Publications

NECTAR BARRIER FOR BIRDS IN ANISACANTHUS (ACANTHACEAE) - A KEYHOLE BARRIER

Manktelow, Mariette

Part of The Southwestern naturalist, p. 1-11, 2026

Article in journal

The Apocynaceae: of the Arabian Peninsula and Socotra

Bruyns, Peter V.; Lidén, Magnus; Morrison, David A.

Uppsala University, 2026

Book

Nallo: a Nextflow pipeline for comprehensive human long-read genome analysis

Lenner, Felix; Jemt, Anders; Pena Perez, Lucia; Neethiraj, Ramprasad et al.

Part of Bioinformatics, 2026

Article in journal

• DOI for Nallo: a Nextflow pipeline for comprehensive human long-read genome analysis
• Download full text (pdf) of Nallo: a Nextflow pipeline for comprehensive human long-read genome analysis

Evolutionary Dynamics of Dosage Compensation and Sex-biased Gene Expression in Morabine Grasshopper Vandiemenella viatica

Jayaprasad, Suvratha; Schielzeth, Holger; Palacios-Gimenez, Octavio M.

Part of Genome Biology and Evolution, 2026

Article in journal

• DOI for Evolutionary Dynamics of Dosage Compensation and Sex-biased Gene Expression in Morabine Grasshopper Vandiemenella viatica
• Download full text (pdf) of Evolutionary Dynamics of Dosage Compensation and Sex-biased Gene Expression in Morabine Grasshopper Vandiemenella viatica

Ubiquitous occurrence of the black fungus Melanina gundecimermaniae in the lichen Umbilicaria pustulata

Keller, Victoria; Calchera, Anjuli; Otte, Jurgen; Tuovinen Nogerius, Veera et al.

Part of Current Biology, p. 748-759, 2026

Article in journal

• DOI for Ubiquitous occurrence of the black fungus Melanina gundecimermaniae in the lichen Umbilicaria pustulata
• Download full text (pdf) of Ubiquitous occurrence of the black fungus Melanina gundecimermaniae in the lichen Umbilicaria pustulata

The evolutionary genomics of meiotic drive

Presgraves, Daven C.; Dawe, R. Kelly; Dyer, Kelly A.; Fishman, Lila et al.

Part of Molecular biology and evolution, 2026

Article, review/survey

• DOI for The evolutionary genomics of meiotic drive
• Download full text (pdf) of The evolutionary genomics of meiotic drive

Phylogenomic tree of Cercozoa based on single-cell transcriptomes from 100 uncultured cells

Lax, Gordon; Cooney, Elizabeth C.; Zlatogursky, Vasily; Mtawali, Mahara et al.

Part of BMC Biology, 2026

Article in journal

• DOI for Phylogenomic tree of Cercozoa based on single-cell transcriptomes from 100 uncultured cells
• Download full text (pdf) of Phylogenomic tree of Cercozoa based on single-cell transcriptomes from 100 uncultured cells

Genomic Connectivity and Adaptation Signals of the Freshwater Sponge Ephydatia muelleri Across Its Distribution

de la Cruz-Castillejo, Laura; Cassidy, Robert; Mitsi, Konstantina; Galia-Camps, Carles et al.

Part of Journal of Biogeography, 2026

Article in journal

• DOI for Genomic Connectivity and Adaptation Signals of the Freshwater Sponge Ephydatia muelleri Across Its Distribution
• Download full text (pdf) of Genomic Connectivity and Adaptation Signals of the Freshwater Sponge Ephydatia muelleri Across Its Distribution

Independent origins of spicules reconcile paleontological and molecular evidence of sponge evolutionary history

Rossi, Maria Eleonora; Keating, Joseph N.; Kenny, Nathan J.; Giacomelli, Mattia et al.

Part of Science Advances, 2026

Article in journal

• DOI for Independent origins of spicules reconcile paleontological and molecular evidence of sponge evolutionary history
• Download full text (pdf) of Independent origins of spicules reconcile paleontological and molecular evidence of sponge evolutionary history

Identification of a deep-branching lineage of algae using environmental plastid genomes

Jamy, Mahwash; Huber, Thomas; Antoine, Thibault; Ruscheweyh, Hans-Joachim et al.

Part of Nature Communications, 2026

Article in journal

• DOI for Identification of a deep-branching lineage of algae using environmental plastid genomes
• Download full text (pdf) of Identification of a deep-branching lineage of algae using environmental plastid genomes

B chromosome retrotransposed sequences persist through speciation, contributing to genomic and regulatory innovations in the fish genus Psalidodon (Characiformes, Acestrorhamphidae)

Lasmar, Lucas F.; Vidal, Mateus R.; Nadai, Pamela C. F.; Dos Santos, Rodrigo Zeni et al.

Part of PLOS ONE, 2026

Article in journal

• DOI for B chromosome retrotransposed sequences persist through speciation, contributing to genomic and regulatory innovations in the fish genus Psalidodon (Characiformes, Acestrorhamphidae)
• Download full text (pdf) of B chromosome retrotransposed sequences persist through speciation, contributing to genomic and regulatory innovations in the fish genus Psalidodon (Characiformes, Acestrorhamphidae)

The Apocynaceae of the Arabian Peninsula and Socotra

Bruyns, Peter

Acta Universitatis Upsaliensis, 2026

Book

• Download full text (pdf) of The Apocynaceae of the Arabian Peninsula and Socotra

Chromosome-level assembly of the club-legged grasshopper (Gomphocerus sibiricus) genome

Palacios-Gimenez, Octavio M.; Varma, Mahendra; Cheng, Xinyi; Mosbech, Mai-Britt et al.

Part of G3, 2025

Article in journal

• DOI for Chromosome-level assembly of the club-legged grasshopper (Gomphocerus sibiricus) genome
• Download full text (pdf) of Chromosome-level assembly of the club-legged grasshopper (Gomphocerus sibiricus) genome

Widespread potential for phototrophy and convergent reduction of lifecycle complexity in the dimorphic order Caulobacterales

Hallgren, Joel; Dharamshi, Jennah; Rodriguez-Gijon, Alejandro; Nuy, Julia et al.

Part of Nature Communications, 2025

Article in journal

• DOI for Widespread potential for phototrophy and convergent reduction of lifecycle complexity in the dimorphic order Caulobacterales
• Download full text (pdf) of Widespread potential for phototrophy and convergent reduction of lifecycle complexity in the dimorphic order Caulobacterales

Fungal diversity notes 2017-2122: taxonomic and phylogenetic contributions to freshwater fungi and other fungal taxa

Dong, Wei; Hyde, Kevin D.; Jeewon, Rajesh; Karunarathna, Samantha C. et al.

Part of Fungal diversity, p. 185-459, 2025

Article in journal

• DOI for Fungal diversity notes 2017-2122: taxonomic and phylogenetic contributions to freshwater fungi and other fungal taxa

Orkidéexplosion vid E4:an

Thulin, Mats

Part of Daphne, p. 5, 2025

Article in journal

Ölandsstarr i Uppland, hur kan det ha gått till?

Thulin, Mats

Part of Svensk Botanisk Tidskrift, p. 274-281, 2025

Article in journal

Pangeneric analyses reveal the divergent genome evolution and ecologies between morels and truffles in the Morchellaceae

Bonito, Gregory; Miyauchi, Shingo; Hayes, Richard D.; Tan, Hao et al.

Part of Current Biology, p. 4135-4150000000, 2025

Article in journal

• DOI for Pangeneric analyses reveal the divergent genome evolution and ecologies between morels and truffles in the Morchellaceae

Early germline sequestration in a basidiomycete fungus

Hiltunen Thorén, Markus; Olsson, Boel; Vonk, Peter Jan; Siljestam, Mattias et al.

Part of Science, p. 720-723, 2025

Article in journal

• DOI for Early germline sequestration in a basidiomycete fungus

The role of toxin/antidote genes in the maintenance and evolution of accessory chromosomes in Fusarium

Sandell, Linnea; Forsythe, Adrian; Mirandola, Anna; Jorayev, Samuel et al.

Part of Genetics, 2025

Article in journal

• DOI for The role of toxin/antidote genes in the maintenance and evolution of accessory chromosomes in Fusarium
• Download full text (pdf) of The role of toxin/antidote genes in the maintenance and evolution of accessory chromosomes in Fusarium

The role of transposon activity in shaping cis-regulatory element evolution after whole-genome duplication

Monsen, Oystein; Gronvold, Lars; Datsomor, Alex; Harvey, Thomas et al.

Part of Genome Research, p. 475-488, 2025

Article in journal

• DOI for The role of transposon activity in shaping cis-regulatory element evolution after whole-genome duplication

Scientific plant names derived from the surname of Pehr Forsskål: their histrory, orthography, legitimacy, and current use

Friis, Ib; Thulin, Mats

Det Kongelige Danske Videnskabernes Selskab, 2025

Book

A taxonomic revision of the “Quadrispina clade” of Barleria sect. Prionitis

Defty, Ellie; Hatt, Sebastian; Thulin, Mats; Lidetu, Hanny et al.

Part of Webbia, p. 93-120, 2025

Article in journal

• DOI for A taxonomic revision of the “Quadrispina clade” of Barleria sect. Prionitis
• Download full text (pdf) of A taxonomic revision of the “Quadrispina clade” of Barleria sect. Prionitis

Euphorbia balsamifera subsp. adenensis (Euphorbiaceae) new to Socotra and notes on its taxonomy

Thulin, Mats; Weber, Michael H.; Mubarak, Sami Ali Mohammed

Part of Nordic Journal of Botany, 2025

Article in journal

• DOI for Euphorbia balsamifera subsp. adenensis (Euphorbiaceae) new to Socotra and notes on its taxonomy
• Download full text (pdf) of Euphorbia balsamifera subsp. adenensis (Euphorbiaceae) new to Socotra and notes on its taxonomy

The Linnaean revolution - A history of the Natural System

Lidén, Magnus

Part of Taxon, p. 1011-1034, 2025

Article in journal

• DOI for The Linnaean revolution - A history of the Natural System
• Download full text (pdf) of The Linnaean revolution - A history of the Natural System

Accumulation of a Biparentally Inherited Neptune Transposable Element in Natural Killifish Hybrids (Fundulus diaphanus x F. heteroclitus)

Roussel, Alexandre-James; Suh, Alexander; Ruiz-Ruano, Francisco J.; Dion-Cote, Anne-Marie

Part of Molecular biology and evolution, 2025

Article in journal

• DOI for Accumulation of a Biparentally Inherited Neptune Transposable Element in Natural Killifish Hybrids (Fundulus diaphanus x F. heteroclitus)
• Download full text (pdf) of Accumulation of a Biparentally Inherited Neptune Transposable Element in Natural Killifish Hybrids (Fundulus diaphanus x F. heteroclitus)

A mosaic of modular variation at a single gene underpins convergent plumage coloration

Lutgen, Dave; Peona, Valentina; Chase, Madeline A.; Kakhki, Niloofar Alaei et al.

Part of Science, 2025

Article in journal

• DOI for A mosaic of modular variation at a single gene underpins convergent plumage coloration

Estimating national Red List statuses for fungi in Sweden: An improved deep learning approach to account for unbalanced data

Gomes De Almeida, Filipe; Baggström, Adrian; Andermann, Tobias

Part of Ecological Informatics, 2025

Article in journal

• DOI for Estimating national Red List statuses for fungi in Sweden: An improved deep learning approach to account for unbalanced data
• Download full text (pdf) of Estimating national Red List statuses for fungi in Sweden: An improved deep learning approach to account for unbalanced data

Evolution of Large Polymorphic Inversions in a Panmictic Songbird

Pei, Yifan; Forstmeier, Wolfgang; Suh, Alexander; Bambach, Lynn et al.

Part of Molecular biology and evolution, 2025

Article in journal

• DOI for Evolution of Large Polymorphic Inversions in a Panmictic Songbird
• Download full text (pdf) of Evolution of Large Polymorphic Inversions in a Panmictic Songbird

Examining the presence of photosymbionts in amphitremids and centrohelids

Billiau, Steffi

2025

Student thesis

Corydalis shiyomiensis (Papaveraceae), a new species from Arunachal Pradesh, India

Khanal, Madhusudhan; Sivaranjani, S.; Singpho, Jaseng; Sarkar, Shuvadip et al.

Part of Phytotaxa, p. 87-92, 2025

Article in journal

• DOI for Corydalis shiyomiensis (Papaveraceae), a new species from Arunachal Pradesh, India

Protist genomics: key to understanding eukaryotic evolution

Schoenle, Alexandra; Francis, Ore; Archibald, John M.; Burki, Fabien et al.

Part of Trends in Genetics, p. 868-882, 2025

Article in journal

• DOI for Protist genomics: key to understanding eukaryotic evolution
• Download full text (pdf) of Protist genomics: key to understanding eukaryotic evolution

Giant transposons promote strain heterogeneity in a major fungal pathogen

Gluck-Thaler, Emile; Forsythe, Adrian; Puerner, Charles; Gutierrez-Perez, Cecilia et al.

Part of mBio, 2025

Article in journal

• DOI for Giant transposons promote strain heterogeneity in a major fungal pathogen
• Download full text (pdf) of Giant transposons promote strain heterogeneity in a major fungal pathogen

Paulinella acadia sp. nov., a New Photosynthetic Species Isolated From a Brackish Beach in British Columbia (Canada)

Pardasani, Yash; Palka, Maia V.; Leander, Brian S.; Burki, Fabien

Part of Journal of Eukaryotic Microbiology, 2025

Article in journal

• DOI for Paulinella acadia sp. nov., a New Photosynthetic Species Isolated From a Brackish Beach in British Columbia (Canada)
• Download full text (pdf) of Paulinella acadia sp. nov., a New Photosynthetic Species Isolated From a Brackish Beach in British Columbia (Canada)

Morphology, Systematics and Life Cycle of Ozanamia fimbriatus (Haptista: Centroplasthelida), With Notes on Evolution of Organic Skeleton in Centrohelids

Drachko, Daria; Zlatogursky, Vasily V.

Part of Journal of Eukaryotic Microbiology, 2025

Article in journal

• DOI for Morphology, Systematics and Life Cycle of Ozanamia fimbriatus (Haptista: Centroplasthelida), With Notes on Evolution of Organic Skeleton in Centrohelids
• Download full text (pdf) of Morphology, Systematics and Life Cycle of Ozanamia fimbriatus (Haptista: Centroplasthelida), With Notes on Evolution of Organic Skeleton in Centrohelids

Metagenomic insights into the diet and past Kolyma Lowland habitat from the intestinal content of a Late Pleistocene steppe bison

Jin, Chenyu; Forsythe, Adrian; Balint, Miklos; Kienast, Frank et al.

Part of Quaternary Science Reviews, 2025

Article in journal

• DOI for Metagenomic insights into the diet and past Kolyma Lowland habitat from the intestinal content of a Late Pleistocene steppe bison
• Download full text (pdf) of Metagenomic insights into the diet and past Kolyma Lowland habitat from the intestinal content of a Late Pleistocene steppe bison

Boswellia oropedionis (Burseraceae) sp. nov., a frankincense tree from Socotra, and notes on B. ameero and B. bullata

Thulin, Mats; Weber, Michael H.; Mubarak, Sami Ali Mohammed

Part of Nordic Journal of Botany, 2025

Article in journal

• DOI for Boswellia oropedionis (Burseraceae) sp. nov., a frankincense tree from Socotra, and notes on B. ameero and B. bullata
• Download full text (pdf) of Boswellia oropedionis (Burseraceae) sp. nov., a frankincense tree from Socotra, and notes on B. ameero and B. bullata

Koenigia arunachalensis sp. nov. (Polygonaceae), a new species from Eastern Himalaya, India

Hajong, Bipankar; Lidén, Magnus; Bharali, Pankaj

Part of Nordic Journal of Botany, 2025

Article in journal

• DOI for Koenigia arunachalensis sp. nov. (Polygonaceae), a new species from Eastern Himalaya, India

Few genetic loci control the green-brown colour polymorphism in the meadow grasshopper Pseudochorthippus parallelus

Varma, Mahendra; Winter, Gabe; Ebeling, Anne; Lehmann, Angela et al.

Part of Journal of Evolutionary Biology, p. 639-651, 2025

Article in journal

• DOI for Few genetic loci control the green-brown colour polymorphism in the meadow grasshopper Pseudochorthippus parallelus
• Download full text (pdf) of Few genetic loci control the green-brown colour polymorphism in the meadow grasshopper Pseudochorthippus parallelus

Impact of genetic variants linked to liver fat and liver volume on MRI-mapped body composition

Ahmad, Shafqat; Carrasquilla, German D.; Langner, Taro; Menzel, Uwe et al.

Part of JHEP Reports, 2025

Article in journal

• DOI for Impact of genetic variants linked to liver fat and liver volume on MRI-mapped body composition
• Download full text (pdf) of Impact of genetic variants linked to liver fat and liver volume on MRI-mapped body composition

Phylogenetic position and mitochondrial genome evolution of "orphan" eukaryotic lineages

Zlatogursky, Vasily; Boscaro, Vittorio; Lax, Gordon; Wanntorp, Matias et al.

Part of iScience, 2025

Article in journal

• DOI for Phylogenetic position and mitochondrial genome evolution of "orphan" eukaryotic lineages
• Download full text (pdf) of Phylogenetic position and mitochondrial genome evolution of "orphan" eukaryotic lineages

Advancing transdisciplinary research on Madagascar's grassy biomes to support resilience in ecosystems and livelihoods

Phelps, Leanne N.; Razanatsoa, Estelle; Davis, Dylan S.; Hackel, Jan et al.

Part of Ecological Monographs, 2025

Article, review/survey

• DOI for Advancing transdisciplinary research on Madagascar's grassy biomes to support resilience in ecosystems and livelihoods
• Download full text (pdf) of Advancing transdisciplinary research on Madagascar's grassy biomes to support resilience in ecosystems and livelihoods

The utility of combining deep learning with metabarcoding to model biodiversity dynamics at a national scale

Baggström, Adrian; Goodsell, Robert; van Dijk, Laura; Iwaszkiewicz-Eggebrecht, Ela et al.

Part of Ecological Informatics, 2025

Article in journal

• DOI for The utility of combining deep learning with metabarcoding to model biodiversity dynamics at a national scale
• Download full text (pdf) of The utility of combining deep learning with metabarcoding to model biodiversity dynamics at a national scale

Are Fungal Disease Outbreaks Instigated by Starship Transposons?

Urquhart, Andrew S.; Forsythe, Adrian; Vogan, Aaron A.

Part of Molecular plant pathology, 2025

Article, review/survey

• DOI for Are Fungal Disease Outbreaks Instigated by Starship Transposons?
• Download full text (pdf) of Are Fungal Disease Outbreaks Instigated by Starship Transposons?

Experimental Insights into Horizontal Transfer of Fungal Starship Megatransposons

Henriksson, Sofia

2025

Student thesis

• Download full text 1 (pdf) of Experimental Insights into Horizontal Transfer of Fungal Starship Megatransposons
• Download full text 2 (pdf) of Experimental Insights into Horizontal Transfer of Fungal Starship Megatransposons

Investigating the explanatory and predictive power of geodiversity metrics on Swedish insect diversity

Ling, Jiacheng

2025

Student thesis

• Download full text (pdf) of Investigating the explanatory and predictive power of geodiversity metrics on Swedish insect diversity

Spatial distribution and influence of the microclimate on the natural production of Amanita masasiensis in the Soudano-Guinean ecozone (West Africa)

Aboua, Hance Muriel N.; Badou, Sylvestre A.; Houdanon, Roel D.; Boukary, Abdoul-Azize et al.

Part of Forest Ecology and Management, 2025

Article in journal

• DOI for Spatial distribution and influence of the microclimate on the natural production of Amanita masasiensis in the Soudano-Guinean ecozone (West Africa)

Finding Starship Genetic Elements in Histoplasma Fungus

Pettersson, Gabriel André

2025

Student thesis

• Download full text (pdf) of Finding Starship Genetic Elements in Histoplasma Fungus

Repeatome diversity in sea anemone genomics (Cnidaria: Actiniaria) based on the Actiniaria-REPlib library

Duran-Fuentes, Jeferson A.; Maronna, Maximiliano M.; Palacios Gimenez, Octavio Manuel; Castillo, Elio R. et al.

Part of BMC Genomics, 2025

Article in journal

• DOI for Repeatome diversity in sea anemone genomics (Cnidaria: Actiniaria) based on the Actiniaria-REPlib library
• Download full text (pdf) of Repeatome diversity in sea anemone genomics (Cnidaria: Actiniaria) based on the Actiniaria-REPlib library

Karyotype evolution and speciation in Orthoptera

Palacios Gimenez, Octavio Manuel; Castillo, Elio R. D.; Schielzeth, Holger

Part of Journal of Evolutionary Biology, p. 516-529, 2025

Article in journal

• DOI for Karyotype evolution and speciation in Orthoptera
• Download full text (pdf) of Karyotype evolution and speciation in Orthoptera