From concern to action: The Silicon Valley Barcode of Life

From concern to action: The Silicon Valley Barcode of Life

From concern to action: The Silicon Valley Barcode of Life

 Volunteers at DNA Barcoding Bioblitz, Hidden Villa Farm and Wilderness Center, June 2018. PHOTO CREDIT: Dan Quinn

Human destabilization of climate with its current and future costs and suffering make headlines daily. Related yet to some extent independent, the most current mass extinction—the seventh1 event of its kind in the nearly four billion years since life appeared on Earth—with potentially greater adverse impacts2 receives severalfold less attention3. We began the Silicon Valley Barcode of Life to further iBOL’s work to address this imbalance.

 

We grew up in Palo Alto, exploring nature in our yard, on the nearby 8,800 acre Stanford University campus, and in regional open space spanning San Francisco Bay marshes, Coast Range grassland, chaparral, and redwood forests, and Pacific Coast beaches. From an early age we participated in, and more recently we’ve led others in habitat stewardship fieldwork.

Songbirds like the hooded oriole (Icterus cucullatus) and cedar waxwing (Bombycilla cedrorum), once common visitors to our yard, now come rarely if at all.

We’ve observed firsthand how humans are diminishing biodiversity. As property owners in our community have covered more land with buildings and paving, they’ve reduced and fragmented habitat4. Songbirds like the hooded oriole (Icterus cucullatus) and cedar waxwing (Bombycilla cedrorum), once common visitors to our yard, now come rarely if at all. As we and those around us have relied increasingly upon products imported from around the world, we’ve introduced pests and invasive species that disrupt long-standing ecological relationships5. Oak Sudden Death, caused by a water mold (Phytophthora ramorum) thought to have entered the United States via the nursery plant trade, has killed tanoak (Notholithocarpus densiflorus) and coast live oak (Quercus agrifolia) in some of our favorite hiking spots and far beyond.

PHOTO CREDIT: Jen Bayer

Feeling concern about losing the living nature we love, we’re acting to preserve it. In 2018, inspired by conservationists Daniel Janzen’s and Winnie Hallwachs’ biodiversity protection and advocacy in Årea de Conservación Guanacaste, and San Diego Barcode of Life founder Bradley Zlotnick’s biodiversity cataloging and education achievements in Southern California, we launched the Silicon Valley Barcode of Life with the purpose of using DNA barcoding to engage people in cataloging biodiversity, in learning about the importance of biodiversity to human well-being and about threats to it, and in acting to conserve it.

Taxonomy wheel graphic

Taxonomic distribution of biodiversity collected at Hidden Villa DNA Barcoding Bioblitz, June 2018. Colors in the heat tree indicate the number of samples detected.

IMAGE CREDIT: Hilary Bayer

To date we’ve actively engaged more than a hundred volunteers, directly addressed more than a thousand people in-person (pre-pandemic) and subsequent online events, and indirectly addressed several thousands more in published writing and through our website. We’ve also hand-collected 600 specimens from diverse ecosystems in Santa Clara and San Mateo counties, and collected nearly 30,000 additional specimens from Malaise traps deployed in partnership with Stanford University’s Fukami Lab, the City of Palo Alto, and Hidden Villa Organic Farm and Wilderness Center.

In 2021 we were offered an opportunity to partner with the Mono Lake Committee to study arthropods of the Mono Basin. Though Mono Lake is several hundred miles across California from the Silicon Valley, we’ve vacationed in the Sierra Nevada with our family for as long as we can remember, and we’re grateful to be able to contribute to protecting its biodiversity.

In our first round of collections, we gathered 250 unique specimens within a 50-mile radius of Mono Lake by hand. With pit traps and a Malaise trap on Mono Lake Committee properties, including the Outdoor Education Center visited by hundreds of students annually, we gathered about 4,000 additional specimens.

Mantidfly

Mantidfly, family Mantispidae.
PHOTO CREDIT: Jen Bayer

Scarabeidae beetle

Monkey beetle, genus Hoplia, family Scarabaeidae PHOTO CREDIT: Jen Bayer

In 2022 we’re continuing to catalog arthropods of Silicon Valley and of the Mono Basin. In both places we have plans to deploy additional Malaise traps in partnership with local conservation and educational organizations and proceed with hand collection, engaging volunteers in these activities and in specimen processing.

We’re demonstrating how DNA barcoding can be a means to quickly and cost-effectively catalog biodiversity and thereby contribute to global and local libraries of life—a resource on which many can rely to inform science-based stewardship and enrich educational programs.

“We’re demonstrating how DNA barcoding can be a means to quickly and cost-effectively catalogue biodiversity and thereby contribute to global and local libraries of life—a resource on which many can rely to inform science-based stewardship and enrich educational programs.”

Jen and Hilary Bayer, co-founders of
Silicon Valley Barcode of Life, in front of
their first Malaise trap.

We’re looking for partners.

Silicon Valley Barcode of Life is an all-volunteer endeavor made possible by dedicated advisors, generous donors, institutional partners who share our goals, and volunteers.

Please contact us if you’re interested in assisting Silicon Valley Barcode of Life with funding, macro photography, graphic design, data uploading, Malaise trap servicing, or hand collection.

You can reach us at svbarcodeoflife@gmail.com

We gratefully acknowledge the Consulate of Canada in San Diego for kindly supporting us in facilitating this partnership with the International Barcode of Life Consortium, and the staff at the Centre for Biodiversity Genomics for the ways they’ve assisted us in learning and contributing.

References:

1. Michael R. Rampino & Shu-Zhong Shen (2019): The end-Guadalupian (259.8 Ma) biodiversity crisis: the sixth major mass extinction? Historical Biology 33(1):1-7. DOI: 10.1080/08912963.2019.1658096

2. Cardinale BJ et al (2012) Biodiversity loss and its impact on humanity. Nature 486(7401):59-67. DOI: 10.1038/nature11148.

3. Legagneux1 P et al (2018) Our house is burning: Discrepancy in climate change vs. biodiversity coverage in the media as compared to scientific literature. Front. Ecol. Evol. 5:175. doi: 10.3389/fevo.2017.00175

4. University of Exeter. (2018, April 13). Crowded urban areas have fewer songbirds per person. ScienceDaily. Retrieved  from https://www.sciencedaily.com/releases/2018/04/180413093836.htm

5. Dawson W et al (2017). Global hotspots and correlates of alien species richness across taxonomic groups. Nature Ecology and Evolution 1: 0186. DOI: 10.1038/s41559-017-0186.

Written by

Silicon Valley Barcode of Life
Palo Alto, USA
Hilary Bayer

Hilary Bayer

Silicon Valley Barcode of Life
Palo Alto, USA

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GBOL III: Dark Taxa

GBOL III: Dark Taxa

GBOL III: Dark Taxa

A “pixelated” Diptera.

Currently, around 1.4 million species of animals are known. For tropical regions, many species are still unknown, with estimates of global biodiversity ranging from five to 30 or even 100 million species. More recent studies suggest that there are about 10 million species on our planet. In contrast to the tropics, the Central European fauna is considered to be very well studied. However, specialists have mostly concentrated on less diverse and easy-to-study organisms, neglecting the species-rich, often taxonomically difficult groups, like many Diptera and Hymenoptera. This led to a mismatch between high species numbers and a small number of researchers, often referred to as the ‘taxonomic impediment’. This is most prominent for the megadiverse faunas of tropical regions. Less known is that this also applies, to some extent, for countries with a long history of taxonomic research like Germany, covering 200 or more years. For example, for the compilation of the German checklist of Hymenoptera, 32 specialists were available for 247 species of digger wasps (Crabronidae), while for parasitoid wasps of the family Ichneumonidae one specialist had to deal with 3,332 species.

In Germany, about 48,000 species of animals have been documented, including about 33,300 species of insects. In little-studied groups such as insects and arachnids, preliminary results of earlier DNA barcoding initiatives indicate the presence of thousands of species that are still awaiting discovery. Among the groups with a particularly large suspected number of unknown species are the Diptera (flies) and the Hymenoptera (in particular, the parasitoid wasps). With almost 10,000 known species each, these two insect orders account for two-thirds of the German insect fauna, underlining their importance.

Bar Graph depicting availability of taxonomic expertise for major insects orders in Germany.

“Dark taxa” are, as a rule, small-sized and rich in species, and have therefore been largely ignored by taxonomists. This is reflected by the number of undescribed species in these taxa, combined with a low chance to get specimens identified by specialists.

The insight that there are not only a few but many unknown species in Germany is a result of the earlier German Barcode of Life projects GBOL I and II, both supported by the Federal Ministry of Education and Research (Bundesministerium für Bildung und Forschung, BMBF) and the Bavarian Ministry of Science (project Barcoding Fauna Bavarica). The projects aimed at making all German species reliably, quickly and inexpensively identifiable by DNA barcodes. Since the first project was launched about ten years ago, more than 25,000 animal species have been barcoded, in collaboration with national and international partners. Among them are mostly well-known groups such as butterflies, moths, beetles, grasshoppers, spiders, bees and wasps.

Two scatterplots demonstrating relationship between body size (top) and species richness (bottom) in German Diptera

Relationship between body size (top) and species richness (bottom) in German Diptera1

Despite their popularity, these groups represent only a fraction of the total inventory of German insects. In Germany there are 170 butterfly species, 81 dragonfly and damselfly species, 87 species of grasshoppers, katydids and crickets, and 580 species of ground beetles, all of which are well-studied. Taken together, these 918 species stand for only a small fraction (2.8%) of the German insect fauna. They are morphologically well identifiable, have manageable species numbers, can easily be monitored during daytime and are therefore regarded as relevant in nature conservation and often used for monitoring species diversity. Conversely, however, this means that the vast majority of the native species diversity has been largely ignored in nature conservation and in general and applied research.

Circular tree depicting Nematocera (midges) and Brachycera (flies)
A circular neighbour‐joining tree for the two suborders of flies, Nematocera and Brachycera1. Each line in the tree corresponds to a distinct Barcode Index Number (BIN). Whereas for two of the “big four” insect orders, the Lepidoptera and Coleoptera, the number of German species are very precisely known, the numbers for the Diptera and Hymenoptera must rely on rough estimates. 

This applies in particular to the Diptera (flies). The observation that estimates of the number of species of native Diptera have been far too low was not only a result of the DNA barcoding projects at the ZSM, but became clear in a recent study by Paul Hebert and his team2. In this large-scale study, DNA barcodes of about one million insects were analyzed. Based on this study, Canada’s gall midges alone are estimated to include about 16,000 species, suggesting the existence of at least two million species on earth. That would be more species of gall midges worldwide than all previously described animal species combined.

The little-known or unknown species, referred to as ‘dark taxa’, are the subject of another BMBF-funded DNA barcoding project that is being carried out at the ZSM in collaboration with other German natural history museums and institutions. The project focuses on Diptera and Hymenoptera (in particular, parasitoid wasps), each with a large proportion of ‘dark taxa’. The new project, funded by a grant of 5.3 million Euro, starts July 1st 2020, with 12 PhD students at three major natural history institutions in Bonn (Zoological Research Museum Alexander Koenig), Munich (SNSB – Zoologische Staatssammlung München) and Stuttgart (State Museum of Natural History Stuttgart), to address a range of questions related to the taxonomy of German ‘dark taxa’, targeting selected groups of Diptera and parasitoid Hymenoptera.

Detailed photo of a Eulophidae specimen
Yellow Mymaridae specimen

Small parasitoid wasps of the families Eulophidae (top) and Mymaridae (bottom), both group with possibly hundreds of new species in Germany that still await discovery.

Among the major aims of GBOL III is assessing of the performance of DNA barcoding for species identification of ‘dark taxa’, and assessing the species detection ability of DNA barcodes in mass samples that are obtained from metabarcoding studies. Other aims of the project include the development of a platform for managing OTU-based taxonomic data, developing a pipeline for reliable and fast barcoding of small and poor-quality samples, and training of the next generation of taxonomists.

GBOL III is designed to make an important contribution to the global BIOSCAN initiative of the Centre for Biodiversity Genomics. It helps to lay the foundations for a global biomonitoring system to record the biodiversity of our planet on a large geographical scale in times of rising temperatures, increasing weather extremes and receding ice, and to track its changes as a result of global environmental changes.

References:

1. Morinière J, Balke M, Doczkal D, Geiger MF, Hardulak LA, Haszprunar G, Hausmann A, Hendrich L, Regalado L, Rulik B, Schmidt S, Wägele J, Hebert PDN (2019) A DNA barcode library for 5,200 German flies and midges (Insecta: Diptera) and its implications for metabarcoding‐based biomonitoring. Molecular Ecology Resources 19: 900–928. https://doi.org/10.1111/1755-0998.13022

2. Hebert PDN, Ratnasingham S, Zakharov EV, Telfer AC, Levesque-Beaudin V, Milton MA, Pedersen S, Jannetta P, deWaard JR (2016) Counting animal species with DNA barcodes: Canadian insects. Philosophical Transactions of the Royal Society B: Biological Sciences 371: 20150333. https://doi.org/10.1098/rstb.2015.0333

Written by

Axel Hausmann

Axel Hausmann

SNSB - Zoologische Staatssammlung München, Munich, Germany

Lars Krogmann

Lars Krogmann

State Museum of Natural History Stuttgart, Stuttgart, Germany

Ralph S. Peters

Ralph S. Peters

Zoological Research Museum Alexander Koenig, Bonn, Germany

Vera Rduch

Vera Rduch

Zoological Research Museum Alexander Koenig, Bonn, Germany

Stefan Schmidt

Stefan Schmidt

SNSB - Zoologische Staatssammlung München, Munich, Germany

doi: 10.21083/ibol.v10i1.6242

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What can’t be measured won’t be managed: Scientists and U.S. Environmental Protection Agency work together to conserve the Great Lakes

What can’t be measured won’t be managed: Scientists and U.S. Environmental Protection Agency work together to conserve the Great Lakes

What can’t be measured won’t be managed: Scientists and U.S. Environmental Protection Agency work together to conserve the Great Lakes

The Laurentian Great Lakes from space.

The Laurentian Great Lakes provide extremely valuable ecosystem services to nearly 40 million citizens of Canada and the United States who inhabit the watershed and many other visitors. These lakes are important for commercial navigation and are one of the most valuable freshwater commercial and recreational fisheries in the world. Such heavy use makes them vulnerable to invasive species, of which there are about 180 known to have invaded the five lakes1. However, the lakes’ biodiversity remains startlingly unknown, especially at lower trophic levels, even with strong scientific communities on both sides of the border.

The Great Lakes DNA Barcoding Project is using new and scalable genetic approaches to fill in the gaps in our knowledge of the native aquatic biodiversity of the Great Lakes and to detect previously undiscovered biological invasions. It will provide a baseline against which to monitor future changes in response to unintentional anthropogenic impacts and quantify efforts to restore biodiversity in parts of the lakes where it has declined.
The Great Lakes
The Great Lakes contain 21% of the world’s surface freshwater and are an important resource for agriculture, fishing, recreation, and international shipping. IMAGE CREDIT: 2013 National Geographic Society; Watershed defined by Great Lakes Aquatic Habitat Framework.

Understanding the impacts of anthropogenic changes on freshwater biodiversity is a major challenge with direct relevance to human health and well-being2. Monitoring and managing aquatic biodiversity needs to involve both academic and government institutions as well as stakeholders spanning farmers, fishermen, global transport companies, and policymakers in order to better inform environmental risk assessment, policy development, and natural resource management. Additionally, evaluating and improving private or public efforts to protect biodiversity requires an ability to quantify biodiversity, beginning with species richness.

The lack of scalable tools for assessing biodiversity has been a major impediment when monitoring the health of freshwater ecosystems. These habitats are dominated by small organisms that are difficult to identify and preserve. Species-level identification based on morphology is often impractical or sometimes even impossible. The process involves expert taxonomists and the special treatment of specimens requires significant investments in money, time, and labour. Therefore, when we rely only on these traditional survey practices, many organisms are identified only to genus/subfamily or simply neglected3,4.

DNA barcoding is a useful tool in these situations because the necessary taxonomic resources can be invested in a more targeted approach once a large number of specimens have been assigned a digital species identifier based on its DNA—the DNA barcode—to create a standardized, reproducible, and scalable solution for monitoring, otherwise difficult to quantify species. By digitizing taxonomic information in the form of a barcode, one needs not taxonomic expertise but simply access to sequencing technology for future identification and monitoring requirements. These technologies are becoming more portable and affordable every day and these tools become even more exciting when we apply non-invasive water sampling to monitor entire fauna from the trace amounts of DNA they leave behind (called ‘environmental DNA’)5.

The Great Lakes Barcoding Project, funded by the United States Environmental Protection Agency (EPA), aims to build a comprehensive genetic barcode library for aquatic invertebrates in the Laurentian Great Lakes watershed. The goal is to improve biodiversity monitoring, provide early detection of non-indigenous species, and inform management efforts to protect biodiversity from threats including climate change, pollution, and invasive species.

At the beginning of the project, only limited genetic information was available for many of the Great Lakes species6. The scale of the Great Lakes and its relatively large invertebrate biodiversity requires this research to be highly collaborative. To this end, the project has brought together several taxonomic experts, molecular ecologists, and aquatic biologists across USA and Canada, from the EPA and research institutions including Cornell University, Buffalo State College, University of Notre Dame, Central Michigan University, and the Centre for Biodiversity Genomics at the University of Guelph.

The Great Lakes DNA Barcoding Project team

The Great Lakes DNA Barcoding Project Team: Bret Coggins, Lars Rudstam, Susan Daniel, Adam Frankiewicz, James Watkins, Beth Whitmore, Joe Connolly; bottom row left to right: Sara Westergaard, Michael Pfrender, Bilgenur Baloglu, Kristy Deiner, Ed DeWalt, Alexander Karatayev, Christopher Marshall, Lyubov Burlakova (top to bottom, left to right). In attendance but not pictured: David Lodge, Kara Andres, and Jose Andres. George Rogalskyj and Erik Pilgrim joined electronically.
PHOTO CREDIT: The Great Lakes DNA Barcoding Project

 

At the end of February 2020, scientists as well as EPA representatives managing or participating in the project gathered at the beautiful Biological Field Station at Cornell University in upstate New York. We shared the latest project updates—everything from taxonomy to biodiversity, from ecological analysis to portable DNA sequencing, and the future of DNA-based monitoring. While the project is still in progress with hundreds of more specimens awaiting analysis, so far, our collaboration has resulted in over 1,000 DNA barcodes spanning over 300 invertebrate species.

This diversity includes more than ten taxonomic classes of invertebrates and is a resource that will improve tracking of non-native and native aquatic species, as well as clarify taxonomic inconsistencies or misrepresentations. The project has stimulated collaborations both within and outside of the main group of researchers and the sharing of specimens, resources, and, most importantly, new ideas and research directions has been an extremely encouraging and productive outcome.

Each plate of specimens sent away for DNA barcode analysis also contains a mix of feelings: satisfaction from a job well done, anticipation of the eventual results, and excitement around the new discoveries that may unfold.

References:

1. Great Lakes Aquatic Nonindigenous Species Information System. Retrieved from: www.glerl.noaa.gov/glansis/index.html

2. IPBES (2019) Global assessment report on biodiversity and ecosystem services of the Intergovernmental Science-Policy Platform on Biodiversity and Ecosystem Services. ES Brondizio, J Settele, S Díaz and HT Ngo (editors). IPBES secretariat, Bonn, Germany.

3. Baloğlu B, Clews E and Meier R (2018) NGS barcoding reveals high resistance of a hyperdiverse chironomid (Diptera) swamp fauna against invasion from adjacent freshwater reservoirs. Frontiers in Zoology, 15(1)

4. Srivathsan A, Baloğlu B, Wang W, Tan WX, Bertrand D, Ng AH, Boey EJ, Koh JJ, Nagarajan N and Meier R (2018) A MinION™‐based pipeline for fast and cost‐effective DNA barcoding. Molecular Ecology Resources, 18(5): 1035–1049.

5. Deiner K, Bik HM, Mächler E, Seymour M, Lacoursière‐Roussel A, Altermatt F, Creer S, Bista I, Lodge DM, De Vere N and Pfrender ME (2017) Environmental DNA metabarcoding: Transforming how we survey animal and plant communities. Molecular Ecology, 26(21): 5872–5895.

6. Trebitz A, Sykes M, Barge J (2019) A reference inventory for aquatic fauna of the Laurentian Great Lakes. J. Great Lakes Res.

this project is supported by the

Great Lakes Restoration Initiative

Written by

Centre for Biodiversity Genomics, Guelph, ON, Canada

Christopher C. Marshall

Christopher C. Marshall

Department of Natural Resources, Cornell University, Ithaca, New York, USA

Lars Rudstam

Department of Natural Resources, Cornell University, Ithaca, New York, USA

David M. Lodge

David M. Lodge

Cornell Atkinson Center for Sustainability and Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, New York, USA

Edward DeWalt

Illinois Natural History Survey, Champaign, Illinois, USA

Paul W. Simonin

Paul W. Simonin

Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, New York, USA

Elizabeth Whitmore

Elizabeth Whitmore

Department of Natural Resources, Cornell University, Ithaca, New York, USA

Lyubov Burlakova

Great Lakes Center, Buffalo State College, Buffalo, NY, USA

Kristy Deiner

Kristy Deiner

Department of Environmental Systems Science, ETH Zurich, Zurich, Switzerland

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30 million reasons you will be missed

30 million reasons you will be missed

30 million reasons you will be missed

Erwin supervising the trees at work, the Tiputini Research Station, Ecuador, 2013. PHOTO CREDIT: Beulah Garner

The world lost a brilliant mind last week when Terry L. Erwin passed away on May 11, 2020, at the age of 79. Many among us in the scientific community feel this great loss, for you did not need to have personally known, or even have met Erwin to recognize the name or appreciate the significance of his work.

    Erwin not only published prolifically on beetle systematics – describing four tribes, 22 genera, and 439 species of Carabidae – but also tremendously influenced the way many think about biodiversity.

    “He brought alive for many the far-off world and the mysteries therein of the neotropics,” said Beulah Garner, Senior Curator at the Natural History Museum in London, and Erwin’s colleague and friend of nine years. “I think it was the first time anyone, through their scientific exploration, had made a place and a fauna at once seem magical, touchable, and quantifiable.”

    Erwin was serving as a research entomologist and curator of Coleoptera at the Smithsonian Institution’s National Museum of Natural History at the time of his death. He was a pioneer in neotropical conservation biology and canopy research, having developed the study of tree canopy insects into an academic discipline as early as 1974.

    Notably, in his small paper in 1982 that examined canopy beetles and host plant relationships to understand the number of species present in an acre of Panamanian forest, Erwin dramatically expanded our conception of terrestrial insect diversity.

    Graphical abstract of Erwin’s 1982 paper IMAGE CREDIT: Michelle Lynn D’Souza

    As a young graduate student interested in using DNA barcoding to evaluate insect diversity in Central America and to assess global diversity estimates, Erwin’s work was a guidepost for my own research. His 1982 publication was particularly iconic. Ironically, it was in the last ‘throwaway’ paragraph (as he described it) – suggesting the presence of 30 million arthropod species, at the time estimated to be around one-and-a half million – that he sparked a global debate about the number of species on the planet.

    Even years later, he was enduring in his defense of the ‘30 million’ estimate, according to Garner. His holistic approach to field biology, with Carabidae at its core, enabled him to understand the relatedness of species as well as the mechanisms that drive such incredible diversity so clearly. “Even higher [than 30 million] he would say! And, having been in the field with him, with his meticulous observations of the microverse, his pioneering investigations into the forest canopy, I absolutely believe him,” said Garner. “These were not assumptions from a dataset, a modelling outcome, these were from direct in-field observations: a true naturalist.” While his estimate has been debated, refuted, and revised to approximately seven million arthropod species, the discussion remains active today.

    A true naturalist at home in the jungles of Yasuni National Park, Ecuador, 2018.
    PHOTO CREDIT: Beulah Garner

    While always having been interested in DNA-based techniques, it was not until much later in Erwin’s career that he used it in his own work. Heavily involved in the field of systematics, he was among the first of those in the early 1980s that experienced its infusion with the beginnings of gene sequencing. While in its own right revolutionary, sequencing technology was just another tool to study the natural world, one that would eventually be replaced by the tricorder, Erwin explained to Dr. Bilgenur Baloglu, then a Ph.D. student at the National University of Singapore studying chironomid diversity, in an interview during the International Congress of Entomology in Florida in 2016. He was referring to DNA barcoding and the beginnings of Drs. Paul Hebert and Dan Janzen’s tests with Costa Rican moths.

    As noted by Dr. Scott Miller, science committee member of the International Barcode of Life Consortium (iBOL) and deputy undersecretary at the Smithsonian Institution, Erwin was always enthusiastic about collaborations between iBOL and the Smithsonian to barcode insect genera, such as that currently funded by the Global Genome Initiative (GGI). He is the main reason that Carabid beetles were one of the first families covered under the project, contributing substantially to the species barcoded and deposited on the Barcode of Life Data Systems (BOLD), according to Miller. He also collaborated with Dr. Carlos Garcia-Robledo and others at the Smithsonian on a series of papers on insect-host plant relationships, among many others, that used DNA barcoding to identify the gut contents of insect herbivores as well as egg and larval plant associations to reconstruct species interactions in tropical networks.

    Miller first began working with Erwin in 1986 at the Smithsonian Institution as a postdoctoral fellow. Together they had a vision that became the Biodiversity in Latin America Tropics (BIOLAT), a program based around standardized sampling, something that may seem logical now, but was novel in fields like entomology at the time, according to Miller. Since then, a lot of other organizations have tried similar standardized programs but have struggled under the weight of the taxonomic impediment.  “When seen against this background, iBOL initiatives such as the Global Malaise Program or BioAlfa are truly amazing,” said Miller. “It is most unfortunate that DNA barcoding was not available when Terry started canopy fogging!”

    Erwin canopy fogging at 4 a.m. at the Onkone Gare camp, Yasuni National Park, Ecuador, 2018.
    PHOTO CREDIT: Beulah Garner

    From planning BIOLAT, to consulting for Biosphere 2 (the subject of the documentary ‘Spaceship Earth’), to the initial canopy fogging endeavour in Papua New Guinea (PNG) that eventually led to the Binatang Research Center and the PNG insect ecology program, Erwin encouraged, guided, and inspired Miller’s endeavours for years.

    Terry understood the importance of nurturing the next generation of talent, and especially the importance of diversifying the [scientific] pipeline.

    Dr. Scott Miller

    Science committee member of the International Barcode of Life Consortium (iBOL) and deputy undersecretary at the Smithsonian Institution

    “Terry understood the importance of nurturing the next generation of talent, and especially the importance of diversifying the [scientific] pipeline,” says Miller. “Terry was always eager to provide opportunities for young scientists, especially women, and people from developing countries.” While working together at the Smithsonian, Miller recounts how Erwin always hosted interns and fellows, bringing them to meetings and conferences, and trying to connect them to future opportunities.

    Erwin had the greatest spirit of academic generosity, quick to provide advice, a reference from his encyclopedic library, or specimens for one’s own research, according to Garner. Erwin nurtured a passion for discovery in many students and inspired it in even more biologists. As he told Bilgenur back in 2016, you do not become a biologist if you are out for money, but you do it for the joy of being out in the field. “For me, the bottom line is if you like fieldwork, be a biologist. It’s the best place to be,” said Erwin in her interview. “If you are out in the rainforest, every single day, actually maybe every hour, there’s a tremendous discovery. And that’s what’s really rewarding – discovery.”

    Erwin hunting Carabidae near the Tiputini Research Station, Ecuador, 2013.
    PHOTO CREDIT: Beulah Garner

    In the field, Garner recounts, Erwin would wake early, sit by the Tiputini river with black coffee and binoculars, and study the jungle whilst it woke. “Canopy fogging is a race to finish before the dawn and Terry was indefatigable,” said Garner. “It’s 4 a.m. in the primary jungles of South America, you’re setting up your traps, and Terry is right beside you, overseeing operations as if the rainforest were his orchestra and he the conductor.” In the evening after supper with head torch and aspirator, it would be time to go on a Carabidae hunt.

    It’s 4 a.m. in the primary jungles of South America, you’re setting up your traps, and Terry is right beside you, overseeing operations, as if the rainforest were his orchestra and he the conductor.

    Beulah Garner

    Senior Curator at the Natural History Museum, London

    He was fearless, saving Garner from a pack of marauding peccaries in Ecuador, as well as rescuing her from bivouacking army ants as they surrounded their camp in the dead of night. “He was and is the reason I endeavour to be a good field biologist,” said Garner. “His compassion and consideration and genuine every-day awe for the natural world is a method to live and work by.”

    Beulah Garner (left) and Terry Erwin (right) inspecting the flight intercept traps, Tiputini Research Station, Ecuador, 2013. PHOTO CREDIT: Dr. Kelly Swing

    Erwin very much valued the natural world, possessing an astute understanding of it that unfortunately, he takes with him. He feared having species reduced to just a sequence and believed that the rich natural history and the awe that the living world inspires in us needed to be accounted for as well, sentiments that led him to catalyze the Encyclopedia of Life (EOL) in 2004, according to Nana Naisbitt, EOL co-catalyst, founder of Chalkboard, and Erwin’s dear friend of 22 years. The EOL makes knowledge about life on Earth globally accessible and has had a long-standing collaboration with BOLD.

    As Naisbitt explained, Erwin was a profound mentor, one who changed the course of her life and the lives of many others through her work and her connection to him. He effectively snowballed Naisbitt’s career as a science champion, instrumental in her founding the Pinhead Institute, a science education non-profit and Smithsonian Affiliate. He was also key to many community outreach and mentorship programs while she worked as Executive Director of the Telluride Science Research Center, a job she got because of her work as the director of Pinhead. “It’s just impossible to say how many people he impacted,” said Naisbitt. “Terry liked to say that he plants seeds – ideas in students – and watches them grow. He planted countless seeds that grew strong and bright.”

    In Naisbitt’s assessment, Erwin was able to help so many people flourish because he possessed a phenomenal gift in the way he supported them and gave them confidence without being intrusive. “He connected me to the right people, then showed up for and supported me. Most times he would just sit there quietly in meetings and let me do the talking,” said Naisbitt. “His reputation and presence were enough – it conveyed the message, ‘I anoint this person’. In that way, he was so unbelievably respectful.”

    Naisbitt said that she had the impression Erwin believed he stood on the shoulders of giants. She described to me this image she had of him, of someone reaching down and pulling up younger scientists to stand on his shoulders. “And he did that so well. He did it over and over again, with immense generosity and without ego. And that is so rare.”

    His reputation and presence were enough – it conveyed the message, ‘I anoint this person’. In that way, he was so unbelievably respectful.

    Nana Naisbitt

    Founder of Chalkboard

    When Dr. Marlin Rice, back in a 2015 interview, asked Erwin how he would like others to remember him, his answer was simple – by what his students do. The influence a mentor has on their students and them on theirs, he described, is an unbroken chain that keeps connecting generations of thinkers. Erwin told Rice, “There’s this chain all the way from the great old-timers down through George [Ball – his Ph.D. mentor] and his students and what I’d like to do is to keep that chain going.”

    Indeed, Erwin’s brilliance, passion, and dedication for science extended those chains far beyond his students and colleagues, to countless others across space, like me. As the value of his research will certainly endure, those chains will also extend across time. Erwin was undoubtedly one of the rare ones among us whose influence has had, and will continue to have, an extraordinary reach.

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    Discovering ten new species of Paramyia Williston (Diptera: Milichiidae) in North America using DNA barcoding

    Discovering ten new species of Paramyia Williston (Diptera: Milichiidae) in North America using DNA barcoding

    Discovering ten new species of Paramyia Williston (Diptera: Milichiidae) in North America using DNA barcoding

    Flowering plant visited by Paramyia sp.
    PHOTO CREDIT: Steve A. Marshall

    The process of discovering and describing new species – the job of taxonomists – is time-consuming. To tackle the challenge, one must become an expert on a specific group in order to notice those rarities among the masses. This is without counting the added challenges of cryptic groups where the external morphology is of limited help as individuals often appear to belong to the same species despite being genetically distinct. In many cases, the taxonomist has to dissect hundreds of specimens to detect slight differences in their genitalia which are usually unique for each species. DNA barcoding can greatly assist any taxonomist by speeding up this laborious identification process, particularly with small flies like Paramyia Williston (Diptera: Milichiidae).

    Flowering plant visited by Paramyia sp.

    PHOTO CREDIT: Steve A. Marshall

    Paramyia, a kleptoparasitic genus well represented worldwide, provides a perfect example of joining DNA barcoding and traditional taxonomy. Paramyia is a small genus, with under 30 described species, of tiny blackish flies, usually under 2mm long, with very similar external morphology. In the Nearctic, it was only represented by one species, P. nitens Loew. With that knowledge in mind, no particular attention was given to specimens collected in that geographic range. That is until multiple Barcode Index Numbers (BIN) were found on the Barcode of Life Data System (BOLD) under the same species name. This strongly indicated that multiple undescribed species may have been placed under one species – P. nitens. A closer look at their genitalia revealed this to be true, and so a revision of the genus was then needed.

    Paramyia sp. displaying kleptoparasitism, that is, feeding on the captured prey (stink bug) of another predator (spider)

    PHOTO CREDIT: Steve A. Marshall

    As with any revision, I first acquired multiple loans from large museum collections to compare and study the many diverse and variable specimens from a specific geographic range, in this case, North America. Then, I studied the morphology of these specimens in-depth to detect variation between those grouped together based on their similarities (i.e, morphs) and dissected the genitalia to confirm if they were indeed new species. With a genus like Paramyia, most helpful characters to differentiate between the species are genitalic, which means that good dissection skills are essential. The skill needed to dissect the genitalia of such small flies is comparable to performing surgery on a baby’s tooth. Important to note, there are no morphology characters to split the females of most species apart.

    This is where DNA barcoding comes in handy. I sequenced specimens from my different morphs, and then dissect males grouped in the same BIN to verify the correspondence between the BIN and the species concept. When the molecular and the morphological analysis align perfectly, females can get correctly associates with their male counterpart, which would have otherwise been impossible. Hence, the species description can be more complete and the sequences are available to be used by other researchers to correctly identified that group, e.g. in monitoring programs. I applied this process in the Nearctic revision of Paramyia and described 10 new species! Future revisions tackling the remaining geographic regions can build from this work.

    Comparative morphology between the new species P. pseudonitens and P. brevikeraia with a body profile, frontal head and genitalia photos (top to bottom)

    PHOTO CREDIT: Valerie Levesque-Beaudin

    The taxonomic impediment coupled with the current rate of species extinction is making the job of the taxonomist increasingly more difficult and yet, there’s an urgent need to record species before they disappear. As this study demonstrates, by quickly sorting specimens based on morphology and sequencing representative of each group, the number of undescribed species can be assessed and the amount of dissection needed to make such a discovery can be managed. The focus can then be on the morphology and genitalia of the different BINs, hence speeding up the process of species identification.

    For full details, please refer to the publication in Zootaxa.

    Written by

    Valerie Levesque-Beaudin

    Valerie Levesque-Beaudin

    Taxonomic Specialist – Diptera, Centre for Biodiversity Genomics

    https://doi.org/10.21083/ibol.v10i1.6081

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