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  • 1. Cockerill, Christopher A
    et al.
    Hasselgren, Malin
    Dussex, Nicolas
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    von Seth, Johanna
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Angerbjörn, Anders
    Wallén, Johan F
    Landa, Arild
    Eide, Nina E
    Flagstad, Øystein
    Genomic Consequences of Fragmentation in the Endangered Fennoscandian Arctic Fox (Vulpes lagopus)2022In: Genes, E-ISSN 2073-4425, Vol. 13, no 11Article in journal (Refereed)
  • 2.
    Dalen, Love
    et al.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Lagerholm, Vendela K.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Nylander, Johan A. A.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Barton, Nick
    Bochenski, Zbigniew M.
    Tomek, Teresa
    Rudling, David
    Ericson, Per G. P.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics. Swedish Museum of Natural History, Research Division.
    Irestedt, Martin
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Stewart, John R.
    Identifying Bird Remains Using Ancient DNA Barcoding2017In: Genes, E-ISSN 2073-4425, Vol. 8, no 6, article id 169Article in journal (Refereed)
    Download full text (pdf)
    fulltext
  • 3. Dehasque, Marianne
    et al.
    Pečnerová, Patrícia
    Kempe Lagerholm, Vendela
    Ersmark, Erik
    Danilov, Gleb K
    Mortensen, Peter
    Swedish Museum of Natural History, Department of Zoology.
    Vartanyan, Sergey
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Development and Optimization of a Silica Column-Based Extraction Protocol for Ancient DNA2022In: Genes, E-ISSN 2073-4425, Vol. 13, no 4Article in journal (Refereed)
    Download full text (pdf)
    fulltext
  • 4. Xu, Luohao
    et al.
    Irestedt, Martin
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Zhou, Qi
    Sequence Transpositions Restore Genes on the HighlyDegenerated W Chromosomes of Songbirds2020In: Genes, E-ISSN 2073-4425, Vol. 11, article id 1267Article in journal (Refereed)
    Abstract [en]

    The female-specific W chromosomes of most Neognathae birds are highly degenerated and gene-poor. Previous studies have demonstrated that the gene repertoires of the Neognathae bird W chromosomes, despite being in small numbers, are conserved across bird species, likely due to purifying selection maintaining the regulatory and dosage-sensitive genes. Here we report the discovery of DNA-based sequence duplications from the Z to the W chromosome in birds-of-paradise (Paradisaeidae, Passeriformes), through sequence transposition. The original transposition involved nine genes, but only two of them (ANXA1 and ALDH1A1) survived on the W chromosomes. Both ANXA1 and ALDH1A1 are predicted to be dosage-sensitive, and the expression of ANXA1 is restricted to ovaries in all the investigated birds. These analyses suggest the newly transposed gene onto the W chromosomes can be favored for their role in restoring dosage imbalance or through female-specific selection. After examining seven additional songbird genomes, we further identified five other transposed genes on the W chromosomes of Darwin’s finches and one in the great tit, expanding the observation of the Z-to-W transpositions to a larger range of bird species, but not all transposed genes exhibit dosage-sensitivity or ovary-biased expression We demonstrate a new mechanism by which the highly degenerated W chromosomes of songbirds can acquire genes from the homologous Z chromosomes, but further functional investigations are needed to validate the evolutionary forces underlying the transpositions

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