Island biology, Diversification dynamics, Genome evolution Group Swedish Museum of Natural History (& partly Univ. of Oslo)

Research

Overview Our research focuses on fundamental questions in ecology, island biology, biogeography, molecular biology, and evolutionary biology. We primarily use genomic data, such as reference genomes and population/species-level sampling, which we integrate with environmental and phenotypic data.

Research Questions Our work explores key themes such as speciation, adaptation, molecular evolution, and island biology. Some of the questions we investigate include: How do genomes evolve? How do species adapt to new ecological niches? How does adaptation to these niches influence genome evolution? What drives diversifications and/or adaptive radiations? What is the biogeography of specific lineages?

Study Systems We mainly focus on insular systems. Currently, our lab is researching the Galápagos Scalesia radiation, Galápagos Darwiniothamnus and Lecocarpus, the Cabo Verdean endemic sparrow (Passer iagoensis), and various lineages from the Malay Archipelago.

Publications While we do not keep a curated collection of publications exclusive to the laboratory, you can check out the scholar profile of the group coordinator, José Cerca

All

2026

Phylogenomics and biogeography of the parrot genus
                  <i>Pyrrhura</i>
                  with implications for systematics and conservation
Phylogenomics and biogeography of the parrot genus Pyrrhura with implications for systematics and conservation
Jaime G. Morin-Lagos, Taylor Hains, José Cerca, Michael Wink, Stacy Pirro, Cristina Y. Miyaki, Shannon J. Hackett, John M. Bates, Michael D. Martin
openRxiv  ·  23 Jan 2026  ·  doi:10.64898/2026.01.21.700815

2025

Pangenomes as a framework for adaptive radiation, speciation, and adaptation
Pangenomes as a framework for adaptive radiation, speciation, and adaptation
Nicolò Tellini, Ole K. Tørresen, David Edwards, Loren H. Rieseberg, Kjetill S. Jakobsen, José Cerca
American Journal of Botany  ·  01 Dec 2025  ·  doi:10.1002/ajb2.70130
Chromosome-level genome assembly of Norwegian wild alpine reindeer (
                    <i>Rangifer tarandus tarandus</i>
                    )
Chromosome-level genome assembly of Norwegian wild alpine reindeer ( Rangifer tarandus tarandus )
Ole K Tørresen, Ave Tooming-Klunderud, Morten Skage, Anne Eline Streitlien, Olav Strand, Christer M Rolandsen, Giada Ferrari, José Cerca, Atle Mysterud, Kjetill S Jakobsen
Journal of Heredity  ·  03 Nov 2025  ·  doi:10.1093/jhered/esaf094
Reference genome bias in light of species-specific chromosomal reorganization and translocations
Reference genome bias in light of species-specific chromosomal reorganization and translocations
Marius F. Maurstad, Siv Nam Khang Hoff, José Cerca, Mark Ravinet, Ian Bradbury, Kjetill S. Jakobsen, Kim Præbel, Sissel Jentoft
Genome Biology  ·  15 Oct 2025  ·  doi:10.1186/s13059-025-03761-w
Chromosome-level genome assembly of Norwegian wild alpine reindeer (
                  <i>Rangifer tarandus tarandus</i>
                  )
Chromosome-level genome assembly of Norwegian wild alpine reindeer ( Rangifer tarandus tarandus )
Ole K. Tørresen, Ave Tooming-Klunderud, Morten Skage, Anne Eline Streitlien, Olav Strand, Christer M. Rolandsen, Giada Ferrari, José Cerca, Atle Mysterud, Kjetill S. Jakobsen
openRxiv  ·  16 May 2025  ·  doi:10.1101/2025.05.15.652595
<i>k</i>-mer approaches for biodiversity genomics
k-mer approaches for biodiversity genomics
Katharine M. Jenike, Lucía Campos-Domínguez, Marilou Boddé, José Cerca, Christina N. Hodson, Michael C. Schatz, Kamil S. Jaron
Genome Research  ·  31 Jan 2025  ·  doi:10.1101/gr.279452.124

2024

Reference genome bias in light of species-specific chromosomal reorganization and translocations
Reference genome bias in light of species-specific chromosomal reorganization and translocations
Marius F. Maurstad, Siv Nam Khang Hoff, José Cerca, Mark Ravinet, Ian Bradbury, Kjetill S. Jakobsen, Kim Præbel, Sissel Jentoft
openRxiv  ·  28 Jun 2024  ·  doi:10.1101/2024.06.28.599671
Consistent accumulation of transposable elements in species of the Hawaiian <i>Tetragnatha</i> spiny-leg adaptive radiation across the archipelago chronosequence
Consistent accumulation of transposable elements in species of the Hawaiian Tetragnatha spiny-leg adaptive radiation across the archipelago chronosequence
Heidi Yang, Clément Goubert, Darko D Cotoras, Dimitar Dimitrov, Natalie R Graham, José Cerca, Rosemary G Gillespie
Evolutionary Journal of the Linnean Society  ·  01 Jan 2024  ·  doi:10.1093/evolinnean/kzae005
Darwin’s overlooked radiation: genomic evidence points to the early stages of a radiation in the Galápagos prickly pear cactus (
                    <i>Opuntia</i>
                    : Cactaceae)
Darwin’s overlooked radiation: genomic evidence points to the early stages of a radiation in the Galápagos prickly pear cactus ( Opuntia : Cactaceae)
Felipe Zapata, José Cerca, Dana McCarney, Claudia L Henriquez, Bashir B Tiamiyu, John E McCormack, Kelsey R Reckling, Jaime A Chaves, Gonzalo Rivas-Torres
Evolutionary Journal of the Linnean Society  ·  01 Jan 2024  ·  doi:10.1093/evolinnean/kzae021

2023

Multiple paths toward repeated phenotypic evolution in the spiny‐leg adaptive radiation (
                    <i>Tetragnatha</i>
                    ; Hawai'i)
Multiple paths toward repeated phenotypic evolution in the spiny‐leg adaptive radiation ( Tetragnatha ; Hawai'i)
José Cerca, Darko D. Cotoras, Cindy G. Santander, Vanessa C. Bieker, Leke Hutchins, …, Andrew J. Rominger, Joana Meier, Dimitar Dimitrov, Torsten H. Struck, Rosemary G. Gillespie
Molecular Ecology  ·  29 Jul 2023  ·  doi:10.1111/mec.17082

2021

Pervasive admixture and the spread of a large‐lipped form in a cichlid fish radiation
Pervasive admixture and the spread of a large‐lipped form in a cichlid fish radiation
Will Sowersby, José Cerca, Bob B. M. Wong, Topi K. Lehtonen, David G. Chapple, Mariana Leal‐Cardín, Marta Barluenga, Mark Ravinet
Molecular Ecology  ·  16 Sep 2021  ·  doi:10.1111/mec.16139
Removing the bad apples: A simple bioinformatic method to improve loci‐recovery in de novo RADseq data for non‐model organisms
Removing the bad apples: A simple bioinformatic method to improve loci‐recovery in de novo RADseq data for non‐model organisms
José Cerca, Marius F. Maurstad, Nicolas C. Rochette, Angel G. Rivera‐Colón, Niraj Rayamajhi, Julian M. Catchen, Torsten H. Struck
Methods in Ecology and Evolution  ·  21 Feb 2021  ·  doi:10.1111/2041-210X.13562
Incomplete lineage sorting and ancient admixture, and speciation without morphological change in ghost-worm cryptic species.
Incomplete lineage sorting and ancient admixture, and speciation without morphological change in ghost-worm cryptic species.
José Cerca, Angel G Rivera-Colón, Mafalda S Ferreira, Mark Ravinet, Michael D Nowak, Julian M Catchen, Torsten H Struck
PeerJ  ·  09 Feb 2021  ·  pmid:33614296

2020

Removing the bad apples: a simple bioinformatic method to improve loci-recovery in de novo RADseq data for non-model organisms
Removing the bad apples: a simple bioinformatic method to improve loci-recovery in de novo RADseq data for non-model organisms
José Cerca, Marius Maurstad, Nicolas Rochette, Angel Rivera-Colón, Niraj Rayamajhi, Julian Catchen, Torsten Struck
California Digital Library (CDL)  ·  28 Aug 2020  ·  doi:10.32942/OSF.IO/47TKA

2019

Deceleration of morphological evolution in a cryptic species complex and its link to paleontological stasis
Deceleration of morphological evolution in a cryptic species complex and its link to paleontological stasis
José Cerca, Christian Meyer, Dave Stateczny, Dominik Siemon, Jana Wegbrod, Gunter Purschke, Dimitar Dimitrov, Torsten H. Struck
Evolution  ·  26 Nov 2019  ·  doi:10.1111/evo.13884
Delimitation of cryptic species drastically reduces the geographical ranges of marine interstitial ghost-worms (Stygocapitella; Annelida, Sedentaria).
Delimitation of cryptic species drastically reduces the geographical ranges of marine interstitial ghost-worms (Stygocapitella; Annelida, Sedentaria).
José Cerca, Christian Meyer, Günter Purschke, Torsten H Struck
Molecular phylogenetics and evolution  ·  25 Oct 2019  ·  pmid:31669400
Fitness benefits and costs of floral advertising traits: insights from rayed and rayless phenotypes of <i>Anacyclus</i> (Asteraceae)
Fitness benefits and costs of floral advertising traits: insights from rayed and rayless phenotypes of Anacyclus (Asteraceae)
José Cerca, Alicia B. Agudo, Sílvia Castro, Ana Afonso, Inés Alvarez, Rubén Torices
American Journal of Botany  ·  01 Feb 2019  ·  doi:10.1002/ajb2.1238

2018

Marine connectivity dynamics: clarifying cosmopolitan distributions of marine interstitial invertebrates and the meiofauna paradox
Marine connectivity dynamics: clarifying cosmopolitan distributions of marine interstitial invertebrates and the meiofauna paradox
José Cerca, Günter Purschke, Torsten H. Struck
Marine Biology  ·  10 Jul 2018  ·  doi:10.1007/s00227-018-3383-2
Finding Evolutionary Processes Hidden in Cryptic Species
Finding Evolutionary Processes Hidden in Cryptic Species
Torsten H. Struck, Jeffrey L. Feder, Mika Bendiksby, Siri Birkeland, José Cerca, …, Lee Hsiang Liow, Michael D. Nowak, Brita Stedje, Lutz Bachmann, Dimitar Dimitrov
Trends in Ecology & Evolution  ·  01 Mar 2018  ·  doi:10.1016/j.tree.2017.11.007

2014

The effects of achene type and germination time on plant performance in the heterocarpic <i>Anacyclus clavatus</i> (Asteraceae)
The effects of achene type and germination time on plant performance in the heterocarpic Anacyclus clavatus (Asteraceae)
Ana Afonso, Sílvia Castro, João Loureiro, Lucie Mota, José Cerca de Oliveira, Rubén Torices
American Journal of Botany  ·  01 May 2014  ·  doi:10.3732/ajb.1400030

2013

Genome size variation and polyploidy incidence in the alpine flora from Spain
Genome size variation and polyploidy incidence in the alpine flora from Spain
João Loureiro, Mariana Castro, José Cerca de Oliveira, Lucie Mota, Rubén Torices
Anales del Jardín Botánico de Madrid  ·  30 Jun 2013  ·  doi:10.3989/ajbm.2350

1970

Evolutionary genomics of oceanic island radiations
Evolutionary genomics of oceanic island radiations
José Cerca, Darko D. Cotoras, Vanessa C. Bieker, Rishi De-Kayne, Pablo Vargas, …, Bruce G. Baldwin, Brent C. Emerson, Gonzalo Rivas-Torres, Rosemary Gillespie, Michael D. Martin
Trends in Ecology & Evolution  ·  01 Jan 1970  ·  doi:10.1016/j.tree.2023.02.003
Our review of adaptive radiations across oceanic archipelagos!