting his observations in medaka with the related species to gain an understanding of developmental timing in these unique species. Credit: Ivy Kupec\/EMBL<\/figcaption><\/figure>\n<!-- \/wp:image -->\n\n<!-- wp:paragraph -->\n<p>In another project, Knoblich looks specifically at the very first stages of embryo development when medaka and other teleost (related ray-finned fish) embryos spread over their yolk in a fairly short span of time, undergoing significant morphogenetic and developmental changes. Knoblich is particularly interested in the collective calcium signalling that occurs in waves and that traverses throughout entire embryos at this stage.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cWhat I\u2019ve found interesting is the comparative nature of this research,\u201d Knoblich said. \u201cIt\u2019s why I\u2019m looking at doing similar experiments with killifish that experience diapause, a condition which suspends development and allows them to survive annual dry periods and environments hostile to other fish species. Despite being closely related to medaka, killifish go through very different early developmental stages that can span days to months (as opposed to hours in medaka), for reasons, and with biological mechanisms, not entirely understood yet.\u201d<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Tafnakaji\u2019s work also is connected to Knoblich and Gio\u00e8\u2019s research projects in that he wants to know how the dynamic signalling involved in somite formation instructs the developmental progress and subsequent differentiation.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Tafnakaji, who grew up in Armenia and Syria and came to EMBL after R&amp;D research at AstraZeneca in Sweden, was also inspired by the segmentation clock.&nbsp; Wave-like signals across the developing tissue provide many cues for the cells. His work explores which of these cues are most relevant for the cells to synchronously and precisely form somite structures. Working with Gio\u00e8, Tafnakaji explores also how the change of timing in cellular communication can instruct the patterning of a developing embryo body.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Understanding these aspects of cell communication helps inform basic questions like, \u2018If you have a group of identical cells, what are the different ways we might instruct them to create new, different types of tissues or structures?\u2019<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cThis is curiosity-driven fundamental information that will help us later in realising our full potential in any sort of field in which cells are the building blocks, such as tissue engineering or cellular therapeutics,\u201d Tafnakaji said. \u201cThis can be foundational work for anything we want to do that is cell-based.\u201d<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:heading -->\n<h2 class=\"wp-block-heading\"><strong>Studying key transitional moments in development<\/strong><\/h2>\n<!-- \/wp:heading -->\n\n<!-- wp:paragraph -->\n<p>Just as Knoblich looks specifically at the very first stages of embryo development and the collective waves there, so do the researchers in Nicoletta Petridou\u2019s group at EMBL Heidelberg.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>The survival of the embryo is critically dependent on certain key transitions that occur early in development. Lena Schindler and Camilla Autorino, PhD students in the Petridou group, are focusing on a very short transitional window in zebrafish embryo development that may provide important clues to the biophysical interactions that shape this process.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Schindler and Autorino are exploring the biological functions of tissue transitions in development \u2013 work inspired by Petridou\u2019s postdoc research at the Institute of Science and Technology, Austria. Petridou joined EMBL in 2020 and is originally from Cyprus. While observing the very first movement that embryonic tissue undergoes during development, she noticed a rapid transition where the tissue goes essentially from a solid to fluid state, and the cells\u2019 collective resistance to flow abruptly drops.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:image {\"id\":64015,\"sizeSlug\":\"large\",\"linkDestination\":\"none\"} -->\n<figure class=\"wp-block-image size-large\"><img src=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/Develomental-Biology_Lena-Schindler-and-Camilla-Autorino_10718-Edit-Edit-1024x683.jpg\" alt=\"Two female scientist looking at a tank containing zebrafish. An overlay shows steps in zebrafish embryonic development.\" class=\"wp-image-64015\"\/><figcaption class=\"wp-element-caption\">Lena Schindler and Camilla Autorino may be looking at adult zebrafish here, but their research focuses on key transitional moments in zebrafish embryonic development in EMBL's Petridou group. Credit: Stuart Ingham\/EMBL<\/figcaption><\/figure>\n<!-- \/wp:image -->\n\n<!-- wp:paragraph -->\n<p>The scientists describe this as a fluid state because the material state is measured based on its viscosity. Initially, when pipetted, the tissue shows high resistance and doesn't quite \"flow\" up the pipette (like honey). Once the transition has happened, it is much more deformable and moves up the pipette quickly (more like water). Later, it changes back to a less deformable state.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Petridou\u2019s work brought her in contact with Bernat Corominas-Murtra, a physicist at the University of Graz, Austria, who was also studying phase transitions, albeit not in biological systems. Petridou applied a mathematical framework from 1864 that used the concept of networks to understand real material properties of embryonic tissues. This subsequently helped shape her research direction.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cImagine an iron bridge composed of lots of bars. You don\u2019t have to remove all the bars for the bridge to collapse; it may only require a few bars being removed,\u201d Petridou explained. \u201cSo, then, instead imagine this breach is happening in a network of cells and links between cells. As links are removed, the whole network becomes unstable, vulnerable to breaking.\u201d<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Petridou soon found that the minimum number of connections required to break a network, as predicted in the mathematical theory from 1864, matched what she found to be true in tissues as well. And rather than activity just <em>within <\/em>the cell, a cell\u2019s connections to other cells determined the key solid-to-fluid transition of the tissue.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>This approach has informed a lot of the Petridou group\u2019s work on critical transitional moments in embryo development, where tiny cellular manipulations can have a tissue-scale effect, simply by disrupting the synchronicity between biological processes. As connections between cells change, transitions occur because collective tissue properties are changing too. The group is still investigating if and how cells respond to their environment and its changes.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cI think this is what is so interesting;&nbsp; you don't have a steady state,\u201d said Autorino, who joined Petridou\u2019s group in 2020 and is originally from Italy. \u201cThe system keeps changing. In 10, 15, or 20 minutes, you create a new normal. And then it changes again.\u201d&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>In that 10-minute period when zebrafish embryos are just beginning to set up their body plan, the tissue of the future embryo spreads and starts to cover the yolk while the yolk \u2018domes\u2019 upward into it to assist the process, as seen in the video here.&nbsp; Schindler, who came to EMBL from Austria, wants to better understand how cells work together to form tissues, and uses this key transition to understand how the synchronisation between cell divisions in the embryo (or lack thereof) can help regulate this process.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:video {\"id\":64049} -->\n<figure class=\"wp-block-video\"><video controls src=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/2022_12_17-03_AcquisitionBlock3_pt3-1.mp4\"><\/video><figcaption class=\"wp-element-caption\">During the onset of morphogenesis the zebrafish embryo undergoes tissue scale rearrangements. At the same time, the cells close to the yolk start the path towards differentiation (visible in green through the fate marker Sebox). Cell membranes are in red, and nuclei in blue. Live imaging like this allows the scientists to monitor both tissue and cellular scale properties throughout developmental transitions. Credit: Camilla Autorino\/EMBL<\/figcaption><\/figure>\n<!-- \/wp:video -->\n\n<!-- wp:paragraph -->\n<p>\u201cBasically, I draw connections from the spaces between the cells,\u201d Schindler said. \u201cI can follow along as they divide cell by cell, sorting cells that are connected and creating maps that our mathematical collaborators then can use to compute correlations.\u201d&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Autorino\u2019s work, on the other hand, focuses on a very specific region of the embryo that is the first to have its \u2018fate\u2019 determined; it marks the first signalling events happening in the tissue. As this happens, Autorino also observes mechanical and material property changes. Consequently, she aims to characterise how these mechanical and material properties affect what the cells ultimately transform into.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>As recently as five years ago, one would be hard-pressed to find scientific literature about applying phase transition research in developing systems. But this approach has even broader applications. Metastasis in cancer cells, Petridou explains, is basically a transition of a solid tumour to a gas because the density of the cells becomes so sparse. On a much larger scale, avalanches, ecosystem transitions, and climate changes are also ripe for studying in this way.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:heading -->\n<h2 class=\"wp-block-heading\"><strong>When time, timing, and transitions entangle<\/strong><\/h2>\n<!-- \/wp:heading -->\n\n<!-- wp:image {\"id\":64023,\"sizeSlug\":\"large\",\"linkDestination\":\"none\"} -->\n<figure class=\"wp-block-image size-large\"><img src=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/Alexander-Aulehla-1024x576.jpg\" alt=\"A male scientist in front of a chalkboard.\" class=\"wp-image-64023\"\/><figcaption class=\"wp-element-caption\">The head of EMBL's Developmental Biology unit, Alexander Aulehla, outlines the central questions around time, timing, and transitions that are addressed in different contexts across EMBL\u2019s Developmental Biology unit. Credit: Ivy Kupec\/EMBL<\/figcaption><\/figure>\n<!-- \/wp:image -->\n\n<!-- wp:paragraph -->\n<p>The overlap between many of these research projects seems inevitable. Transitions depend on the synchronisation of multiple systems, and all such processes are controlled in space and also in time.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cThere\u2019s a very fundamental way that life is organised, and the notion of time and timing is at the heart of it,\u201d said Alexander Aulehla, the head of EMBL\u2019s Developmental Biology unit. \u201cWithin our bodies, we have different rhythms in different parts of our bodies, and these are coordinated.\u201d<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Aulehla is in turn fascinated with this natural synchronicity, seen across scales in biological systems.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cEven after an opera, think of the way a standing ovation takes over an audience,\u201d he said. \u201cYou are just part of this moment that becomes synchronised with no maestro directing you.&nbsp; And that\u2019s the kind of coordination that is happening between cells in every early embryo.\u201d<\/p>\n<!-- \/wp:paragraph -->","post_title":"Why time is of the essence in development","post_excerpt":"EMBL developmental biologists \u2013 with help from other disciplines \u2013 pursue the significance of time, timing, and transitions in organisms during their development","post_status":"publish","comment_status":"closed","ping_status":"closed","post_password":"","post_name":"why-time-is-of-the-essence-in-development","to_ping":"","pinged":"","post_modified":"2023-11-15 10:13:44","post_modified_gmt":"2023-11-15 09:13:44","post_content_filtered":"","post_parent":0,"guid":"https:\/\/www.embl.org\/news\/?post_type=embletc&#038;p=63993","menu_order":0,"post_type":"embletc","post_mime_type":"","comment_count":"0","filter":"raw"},{"ID":63995,"post_author":"159","post_date":"2023-11-15 10:00:00","post_date_gmt":"2023-11-15 09:00:00","post_content":"<!-- wp:paragraph -->\n<p>DNA is essentially a long thread of genetic code that can be deciphered to access the fundamental instructions for life. In the late 1970s, British scientist Frederick Sanger developed a pioneering method for DNA sequencing \u2013 a breakthrough that earned him his second Nobel Prize in Chemistry in 1980. Ten years after this breakthrough, an international team of scientists set out to sequence all 3 billion letters of the human genome, launching the Human Genome Project. In 2003, two years ahead of schedule, the ambitious goal was reached, and the human genome was sequenced to 99.99% accuracy. By 2007, older sequencing technologies were supplanted by newer methods, collectively called next-generation sequencing, greatly expanding the scope of genomics research.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>The EMBL Genomics Core Facility, also known as GeneCore, has lived through this revolution in the field of genomics. The facility started out in 2001 as a Sanger sequencing provider, under the aegis of biochemist Vladimir Benes, who still leads the facility today. Twenty-two years later, it has evolved into an advanced next-generation sequencing platform.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p><a href=\"https:\/\/www.embl.org\/groups\/genomics\/members\/\">The GeneCore team<\/a> currently consists of five research technicians, three bioinformaticians, two senior engineers, and several visiting fellows and associates, who are dedicated to supporting researchers across EMBL's member states. In addition to providing a wide array of advanced genomics services, the facility serves as a vital resource, facilitating groundbreaking research and fostering scientific innovation. <\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:image {\"id\":64027,\"sizeSlug\":\"large\",\"linkDestination\":\"none\"} -->\n<figure class=\"wp-block-image size-large\"><img src=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/Genonic-Core-Facitiies_029-1024x683.jpg\" alt=\"Two GeneCore staff members looking at a liquid handling robot. \" class=\"wp-image-64027\"\/><figcaption class=\"wp-element-caption\">Ferris Jung, Senior Engineer of NGS Automation and Laura Villacorta, Research Technician, with the liquid handling robot used for automated preparation of NGS libraries. Credit: Stuart Ingham\/EMBL<\/figcaption><\/figure>\n<!-- \/wp:image -->\n\n<!-- wp:paragraph -->\n<p>At its core, the facility specialises in providing genomics technologies, with a primary focus on sequencing techniques. The platform is well-versed in the latest advancements, including what is commonly referred to as next-generation high-throughput sequencing or more accurately, massively parallel sequencing (MPS).<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cThe GeneCore team provides a complete service, from library preparation to sequencing. Beyond the regular services, Vladimir and colleagues are also helpful in developing methods where none exists,\u201d said Ramesh Pillai, Professor at the University of Geneva, Switzerland, and one of GeneCore\u2019s users.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Another strength of GeneCore is its significant reach within the scientific community in EMBL\u2019s member states. This vast network of users underscores the facility's importance and its role as a central hub for genomics research. \u201cWe are here to help people flourish in their genomics projects, and this is an element which we believe makes us stronger as a service facility,\u201d said Benes.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:image {\"id\":64029,\"sizeSlug\":\"large\",\"linkDestination\":\"none\"} -->\n<figure class=\"wp-block-image size-large\"><img src=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/Genonic-Core-Facitiies_110-1024x683.jpg\" alt=\"A female researcher looking at an illumina sequencer. \" class=\"wp-image-64029\"\/><figcaption class=\"wp-element-caption\">Daphne Welter, Research Technician monitoring the performance of the Illumina sequencer analysing NGS libraries. Credit: Stuart Ingham\/EMBL<\/figcaption><\/figure>\n<!-- \/wp:image -->\n\n<!-- wp:heading -->\n<h2 class=\"wp-block-heading\"><strong>Enabling diverse user projects \u2013 from COVID-19 to the flu virus<\/strong><\/h2>\n<!-- \/wp:heading -->\n\n<!-- wp:paragraph -->\n<p>Over the course of its two decades in operation, GeneCore has made significant contributions to a diverse range of projects.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>In 2020, following the outbreak of COVID-19, scientists sequenced the genome of the SARS-CoV-2 virus, creating a significant impact on the global response to the pandemic. GeneCore played its part here, both in the development of tests for diagnostics and in the monitoring of variants. \u201cWhen the pandemic reached us, we were able to pretty quickly set up testing schemes for EMBL,\u201d said Benes. \u201cWe also participated in the sequencing of positive samples from PCR analysis for the identification of SARS-CoV-2 variants of concern. And even there, we were prepared, which is one of GeneCore\u2019s assets.\u201d<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Another example is a long-standing collaboration with Stephen Cusack, former Head of EMBL Grenoble, who has been studying the influenza virus for more than 30 years, contributing to one of the most detailed descriptions of the influenza virus\u2019s RNA polymerase. \u201cCusack\u2019s group created an artificial system to unveil the influenza virus polymerase function, which needed sequencing experiments to be verified,\u201d said Benes. \u201cThey came to us and we helped them solve it. We make sure to take on every project with the same degree of commitment.\u201d<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:image {\"id\":64031,\"sizeSlug\":\"large\",\"linkDestination\":\"none\"} -->\n<figure class=\"wp-block-image size-large\"><img src=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/Genonic-Core-Facitiies_130-Edit-1024x683.jpg\" alt=\"Two female scientists seen from above using a high-resolution electrophoresis Femto instrument\" class=\"wp-image-64031\"\/><figcaption class=\"wp-element-caption\">Hilal Ozgur and Mireia Osuna Lopez, Research Technicians in the GeneCore team, using the high-resolution electrophoresis Femto instrument to check the DNA samples' integrity prior to their processing for long-read sequencing. Credit: Stuart Ingham\/EMBL<\/figcaption><\/figure>\n<!-- \/wp:image -->\n\n<!-- wp:paragraph -->\n<p>\u201cThe GeneCore team has played a central role in advancing the success of my PhD project, notably by establishing tailored capture protocols to investigate the structure of the inactive X chromosome,\u201d said Antonia Hauth, PhD student in the Heard Group at EMBL. \u201cIt is invaluable to have such experts at EMBL, whom we can always directly reach and who have extensive expertise in many (if not all) sequencing-based experiments you could wish for.\u201d&nbsp;&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>GeneCore manages an impressive volume of samples, with approximately 20,000 currently in its care, encompassing both physical specimens and data. Of these, a remarkable 10,000 samples undergo various processing methods to make them suitable for sequencing, underscoring the facility's dedication to advancing genomics within the EMBL research community.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:heading -->\n<h2 class=\"wp-block-heading\"><strong>Democratising model organism research and handling data<\/strong><\/h2>\n<!-- \/wp:heading -->\n\n<!-- wp:paragraph -->\n<p>Genomics technologies have advanced significantly in recent years, becoming increasingly faster and more efficient. Modern sequencers, like those based on Illumina's technology, can generate millions to billions of DNA sequences in a single run, producing terabytes of data in a matter of hours. As of today, some of the fastest high-throughput DNA sequencers can sequence the DNA of a human-sized genome (approximately 3 billion base pairs) in a matter of hours to a day.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cWe get every kind of organism, from all sorts of bacteria, fish, mice, and human samples. A couple of years ago the concept of model organisms was very biased due to their historically accessible features. With sequencing, you can have your own model organism\u201d said Benes. \u201cNext-generation sequencing has, in a way, democratised this space, by opening up access to the primary information which every organism has \u2013 the genome.\u201d&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Beyond the provision of cutting-edge technology, GeneCore actively assists researchers in taking their genomics projects to completion, ensuring they receive the guidance and support needed for success. With an end-to-end service, the facility guides the users from the experimental design to the final data analysis and interpretation of results.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cGenecore has helped me to fully understand the technicalities behind my sequencing projects and this has greatly improved the quality and throughput of my work,\u201d said Carlos Voogdt, EIPOD Postdoctoral fellow in the Zimmermann, Typas, and Zeller groups. \u201cWith their expertise and patience, they are also assisting us in the generation of high-quality whole-genome sequences of hundreds of bacterial strains.\u201d<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cThe dedication of the Genecore Team leads to high-quality data that is fundamentally supporting our research questions,\u201d said Matthias Gro\u00df, Research Technician in the Zimmermann Group at EMBL Heidelberg.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>GeneCore also supports scientists in managing the impressive data volumes that come out of sequencing experiments \u2013 one single DNA sequencing run can produce data comparable to the amount of text found in more than 1 million average-sized novels, assuming each base sequenced corresponds to a letter in a book.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cTo date, GeneCore has generated more than 100 terabases of MPS sequence data for its users,\u201d said Benes. \u201cSuch data volumes can be overwhelming, and for sure, we need to interpret them, and this requires a very intimate interaction with the users. That\u2019s why GeneCore is also equipped with computational biologists and bioinformaticians. On top of that, we also train the users to interpret their own data. It\u2019s one of GeneCore\u2019s priorities to provide guidance throughout experiments.\u201d<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:image {\"id\":64055} -->\n<figure class=\"wp-block-image\"><img src=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2023\/11\/image.jpeg\" alt=\"Four sequencing machines inside the GeneCore facility\" class=\"wp-image-64055\"\/><figcaption class=\"wp-element-caption\">GeneCore sequencing room, with Illumina Sequencers running; their powerful suite provides users with adequate flexibility and throughput to meet their needs timely. Credit: Stuart Ingham\/EMBL<\/figcaption><\/figure>\n<!-- \/wp:image -->\n\n<!-- wp:heading -->\n<h2 class=\"wp-block-heading\"><strong>Looking ahead: the future of genomics<\/strong><\/h2>\n<!-- \/wp:heading -->\n\n<!-- wp:paragraph -->\n<p>According to Benes, genomic sequencing of cancer cells is one of the key topics destined to be more and more relevant in the future. \u201cThere\u2019s no question that genomics will help substantially in cancer research. There are also many other diseases with genetic underpinnings, and sometimes the detail is incredibly small \u2013 like single base mutations in the DNA. This is not very easy to find, and GeneCore helps find these tiny hallmarks in genomes,\u201d he said. \u201cThe refinement of sequencing methods will also continue to advance rapidly.\u201d The facility is also poised to provide significant support for TREC Traversing European Coastlines (TREC), the flagship project of EMBL\u2019s <a href=\"https:\/\/www.embl.org\/about\/programme\/research-plans\/planetary-biology\/\">Planetary Biology<\/a> transversal theme.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cWe\u2019re seeing TREC samples coming into the facility already,\u201d said Benes. \u201cOur contribution to the project revolves around single-cell transcriptomics and DNA barcoding.\u201d For example, in collaboration with Flora Vincent, Group Leader at EMBL Heidelberg, the GeneCore team helped optimise the method for direct DNA barcoding, eliminating the need for DNA isolation.&nbsp;<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>Furthermore, working alongside Rainer Pepperkok, Director of Scientific Core Facilities and Services, EMBL, and Johan Decelle, Junior Group Leader at CNRS, the team will be spearheading single-cell transcriptome analysis.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cThe GeneCore team is also putting great effort into reducing waste as much as possible,\u201d said Gro\u00df. \u201cTheir offer to share a number of instruments and train users for those could serve as a role model for many other institutes all over Germany to become more sustainable.'<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>In a time defined by extraordinary progress in genomics and its maturing tools, Benes and the GeneCore team at EMBL will continue to shape the way we think about science and address global challenges.<\/p>\n<!-- \/wp:paragraph -->\n\n<!-- wp:paragraph -->\n<p>\u201cSequencing always brings the element of surprise, as it often uncovers unexpected findings, and this sense of discovery is what makes running the platform so exciting,\u201d concluded Benes.<\/p>\n<!-- \/wp:paragraph -->","post_title":"Embracing the genome sequencing revolution","post_excerpt":"EMBL\u2019s Genomics Core Facility provides end-to-end support to researchers across Europe and beyond and stands at the forefront of scientific breakthroughs.","post_status":"publish","comment_status":"closed","ping_status":"closed","post_password":"","post_name":"embracing-the-genome-sequencing-revolution","to_ping":"","pinged":"","post_modified":"2023-11-15 10:09:56","post_modified_gmt":"2023-11-15 09:09:56","post_content_filtered":"","post_parent":0,"guid":"https:\/\/www.embl.org\/news\/?post_type=embletc&#038;p=63995","menu_order":0,"post_type":"embletc","post_mime_type":"","comment_count":"0","filter":"raw"}]},"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v26.2 - 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