Dr. Cheryl Ames is pioneering accessible and rapid methods for tracking marine biodiversity, with a special focus on box jellyfish and shifting octopus populations.
She uses Environmental DNA (eDNA), a technique that involves analyzing trace amounts of DNA left behind by species in the ocean water. By employing a field-ready eDNA pipeline that includes portable equipment like the Bento Lab, Dr. Ames and her students can conduct on-site PCR and quickly assess species presence, making data generation reliable even in remote areas.
This method allows researchers to generate data for critical issues, such as predicting the presence of highly venomous jellyfish for public safety, and providing sustainable fishing advice to local communities facing dramatic shifts in octopus populations following the 2011 tsunami.
Dr. Ames is committed to making advanced DNA analysis affordable and accessible, ensuring the next generation of scientists can apply these crucial techniques in any environment, regardless of laboratory resources.
This post is based on the article published by Bento Lab.
As an experienced research scientist, teacher and mentor, Dr. Ames employs a combination of molecular and morphological tools to address major scientific questions in the fields of behavior, ecology, evolution and systematics. Her research focuses on venomous box jellyfish and seeks to further understanding of this cosmopolitan aquatic organism.
Cheryl has extensive field research experience having worked around the world including in the United States, Canada, Japan, and numerous tropical and subtropical regions. She has a demonstrated ability to collaborate with top-level government and academic researchers and obtain funding for multidisciplinary research projects. While designing experiments and conceiving ideas for publications, she strives to develop projects that strike an even balance between fundamental and applied marine biology.
A selected list of major research works appears below. For a full list of all of her work and more information about her research please visit her Research Gate profile.
Tohoku University stands at the forefront of tackling some of the most pressing global challenges, particularly those related to our planet’s changing marine ecosystems. The Tohoku University Integrated Report 2024 highlights groundbreaking research and initiatives that aim to understand and mitigate the impacts of environmental shifts on ocean life and beyond.
Unraveling Marine Ecosystems with Environmental DNA
At the heart of marine research is Professor Cheryl Ames, Unit Leader/Principal Investigator at the Advanced Institute for Marine Ecosystem Change (WPI-AIMEC) and Professor at the Graduate School of Agricultural Science. Professor Ames’s research, which notably began with her fascination for jellyfish, has evolved into broader marine organismal studies utilizing environmental DNA (eDNA) analysis.
eDNA, collected from the environment (like seawater), provides a snapshot of all organisms inhabiting an ecosystem at a specific time, even revealing the environmental burden imposed by human activities. Professor Ames has developed a compact, portable eDNA detection kit, significantly reducing the time and cost associated with estimating jellyfish distribution over wide areas. This versatile kit can also be adapted to extract biological data from various other marine organisms.
Collaborations are key to this research. Professor Ames’s unit works with octopus fishers and wholesale auction centers in Minamisanriku, Miyagi, collecting eDNA to aid resource management in Shizugawa Bay and contribute to food sustainability. Further efforts are underway in Okinawa to develop rapid eDNA tests, crucial for regions where jellyfish damage impacts human health and tourism
Addressing Earth’s Changes and Shaping Ocean Life
WPI-AIMEC was established with a strong sense of urgency to decipher the mechanisms behind ocean warming and connect this understanding to projection models. The institute acknowledges the increasing vulnerability of marine ecosystems to rapid changes, suchando as rising global ocean temperatures and fluctuating ocean currents. Incidents like the mass outbreak of venomous Portuguese man-of-war in Miyagi Prefecture underscore the unprecedented phenomena occurring in our oceans.
Understanding the ocean requires an integrated approach, encompassing physics, chemistry, biology, and ecosystems, rather than isolated disciplinary studies. Tohoku University facilitates multidisciplinary research, bringing together diverse specializations to explore connections between sub-disciplines and gain a better understanding of the overall mechanisms of the ocean environment. The ultimate goal is to understand the relationship between the ocean and ecosystems, providing options for actions to build a sustainable society capable of adapting to environmental and ecological changes.
WPI-AIMEC aims to leverage AI to integrate various data types, enhancing our understanding of marine environments and the interactions between marine ecosystems and human society. The establishment of a centralized repository for valuable marine samples and their metadata (including eDNA sequences and images) is also a key initiative to invigorate marine ecology research. Outreach efforts include workshops for researchers and engaging elementary school students in eDNA sample collection to foster ocean conservation.
Tohoku University’s commitment to pioneering research in marine science, exemplified by Professor Ames’s work and the WPI-AIMEC initiative, is vital for a sustainable future.
Our team at Tohoku University, led by Associate Professor Alyne Delaney, just launched SEAQUEST – a vital research project tackling the complex challenges facing fisheries in Japan’s Tohoku region since the 2011 earthquake.
We’re blending cutting-edge science, like eDNA and AI for species distribution modeling, with traditional socio-ecological concepts like satoumi and umigyo. This holistic approach helps us understand why some fisheries have declined while others increased, especially with changing ocean conditions and parasitic outbreaks.
SEAQUEST emphasizes community-based citizen science, collecting crucial data from simple water samples. We’re working closely with diverse local and international stakeholders, including fishing communities (even women fishers!), tourism, and industry partners.
Our goal? To combine local ecological knowledge with scientific methods to foster true social and environmental sustainability. Co-Principal Investigators Professor Cheryl Ames and Associate Professor Toyonobu Fujii are key to this interdisciplinary effort.
With octopus, squid, and cuttlefish catches soaring but misidentification and inaccurate reporting raising overfishing fears, our international, multidisciplinary team is stepping in. Led by Tohoku University’s own Cheryl Ames (Co-Principal Investigator and Smithsonian Research Collaborator) and Demian Willette from Loyola Marymount University, our 15-member team spans 7 countries and diverse fields, including fisheries management, marine biology, and AI. Associate Professor Alyne Delaney (Tohoku University) is also on board!
Funded by the National Science Foundation, we’re building an application to track and identify octopus from ocean to table. This project uniquely combines traditional methods with cutting-edge tech: genomics, molecular metabarcoding, eDNA, and AI. Fishers in Mexico, California, and Alaska will be key citizen scientists, using eDNA kits to help us map octopus distribution and seasonality.
“Reliable knowledge will point us to where edible octopuses are found, and policymakers can use this information to make octopus fishing sustainable,” says Ames. We’re confident this network will pave the way for ecosystem-based fisheries and contribute to a thriving blue economy.
The article details the development of a novel method for tracking marine species: the portable eDNA sequencing kit (FeDS), spearheaded by Dr. Cheryl Lewis Ames’s team from Tohoku University. The article explains how the FeDS kit makes the complex process of environmental DNA identification — from water sample collection to species identification — entirely portable and capable of being conducted on-site without an internet connection, thanks to the Nanopore MinION device.
The effectiveness of the FeDS kit was successfully tested in the Florida Keys, where the team not only detected the upside-down jellyfish (Cassiopea) but also identified a remarkable 53 jellyfish species, including two venomous box jellyfish species previously unreported in the area. Dr. Ames envisions incredible practical applications for this technology, such as predicting jellyfish sting risks, much like a ‘weather forecast app’ for swimmers!
This innovative research was published in the esteemed Frontiers in Marine Science journal, underscoring its solid impact and global relevance.
The article highlights the pioneering work of our own Dr. Cheryl Ames and her team in the Florida Keys. They led a crucial study demonstrating the potential of a portable Nanopore sequencer to detect the presence of upside-down jellyfish (Cassiopea xamachana) and other jellyfish species directly in the field! This represents an incredible leap forward, overcoming the challenges of bringing complex DNA analysis from labs into the marine environment.
This technology not only identified Cassiopea jellyfish but also revealed the presence of other species unseen at the time of sampling, such as moon jellyfish and venomous box jellyfish. The potential is vast: from predicting jellyfish sting risks to aiding fisheries management, supporting conservation efforts, and even integrating into autonomous underwater vehicles for comprehensive marine surveys.
This groundbreaking research stems from a foundational scientific paper published in Frontiers in Marine Science, underscoring its impact.
