Disinfecting eukaryotic reference genomes to improve taxonomic inference from environmental ancient metagenomic data

Nikolay Oskolkov, Chenyu Jin, Samantha López Clinton, Benjamin Guinet, Flore Wijnands, Ernst Johnson, Verena E. Kutschera, Cormac M. Kinsella, Peter D. Heintzman, Tom van der Valk

bioRxiv (currently under review at GigaScience), 2025.03.19.644176

Decoding the Peruvian Amazon with in situ DNA barcoding of vertebrate and plant taxa

Pamela Sanchez-Vendizu, Gideon Erkenswick, Jhakelin Reyes, Samantha López Clinton, Thalía Silvestre Espejo, Gabriela Cáceres, Zane Libke, Alejandra Arana, Jorge Mendoza-Silva, Cristian Tirapelle, Sean Williams, Varun Swamy, José Martínez-Altamirano, Juan Esteves, Juan P. Barnuevo-Bullón, Jacqueline Hernández-Mejía, Xiomara Caffo, Roberto Salazar-Aragón, Leticia Gutiérrez-Jiménez, Jennifer Stabile, Naija Cuzmar, Timothy D. Paine, Priscila Peralta-Aguilar, Giancarlo Inga Diaz, Jesus Lescano, Andrés Viñas-Martínez, Mary E . McElroy, Daxs Coayla, Liza-María Linares, Nicholas W. Pilfold, Alexandra J. Sacco, Mónica Arakaki, José Luis Mena, Mathias W. Tobler, Letty Salinas, César Arana, Víctor Pacheco, Stefan Prost, Mrinalini Watsa

Scientific Data (In press)

El ADN Antiguo: Perspectivas Mundiales y Retos Actuales

Stephanie Dolenz, Samantha López Clinton, Peter D. Heintzman

Revista de Arqueología Mexicana, January-February vol. XXX(190), Editorial Raíces S.A. de C.V., 2025 , pp. 40-45

Microcosmos explorers: foldscope workshop for science outreach in Mexican schools

Samantha López Clinton

Biology Methods and Protocols, vol. 8, 2023 Nov, bpad035

Parasite and microbiome comparisons between captive and wild primates

G Erkenswick, M Watsa, A Pomerantz, DJ Park, S Cave, A Schmitt, D Rudin, A Viñas-Martínez, M Paz-Mendoza, J Chen, Y Khadpekar, NW Pilfold, S López Clinton, M McElroy, J Brack, D Dainko, S Prost

(In prep)

Insights from a multi-species, population metagenomics study in Swedish Arthropods

López Clinton S, Iwaszkiewicz-Eggebrecht E, Ronquist F, van der Valk T

(In prep)

A novel SNP panel for genotyping tamarins using field-friendly technologies and both high and low quality DNA

López Clinton S, Voyt R, Jensen A, Erkenswick G, Rogers J, Muthuswamy R, Guschanski K, Watsa M

(In prep)

Cheetah and tamarin SNP genotyping under field conditions using Nanopore technologies

Prost S, López Clinton S, Voyt R, Guschanski K, Watsa M

(In prep)

Small Bugs, Big Data: Metagenomics for arthropod biodiversity monitoring

Samantha López Clinton, Ela Iwaszkiewicz-Eggebrecht, Andreia Miraldo, Robert Goodsell, Matthew T. Webster, Fredrik Ronquist, Tom van der Valk

Submitted to Ecology and Evolution

Madre de Dios botanical DNA barcode reference library

V Swamey, M Watsa, G Erkenswick, S López Clinton, D Coayla, M Paz Mendoza

(In prep)

Genotyping and relatedness analyses of 250 wild tamarin individuals from Southeastern Peru

Voyt R, López Clinton S, Jensen A, Erkenswick G, Rogers J, Muthuswamy R, Guschanski K, Watsa M

(In prep)

Chimerism detection in various tide types with SNP genotyping panel in two species of free-ranging tamarins

Voyt R, López Clinton S, Jensen A, Erkenswick G, Rogers J, Muthuswamy R, Guschanski K, Watsa M

(In prep)

In situ population genetics: A primer on Peruvian tamarins via ddRADSeq on a MinION sequencer

M Watsa, G Erkenswick, A Pomerantz, J Chen, Y Khadpekar, NW Pilfold, S López Clinton, A Viñas Martínez, D Rudin, M McElroy, A Schmitt, M Paz, J Brack, D Dainko, DJ Park, S Cave, S Prost

(In prep)

Polymorphic colour vision and behaviour: the use of sight, smell and taste in two species of free-ranging tamarins in southeastern Peru

M Watsa, S López Clinton, R Chen, A Melin, G Erkenswick

(In prep)