Publications

Repetitive DNAs: the 'invisible' regulators of insect adaptation and speciation

Cabral-de-Mello, Diogo C.; Palacios Gimenez, Octavio Manuel

Part of Current Opinion in Insect Science, 2025

Article in journal

• DOI for Repetitive DNAs: the 'invisible' regulators of insect adaptation and speciation

Orthopteran Neo-Sex Chromosomes Reveal Dynamics of Recombination Suppression and Evolution of Supergenes

Jayaprasad, Suvratha; Peona, Valentina; Ellerstrand, Simon J.; Rossini, Roberto et al.

Part of Molecular Ecology, 2024

Article in journal

• DOI for Orthopteran Neo-Sex Chromosomes Reveal Dynamics of Recombination Suppression and Evolution of Supergenes
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Phylogeny and systematics of Paramollugo (Molluginaceae)

Thulin, Mats; Bidault, Ehoarn; Boullet, Vincent; Heidari, Nahid et al.

Part of Candollea, p. 179-228, 2024

Article in journal

• DOI for Phylogeny and systematics of Paramollugo (Molluginaceae)
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A Phylogenomic Analysis of Genipa (Rubiaceae) Using Target Sequence Capture Data

Ridley, Rhonda; Persson, Claes; Oxelman, Bengt; Andermann, Tobias et al.

Part of Systematic Botany, p. 617-625, 2024

Article in journal

• DOI for A Phylogenomic Analysis of Genipa (Rubiaceae) Using Target Sequence Capture Data

Starships: a new frontier for fungal biology

Urquhart, Andrew S.; Vogan, Aaron A.; Gluck-Thaler, Emile

Part of Trends in Genetics, p. 1060-1073, 2024

Article, review/survey

• DOI for Starships: a new frontier for fungal biology

Contemporary intergeneric hybridization and backcrossing among birds-of-paradise

Thörn, Filip; Soares, André; Müller, Ingo A.; Päckert, Martin et al.

Part of Evolution Letters, p. 680-694, 2024

Article in journal

• DOI for Contemporary intergeneric hybridization and backcrossing among birds-of-paradise
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Gene acquisition by giant transposons primes eukaryotes for rapid evolution via horizontal gene transfer

Urquhart, Andrew S.; Gluck-Thaler, Emile; Vogan, Aaron A.

Part of Science Advances, 2024

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• DOI for Gene acquisition by giant transposons primes eukaryotes for rapid evolution via horizontal gene transfer
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A new Calicium on Ramboldia

Tibell, Leif; Clayden, Stephen R.; Prieto, Maria; Wedin, Mats

Part of The Lichenologist, p. 301-307, 2024

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• DOI for A new Calicium on Ramboldia
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Rebuttal to "(2943) Proposal to conserve Selaginella, nom. cons., (Selaginellaceae) with a conserved type": An unwarranted and disruptive idea

Valdespino, Ivan A.; Korall, Petra; Weststrand, Stina; Lopez, Christian A. et al.

Part of Taxon, p. 573-585, 2024

Article, review/survey

• DOI for Rebuttal to "(2943) Proposal to conserve Selaginella, nom. cons., (Selaginellaceae) with a conserved type": An unwarranted and disruptive idea

Herbationes Upsalienses – Var gick Linné med sina studenter?

Manktelow, Mariette; Gustafsson, Jan Helmer; Jacobson, Rolf

Part of Uppland 2024, Årsbok för medlemmarna av Upplands fornminnesförening och hembygdsförbund, p. 36-65, 2024

Article in journal

Herbationes Upsalienses

Manktelow, Mariette; Ström, Annika; von Linné, Carl

Part of Uppland 2024. Årsbok för medlemmarna av Upplands fornminnesförening och hembygdsförbund, p. 8-35, 2024

Article in journal

The Acrasis kona genome and developmental transcriptomes reveal deep origins of eukaryotic multicellular pathways

Sheikh, Sanea; Fu, Cheng-Jie; Brown, Matthew W.; Baldauf, Sandra L.

Part of Nature Communications, 2024

Article in journal

• DOI for The Acrasis kona genome and developmental transcriptomes reveal deep origins of eukaryotic multicellular pathways
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Study on the temporal and spatial distribution of Culex mosquitoes in Hanoi, Vietnam

Krambrich, Janina; Nguyen-Tien, Thang; Pham-Thanh, Long; Dang-Xuan, Sinh et al.

Part of Scientific Reports, 2024

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• DOI for Study on the temporal and spatial distribution of Culex mosquitoes in Hanoi, Vietnam
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Genomic landscapes of divergence among island bird populations: Evidence of parallel adaptation but at different loci?

Martin, Claudia A.; Sheppard, Eleanor C.; Ali, Hisham A. A.; Illera, Juan Carlos et al.

Part of Molecular Ecology, 2024

Article in journal

• DOI for Genomic landscapes of divergence among island bird populations: Evidence of parallel adaptation but at different loci?
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Exploring Paleogene Tibet's warm temperate environments through target enrichment and phylogenetic niche modelling of Himalayan spiny frogs (Paini, Dicroglossidae)

Hofmann, Sylvia; Rödder, Dennis; Andermann, Tobias; Matschiner, Michael et al.

Part of Molecular Ecology, 2024

Article in journal

• DOI for Exploring Paleogene Tibet's warm temperate environments through target enrichment and phylogenetic niche modelling of Himalayan spiny frogs (Paini, Dicroglossidae)
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A multilocus phylogeny reveals two new species and two first reports of Backusella (Mucorales, Mucoromycota) in the New World

de Lima, Catarina Leticia Ferreira; Cordeiro, Thalline Rafhaella Leite; Urquhart, Andrew S.; Yadav, Lal Sahab et al.

Part of Mycological progress, 2024

Article in journal

• DOI for A multilocus phylogeny reveals two new species and two first reports of Backusella (Mucorales, Mucoromycota) in the New World

Systematic identification of cargo-mobilizing genetic elements reveals new dimensions of eukaryotic diversity

Gluck-Thaler, Emile; Vogan, Aaron A.

Part of Nucleic Acids Research, p. 5496-5513, 2024

Article in journal

• DOI for Systematic identification of cargo-mobilizing genetic elements reveals new dimensions of eukaryotic diversity
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Resurrection of Yeast From Historical Artefacts

Nielsen, Kevin

2024

Student thesis

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The evolution of ectomycorrhizal symbiosis and host-plant switches are the main drivers for diversification of Amanitaceae (Agaricales, Basidiomycota)

Cai, Qing; Codjia, Jean Evans I.; Buyck, Bart; Cui, Yang-Yang et al.

Part of BMC Biology, 2024

Article in journal

• DOI for The evolution of ectomycorrhizal symbiosis and host-plant switches are the main drivers for diversification of Amanitaceae (Agaricales, Basidiomycota)
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Ethnobotanical study of wild edible plants in the mountainous regions of Semnan Province, Iran

Jalali, Majid; Abedi, Mehdi; Memariani, Farshid; Ghorbani, Abdolbaset

Part of Journal of Ethnobiology and Ethnomedicine, 2024

Article in journal

• DOI for Ethnobotanical study of wild edible plants in the mountainous regions of Semnan Province, Iran
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Phylogenomics, divergence times and notes of orders in Basidiomycota

He, Mao-Qiang; Cao, Bin; Liu, Fei; Boekhout, Teun et al.

Part of Fungal diversity, p. 1-125, 2024

Article in journal

• DOI for Phylogenomics, divergence times and notes of orders in Basidiomycota

Chromosome-level genome assembly of the morabine grasshopper Vandiemenella viatica19

Li, Xuan; Jayaprasad, Suvratha; Einarsdottir, Elisabet; Cooper, Steven J. B. et al.

Part of Scientific Data, 2024

Article in journal

• DOI for Chromosome-level genome assembly of the morabine grasshopper Vandiemenella viatica19
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The conserved WetA protein involved in asexual development in fungi is localized to the nuclei in the asexual spores of Paecilomyces variotii

Chong, Nicholas F.; Urquhart, Andrew S.; Idnurm, Alexander

Part of Fungal Biology, p. 2073-2079, 2024

Article in journal

• DOI for The conserved WetA protein involved in asexual development in fungi is localized to the nuclei in the asexual spores of Paecilomyces variotii
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Comparative genomics of Ascetosporea gives new insight into the evolutionary basis for animal parasitism in Rhizaria

Hiltunen Thorén, Markus; Onuț-Brännström, Ioana; Alfjorden, Anders; Pecková, Hana et al.

Part of BMC Biology, 2024

Article in journal

• DOI for Comparative genomics of Ascetosporea gives new insight into the evolutionary basis for animal parasitism in Rhizaria
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Morphological and molecular studies of bivalves to assess the hidden diversity of protistan parasites: Investigations of cryptic diseases in shellfish

Alfjorden, Anders

2024

Doctoral thesis, comprehensive summary

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Ichthyosporea: a window into the origin of animals

Shabardina, Victoria; Dharamshi, Jennah E.; Ara, Patricia S.; Antó, Meritxell et al.

Part of Communications Biology, 2024

Article, review/survey

• DOI for Ichthyosporea: a window into the origin of animals
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Divergent evolution of male-determining loci on proto-Y chromosomes of the housefly

Li, Xuan; Visser, Sander; Son, Jae Hak; Geuverink, Elzemiek et al.

Part of Nature Communications, 2024

Article in journal

• DOI for Divergent evolution of male-determining loci on proto-Y chromosomes of the housefly
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High rate of gene family evolution in proximity to the origin of ectomycorrhizal symbiosis in Inocybaceae

Khan, Faheema Kalsoom; Sánchez‐García, Marisol; Johannesson, Hanna; Ryberg, Martin

Part of New Phytologist, 2024

Article in journal

• DOI for High rate of gene family evolution in proximity to the origin of ectomycorrhizal symbiosis in Inocybaceae

Hybridization in birds-of-paradise: Widespread ancestral gene flow despite strong sexual selection in a lek-mating system

Blom, Mozes P. K.; Peona, Valentina; Prost, Stefan; Christidis, Les et al.

Part of iScience, 2024

Article in journal

• DOI for Hybridization in birds-of-paradise: Widespread ancestral gene flow despite strong sexual selection in a lek-mating system
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Planting long-lived trees in a warming climate: Theory shows the importance of stage-dependent climatic tolerance

Erlichman, Adèle; Sandell, Linnea; Otto, Sarah P.; Aitken, Sally N. et al.

Part of Evolutionary Applications, 2024

Article in journal

• DOI for Planting long-lived trees in a warming climate: Theory shows the importance of stage-dependent climatic tolerance
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Corydalis sunhangii (Papaveraceae): A new species from Xizang, China, based on plastome and morphological data

Chen, Jun-Tong; Lidén, Magnus; Huang, Xian-Han; Yang, Shun-Quan et al.

Part of Ecology and Evolution, 2024

Article in journal

• DOI for Corydalis sunhangii (Papaveraceae): A new species from Xizang, China, based on plastome and morphological data
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Genotype-environment associations reveal genes potentially linked to avian malaria infection in populations of an endemic island bird

Sheppard, Eleanor C.; Martin, Claudia A.; Armstrong, Claire; González-Quevedo, Catalina et al.

Part of Molecular Ecology, 2024

Article in journal

• DOI for Genotype-environment associations reveal genes potentially linked to avian malaria infection in populations of an endemic island bird
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Evolutionary history of arbuscular mycorrhizal fungi and genomic signatures of obligate symbiosis

Rosling, Anna; Eshghi Sahraei, Shadi; Kalsoom, Faheema; Desiro, Alessandro et al.

Part of BMC Genomics, 2024

Article in journal

• DOI for Evolutionary history of arbuscular mycorrhizal fungi and genomic signatures of obligate symbiosis
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A chromosome-level assembly of the seed beetle Callosobruchus maculatus genome with annotation of its repetitive elements

Arnqvist, Göran; Westerberg, Ivar; Galbraith, James; Sayadi, Ahmed et al.

Part of G3, 2024

Article in journal

• DOI for A chromosome-level assembly of the seed beetle Callosobruchus maculatus genome with annotation of its repetitive elements
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Teaching transposon classification as a means to crowd source the curation of repeat annotation: a tardigrade perspective

Peona, Valentina; Martelossi, Jacopo; Almojil, Dareen; Bocharkina, Julia et al.

Part of Mobile DNA, 2024

Article in journal

• DOI for Teaching transposon classification as a means to crowd source the curation of repeat annotation: a tardigrade perspective
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Coniocybe Ach. revisited

Temu, Stella G.; Tibell Savić, Sanja; Tibuhwa, Donatha D.; Tibell, Leif

Part of Journal of Fungi, 2024

Article in journal

• DOI for Coniocybe Ach. revisited
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Different Host-Endogenous Retrovirus Relationships between Mammals and Birds Reflected in Genome-Wide Evolutionary Interaction Patterns

Zheng, Wanjing; Gojobori, Jun; Suh, Alexander; Satta, Yoko

Part of Genome Biology and Evolution, 2024

Article in journal

• DOI for Different Host-Endogenous Retrovirus Relationships between Mammals and Birds Reflected in Genome-Wide Evolutionary Interaction Patterns
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High-Quality Genome Assemblies of 4 Members of the Podospora anserina Species Complex

Ament-Velasquez, S. Lorena; Vogan, Aaron A.; Wallerman, Ola; Hartmann, Fanny E. et al.

Part of Genome Biology and Evolution, 2024

Article in journal

• DOI for High-Quality Genome Assemblies of 4 Members of the Podospora anserina Species Complex
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Coinfection of Babesia and Borrelia in the Tick Ixodes ricinus-A Neglected Public Health Issue in Europe?

Jaenson, Thomas G.T.; Gray, Jeremy S.; Lindgren, Per-Eric; Wilhelmsson, Peter

Part of Pathogens, 2024

Article, review/survey

• DOI for Coinfection of Babesia and Borrelia in the Tick Ixodes ricinus-A Neglected Public Health Issue in Europe?
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Studies of Asian 'Calliandra' lead to expansion of Sanjappa (Fabaceae-Caesalpinioideae)

Thulin, Mats

Part of Nordic Journal of Botany, 2024

Article in journal

• DOI for Studies of Asian 'Calliandra' lead to expansion of Sanjappa (Fabaceae-Caesalpinioideae)
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Screening for antibacterial and cytotoxic activities of Sri Lankan marine sponges through microfractionation: Isolation of bromopyrrole alkaloids from Stylissa massa

Kosgahakumbura, Lakmini; Gamage, Jayani; Robertson, Luke; Muhammad, Taj et al.

Part of PLOS ONE, 2024

Article in journal

• DOI for Screening for antibacterial and cytotoxic activities of Sri Lankan marine sponges through microfractionation: Isolation of bromopyrrole alkaloids from Stylissa massa
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Evolutionary dynamics of the LTR-retrotransposon crapaud in the Podospora anserina species complex and the interaction with repeat-induced point mutations

Westerberg, Ivar; Ament-Velásquez, S. Lorena; Vogan, Aaron A.; Johannesson, Hanna

Part of Mobile DNA, 2024

Article in journal

• DOI for Evolutionary dynamics of the LTR-retrotransposon crapaud in the Podospora anserina species complex and the interaction with repeat-induced point mutations
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Identification of a new gregarine parasite associated with mass mortality events of freshwater pearl mussels (Margaritifera margaritifera) in Sweden

Alfjorden, Anders; Onut-Brännström, Ioana; Wengström, Niklas; Kristmundsson, Arni et al.

Part of Journal of Eukaryotic Microbiology, 2024

Article in journal

• DOI for Identification of a new gregarine parasite associated with mass mortality events of freshwater pearl mussels (Margaritifera margaritifera) in Sweden
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Global consortium for the classification of fungi and fungus-like taxa

Hyde, K. D.; Ryberg, Martin; Svantesson, Sten; Tibell, Leif et al.

Part of Mycosphere, p. 1960-2012, 2023

Article in journal

• DOI for Global consortium for the classification of fungi and fungus-like taxa
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(3001) Proposal to conserve the name Jatropha pelargoniifolia against Adenoropium forskaolii (Euphorbiaceae)

Friis, Ib; Thulin, Mats

Part of Taxon, p. 1373-1374, 2023

Article in journal

• DOI for (3001) Proposal to conserve the name Jatropha pelargoniifolia against Adenoropium forskaolii (Euphorbiaceae)

Multi-omics for studying and understanding polar life

Clark, M. S.; Hoffman, J. I.; Peck, L. S.; Bargelloni, L. et al.

Part of Nature Communications, 2023

Article in journal

• DOI for Multi-omics for studying and understanding polar life
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IAPT chromosome data 39-Extended version

Marhold, Karol; Kucera, Jaromir; Akopian, Janna A.; Alves, Lania I. F. et al.

Part of Taxon, p. 1189-1192, 2023

Article in journal

• DOI for IAPT chromosome data 39-Extended version

Undiscovered bird extinctions obscure the true magnitude of human-driven extinction waves

Cooke, Rob; Sayol, Ferran; Andermann, Tobias; Blackburn, Tim M. et al.

Part of Nature Communications, 2023

Article in journal

• DOI for Undiscovered bird extinctions obscure the true magnitude of human-driven extinction waves
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Divergent sensory and immune gene evolution in sea turtles with contrasting demographic and life histories

Bentley, Blair P.; Carrasco-Valenzuela, Tomas; Ramos, Elisa K. S.; Pawar, Harvinder et al.

Part of Proceedings of the National Academy of Sciences of the United States of America, 2023

Article in journal

• DOI for Divergent sensory and immune gene evolution in sea turtles with contrasting demographic and life histories
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Irreproducible results and unsupported conclusions in Ahmad et al. [BMC genomics (2020) 21:656]

Ruiz-Ruano, Francisco J.; Camacho, Juan Pedro M.

Part of BMC Genomics, 2023

Article in journal

• DOI for Irreproducible results and unsupported conclusions in Ahmad et al. [BMC genomics (2020) 21:656]
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