Alexander Sang-Jae Suh

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

• DOI for A chromosome-level assembly of the seed beetle Callosobruchus maculatus genome with annotation of its repetitive elements
• Download full text (pdf) of A chromosome-level assembly of the seed beetle Callosobruchus maculatus genome with annotation of its repetitive elements

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

• DOI for Genomic landscapes of divergence among island bird populations: Evidence of parallel adaptation but at different loci?
• Download full text (pdf) of Genomic landscapes of divergence among island bird populations: Evidence of parallel adaptation but at different loci?

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

• DOI for Chromosome-level genome assembly of the morabine grasshopper Vandiemenella viatica19
• Download full text (pdf) of Chromosome-level genome assembly of the morabine grasshopper Vandiemenella viatica19

The genomes of all lungfish inform on genome expansion and tetrapod evolution

Schartl, Manfred; Woltering, Joost M.; Irisarri, Iker; Du, Kang et al.

Part of Nature, p. 96-103, 2024

• DOI for The genomes of all lungfish inform on genome expansion and tetrapod evolution

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

• DOI for Contemporary intergeneric hybridization and backcrossing among birds-of-paradise
• Download full text (pdf) of Contemporary intergeneric hybridization and backcrossing among birds-of-paradise

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

• DOI for A chromosome-level assembly of the seed beetle Callosobruchus maculatus genome with annotation of its repetitive elements
• Download full text (pdf) of A chromosome-level assembly of the seed beetle Callosobruchus maculatus genome with annotation of its repetitive elements

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

• DOI for Genomic landscapes of divergence among island bird populations: Evidence of parallel adaptation but at different loci?
• Download full text (pdf) of Genomic landscapes of divergence among island bird populations: Evidence of parallel adaptation but at different loci?

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

• DOI for Chromosome-level genome assembly of the morabine grasshopper Vandiemenella viatica19
• Download full text (pdf) of Chromosome-level genome assembly of the morabine grasshopper Vandiemenella viatica19

The genomes of all lungfish inform on genome expansion and tetrapod evolution

Schartl, Manfred; Woltering, Joost M.; Irisarri, Iker; Du, Kang et al.

Part of Nature, p. 96-103, 2024

• DOI for The genomes of all lungfish inform on genome expansion and tetrapod evolution

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

• DOI for Contemporary intergeneric hybridization and backcrossing among birds-of-paradise
• Download full text (pdf) of Contemporary intergeneric hybridization and backcrossing among birds-of-paradise

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

• DOI for Orthopteran Neo-Sex Chromosomes Reveal Dynamics of Recombination Suppression and Evolution of Supergenes
• Download full text (pdf) of Orthopteran Neo-Sex Chromosomes Reveal Dynamics of Recombination Suppression and Evolution of Supergenes

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

• DOI for Hybridization in birds-of-paradise: Widespread ancestral gene flow despite strong sexual selection in a lek-mating system
• Download full text (pdf) of Hybridization in birds-of-paradise: Widespread ancestral gene flow despite strong sexual selection in a lek-mating system

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

• DOI for Different Host-Endogenous Retrovirus Relationships between Mammals and Birds Reflected in Genome-Wide Evolutionary Interaction Patterns
• Download full text (pdf) of Different Host-Endogenous Retrovirus Relationships between Mammals and Birds Reflected in Genome-Wide Evolutionary Interaction Patterns

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

• DOI for Genotype-environment associations reveal genes potentially linked to avian malaria infection in populations of an endemic island bird
• Download full text (pdf) of Genotype-environment associations reveal genes potentially linked to avian malaria infection in populations of an endemic island bird

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

• DOI for Teaching transposon classification as a means to crowd source the curation of repeat annotation: a tardigrade perspective
• Download full text (pdf) of Teaching transposon classification as a means to crowd source the curation of repeat annotation: a tardigrade perspective

Caecilian Genomes Reveal the Molecular Basis of Adaptation and Convergent Evolution of Limblessness in Snakes and Caecilians

Ovchinnikov, Vladimir; Uliano-Silva, Marcela; Wilkinson, Mark; Wood, Jonathan et al.

Part of Molecular biology and evolution, 2023

• DOI for Caecilian Genomes Reveal the Molecular Basis of Adaptation and Convergent Evolution of Limblessness in Snakes and Caecilians
• Download full text (pdf) of Caecilian Genomes Reveal the Molecular Basis of Adaptation and Convergent Evolution of Limblessness in Snakes and Caecilians

Rapid gene content turnover on the germline-restricted chromosome in songbirds

Schlebusch, Stephen A.; Ridl, Jakub; Poignet, Manon; Ruiz-Ruano, Francisco J. et al.

Part of Nature Communications, 2023

• DOI for Rapid gene content turnover on the germline-restricted chromosome in songbirds
• Download full text (pdf) of Rapid gene content turnover on the germline-restricted chromosome in songbirds

An annotated chromosome-scale reference genome for Eastern black-eared wheatear (Oenanthe melanoleuca)

Peona, Valentina; Palacios Gimenez, Octavio Manuel; Lutgen, Dave; Olsen, Remi Andre et al.

Part of G3, 2023

• DOI for An annotated chromosome-scale reference genome for Eastern black-eared wheatear (Oenanthe melanoleuca)
• Download full text (pdf) of An annotated chromosome-scale reference genome for Eastern black-eared wheatear (Oenanthe melanoleuca)

Songbird germline-restricted chromosome as a potential arena of genetic conflicts

Vontzou, Niki; Pei, Yifan; Mueller, Jakob C.; Reifova, Radka et al.

Part of Current Opinion in Genetics and Development, 2023

• DOI for Songbird germline-restricted chromosome as a potential arena of genetic conflicts
• Download full text (pdf) of Songbird germline-restricted chromosome as a potential arena of genetic conflicts

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

• DOI for Divergent sensory and immune gene evolution in sea turtles with contrasting demographic and life histories
• Download full text (pdf) of Divergent sensory and immune gene evolution in sea turtles with contrasting demographic and life histories

Genomic architecture of migration timing in a long-distance migratory songbird

de Greef, Evelien; Suh, Alexander; Thorstensen, Matt J.; Delmore, Kira E. et al.

Part of Scientific Reports, 2023

• DOI for Genomic architecture of migration timing in a long-distance migratory songbird
• Download full text (pdf) of Genomic architecture of migration timing in a long-distance migratory songbird

A Phylogenomic Assessment of Processes Underpinning Convergent Evolution in Open-Habitat Chats

Kakhki, Niloofar Alaei; Schweizer, Manuel; Lutgen, Dave; Bowie, Rauri C. K. et al.

Part of Molecular biology and evolution, 2023

• DOI for A Phylogenomic Assessment of Processes Underpinning Convergent Evolution in Open-Habitat Chats

Micro Germline-Restricted Chromosome in Blue Tits: Evidence for Meiotic Functions

Mueller, Jakob C.; Schlebusch, Stephen A.; Pei, Yifan; Poignet, Manon et al.

Part of Molecular biology and evolution, 2023

• DOI for Micro Germline-Restricted Chromosome in Blue Tits: Evidence for Meiotic Functions
• Download full text (pdf) of Micro Germline-Restricted Chromosome in Blue Tits: Evidence for Meiotic Functions

Satellite DNA evolution in Corvoidea inferred from short and long reads

Peona, Valentina; Kutschera, Verena E.; Blom, Mozes P. K.; Irestedt, Martin et al.

Part of Molecular Ecology, p. 1288-1305, 2023

• DOI for Satellite DNA evolution in Corvoidea inferred from short and long reads
• Download full text (pdf) of Satellite DNA evolution in Corvoidea inferred from short and long reads

Runs of homozygosity reveal past bottlenecks and contemporary inbreeding across diverging populations of an island-colonizing bird

Martin, Claudia A.; Sheppard, Eleanor C.; Illera, Juan Carlos; Suh, Alexander et al.

Part of Molecular Ecology, p. 1972-1989, 2023

• DOI for Runs of homozygosity reveal past bottlenecks and contemporary inbreeding across diverging populations of an island-colonizing bird
• Download full text (pdf) of Runs of homozygosity reveal past bottlenecks and contemporary inbreeding across diverging populations of an island-colonizing bird

The swan genome and transcriptome, it is not all black and white

Karawita, Anjana C.; Cheng, Yuanyuan; Chew, Keng Yih; Challagulla, Arjun et al.

Part of Genome Biology, 2023

• DOI for The swan genome and transcriptome, it is not all black and white
• Download full text (pdf) of The swan genome and transcriptome, it is not all black and white

Recurrent chromosome reshuffling and the evolution of neo-sex chromosomes in parrots

Huang, Zhen; Furo, Ivanete De O.; Liu, Jing; Peona, Valentina et al.

Part of Nature Communications, 2022

• DOI for Recurrent chromosome reshuffling and the evolution of neo-sex chromosomes in parrots
• Download full text (pdf) of Recurrent chromosome reshuffling and the evolution of neo-sex chromosomes in parrots

The genomic basis of the plant island syndrome in Darwin's giant daisies

Cerca, Jose; Petersen, Bent; Lazaro-Guevara, Jose Miguel; Rivera-Colon, Angel et al.

Part of Nature Communications, 2022

• DOI for The genomic basis of the plant island syndrome in Darwin's giant daisies
• Download full text (pdf) of The genomic basis of the plant island syndrome in Darwin's giant daisies

Horizontal Transposon Transfer and Its Implications for the Ancestral Ecology of Hydrophiine Snakes

Galbraith, James D.; Ludington, Alastair J.; Sanders, Kate L.; Amos, Timothy G. et al.

Part of Genes, 2022

• DOI for Horizontal Transposon Transfer and Its Implications for the Ancestral Ecology of Hydrophiine Snakes
• Download full text (pdf) of Horizontal Transposon Transfer and Its Implications for the Ancestral Ecology of Hydrophiine Snakes

Seasonal migration patterns and the maintenance of evolutionary diversity in a cryptic bird radiation

Tang, Qindong; Burri, Reto; Liu, Yang; Suh, Alexander et al.

Part of Molecular Ecology, p. 632-645, 2022

• DOI for Seasonal migration patterns and the maintenance of evolutionary diversity in a cryptic bird radiation
• Download full text (pdf) of Seasonal migration patterns and the maintenance of evolutionary diversity in a cryptic bird radiation

Orthologous microsatellites, transposable elements, and DNA deletions correlate with generation time and body mass in neoavian birds

Ji, Yanzhu; Feng, Shaohong; Wu, Lei; Fang, Qi et al.

Part of Science Advances, 2022

• DOI for Orthologous microsatellites, transposable elements, and DNA deletions correlate with generation time and body mass in neoavian birds
• Download full text (pdf) of Orthologous microsatellites, transposable elements, and DNA deletions correlate with generation time and body mass in neoavian birds

Occasional paternal inheritance of the germline-restricted chromosome in songbirds

Pei, Yifan; Forstmeier, Wolfgang; Ruiz-Ruano, Francisco J.; Mueller, Jakob C. et al.

Part of Proceedings of the National Academy of Sciences of the United States of America, 2022

• DOI for Occasional paternal inheritance of the germline-restricted chromosome in songbirds
• Download full text (pdf) of Occasional paternal inheritance of the germline-restricted chromosome in songbirds

Transposon- and Genome Dynamics in the Fungal Genus Neurospora: Insights from Nearly Gapless Genome Assemblies

Nguyen, Diem; Peona, Valentina; Unneberg, Per; Suh, Alexander et al.

Part of Fungal Genetics Reports, 2022

• DOI for Transposon- and Genome Dynamics in the Fungal Genus Neurospora: Insights from Nearly Gapless Genome Assemblies
• Download full text (pdf) of Transposon- and Genome Dynamics in the Fungal Genus Neurospora: Insights from Nearly Gapless Genome Assemblies

Genomic associations with poxvirus across divergent island populations in Berthelot's pipit

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

Part of Molecular Ecology, p. 3154-3173, 2022

• DOI for Genomic associations with poxvirus across divergent island populations in Berthelot's pipit
• Download full text (pdf) of Genomic associations with poxvirus across divergent island populations in Berthelot's pipit

Identifying the causes and consequences of assembly gaps using a multiplatform genome assembly of a bird-of-paradise

Peona, Valentina; Blom, Mozes P. K.; Xu, Luohao; Burri, Reto et al.

Part of Molecular Ecology Resources, p. 263-286, 2021

• DOI for Identifying the causes and consequences of assembly gaps using a multiplatform genome assembly of a bird-of-paradise
• Download full text (pdf) of Identifying the causes and consequences of assembly gaps using a multiplatform genome assembly of a bird-of-paradise

Long-term persistence of supernumerary B chromosomes in multiple species of Astyanax fish

Zerbinato de Andrade Silva, Duilio Mazzoni; Ruiz-Ruano, Francisco J.; Utsunomia, Ricardo; Martin-Pecina, Maria et al.

Part of BMC Biology, 2021

• DOI for Long-term persistence of supernumerary B chromosomes in multiple species of Astyanax fish
• Download full text (pdf) of Long-term persistence of supernumerary B chromosomes in multiple species of Astyanax fish

Genetic Barriers to Historical Gene Flow between Cryptic Species of Alpine Bumblebees Revealed by Comparative Population Genomics

Christmas, Matthew; Jones, Julia C.; Olsson, Anna; Wallerman, Ola et al.

Part of Molecular biology and evolution, p. 3126-3143, 2021

• DOI for Genetic Barriers to Historical Gene Flow between Cryptic Species of Alpine Bumblebees Revealed by Comparative Population Genomics
• Download full text (pdf) of Genetic Barriers to Historical Gene Flow between Cryptic Species of Alpine Bumblebees Revealed by Comparative Population Genomics

TE Hub: A community-oriented space for sharing and connecting tools, data, resources, and methods for transposable element annotation

Elliott, Tyler A.; Heitkam, Tony; Hubley, Robert; Quesneville, Hadi et al.

Part of Mobile DNA, 2021

• DOI for TE Hub: A community-oriented space for sharing and connecting tools, data, resources, and methods for transposable element annotation
• Download full text (pdf) of TE Hub: A community-oriented space for sharing and connecting tools, data, resources, and methods for transposable element annotation

Genome Size Reduction and Transposon Activity Impact tRNA Gene Diversity While Ensuring Translational Stability in Birds

Ottenburghs, Jente; Geng, Keyi; Suh, Alexander; Kutter, Claudia

Part of Genome Biology and Evolution, 2021

• DOI for Genome Size Reduction and Transposon Activity Impact tRNA Gene Diversity While Ensuring Translational Stability in Birds
• Download full text (pdf) of Genome Size Reduction and Transposon Activity Impact tRNA Gene Diversity While Ensuring Translational Stability in Birds

Genome Stability Is in the Eye of the Beholder: CR1 Retrotransposon Activity Varies Significantly across Avian Diversity

Galbraith, James D.; Kortschak, Robert Daniel; Suh, Alexander; Adelson, David L.

Part of Genome Biology and Evolution, 2021

• DOI for Genome Stability Is in the Eye of the Beholder: CR1 Retrotransposon Activity Varies Significantly across Avian Diversity
• Download full text (pdf) of Genome Stability Is in the Eye of the Beholder: CR1 Retrotransposon Activity Varies Significantly across Avian Diversity

New Perspectives on the Evolution of Within-Individual Genome Variation and Germline/Soma Distinction

Suh, Alexander; Dion-Cote, Anne-Marie

Part of Genome Biology and Evolution, 2021

• DOI for New Perspectives on the Evolution of Within-Individual Genome Variation and Germline/Soma Distinction

The avian W chromosome is a refugium for endogenous retroviruses with likely effects on female-biased mutational load and genetic incompatibilities

Peona, Valentina; Palacios-Gimenez, Octavio M.; Blommaert, Julie; Liu, Jing et al.

Part of Philosophical Transactions of the Royal Society of London. Biological Sciences, 2021

• DOI for The avian W chromosome is a refugium for endogenous retroviruses with likely effects on female-biased mutational load and genetic incompatibilities
• Download full text (pdf) of The avian W chromosome is a refugium for endogenous retroviruses with likely effects on female-biased mutational load and genetic incompatibilities

The Enterprise, a massive transposon carrying Spok meiotic drive genes

Vogan, Aaron A.; Ament-Velásquez, S. Lorena; Bastiaans, Eric; Wallerman, Ola et al.

Part of Genome Research, p. 789-798, 2021

• DOI for The Enterprise, a massive transposon carrying Spok meiotic drive genes
• Download full text (pdf) of The Enterprise, a massive transposon carrying Spok meiotic drive genes

Horizontal transfer and subsequent explosive expansion of a DNA transposon in sea kraits (Laticauda)

Galbraith, James D.; Ludington, Alastair J.; Sanders, Kate L.; Suh, Alexander et al.

Part of Biology Letters, 2021

• DOI for Horizontal transfer and subsequent explosive expansion of a DNA transposon in sea kraits (Laticauda)
• Download full text (pdf) of Horizontal transfer and subsequent explosive expansion of a DNA transposon in sea kraits (Laticauda)

Unboxing mutations: Connecting mutation types with evolutionary consequences

Berdan, Emma L.; Blanckaert, Alexandre; Slotte, Tanja; Suh, Alexander et al.

Part of Molecular Ecology, p. 2710-2723, 2021

• DOI for Unboxing mutations: Connecting mutation types with evolutionary consequences
• Download full text (pdf) of Unboxing mutations: Connecting mutation types with evolutionary consequences

Why Do Some Sex Chromosomes Degenerate More Slowly Than Others?: The Odd Case of Ratite Sex Chromosomes

Yazdi, Homa Papoli; Silva, Willian T. A. F.; Suh, Alexander

Part of Genes, 2020

• DOI for Why Do Some Sex Chromosomes Degenerate More Slowly Than Others?: The Odd Case of Ratite Sex Chromosomes
• Download full text (pdf) of Why Do Some Sex Chromosomes Degenerate More Slowly Than Others?: The Odd Case of Ratite Sex Chromosomes

Dense sampling of bird diversity increases power of comparative genomics

Feng, Shaohong; Stiller, Josefin; Deng, Yuan; Armstrong, Joel et al.

Part of Nature, p. 252-257, 2020

• DOI for Dense sampling of bird diversity increases power of comparative genomics
• Download full text (pdf) of Dense sampling of bird diversity increases power of comparative genomics

Linked-read sequencing enables haplotype-resolved resequencing at population scale

Lutgen, Dave; Ritter, Raphael; Olsen, Remi-Andre; Schielzeth, Holger et al.

Part of Molecular Ecology Resources, p. 1311-1322, 2020

• DOI for Linked-read sequencing enables haplotype-resolved resequencing at population scale

Discovery and population genomics of structural variation in a songbird genus

Weissensteiner, Matthias H.; Bunikis, Ignas; Catalan, Ana; Francoijs, Kees-Jan et al.

Part of Nature Communications, 2020

• DOI for Discovery and population genomics of structural variation in a songbird genus
• Download full text (pdf) of Discovery and population genomics of structural variation in a songbird genus

Comparative analysis of morabine grasshopper genomes reveals highly abundant transposable elements and rapidly proliferating satellite DNA repeats

Palacios-Gimenez, Octavio M.; Koelman, Julia; Palmada-Flores, Marc; Bradford, Tessa M. et al.

Part of BMC Biology, 2020

• DOI for Comparative analysis of morabine grasshopper genomes reveals highly abundant transposable elements and rapidly proliferating satellite DNA repeats
• Download full text (pdf) of Comparative analysis of morabine grasshopper genomes reveals highly abundant transposable elements and rapidly proliferating satellite DNA repeats

The tuatara genome reveals ancient features of amniote evolution

Gemmell, Neil J.; Rutherford, Kim; Prost, Stefan; Tollis, Marc et al.

Part of Nature, p. 403-409, 2020

• DOI for The tuatara genome reveals ancient features of amniote evolution
• Download full text (pdf) of The tuatara genome reveals ancient features of amniote evolution

New Environment, New Invaders-Repeated Horizontal Transfer of LINEs to Sea Snakes

Galbraith, James D.; Ludington, Alastair J.; Suh, Alexander; Sanders, Kate L. et al.

Part of Genome Biology and Evolution, p. 2370-2383, 2020

• DOI for New Environment, New Invaders-Repeated Horizontal Transfer of LINEs to Sea Snakes
• Download full text (pdf) of New Environment, New Invaders-Repeated Horizontal Transfer of LINEs to Sea Snakes

The Genome of Blue-Capped Cordon-Bleu Uncovers Hidden Diversity of LTR Retrotransposons in Zebra Finch

Boman, Jesper; Frankl-Vilches, Carolina; dos Santos, Michelly da Silva; de Oliveira, Edivaldo H. C. et al.

Part of Genes, 2019

• DOI for The Genome of Blue-Capped Cordon-Bleu Uncovers Hidden Diversity of LTR Retrotransposons in Zebra Finch
• Download full text (pdf) of The Genome of Blue-Capped Cordon-Bleu Uncovers Hidden Diversity of LTR Retrotransposons in Zebra Finch

Dynamic evolutionary history and gene content of sex chromosomes across diverse songbirds

Xu, Luohao; Auer, Gabriel; Peona, Valentina; Suh, Alexander et al.

Part of Nature Ecology & Evolution, p. 834-844, 2019

• DOI for Dynamic evolutionary history and gene content of sex chromosomes across diverse songbirds

Programmed DNA elimination of germline development genes in songbirds

Kinsella, Cormac M.; Ruiz-Ruano, Francisco J.; Dion-Cote, Anne-Marie; Charles, Alexander J. et al.

Part of Nature Communications, 2019

• DOI for Programmed DNA elimination of germline development genes in songbirds
• Download full text (pdf) of Programmed DNA elimination of germline development genes in songbirds

Nucleotide composition of transposable elements likely contributes to AT/GC compositional homogeneity of teleost fish genomes

Symonova, Radka; Suh, Alexander

Part of Mobile DNA, 2019

• DOI for Nucleotide composition of transposable elements likely contributes to AT/GC compositional homogeneity of teleost fish genomes
• Download full text (pdf) of Nucleotide composition of transposable elements likely contributes to AT/GC compositional homogeneity of teleost fish genomes

Comparative analyses identify genomic features potentially involved in the evolution of birds-of-paradise

Prost, Stefan; Armstrong, Ellie E.; Nylander, Johan; Thomas, Gregg W. C. et al.

Part of GigaScience, 2019

• DOI for Comparative analyses identify genomic features potentially involved in the evolution of birds-of-paradise
• Download full text (pdf) of Comparative analyses identify genomic features potentially involved in the evolution of birds-of-paradise

Genome-wide evidence supports mitochondrial relationships and pervasive parallel phenotypic evolution in open-habitat chats

Schweizer, Manuel; Warmuth, Vera M.; Kakhki, Niloofar Alaei; Aliabadian, Mansour et al.

Part of Molecular Phylogenetics and Evolution, 2019

• DOI for Genome-wide evidence supports mitochondrial relationships and pervasive parallel phenotypic evolution in open-habitat chats

Genome Size Evolution: Small Transposons with Large Consequences

Suh, Alexander

Part of Current Biology, 2019

• DOI for Genome Size Evolution: Small Transposons with Large Consequences

Parallel plumage colour evolution and introgressive hybridization in wheatears

Schweizer, Manuel; Warmuth, Vera; Kakhki, Niloofar Alaei; Aliabadian, Mansour et al.

Part of Journal of Evolutionary Biology, p. 100-110, 2019

• DOI for Parallel plumage colour evolution and introgressive hybridization in wheatears

Improved Genome Assembly and Annotation for the Rock Pigeon (Columba livia)

Holt, Carson; Campbell, Michael; Keays, David A.; Edelman, Nathaniel et al.

Part of G3, p. 1391-1398, 2018

• DOI for Improved Genome Assembly and Annotation for the Rock Pigeon (Columba livia)
• Download full text (pdf) of Improved Genome Assembly and Annotation for the Rock Pigeon (Columba livia)

Abundant recent activity of retrovirus-like retrotransposons within and among flycatcher species implies a rich source of structural variation in songbird genomes

Suh, Alexander; Smeds, Linnea; Ellegren, Hans

Part of Molecular Ecology, p. 99-111, 2018

• DOI for Abundant recent activity of retrovirus-like retrotransposons within and among flycatcher species implies a rich source of structural variation in songbird genomes
• Download full text (pdf) of Abundant recent activity of retrovirus-like retrotransposons within and among flycatcher species implies a rich source of structural variation in songbird genomes

Bridging gaps in transposable element research with single-molecule and single-cell technologies

Kutter, C; Jern, Patric; Suh, Alexander

Part of Mobile DNA, 2018

• DOI for Bridging gaps in transposable element research with single-molecule and single-cell technologies
• Download full text (pdf) of Bridging gaps in transposable element research with single-molecule and single-cell technologies

How complete are "complete" genome assemblies?: An avian perspective

Peona, Valentina; Weissensteiner, Matthias; Suh, Alexander

Part of Molecular Ecology Resources, p. 1188-1195, 2018

• DOI for How complete are "complete" genome assemblies?: An avian perspective
• Download full text (pdf) of How complete are "complete" genome assemblies?: An avian perspective

Natural selection beyond genes: Identification and analyses of evolutionarily conserved elements in the genome of the collared flycatcher (Ficedula albicollis)

Craig, Rory J.; Suh, Alexander; Wang, Mi; Ellegren, Hans

Part of Molecular Ecology, p. 476-492, 2018

• DOI for Natural selection beyond genes: Identification and analyses of evolutionarily conserved elements in the genome of the collared flycatcher (Ficedula albicollis)
• Download full text (pdf) of Natural selection beyond genes: Identification and analyses of evolutionarily conserved elements in the genome of the collared flycatcher (Ficedula albicollis)

Evolution and Diversity of Transposable Elements in Vertebrate Genomes

Sotero-Caio, Cibele G.; Platt, Roy N.; Suh, Alexander; Ray, David A.

Part of Genome Biology and Evolution, p. 161-177, 2017

• DOI for Evolution and Diversity of Transposable Elements in Vertebrate Genomes
• Download full text (pdf) of Evolution and Diversity of Transposable Elements in Vertebrate Genomes

Rapid Increase in Genome Size as a Consequence of Transposable Element Hyperactivity in Wood-White (Leptidea) Butterflies

Talla, Venkat; Suh, Alexander; Kalsoom, Faheema; Dinca, Vlad et al.

Part of Genome Biology and Evolution, p. 2491-2505, 2017

• DOI for Rapid Increase in Genome Size as a Consequence of Transposable Element Hyperactivity in Wood-White (Leptidea) Butterflies
• Download full text (pdf) of Rapid Increase in Genome Size as a Consequence of Transposable Element Hyperactivity in Wood-White (Leptidea) Butterflies

De-novo emergence of SINE retroposons during the early evolution of passerine birds

Suh, Alexander; Bachg, Sandra; Donnellan, Stephen; Joseph, Leo et al.

Part of Mobile DNA, 2017

• DOI for De-novo emergence of SINE retroposons during the early evolution of passerine birds
• Download full text (pdf) of De-novo emergence of SINE retroposons during the early evolution of passerine birds

Dynamics of genome size evolution in birds and mammals

Kapusta, Aurelie; Suh, Alexander; Feschotte, Cedric

Part of Proceedings of the National Academy of Sciences of the United States of America, 2017

• DOI for Dynamics of genome size evolution in birds and mammals

Whole-genome patterns of linkage disequilibrium across flycatcher populations clarify the causes and consequences of fine-scale recombination rate variation in birds

Kawakami, Takeshi; Mugal, Carina; Suh, Alexander; Nater, Alexander et al.

Part of Molecular Ecology, p. 4158-4172, 2017

• DOI for Whole-genome patterns of linkage disequilibrium across flycatcher populations clarify the causes and consequences of fine-scale recombination rate variation in birds
• Download full text (pdf) of Whole-genome patterns of linkage disequilibrium across flycatcher populations clarify the causes and consequences of fine-scale recombination rate variation in birds

Combination of short-read, long-read, and optical mapping assemblies reveals large-scale tandem repeat arrays with population genetic implications

Weissensteiner, Matthias H.; Pang, Andy W. C.; Bunikis, Ignas; Höijer, Ida et al.

Part of Genome Research, p. 697-708, 2017

• DOI for Combination of short-read, long-read, and optical mapping assemblies reveals large-scale tandem repeat arrays with population genetic implications

Deciphering the Origin and Evolution of Hepatitis B Viruses by Means of a Family of Non-enveloped Fish Viruses

Lauber, Chris; Seitz, Stefan; Mattei, Simone; Suh, Alexander et al.

Part of Cell Host and Microbe, p. 387-399,e1-e6, 2017

• DOI for Deciphering the Origin and Evolution of Hepatitis B Viruses by Means of a Family of Non-enveloped Fish Viruses
• Download full text (pdf) of Deciphering the Origin and Evolution of Hepatitis B Viruses by Means of a Family of Non-enveloped Fish Viruses

Evolution of heterogeneous genome differentiation across multiple contact zones in a crow species complex

Vijay, Nagarjun; Bossu, Christen M.; Poelstra, Jelmer W.; Weissensteiner, Matthias H. et al.

Part of Nature Communications, 2016

• DOI for Evolution of heterogeneous genome differentiation across multiple contact zones in a crow species complex
• Download full text (pdf) of Evolution of heterogeneous genome differentiation across multiple contact zones in a crow species complex

Ancient horizontal transfers of retrotransposons between birds and ancestors of human pathogenic nematodes

Suh, Alexander; Witt, Christopher C.; Menger, Juliana; Sadanandan, Keren R. et al.

Part of Nature Communications, 2016

• DOI for Ancient horizontal transfers of retrotransposons between birds and ancestors of human pathogenic nematodes
• Download full text (pdf) of Ancient horizontal transfers of retrotransposons between birds and ancestors of human pathogenic nematodes

Multiple Lineages of Ancient CR1 Retroposons Shaped the Early Genome Evolution of Amniotes

Suh, Alexander; Churakov, Gennady; Ramakodi, Meganathan P.; Platt, Roy N. et al.

Part of Genome Biology and Evolution, p. 205-217, 2015

• DOI for Multiple Lineages of Ancient CR1 Retroposons Shaped the Early Genome Evolution of Amniotes
• Download full text (pdf) of Multiple Lineages of Ancient CR1 Retroposons Shaped the Early Genome Evolution of Amniotes

Targeted Capture of Phylogenetically Informative Ves SINE Insertions in Genus Myotis

Platt, Roy N.; Zhang, Yuhua; Witherspoon, David J.; Xing, Jinchuan et al.

Part of Genome Biology and Evolution, p. 1664-1675, 2015

• DOI for Targeted Capture of Phylogenetically Informative Ves SINE Insertions in Genus Myotis
• Download full text (pdf) of Targeted Capture of Phylogenetically Informative Ves SINE Insertions in Genus Myotis

Evolutionary analysis of the female-specific avian W chromosome

Smeds, Linnea; Warmuth, Vera; Bolivar, Paulina; Uebbing, Severin et al.

Part of Nature Communications, 2015

• DOI for Evolutionary analysis of the female-specific avian W chromosome
• Download full text (pdf) of Evolutionary analysis of the female-specific avian W chromosome

Phylogenomic analyses data of the avian phylogenomics project

Jarvis, Erich D.; Mirarab, Siavash; Aberer, Andre J.; Li, Bo et al.

Part of GigaScience, 2015

• DOI for Phylogenomic analyses data of the avian phylogenomics project
• Download full text (pdf) of Phylogenomic analyses data of the avian phylogenomics project

Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers

Burri, Reto; Nater, Alexander; Kawakami, Takeshi; Mugal, Carina F. et al.

Part of Genome Research, p. 1656-1665, 2015

• DOI for Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers
• Download full text (pdf) of Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers

The Dynamics of Incomplete Lineage Sorting across the Ancient Adaptive Radiation of Neoavian Birds

Suh, Alexander; Smeds, Linnea; Ellegren, Hans

Part of PLoS biology, 2015

• DOI for The Dynamics of Incomplete Lineage Sorting across the Ancient Adaptive Radiation of Neoavian Birds
• Download full text (pdf) of The Dynamics of Incomplete Lineage Sorting across the Ancient Adaptive Radiation of Neoavian Birds

The Specific Requirements for CR1 Retrotransposition Explain the Scarcity of Retrogenes in Birds

Suh, Alexander

Part of Journal of Molecular Evolution, p. 18-20, 2015

• DOI for The Specific Requirements for CR1 Retrotransposition Explain the Scarcity of Retrogenes in Birds

Early Mesozoic Coexistence of Amniotes and Hepadnaviridae

Suh, Alexander Sang-Jae; Weber, Claudia C.; Kehlmaier, Christian; Braun, Edward L. et al.

Part of PLOS Genetics, 2014

• DOI for Early Mesozoic Coexistence of Amniotes and Hepadnaviridae
• Download full text (pdf) of Early Mesozoic Coexistence of Amniotes and Hepadnaviridae

Whole-genome analyses resolve early branches in the tree of life of modern birds

Jarvis, Erich D.; Mirarab, Siavash; Aberer, Andre J.; Li, Bo et al.

Part of Science, p. 1320-1331, 2014

• DOI for Whole-genome analyses resolve early branches in the tree of life of modern birds

Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs

Green, Richard E.; Braun, Edward L.; Armstrong, Joel; Earl, Dent et al.

Part of Science, p. 1335-+, 2014

• DOI for Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs

The genome of a Mesozoic paleovirus reveals the evolution of hepatitis B viruses

Suh, Alexander; Brosius, Juergen; Schmitz, Juergen; Kriegs, Jan Ole

Part of Nature Communications, p. 1791, 2013

• DOI for The genome of a Mesozoic paleovirus reveals the evolution of hepatitis B viruses

Mendelian nightmares: the germline-restricted chromosome of songbirds

Borodin, Pavel; Chen, Augustin; Forstmeier, Wolfgang; Fouché, Simone et al.

Part of Chromosome Research, p. 255-272, 2022

• DOI for Mendelian nightmares: the germline-restricted chromosome of songbirds
• Download full text (pdf) of Mendelian nightmares: the germline-restricted chromosome of songbirds

A brief review of vertebrate sex evolution with a pledge for integrative research: towards 'sexomics'

Stöck, Matthias; Kratochvíl, Lukás; Kuhl, Heiner; Rovatsos, Michail et al.

Part of Philosophical Transactions of the Royal Society of London. Biological Sciences, 2021

• DOI for A brief review of vertebrate sex evolution with a pledge for integrative research: towards 'sexomics'
• Download full text (pdf) of A brief review of vertebrate sex evolution with a pledge for integrative research: towards 'sexomics'

Meiosis and beyond - understanding the mechanistic and evolutionary processes shaping the germline genome

Bergero, Roberta; Ellis, Peter; Haerty, Wilfried; Larcombe, Lee et al.

Part of Biological Reviews, p. 822-841, 2021

• DOI for Meiosis and beyond - understanding the mechanistic and evolutionary processes shaping the germline genome
• Download full text (pdf) of Meiosis and beyond - understanding the mechanistic and evolutionary processes shaping the germline genome

Evolution of bird genomes-a transposon's-eye view

Kapusta, Aurelie; Suh, Alexander

Part of Annals of the New York Academy of Sciences, p. 164-185, 2017

• DOI for Evolution of bird genomes-a transposon's-eye view

The phylogenomic forest of bird trees contains a hard polytomy at the root of Neoaves

Suh, Alexander

Part of Zoologica Scripta, p. 50-62, 2016

• DOI for The phylogenomic forest of bird trees contains a hard polytomy at the root of Neoaves
• Download full text (pdf) of The phylogenomic forest of bird trees contains a hard polytomy at the root of Neoaves

The hidden structural variability in avian genomes

Peona, Valentina; Blom, Mozes P. K.; Frankl-Vilches, Carolina; Milá, Borja et al.

Satellite DNA evolution in Corvides inferred from short and long reads

Peona, Valentina; Kutschera, Verena E.; Blom, Mozes P. K.; Irestedt, Martin et al.

Rapid GRC-linked gene expression divergence in Ficedula flycatchers and implications for spermatogenesis

Segami, Carolina; Ruiz-Ruano, Francisco J.; Suh, Alexander; Qvarnström, Anna