Computomics: Discussions On Innovations To Drive Advanced Agriculture Solutions

If you are interested in the future of agri-food innovation, this episode offers a clear view of where the sector stands today: more practical, more disciplined, and more focused on technologies that can prove their value in the real world.

In the final episode of Season 7 of the Computomics Podcast, we speak with Louisa Burwood-Taylor, Chief Communications and Intelligence Officer at AgFunder, a global venture capital investor working at the intersection of agri-food, AI, biology, climate, and deep tech.

Louisa explains why agriculture remains one of the most challenging sectors for startups. A technology may be scientifically strong and technically impressive, but it still has to work across different soils, crops, climates, production systems, and growing cycles. In agriculture, innovation only matters if it can create real value for growers, supply chains, and the wider food system.

The episode also looks at the growing role of multi-sector platforms, corporate partnerships, biologicals, robotics, physical AI, and the connection between agriculture, nutrition, and human health. From precision robotics to self-driving labs, Louisa shares a practical and optimistic perspective on where agri-food innovation is heading next.

Companies and people mentioned:

AgFunder, Verdant Robotics, Gabe Sibley (Verdant Robotics), Reservoir Farms, Atinary, Bayer, John Deere, and Bear Flag Robotics.

In this episode, Darryn Keiller, Futurist, Entrepreneur, and founder of WayBeyond, discusses how digital agronomy helps growers make better decisions with data. He explains how farms can combine sensor, environmental, plant-response, and satellite data to improve daily decisions, predict risks, and raise yield and fruit quality. The conversation also covers the challenges of introducing new technology into agriculture, especially around trust and data ownership. Darryn argues that AI will not replace growers, but support them by closing knowledge gaps, and helping younger professionals adapt faster. It also enables farming systems to respond better to climate change, labor shortages, and growing production pressures.

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Chris Kubica, Technical Account Manager at Computomics, discusses the importance of pangenomes for modern plant breeding. He explains that traditional genomics relies on a single reference genome, which cannot capture the full genetic diversity of a species. This is a big problem in complex plant genomes, where major parts of breeding-line diversity can be absent from the standard reference. A pangenome combines multiple assemblies to represent more of a species’ variation and to unlock hard-to-find trait signals. Chris introduces Pantograph, Computomics’ “omics browser”, which allows users to visualize and explore structural variation and integrate diverse omics data such as gene expression and variant information. Hear about current and planned capabilities in this informative and enjoyable episode!

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This episode of the Computomics Podcast features Vanessa Prigge, potato breeder and R[&]D project manager at Saka Pflanzenzucht (Solana Group). She discusses her international research background, the unique challenges of potato breeding - such as vegetative propagation, complex genetics, and long breeding cycles - and the need for compromise-driven selection. Vanessa highlights two major projects: IPMorama, which promotes integrated pest management through resistant varieties, monitoring, and stakeholder collaboration, and POMORROW, which unlocks potato gene bank diversity for future-proof breeding. Together, these efforts aim to make potato breeding more sustainable, collaborative, and future-ready..

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In this episode of the Computomics podcast, Vonnie Estes, VP of Innovation at the International Fresh Produce Association (IFPA), shares insights on the challenges the produce industry faces, particularly around climate change, pest management, and cold chain logistics. She discusses the importance of AI and machine learning in enhancing supply chain efficiency and food safety. Vonnie also highlights IFPA’s initiatives, such as "Supply Chain of the Future" and efforts to reduce single-use plastic in packaging. A grant program supports innovation in the produce sector, offering funding opportunities for startups in developing solutions to industry problems.

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In this episode of the Computomics podcast, Pernille Ollendorff Hede, CEO and co-founder of Healthycrop, discusses the company's innovative approach to fungal-resistant crops. Healthycrop boosts the production of Nepenthesin, a naturally occurring enzyme in plants, to degrade fungal enzymes, preventing fungal growth without the need for fungicides. Using cis-genesis and gene editing techniques, Healthycrop enhances the plant's natural defense. While these techniques are classified as genetically modified (GM) in Europe, they are considered non-GM in the U.S. Pernille shares the company's mission to revolutionize agriculture by offering sustainable solutions and hopes for regulatory changes in Europe to facilitate broader adoption.

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This episode features Dr. Michael Kotutwa Johnson, a Hopi dryland farmer from Arizona’s Colorado Plateau. He shares how his community has grown crops for 3,000 years on just 6-10 inches of annual rain without irrigation. Using deep planting, wide spacing, clumped seeds, and reading native vegetation, Indigenous farming conserves moisture and maintains biodiversity. It yields nutrient-rich crops without chemicals, protects soil, and integrates spiritual traditions. Climate change impacts - shorter summers, longer winters, less precipitation - are addressed by adapting planting practices and trusting in seed adaptation through continual cultivation. Michael advocates for growing seeds annually to keep them climate-resilient, and for revitalizing Indigenous food systems to combat health crises like diabetes. Beyond yields, the Hopi system offers values of stewardship, sharing, and hope, which he believes can inspire global agricultural approaches.

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Our guest in this episode is Kinneret Shefer, co-founder and CEO of AgTech startup GeneNeer. Kinneret shares the founding of GeneNeer, driven by her shift from pure RNA research to market-driven innovation. GeneNeer aims to revolutionize crop breeding by drastically shortening trait development time using fast, tissue culture-based gene editing platforms. Kinneret compares her vision for GeneNeer to Pfizer's rapid vaccine development during COVID-19, enabling fast responses to agricultural challenges like drought or new pests. GeneNeer's "super line" platform allows rapid, iterative trait development with backup options, while their AI-supported platform enables precise, tissue- and time-specific gene editing without introducing foreign DNA. GeneNeer's business model includes custom collaborations and independent product development.

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Our new episode explores science communication with Tamara Worzewski, focusing on overcoming "plant blindness" and engaging the public with plant-related topics. Tamara highlights the importance of storytelling in making science accessible and building trust between scientists and the public. Topics range from Arctic ecosystems to public outreach strategies, emphasizing creative ways to connect people with plants and nature. Titles like “Plants, Stories, and Science” and “Breaking Plant Blindness” reflect this blend of narrative and education. The conversation inspires innovative approaches to connecting people with science.

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In this episode, John McKay, Chief Scientific Officer at New West Genetics and professor at Colorado State University, discusses his research on local adaptation, genotype-by-environment interactions, and heterosis. His work spans crops like maize, rice, and hemp, applying evolutionary genetics to improve breeding strategies. John's projects aim to enhance crop efficiency and sustainability.

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In this episode, Gabriele Berg, a renowned microbiome researcher, discusses her work on microbial communities and their impact on health and planetary ecosystems. She emphasizes the interconnectedness of microbiomes in plants, soil, and humans, and aims to enhance ecological and human health. The project An Apple a Day revealed the microbiome's role in apple health, highlighting microbial diversity within the fruit. Gabriele also talks about Tiny Biome Tales, an educational microbiome-focused game integrating science and public outreach. She advocates soil health restoration, stressing its importance for sustainable food systems. Also, collaboration, innovation, and science communication being key to impactful research.

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This episode is all about reducing the Nitrogen footprint of wheat. Wheat is the world’s largest ‘crop’ consumer of nitrogen-based fertilizer, while providing affordable calories to billions of resource-poor people and ca. 20% of globally consumed protein. Victor Kommerell is the CropSustaiN Mission Director of the BNI (Biological Nitrification Inhibition) wheat initiative launched by the Novo Nordisk Foundation and CIMMYT. The initiative aims to develop new wheat varieties capable of reducing agriculture’s nitrogen footprint. In this enjobyable episode, hear from Victor not only about this ambitious new research initiative, but also about his very unsusual career path and his take on sabbaticals.

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This episode delves into the world of plant phenotyping. Kerstin Neumann shares her insights from managing a very diverse phenotyping infrastructure. Here, field-like growth is enabled under strictly controlled conditions, including setups to measure abiotic stresses. She explains how this enables the non-invasive tracking of plant growth and the involved genomic regions. The conversation also sheds light on INCREASE, a large European project including a Citizen Science Experiment led by Kerstin, now in its 5th year. INCREASE generates phenotypic data for an extensive collection of common bean varieties - with the help of citizens all over Europe who contribute to data collection in an unprecedented number of different locations.

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This episode delves into the world of plant breeding with Professor Mark Cooper. Mark shares insights from his extensive experience in the industry, highlighting the importance of data-driven approaches, computational power, and strategic partnerships. The conversation also sheds light on the ongoing collaboration between Mark's research team and Computomics, focusing on leveraging advanced data analytics and AI to accelerate breeding processes. The episode concludes with a discussion on the future of plant breeding, emphasizing the potential for rapid technological advancements and the importance of data-driven approaches.Professor Mark Cooper is Chair of Prediction Based Crop Improvement at The University of Queensland, and a global leader in quantitative genetics and plant breeding. His work involves integrating genomic prediction and crop growth models into an ‘end to end’ framework for crop improvement. A quantitative geneticist by training, Professor Cooper spent 20 years working with industry in the United States and as CEO of his own consultancy firm Zenrun42, before returning to UQ to build upon the critical mass of predictive agricultural expertise in QAAFI and the wider university.

In this episode Nadine Ziemert, professor for translational genome mining at the University of Tübingen, explores the urgent need for new antibiotics due to rising antibiotic resistance. Gain profound insights on how researchers are using bacterial genomes to predict and discover novel antibiotics. Discover the potential of leveraging machine learning to develop innovative approaches in antibiotics discovery and what role the largely untapped soil microbiome plays. Learn about the ambitiuos mission of the BGC (Biosynthentic Gene Clusters) atlas, a global community project aimed at maping the genetic basis of the chemistry in all kinds of metagenomes present around the world.

Nadine Ziemert received her Diploma and PhD degrees from the Humboldt University in Berlin, followed by a postdoc and project scientist position at the Scripps Institution of Oceanography in La Jolla, California. Since 2015, she is a Professor at the University of Tübingen, where she leads an interdisciplinary research group focusing on genome mining approaches and the evolution of secondary metabolites in bacteria and their diverse functions. Her work focuses on developing bioinformatic tools for the discovery of natural products from microbial genomes, elucidating the evolutionary history of their biosynthetic gene clusters and tracing their distribution in the environment.

In this episode, Matthias Krön, delves into the inception of Donau Soja, its mission, and its pivotal role in European soy production. Discover the intricacies of protein production and consumption in Europe, and the potential for transitioning from imported soy to European soy to substantially reduce CO2 emissions. Gain insights into how our agricultural system has inadvertently fostered a culture of overconsumption.

Matthias Krön was born in Salzburg in 1969. He studied Chinese studies, philosophy and history in Vienna and Taipei. Subsequently he spent one year at the Leo Baeck Institute in New York. After his return to Austria in 1995 he started working in the dairy sector for milk variants based on soy, rice and oats in Austria. Krön acted as CEO and partner of the Mona Group, stepping down as CEO in fall 2011 to concentrate on the soy associations. The Austrian soya association was founded in 2008 as an initiative of the Austrian soy businesses. In spring 2012 the International Danube Soya association was established.Krön now serves as President of the Donau Soja association and advocates a sustainable and regional protein supply in Europe.

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In this episode, Garlich van Essen, Secretary General at Euroseeds discusses the brand new regulation on New Genomic Techniques (NGT). Discover the intricacies of the NGT regulatory framework, from its impact on plant breeding to the distinctions between NGT and GMO. Uncover the power of lobbying and understand how Euroseeds acts as the eyes and ears of the European Seed sector. Get insights on the evolving Euroseeds Congress in Copenhagen and what changes and innovations to expect.

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In this episode with Kai Voss-Fels we dive into the complex world of grapevine breeding. Discover the unique challenges of breeding grafted crops. Enhancing genetic gain becomes multifaceted due to the fact that grapevines consist of two genetically distinct parts, the scion (upper) and rootstock (lower). Our discussion centers on addressing challenges such as water limitation, and drought stress for the lower section, while simultaneously focusing on improving sustainability by introgression of resistances in the uppper part. Moreover, we explore the ACGG (Accelerating Crop Genetic Gain) program, an international research initiative funded by the DFG in Germany, aimed at training PhD students and postdocs to tackle different questions with relevance to speeding up the varietal development process.

Kai Voss-Fels is Professor of Grapevine Breeding at Geisenheim University where he leads a team of researchers, students and technical staff working on genetics, genomics and breeding of grapevine. After completing his PhD in plant breeding and quantitative genetics at Justus Liebig University Giessen in 2016, he was a senior research fellow and group leader at the University of Queensland, Australia from 2017-2021. In 2021, he moved to Geisenheim University to develop a new research program focussed on genomics-assisted rootstock improvement and clonal selection in grapevine.

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In this episode Jörg Hagmann, Product Manager Pantograph, explores the concept of pangenomes, a collection of individual whole genome sequences. Discover the reasons why pangenomes and their associated research field is experiencing growth and increasing significance. Jörg discusses the vision behind the development of the interactive browser Pantograph and illustrates practical applications in pre-breeding and the identification of gene editing targets. Join us as we delve into the landscape of DNA exploration and the promising future of genomic navigation with Pantograph.

Dr. Jörg Hagmann, Product Manager Pantograph, joined Computomics 8 years ago. He studied Bioinformatics at University of Tübingen and McGill, Montréal, and graduated with researching the evolution of epigenetic marks in plants at the Max Planck Institute for Developmental Biology, Tübingen. Besides his broad experience in multiple omics data analysis, Jörg is now working on propelling the representation, use, and visualization of pangenomes forward. He develops a novel interactive pangenome browser called Pantograph.

In this episode Helen Brabham, Team Lead at 2Blades, provides a glimpse into the diverse projects of 2Blades. As a nonprofit organization 2Blades is bridging academia and industry, focusing on advancing scientific technologies for disease-resistant crops. Explore how they translate research into practical solutions for smallholder farmers, such as their Africa Soybean Program combating soybean rust. Delve into the NLRseek initiative, aimed at identifying crucial resistance genes to bolster crop resilience against threats like stem rust. Discover their utilization of gene sequences, harnessing machine learning and protein modeling to enhance predictions.

Helen is a Team Leader at 2Blades, a non-profit organisation dedicated to delivering sustainable and environmentally-friendly genetic solutions to protect crops from plant pests and disease. Helen is based with the 2Blades research team embedded at The Sainsbury Laboratory in Norwich, UK and develops a platform for rapidly identifying resistance genes from plants. Helen completed her PhD at The Sainsbury Laboratory part of the University of East Anglia in 2020, and her BSc in Biology from the University of Bristol. Helen’s research focuses on understanding plant-microbe interactions to build disease resistant crops.

In this episode Addie Thompson, Assistant Professor in the Plant, Soil & Microbial Sciences Department at Michigan State University, discusses her research on disease resistance to tar spot, a fungal pathogen affecting maize. Learn about different modeling prediction techniques and data collection approaches, ranging from manual measurements to high-throughput lidar data obtained via drones. Emphasizing an interdisciplinary approach, Thompson underscores the pivotal role of collaboration in staying at the forefront of research. Additionally, Addie touches on her educational approach in science, teaching her students on how to think about science, how to ask the right questions, and then how to work together in a collaborative group and how to communicate.

Today’s guest is Kalliopi Rantsiou, professor at the University of Turin. Kelly is sharing insights into the SAFFI - Safe Food for Infants – project. This European funded project evaluates how pathogenic microorganisms may contaminate food for infants, and how we can understand ways of controlling these microorganisms. Learn what role next-generation sequencing technologies play in understanding the microbiota. In a second project, Kelly delves into fermented olives trying to understand what the influence of the microbiota during primary production is and how inoculating a microbial community can foster certain health promoting characteristics.

Kalliopi Rantsiou graduated from the University of Athens in Greece in 1997 with a degree in Biology and continued her education at the University of Davis, USA obtaining a PhD in Food Science in 2002. She then returned to Greece and from 2003 to 2005 was scientific advisor regarding microbial hazards for the Hellenic Food Safety Authority. In 2006 she moved to Italy and initiated her researcher career first at the University of Udine and then at the University of Turin. In 2008 she became researcher/lecturer, in 2016 Associate Professor and in 2022 Professor in Food Microbiology at the same University. Her main research interest is microbial ecology of foods with particular emphasis on combining culture dependent and culture independent approaches to describe the microbiota and its function in foods.

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In this episode, we continue our conversation about barley with Matthias Nachtmann, Sustainability Business Development Lead at BASF. Matthias gives us insights into the "Better Barley" project, which has the goal to reduce greenhouse gas emissions in barley cultivation while supporting farmers to meet the high protein standards for malting barley.

Learn how companies can work with farmers to overcome the challenges of balancing sustainability and productivity. By developing new barley varieties that are both high-yielding and sustainable, the project is helping to ensure that the food industry can continue to produce food in a way that is both environmentally friendly and profitable.

Matthias explains their 3-step approach to the project:

1. What do you want?
2. How will the first hectare look like?
3. How is the scale-up plan?

Better Barley Project:

In this episode Cyrill Stachniss, professor at the University of Bonn and spokesperson of the DFG Cluster of Excellence “PhenoRob - Robotics and Phenotyping for Sustainable Crop Production” sheds light on the purpose and focus of PhenoRob. Gain insights into the importance of optimizing field management with digital technologies like robotics or machine learning. How can we analyze every plant at high speed to provide management and automatic target actions for every plant. Are there different complexity levels in analyzing and taking actions? What methods, applications and technologies are used to analyze the data? What's the technological outlook for the next 5-10 years?

Cyrill Stachniss is a full professor at the University of Bonn and heads the Photogrammetry and Robotics Lab. He is additionally a Visiting Professor in Engineering at the University of Oxford and is with the Lamarr Institute for Machine Learning and Artificial Intelligence. Cyrill is a spokesperson of the DFG Cluster of Excellence “PhenoRob - Robotics and Phenotyping for Sustainable Crop Production” at the University of Bonn. Before his appointment in Bonn, he was with the University of Freiburg and the Swiss Federal Institute of Technology, ETH Zurich. The research activities of the Photogrammetry and Robotics Lab focus on probabilistic techniques for mobile robotics, perception, and navigation. This involves developing and applying state estimation, machine learning, and AI algorithms for robots and sensor data interpretation. The team has made several contributions to SLAM, localization, place recognition, semantic scene interpretation, autonomous exploration, and navigation. The main application areas of the lab are autonomous service robots, agricultural robotics, and self-driving cars.
Besides his university involvement, he co-founded three startups: Escarda Technologies, DeepUp, and PhenoInspect.

https://www.phenorob.de/

In this episode Markus Stetter, group leader at the Institute for Plant Sciences at the University of Cologne and member of CEPLAS (Cluster of Excellence on Plant Science) takes us into the exciting history of Amaranth. Markus combines molecular and computational biology approaches to study the domestication of wild plants. Learn how wild plants became crops and how these crops spread around the globe. Furthermore get insights into CEPLAS, its research mission, focus area and education program.

Since 2019, Markus Stetter is a group leader at the Institute for Plant Sciences and member of CEPLAS (Cluster of Excellence on Plant Science). His group is interested in the domestication and evolution of crop plants. To study how wild plants became crops and how the crops spread around the globe the group combines molecular and computational biology approaches. Within BIPON Markus is interested in the conservation and utilisation of genetic diversity from wild plants and novel crops. Markus did his postdoctoral research in the Department of Plant Sciences at the University of California Davis, USA. Before that he was PhD student at the University of Hohenheim, Stuttgart.

In this episode Diego Risso, Executive Director of URUPOV (Uruguayan Plant Breeders Association) and Secretary General of the SAA (Seed Association of the Americas), gives insights into the activities of both organizations. What are the major assets, what are the goals and challenges? Diego talks about the UPOV91 framework, intellectual property rights, plant breeders rights and much more. Which role does technology play for the seed industry? Which technology will be relevant in 2023 for agriculture and the seed industry and has the most impact? Get a recap of the SAA Congress 2022, a short outlook to the congress in 2024 and the importance of gene editing in South America.

Diego Risso got his degree in Agronomy in 1997 and in 2001 completed a postgraduate degree in Marketing and in 2013 a postgraduate in seed technology.He has been the Executive Director of URUPOV (Uruguayan Plant Breeders Association) since 2002 and is responsible for developing royalties’ collection systems and enforcing plant breeder’s rights in Uruguay. In 2005 he took the position of Executive Director of the National Seed Institute (INASE-Uruguay) and returned to URUPOV in 2006. Diego is also the Secretary General of the Seed Association of the Americas (SAA) which headquarters are in Montevideo, Uruguay. He is responsible of assisting the 4 working groups in SAA (Biotech, Phytosanitary, Seed treatment, IP). Diego organizes congresses and workshops where seed industry and governments representatives gather to address common agenda items to agree on a joint work plan.

The October episode is a special one as we are celebrating 10 years of Computomics! We give a retrospect of Computomics through plants. Get to know 10 different plants Computomics has worked on. The plants range from rather well known ones like rice, soy, corn and banana up to rather unusual ones like the mamala tree which is native to various tropical islands. You will hear some fun facts about the plants before receiving some insights on the challenges and questions Computomics addressed. In the last 10 years Computomics performed genome assemblies, genome annotations, methylation patterns, predictive plant breeding and much more.

Dr. Sebastian J. Schultheiss, Managing Director of Computomics, founded Computomics together with a very experienced board of scientific advisors from ETH Zurich, Max Planck Institute for Developmental Biology and the University of Tübingen. Sebastian studied Bioinformatics at University of Michigan and Tübingen. He worked on Machine Learning research and its application to biological data for his PhD degree at the Max Planck Institute for Developental Biology and FML. He brings startup experience, boinformatics skills and machine learning expertise to Computomics, which brings superior prediction accuracy and unprecedented integration of phenotyping, genotyping, management and environmental data to agriculture, enabling its clients to produce stable, value-added crops.