DR.

JAN FREDERIK GOGARTEN

CONTACT
Project Group 3: Epidemiology of Highly Pathogenic Email: jan.gogarten@gmail.com and gogartenj@rki.de
Microorganisms Phone: +49-179-345-9959
Robert Koch Institute Website: jangogarten.weebly.com
Seestraße 10, 13353 Berlin, Germany

ACADEMIC POSITIONS
2018 - present Postdoctoral Fellow: Project Group 3: Epidemiology of Highly Pathogenic Microorganisms, Robert
Koch Institute, Berlin, Germany
Advisors: Sébastien Calvignac-Spencer and Fabian Leendertz
2017- 2018 Postdoctoral Fellow: Center for Infection & Immunity, Columbia University Mailman School of Public
Health, New York, NY, USA. In collaboration with the Institute of Microbiology and Epizootics, Freie
Universität, Berlin, Germany and Project Group 3: Epidemiology of Highly Pathogenic Microorganisms,
Robert Koch Institute, Berlin, Germany
Advisors: W. Ian Lipkin, Thomas Briese, Lothar Wieler, Fabian Leendertz
EDUCATION
2017 Doctor of Philosophy: Department of Biology, McGill University, Montreal, QC, Canada
Thesis title: Impacts of environmental change on wild non-human primates: behaviour and the holobiont,
with implications for disease emergence
Advisor: Jonathan Davies
2011 Masters of Arts: Department of Anthropology, Stony Brook University, Stony Brook, NY, USA
Thesis title: The effects of seasonality on mortality and reproductive skew
Advisor: Diane Doran-Sheehy
2008 Bachelor of Science: Biology Major, Anthropology Minor, McGill University, Montreal, QC, Canada
Thesis title: Mate choice in weakly electric fish
Advisor: Rüdiger Krahe
SUMMARY OF ACHIEVEMENTS
I have co-authored 42 publications in international peer-reviewed journals that include generalist journals such as Science,
Nature, and PNAS as well as top-specialist journals in the fields of fields of ecology and evolutionary biology (e.g.,
Biotropica, Environmental DNA, Evolution, ISME, Molecular Ecology, Molecular Ecology Resources, Tropical
Conservation Science), and microbiology and virology (e.g., Clinical Microbiology and Infection, EMBO Molecular
Medicine, Emerging Microbes & Infections, Emerging Infectious Diseases, Microbial Genomics, PLOS Neglected Tropical
Diseases, Virology). For 17 of these publications, I was 1st or shared 1st author. I also co-authored one book chapter as first
author in the field of microbial ecology and one chapter as last author in the field of primate ecology. This work has
attracted 1232 citations (Google Scholar: retrieved Mar. 16th, 2021), while my h-index is 19. I have a paper with minor
revisions at mSystems and in review at Science, Environmental Research Letters, Biology Letters, and Animal Conservation.
My research generates significant interest with the public, including coverage in Der Spiegel, Nature, Science, The Atlantic,
and The New York Times. I have shown a commitment to international collaboration and enforcing the spirit of the Nagoya
protocol, notably publishing 24 of my publications with colleagues from the Global South, especially sub-Saharan Africa.
To do this, I secured funding from diverse sources, including the DAAD PRIME, the Vanier Canada Graduate Fellowship,
the National Science Foundation Graduate Research Fellowship, the German Research Foundation, and the Explorers Club.
PEER-REVIEWED PUBLICATIONS
Below, publications are sorted by topic, with each section introduced with a short text on the impact of key publications.
Within topics, publications are organized with the most influential articles at the beginning (highlighted in blue) and then
listed in reverse chronological order. Select press coverage is indicated following publications.
*Indicates authors that contributed equally to the manuscript.
PEER-REVIEWED PUBLICATIONS: PRIMATE ASSOCIATED COMMUNITIES
I am interested in the diverse communities of organisms that associate with primates, the ecological and evolutionary
processes shaping them, and their impact on primate health. This includes work on communities of bacteria and eukaryotic
parasites in primate guts, viruses infecting these bacteria, and communities of flies that form long-term associations with

Jan F. Gogarten - Curriculum vitae - 1

social groups, potentially serving as disease vectors. I highlight a first broad study of wild primate phages in PNAS, which
showed that many phages co-diverged with their superhosts over millions of years. Neighboring social groups harbor
compositionally and evolutionary distinct phageomes, structured by superhost social behavior. Surprisingly, captive
primate phageome composition is intermediate to humans and their wild primate counterparts, with phage phylogenies
revealing replacement of wild-associated phages by human-associated lineages. This plasticity makes long-term
associations of phages with their superhosts across ecosystems and continents all the more striking. I also highlight a study
in ISME that examined gut microbiome composition in sympatric primates, showing that despite sharing an environment
and interspecific interactions, individuals harbored unique microbiomes influenced by host species, social group, and
parentage. Chimpanzees harbor bacterial communities similar to their preferred colobine prey, exhibiting patterns of
phylogenetic overdispersion consistent with exposure to a broad diversity of bacteria through hunting. Lastly, a study in
Molecular Ecology showed flies track primate groups for weeks and carry infectious bacterial pathogens; these
associations represent an understudied cost of sociality and may expose many social animals to pathogens.
Gogarten JF, Rühlemann M, Archie E, Tung J, Akoua-Koffi C, Bang C, Deschner T, Muyembe-Tamfun J-J, Robbins MM,
Schubert G, Surbeck M, Wittig RM, Zuberbühler K, Baines JF, Franke A, Leendertz FH, Calvignac-Spencer S. (2021)
Primate phageomes are structured by superhost phylogeny and environment. Proceedings of the National Academy of
Sciences of the United States of America. 118: e2013535118.
Gogarten JF, Düx A, Mubemba B, Pléh K, Hoffmann C, Mielke A, Müller-Tiburtius J, Sachse A, Wittig RM, Calvignac-
Spencer S, Leendertz FH. (2019) Tropical rainforest flies carrying pathogens form stable associations with social non-
human primates. Molecular Ecology. 28: 4242– 4258.
Press coverage in Science Magazine and The New York Times.
Gogarten JF, Davies TJ, Benjamino J, Gogarten JP, Graf J, Mielke A, Mundry R, Nelson MC, Wittig RM, Leendertz FH*,
Calvignac-Spencer S*. (2018) Factors influencing bacterial microbiome composition in a wild non-human primate
community in Taï National Park, Côte d’Ivoire. The ISME Journal. 12: 2559-74.
Calvignac-Spencer S*, Düx A*, Gogarten JF*, Leendertz FH*, Patrono LV*. (In press) A great ape perspective on the
origins and evolution of human viruses. Advances in Virus Research.
de Mesquita CPB, Nichols LM, Gebert M, Vanderburgh C, Bocksberger G, Lester JD, Kalan AK, Dieguez P, McCarthy
MS, Agbor A, Varona PA, Ayimisin EA, Bessone M, Chancellor R, Cohen H, Coupland C, Deschner T, Egbe VE,
Goedmakers A, Granjon A, Grueter CC, Head J, Hernandez-Aguilar RA, Jeffery KJ, Jones S, Kadam P, Kaiser M, Lapuente
J, Larson B, Marrocoli S, Morgan D, Mugerwa B, Mulindahabi F, Neil E, Niyigaba P, Pacheco L, Piel AK, Robbins MM,
Rundus A, Sanz C, Sciaky L, Sheil D, Sommer V, Stewart FA, Ton E, van Schijndel J, Vergnes V, Wessling EG, Wittig
RM, Yuh YG, Yurkiw K, Zuberbühler K, Gogarten JF, Heintz-Buschart A, Muellner-Riehl AN, Boesch C, Kühl H, Fierer
N, Dunn RR, Arandjelovic M. (In press) Structure of the chimpanzee gut microbiome across their range. mSystems.
Gogarten JF, Calvignac-Spencer S, Nunn CL, Ulrich M, Saiepour N, Nielsen HV, Deschner T, Fichtel C, Kappeler PM,
Knauf S, Müller-Klein N, Ostner J, Robbins MM, Sangmaneedet S, Schülke O, Surbeck M, Wittig RM, Sliwa A, Strube C,
Leendertz FH, Roos C, Noll A. (2020) Metabarcoding of eukaryotic parasite communities describes diverse parasite
assemblages spanning the primate phylogeny. Molecular Ecology Resources. 20: 204-215.
Gogarten JF, Schubert G, Leendertz FH, and Calvignac-Spencer S. (2019) The chimpanzees of the Taï Forest as models
for hominine microorganism ecology and evolution. In: The Chimpanzees of Taï Forest. Boesch C & Wittig R eds.,
Cambridge University Press. p366-384.
Chapman CA, Bowman DD, Ghai RR, Goldberg TL, Gogarten JF, Rothman JM, Twinomugisha D, and Walsh C. (2011)
Protozoan parasites in group-living primates: Testing the biological island hypothesis. American Journal of Primatology.
74:510-517.
PEER-REVIEWED PUBLICATIONS: BEHAVIORAL ECOLOGY
I am interested in what influences primate behavior and understanding the effects of climate and land cover changes on
wild populations. I use both longitudinal studies building on several decades of research in Taï National Park, Côte
d’Ivoire and Kibale National Park, Uganda, studies of variation across landscapes, and comparative studies between
species. In Kibale, one important study in Biotropica showed that group sizes of red colobus monkeys increased
dramatically over the last 15 years at a parkwide scale, showing that influential characteristic of a species’ behavior can
change at a broad scale. In the International Journal of Primatology, I then showed that these changes can have cascading
impacts on behavior and the genetic structure of these groups. I also use comparative approaches to test for broad patterns
across environments and populations; for example, a study published in Behavioral Ecology and Sociobiology showed that
across primates, male reproductive skew is related to the number of competitors in a group, but that seasonality does not
reliably predict synchrony or male reproductive skew.

Jan F. Gogarten - Curriculum vitae - 2

Gogarten JF*, Jacob AL*, Ghai RR, Rothman JM, Twinomugisha D, Wasserman MD, and Chapman CA. (2015) Group
size dynamics over 15+ years in an African forest primate community. Biotropica. 47: 101-112.
Gogarten JF, Bonnell TR, Brown LM, Campenni M, Wasserman MD, and Chapman CA. (2014) Increasing group size
alters behaviour of a folivorous primate. International Journal of Primatology. 35: 590-608.
Gogarten JF and Koenig A. (2013) Reproductive seasonality is a poor predictor of receptive synchrony and male
reproductive skew among nonhuman primates. Behavioral Ecology and Sociobiology. 67: 123-134.
Mielke A, Preis A, Samuni L, Gogarten JF, Lester J, Crockford C, Wittig RM. (2021) Consistency of social interactions in
sooty mangabeys and chimpanzees. Frontiers Ecology and Evolution. 8: 603677.
Mielke A, Samuni L, Preis A, Gogarten JF, Wittig RM*, Crockford C*. (2018) Flexible decision making in grooming
partner choice in sooty mangabeys and chimpanzees. Royal Society Open Science. 5: 172143.
Mielke A, Samuni L, Preis A, Gogarten JF, Crockford C*, Wittig, RM*. (2017) Bystanders intervene to impede grooming
in Western chimpanzees and sooty mangabeys. Royal Society Open Science. 4: 171296.
Chapman CA, Snaith TV, and Gogarten JF. (2014) How ecological conditions affect the abundance and social
organization of folivorous monkeys. In: Primates and Cetaceans: Field Research and Conservation of Complex Mammalian
Societies. Yamagiwa J & Karczmarski L eds., Springer Japan. p. 3-23.
Chapman CA, Bonnell TR, Gogarten JF, Lambert JE, Omeja PA, Twinomugisha D, Wasserman MD, and Rothman JM.
(2013) Are primates ecosystem engineers? International Journal of Primatology. 34: 1-14.
Miyamoto MM, Allen JA, Gogarten JF, and Chapman CA. (2013) Microsatellite DNA demonstrates different levels of
genetic structure in two, unequally sized, neighboring groups of red colobus monkeys. American Journal of Primatology.
75: 478-490.
Bonnell TR, Chapman CA, Reyna-Hurtado R, Wasserman MD, Campenni M, Gogarten JF, Teichroeb J, and Sengupta R.
(2013) Emergent group level navigation: An agent-based evaluation of movement patterns in a folivorous primate. PLoS
ONE. 8, e78264.
Gogarten JF and Grine FE. (2013) Seasonal mortality patterns in primates: Implications for the interpretation of
microwear. Evolutionary Anthropology. 22: 9-19.
Wasserman MD, Chapman CA, Milton K, Gogarten JF, Wittwer DJ, and Ziegler TE. (2012) Estrogenic plant food
consumption predicts red colobus monkey (Procolobus rufomitratus) hormonal status and behavior. Hormones and
behavior. 62: 553-562.
PEER-REVIEWED PUBLICATIONS: BIODIVERSITY MONITORING AND CONSERVATION
I am interested in developing tools to monitor biodiversity to help inform conservation initiatives and inform our
understanding of what limits primate population sizes. This includes traditional survey methods, but I have also
championed fly-derived DNA as a tool to monitor biodiversity; indeed, a recent study in Environmental DNA showed that
fly‐derived mammal DNA detected smaller‐bodied species than camera traps and that fly‐derived DNA is a cost‐ and time‐
efficient tool that complements camera trapping in assessing mammalian biodiversity in terrestrial ecosystems at broad
spatial and temporal scales. I also use nutritional studies across landscapes to understand how forest disturbances
influence primate abundance, as well as comparative studies across populations to test ecological and evolutionary
hypotheses; for example, a study published in Evolution examined seasonal mortality patterns to yield insights into the
drivers of mortality and potential selection pressures acting on individuals in different environments. Results suggest that
that mortality patterns across primates are influenced both by diet and degree of environmental seasonality, while the
seasonal nature of mortality in many primate populations suggests that climate change may contribute to changing
mortality patterns and selection.
Gogarten JF*, Hoffmann C*, Arandjelovic M, Sachse A, Merkel K, Dieguez P, Boesch C, Agbor A, Angedakin S,
Brazzola G, Corogenes K, Jones S, Langergraber KE, Lee K, Marrocoli S, Murai M, Sommer V, Zuberbuehler K, Kühl H,
Leendertz FH, Calvignac-Spencer S. (2020) Fly-derived DNA and camera traps are complementary tools for assessing
mammalian biodiversity. Environmental DNA. 2: 63-76.
Gogarten JF, Brown LM, Chapman CA, Marina C, Doran-Sheehy D, Fedigan LM, Grine FE, Perry S, Pusey AE, Sterck
EHM, Wich SA, Wright PC (2012). Seasonal mortality patterns in non-human primates: Implications for variation in
selection pressures across environments. Evolution. 66:3252-3266.
Hou R, Reyna-Hurtado R, Omeja P, Tumwesigye C, Sarkar D, Gogarten JF, Chapman CA. (2021) Long-term trends in a
forest ungulate community: Park establishment increases numbers, but poaching is a constant threat. Zoological Research.

Jan F. Gogarten - Curriculum vitae - 3

42: 1-5.
Chapman CA, Bicca-Marques JC, Dunham AE, Fan P, Fashing PJ, Gogarten JF, Guo S, Huffman MA, Kalbitzer U, Li B,
Ma C, Matsuda I, Omeja PA, Sarkar D, Sengupta R, Serio-Silva JC, Tsuji Y, Stenseth NC. (2020) Primates can be a rallying
symbol to promote tropical forest restoration. Folia Primatologica. 91:669–687.
Chapman CA, Bonnell TR, Schoof VAM, Gogarten JF, and Calmé S. (2015) Competing pressures on populations: long-
term dynamics of food availability, food quality, disease, stress, and animal abundance. Philosophical Transactions of the
Royal Society B: Biological Sciences. 370: 20140112.
Chapman CA, van Bavel B, Bleecker JC, Boodman C, Ghai R, Gogarten JF, Hartter J, Mechak LE, Omeja PA, Poonawala
S, Zastavniouk C, and Goldberg T. (2015) Providing health care to improve community perceptions of protected areas.
Oryx. 49: 636-642.
Gogarten JF, Guzman M, Chapman CA, Jacob AL, Omeja PA, and Rothman JM. (2012) What is the predictive power of
the colobine protein-to-fiber model and its conservation value? Tropical Conservation Science. 5:381-393.
Chapman CA and Gogarten JF. (2012) Primate conservation: Is the cup half empty or half full? Nature Education
Knowledge. 3:7.
PEER-REVIEWED PUBLICATIONS: BACTERIAL PATHOGENS
Zoonotic pathogens represent a large proportion of emerging infectious diseases and pose a threat to global human health.
Classic fishing expeditions targeting wildlife document high levels of microorganism diversity, but struggle to identify
pathogens relevant to human health. My work draws on a natural experiment – non-human primates, our closest living
relatives, are immunologically and physiologically similar to humans making them susceptible to many of the same
pathogens. I use non-human primate populations as sentinels for infectious microorganisms that have the potential to
become emerging diseases. My research suggest that disease also plays a critical role in regulating wildlife populations
and in their long-term conservation. Over the last several years, I have contributed to the development of molecular
methods that enable pathogen detection in a diversity of sample types; most notably, detection in bones, feces, and carrion
flies in ways that facilitate the generation of genomic data. Using these tools, I demonstrated that non-human primates
across Sub-Saharan Africa are infected with the bacterium Treponema pallidum subsp. pertenue that causes yaws disease
in humans. Importantly, I have shown that rather than primate species specific lineages, the phylogeny of this pathogen is
suggestive of frequent between-species transmission within environments. The finding that this pathogen is widespread in
primate populations raises potential issues for the ongoing eradication campaign and highlights the need for research into
whether zoonotic disease transmission occurs and the zoonotic potential of these pathogens.
Mubemba B, Gogarten JF, Schuenemann V, Düx A, Lang A, Nowak K, Pleh K, Reiter E, Ulrich M, Agbor A, Brazzola G,
Deschner T, Dieguez P, Granjon AC, Jones S, Junker J, Wessling E, Arandjelovic M, Kuehl H, Wittig RM, Leendertz FH*,
Calvignac-Spencer S*. (2020) Geographically structured genomic diversity of non-human primate-infecting Treponema
pallidum subsp. pertenue. Microbial Genomics. 6: 1:13.
Knauf S*, Gogarten JF*, Schuenemann VJ*, De Nys HM*, Düx A, Strouhal M, Mikalová L, Bos KI, Armstrong R,
Batamuzi EK, Chuma IS, Davoust B, Diatta G, Fyumagwa RD, Kazwala RR, Keyyu JD, Lejora IAV, Levasseur A, Liu H,
Mayhew MA, Mediannikov O, Raoult D, Wittig RM, Roos C, Leendertz FH, Šmajs D, Nieselt K, Krause J*, Calvignac-
Spencer S*. (2018) Nonhuman primates across sub-Saharan Africa are infected with the yaws bacterium Treponema
pallidum subsp. pertenue. Emerging Microbes and Infections. 7: 157.
Gogarten JF, Düx A, Schuenemann VJ, Nowak K, Boesch C, Wittig RM, Krause J, Calvignac-Spencer S, and Leendertz
FH. (2016) Tools for opening new chapters in the book of Treponema pallidum evolutionary history. Clinical Microbiology
and Infection. 22: 916-921.
Mubemba B, Chanove E, Mätz-Rensing K, Gogarten JF, Düx A, Merkel K, Röthemeier C, Sachse A, Rase H, Humle T,
Banville G, Tchoubar M, Calvignac-Spencer S, Colin C, Leendertz FH. (2020) Yaws disease caused by Treponema
pallidum subspecies pertenue in wild chimpanzee, Guinea, 2019. Emerging Infectious Diseases. 26:1283.
Zimmermann F, Köhler SM, Nowak K, Dupke S, Barduhn A, Düx, Lang A, De Nys HM, Gogarten JF, Grunow R,
Couacy-Hymann E, Wittig RM, Klee SR, Leendertz FH. (2017) Low levels of antibody prevalence against Bacillus cereus
biovar anthracis indicate high rate of lethal infections in wildlife. PLoS Neglected Tropical Diseases. 11: e0005960.
Hoffmann C*, Zimmermann F*, Biek R, Kuehl H, Nowak K, Mundry R, Agbor A, Angedakin S, Arandjelovic M,
Blankenburg A, Brazolla G, Corogenes K, Couacy-Hymann E, Deschner T, Dieguez P, Dierks K, Düx A, Dupke S, Eshuis
H, Formenty P, Ginath Yuh Y, Goedmakers A, Gogarten JF, Granjon A, McGraw S, Grunow R, Hart J, Jones S, Junker J,
Kiang J, Langergraber, Lapuente J, Lee K, Leendertz SAJ, Léguillon F, Leinert V, Löhrich T, Marrocoli S, Mätz-Rensing
K, Meier A, Merkel K, Metzger S, Murai M, Niedorf S, De Nys JM, Sachse A, van Schijndel J, Thiesen U, Ton E, Wu D,

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Wieler LH, Boesch C, Klee SR, Wittig RM, Calvignac-Spencer S, Leendertz FH. (2017) Persistent anthrax as a major
driver of wildlife mortality in a tropical rainforest. Nature. 548: 82-86.
Press coverage in Science Magazine, The Atlantic, and Der Spiegel.
PEER-REVIEWED PUBLICATIONS: VIRAL PATHOGENS
Under this heading I summarized my work on a diversity of pathogenic viruses. I highlight work on retroviruses that
provides insights into the prevalence, within- and cross-species transmission (including towards local human populations)
and the importance of virus–host interactions in determining cross-species transmission risk. Of particular note is a
publication on the possible origin of the Ebola epidemic in West Africa; importantly, we helped to broaden the focus of the
hunt for reservoirs of ebolaviruses, to look beyond flying foxes and fruit bats, to other potentially important bat species.
Subsequently, new ebolaviruses such as Bombali virus were discovered in insectivorous bats. I also highlight work
discovering novel viruses using hybridization capture based tools, published in Viruses.
Marí Saéz A*, Weiss S*, Nowak K*, Lapeyre V*, Zimmermann F, Düx A, Kühl HS, Kaba M, Regnaut S, Merkel K,
Sachse A, Thiesen U, Villányi L, Boesch C, Dabrowski PW, Radonić A, Nitsche A, Leendertz SAJ, Petterson S, Becker S,
Krähling V, Couacy-Hymann E, Akoua-Koffi C, Weber N, Schaade L, Fahr J, Borchert M, Gogarten JF*, Calvignac-
Spencer S*, Leendertz FH. (2015) Zoonotic origin of the West African Ebola epidemic. EMBO Molecular Medicine. 7: 17-
23.
Interviews with the press: Montreal Gazette and CBC’s Quirks and Quarks. Addition press coverage in: Nature,
Scientific American, and The New York Times
Gogarten JF, Ulrich M, Bhuva N, Garcia J, Jain K, Lee B, Löhrich T, Oleynik A, Couacy-Hymann E, Fuh Neba T, Mishra
N, Briese T, Calvignac-Spencer S, Lipkin WI, Leendertz FH. (2019) A Novel Orthohepadnavirus Identified in a Dead
Maxwell’s Duiker (Philantomba maxwellii) in Taï National Park, Côte d’Ivoire. Viruses. 11, 279.
Gogarten JF*, Akoua-Koffi C*, Calvignac-Spencer S*, Leendertz SAJ*, Weiss S*, Couacy-Hymann S, Koné I, Peeters M,
Wittig RM, Boesch C, Hahn BH, and Leendertz FH. (2014) The ecology of primate retroviruses – an assessment of 12 years
of retroviral studies in the Taï National Park area, Côte d’Ivoire. Virology. 460–461: 147–153.
Gillespie T, Ahouka S, Banza C, Ancrenaz M, Berg R, Calvignac-Spencer S, Düx A, Gogarten JF, Patrono LV, Couacy-
Hymann E, Deschner T, Robbins M, Wittig R, Fuh-Neba T, Herbinger I, Kalema-Zikusoka G, Kone I, Lonsdorf EV, Nzassi
PM, Raphael J, Mjungu DC, Refisch J, Rwego IB, Surbeck M, Wich S Leendertz FH. (2020) COVID-19: protect great apes
during human pandemics. Nature. 579: 497.
Press coverage in The BBC and The Guardian.
Düx A*, Lequime S*, Patrono LV, Vrancken B, Boral S, Gogarten JF, Hilbig A, Horst D, Merkel K, Prepoint B,
Santibanez S, Schlotterbeck J, Suchard MA, Ulrich M, Widulin N, Mankertz A, Leendertz FH, Harper K, Schnalke T,
Lemey P*, Calvignac-Spencer S*. (2020) Measles virus and rinderpest virus divergence dated to the sixth century BCE.
Science. 368:1367-70.
Press coverage in Science Magazine, The Atlantic, and The BBC.
Souza TML*,Vieira YR*, Delatorre E*, Barbosa-Lima G, Luiz RLF, Vizzoni A, Jain K, Miranda MD, Bhuva N, Gogarten
JF, Ng J, Thakkar R, Calheiros AS, Monteiro APT, Bozza PT, Bozza FA, Tschoeke DA, Leomil L, de Mendonça MCL,
Rodrigues CDdS, Torres MC, Filippis AMBd, Nogueira RMR, Thompson FL, Lemos C, Durovni B, Cerbino-Neto J, Morel
CM, Lipkin WI*, Mishra N*. (2019) Emergence of the East-Central-South-African genotype of Chikungunya virus in
Brazil and the city of Rio de Janeiro years before surveillance detection. Scientific Reports. 9: 2760.
Gogarten JF, Calvignac-Spencer S, and Leendertz FH. (2017) Ebola virus disease. The International Encyclopedia of
Primatology. A. Fuentes, Editor. Wiley & Blackwell Publishers. p. 323-325.
Leendertz SAJ*, Gogarten JF*, Düx A, Calvignac-Spencer S, and Leendertz FH. Assessing the evidence supporting fruit
bats as the primary reservoirs for Ebola viruses. (2015) Ecohealth. 13: 18-25.
PEER-REVIEWED PUBLICATIONS: OTHER TOPICS
Chapman CA, Bicca-Marques JC, Calvignac-Spencer S, Fan P, Fashing PJ, Gogarten JF, Guo S, Hemingway CA,
Leendertz FH, Li B, Matsuda I, Hou R, Serio-Silva JC, Stenseth NC. (2019) Games academics play and their consequences:
How authorship, h-index, and journal impact factors are shaping the future of academia. Proceedings of the Royal Society
B: Biological Sciences. 286: 20192047.
Green AG, Swithers KS, Gogarten JF, and Gogarten JP. (2013) Reconstruction of ancestral 16S rRNA reveals mutation
bias in the evolution of optimal growth temperature in the Thermotogae phylum. Molecular Biology and Evolution. 30:

Jan F. Gogarten - Curriculum vitae - 5

2463-2474.
PEER-REVIEWED PUBLICATIONS: UNDER EVALUATION
Patrono LV*, Vrancken B*, Budt M*, Düx A, Lequime S, Boral S, Gilbert MTP, Gogarten JF, Hoffmann L, Horst D,
Merkel K, Morens D, Prepoint B, Schlotterbeck J, Schuenemann V, Suchard MA, Taubenberger JK, Tenkhoff L, Urban C,
Widulin N, Winter E, Worobey M, Leendertz FH, Schnalke T, Wolff T, Lemey P, Calvignac-Spencer S. Archival influenza
virus genomes from Europe reveal genomic and phenotypic variability during the 1918 pandemic. BioRxiv. DOI:
10.1101/2021.05.14.444134
Press coverage in Science Magazine.
Gogarten JF, Chapman CA*, Goldberg TL*, Leendertz FH*, Rothman JM*. Widespread fly-primate associations: larger
monkey groups harbor higher fly densities.
Bortolamiol S*, Sarkar D*, Gogarten JF, Hartter J, Hou R, Kagoro W, MacKenzie C, Omeja P, Reyna-Hurtado R,
Tumwesigye C, Chapman CA. Measuring conservation success: Recovering populations but poaching persists and
confusion arises over the effect of park benefits.
Chapman CA, Hemingway CA, Sarkar D, Gogarten JF, Stenseth NC. Social media and science: What do altmetrics mean
for evaluation?
Chapman CA*, Galán-Acedo C*, Gogarten JF*, Guo S*, Hou R*, Kalbitzer U*, Omeja P*, Struhsaker TS*, Sarjar D,
Sugiyama A*. A 50-year evaluation of drivers of rainforest change.
Schülke O, Anzà S, Crockford C, De Moor D, Deschner T, Fichtel C, Gogarten JF, Kappeler PM, Manin V, Müller-Klein
N, Prox L, Sadoughi B, Touitou S, Wittig RM, Ostner J. Quantifying within-group variation in sociality – covariation
among metrics and patterns across primate groups and species.
Calvignac-Spencer S*, Düx A*, Gogarten JF*, Patrono LV*. Molecular archeology of human viruses.
PATENT
Gogarten JF, Lee B, Kapoor A, Jabado OJ, Jain K, Mishra N, Briese T, Lipkin WI. Virome capture sequencing platform,
methods of designing and constructing and methods of using. Patent number: 10815536 (received Oct 27, 2020), Patent
Publication Number: 20180265935. Assignee: The trustees of Columbia University in the City of New York. Application
Number: 15/759,937
SELECT GRANTS AND FELLOWSHIPS [TOTALS: CAN$293,937, €498,192, ¥200,000; AND US$201,076]
2020 Individual Proposal from the German Research Foundation (Deutsche Forschungsgemeinschaft): The
ecology and evolution of primate phageomes - €367,550
2020 Convention on Biological Diversity – Bio-Bridge Initiative: Global Assessment of Microplastics in
Primates: Sharing Technical Skills to Identifying a Growing Wildlife Problem (collaborator) - $20,000
2018 Primate Conservation, Incorporated Research Grant - $5,000
2017 Postdoctoral Researchers International Mobility Experience: German Academic Exchange Service
(Deutscher Akademischer Austausch Dienst: DAAD PRIME - €120,000
2014 Long-term research grant to Germany: German Academic Exchange Service (DAAD) - $13,866
2014 Cooperative Research Program: Center for International Collaboration and Advanced Studies in
Primatology, Kyoto University - ¥200,000
2014 Vanier Canada Graduate Fellowship: Natural Sciences and Engineering Research Council of Canada -
Can$150,000
2013 McGill University’s Dean of Science Research Fund - Can$78,795
2012 Canadian Institutes of Health Research Systems Biology Training Program - Can$32,130
2011 Explorer Club’s Eddie Bauer Young Explorer Grant - $12,500
2011 National Science Foundation Graduate Research Fellowship - $122,500
AWARDS
2021 University of Wisconsin-Madison’s Jim F Crow Institute for the Study of Evolution’s Seminar Series
Early Career Award
2010 Stony Brook University’s Of-The-Month Award for Teaching Excellence
SELECT TEACHING EXPERIENCE
Spring 2021 Guest lecturer – University of the West of England’s Master’s of Science program in Wildlife Ecology
and Fall 2019 and Conservation Science – Tools for studying wildlife infectious diseases and informing One Health

Jan F. Gogarten - Curriculum vitae - 6

 initiatives
Fall 2020 Guest lecturer – Indiana University’s EcoHealth in the Anthropocene, in the Human Biology course:
Behavioral Ecology & Disease
Fall 2017 Guest lecturer – Hunter University – Seminar in primate disease ecology – Tools for studying emerging
infectious disease in wildlife
Fall 2015 Resident coordinator – Madagascar Study Abroad with Stony Brook University - 14 American and 2
Malagasy students – Blog of our experience: https://madagascarstudyabroad.wordpress.com
Instructor – Ecosystems in Madagascar
Instructor – Independent research project
Instructor – Lemurs of Madagascar
Instructor – Methods in studying primates
Spring 2015 Guest lecturer – Dahlem Research School of the Freie Universität, Berlin – Primate conservation in
changing environments: Flies, sociality and disease
Fall 2013-2014 Guest lecturer – Interdisciplinary Dual-Degree Professional Science Master's Program at St. Edwards
University – Population Ecology – Group living: Costs and benefits of sociality
Environmental Science – Primate Conservation: Disease ecology in a changing world
Winter 2012 Guest lecturer – McGill University- Primate Behaviour and Ecology – Group living: Costs and benefits
of sociality
Winter 2012 Guest lecturer – McGill University - Environmental Research Design – Methods in Ecological Research
and Methods and Design in Animal Behaviour Research
Fall 2012 Teaching assistant – McGill University - Primate behaviour and ecology
Spring 2011 Teaching assistant – McGill University - Introduction to cultural anthropology
Fall 2011 Guest lecturer – Primate Behaviour and Ecology – How to become involved in primatology and field
research
Fall 2010 Teaching assistant – Introduction to biological anthropology
Fall 2010 Laboratory instructor and coordinator – Biological anthropology laboratory
Spring 2010 Teaching assistant – Kinship, family, and marriage
Fall 2009 Teaching assistant – Contemporary and historical perspectives on insular Southeast Asia
STUDENTS CO-SUPERVISED
2021-present Milen Sterev – Bachelor student at Robert Koch Institute
2019-2021 Maria Chaer – Bachelor student at Robert Koch Institute and Beuth University of Applied Sciences Berlin
2017-2020 Benjamin Mubemba – PhD student at the Robert Koch Institute and Dahlem Research School
2015-2017 Markus Ulrich – Master’s thesis at the Beuth Hochschule für Technik Berlin
2015 Isabelle Clark and Jordan Lucore – Undergraduate honors projects in Madagascar
2013-2014 Ariane Düx and Jonathan Müller-Tiburtius – Field work in Taï Forest
2011 Carl Boodman – Field work in Nabugabo, Uganda
2010-2011 Bianca van Bavel, Lauren Mechak, Melissa Guzman and Sofia Poonawala – Honors theses at McGill
University
GRANTS REVIEWED [11]
∙ National Geographic Society - Committee for Research and Exploration (8)
∙ National Geographic Society - Conservation Trust (2)
∙ Primate Conservation, Incorporated – Research Grant
∙ Leakey Foundation – Research Grant
SELECT ARTICLES REVIEWED [55: VERIFIED AT PUBLONS.COM/A/1186322]
∙ African Journal of Ecology ∙ Global Change Biology (6)
∙ American Journal of Physical Anthropology (3) ∙ International Journal of Primatology (8)
∙ American Journal of Primatology ∙ Journal for Nature Conservation
∙ Behavioral Ecology (2) ∙ Journal of Tropical Ecology
∙ Biological Conservation ∙ Landscape Ecology
∙ Conservation Biology ∙ Microbiome
∙ Ecohealth (2) ∙ Molecular Ecology (4)
∙ Ecological Research (3) ∙ PLoS ONE
∙ Evolutionary Anthropology ∙ Primate Biology
∙ FEMS Microbiology Ecology ∙ Primates (4)
∙ Folia Primatologica (2) ∙ Proceedings of the Royal Society B (4)

Jan F. Gogarten - Curriculum vitae - 7

∙ Science Advances ∙ Taprobanica
∙ Scientific Reports (7) ∙ Tropical ecology
∙ Science of the Total Environment
SELECT PRESENTATIONS
2021 Invited speaker at the Crow Institute for the Study of Evolution, University of Wisconsin-Madison: “A natural
and unnatural history of primate phages: tools for studying microbial transmission at the human-wildlife interface”
2021 Invited speaker at the Carleton University’s Department of Biology: “On the ecological and evolutionary origins
of diverse primate-associated communities”
2021 Invited speaker at the Université de Montréal’s Département d'anthropologie: “On the ecological and evolutionary
origins of diverse primate-associated communities”
2021 Invited speaker at the University of Massachusetts Boston’s Biology Department: “On the ecological and
evolutionary origins of diverse primate-associated communities”
2021 Invited speaker at Tel Aviv University’s School of Zoology: “On the ecological and evolutionary origins of
diverse primate-associated communities”
2021 Keynote speaker at the Médecins Sans Frontières (Doctors Without Borders) Global Health Case Competitions -
A Canadian Coalition for Global Health Research Workshop. ‘A disease ecologist’s toolbox: On the origins of the
West African Ebolavirus epidemic and SAR-CoV-2 pandemic’
2020 Invited speaker at the Ecology & Evolution Department at Stony Brook University: “A natural and unnatural
history of primate phages”
2020 Spotlight session plenary at the Annual Meeting of the Society for Virology: “A natural and unnatural history of
primate phages” – postponed due to SARS-CoV-2 pandemic
2019 Invited speaker at the University of Oxford’s Department of Zoology: “Wild non-human primate microbiomes,
flies and pathogens in changing ecosystems”
2019 Invited speaker at the Leibniz Institute for Zoo and Wildlife Research: “Wild non-human primate microbiomes,
flies and pathogens in changing ecosystems”
2019 Invited speaker at the Macroecology of Infectious Diseases Research Coordinating Network, Duke University:
“Metabarcoding of eukaryotic parasite communities describes diverse parasite assemblages spanning the primate
phylogeny”
2019 Invited speaker at the Department of Anthropology, George Washington University: “Primates in changing
environments: a tale of microbiomes, flies, and pathogens”
2019 Invited speaker at the Department of Biology, Northwest University, China: “Impacts of environmental change on
primate populations: Behaviour and the holobiont, with implications for disease emergence.”
2019 Invited speaker at the Mailman School of Public Health, Columbia University: “Primate associated flies, phages,
and worms: a diverse parasite community at the human-wildlife interface”
2018 Invited speaker at the Freie Universität Berlin’s Institute of Microbiology and Epizootics: “Target enrichment
through hybridization capture: tools for studying wildlife disease ecology”
2018 Invited speaker at Indiana University Bloomington’s Center for the Integrative Study of Animal Behavior:
“Impacts of environmental change on wild non-human primates: Behaviour and the holobiont, with implications
for disease emergence”
2018 Invited speaker at Stony Brook University’s Behavioral Ecology Group: “Impacts of environmental change on
wild non-human primates: behavior and the holobiont, with implications for disease emergence”
2018 Invited speaker at the EcoHealth Alliance: “Impacts of environmental change on wildlife populations:
Behaviour and the holobiont, with implications for disease emergence”
2016 Invited speaker for the Hans-Böckler-Stiftung’s Fachclustertreffen Mathematik, Naturwissenschaften. Contagion:
verstrahlt, verseucht, vergiftet Herausforderung Biosicherheit. Translation: The Hans-Böckler Foundation’s
Specialization Cluster Meeting for Mathematics and Natural Sciences. Contagions: Contamination,
experimentation, and challenges for biosecurity. Zoonotic diseases: Ebola, Treponema and HIV at the human-
animal interface” at the Schankhalle Pfefferberg Berlin, Germany
2014 Invited speaker at the Oxford-Brookes MSc. Primate Conservation Monkey Mondays Seminar Series - "Primate
conservation in changing environments: Flies, sociality and disease” in Oxford, England
2014 Invited speaker at the Center for International Collaboration and Advanced Studies in Primatology (CICASP),
Kyoto University Primate Research Institute, Japan: “Primate conservation in changing environments: Flies,
sociality and retroviruses”
2011 Invited speaker at the Galvani Group at Yale University’s School of Medicine: “Understanding primate infectious
diseases: Integrating disciplines”
SELECT PROFESSIONAL AND COLLEGIAL ACTIVITIES

Jan F. Gogarten - Curriculum vitae - 8

2021 Panel member for discussion at Edwin O. Smith High School’s Career Day
2020-2021 Member of the SARS-CoV-2 genomic surveillance group at the Robert Koch Institute
2019 Participant in the Natural Science Careers Unconscious Bias workshop
2019 Presented at the Berlin Natural History Museum’s Museum Salon: was one of two researchers who met
and discussed our research with the general public
2018 Reviewed abstracts for the 2018 International Primatological Society Congress in Nairobi, Kenya
2017 Helped organize and deliver three six-week laboratory internships for refugees at the Robert Koch
Institute
2015-2016 Co-organizer of UltimateConnects, a project aiming to create an intercultural dialogue and exchange
between refugees and people living in Berlin though weekly ultimate Frisbee games
2014-2017 Cofounder and leader of the Taï Chimpanzee Project’s School Program: Fund raising and distribution of
funds to cover the school fees of one child per field assistant
2014-2017 Volunteer and cofounder of the Health Education Project for the Taï Region: Fund raising and creation of
education materials and supplies for education of K-12 students about the basics of hygiene and basic
disease prevention methods practices
2014 Presentation of my experiences as a graduate student and career options in research - Chateauguay Valley
Regional High School, QC, Canada
2012 Guest speaker and mentor for the McGill University National Geographic Young Explorers Grants
Workshop ‘Idea Pitch’ sessions to advise students on their grant applications and projects as well as
increase awareness for this funding opportunity
2012 Guest presentation at Balankan Elementary School, Mexico - Environmental education initiative
promoting community involvement in conservation
2012 Taught three high school classes on primate behavior and conservation for a Human Behavior course at
Edwin O. Smith High School, CT
2011-2012 Assisted in teaching the McGill Biology Graduate Student Association’s R Statistics Workshops
2011-2012 Co-supervised a McGill Biology Undergraduate Honours Research Project by Laura Guzman Uribe: “The
effect of former pine plantations on red colobus nutrition and fecundity”
2011-2012 Organized fundraising for the Kibale Health Clinic
2010-2011 Created and maintained the IDPAS’ Guide to Grants website; a collection of successful grant applications
and suggestions for applying for grants
2010 Participated in the ‘Write to Win’ workshop to raise awareness about the NSF GRFP and help Center for
Inclusive Education, Alliance for Graduate Education and the Professoriate, Turner and other
undergraduate and graduate students prepare competitive NSF GRF applications
2010 Mentor for the Alliance for Graduate Education and the Professoriate and the Center for Inclusive
Education’s ‘Write to Win’ program: worked with students from groups underrepresented in science to
prepare a competitive NSF GRFP application
2009 Volunteer Pijije Elementary School, Costa Rica - Environmental education initiative and promoting
community involvement in conservation
LANGUAGES:
English and German native speaker, Spanish and French moderate

Jan F. Gogarten - Curriculum vitae - 9