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Johan Michaux – One of the best experts on this subject based on the ideXlab platform.

  • Comparative phylogeography of four Apodemus species (Mammalia: Rodentia) in the Asian Far East: evidence of Quaternary climatic changes in their genetic structure
    Biological Journal of the Linnean Society, 2010
    Co-Authors: Hela Sakka, Jean-pierre Quéré, Irina Kartavtseva, Galina Chelomina, Dmitry Atopkin, M. V. Pavlenko, A. S. Bogdanov, Johan Michaux

    Abstract:

    The phylogeography of four Apodemus species (Apodemus agrarius, Apodemus peninsulae, Apodemus latronum, and Apodemus draco) was studied in the Far East of Asia, based on sequences of the mitochondrial DNA cytochrome b gene. The results obtained show the existence of many different genetic lineages within the studied Apodemus species, suggesting the isolation and differentiation of populations in multiple refuge areas. Higher genetic diversities in some regions such as Yunnan, Sichuan (China), and eastern Russia suggest these areas are potential refuges for these species. The existence of such complex genetic structures could be linked to the presence of many biogeographic barriers (Himalaya Mountains, Tien-shan Mountains, Altai Mountains, Tibetan Plateau, Gobi desert, Yunnan Guizhou Plateau, Dzungaria basin, and others) in these regions, which were probably reinforced during the Quaternary climate changes. These barriers also played an important role concerning the low dispersal abilities of the two studied Apodemus species adapted to forest habitats (A. latronum and A. draco) with respect to colonizing regions other than China. © 2010 The Linnean Society of London, Biological Journal of the Linnean Society, 2010, 100, 797-821.

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  • Comparative phylogeography of four Apodemus species (Mammalia: Rodentia) in the Asian Far East: evidence of Quaternary climatic changes in their genetic structure
    Biological Journal of the Linnean Society, 2010
    Co-Authors: Hela Sakka, Jean-pierre Quéré, Irina Kartavtseva, Marina Pavlenko, Galina Chelomina, Dmitry Atopkin, Aleksey Bogdanov, Johan Michaux

    Abstract:

    The phylogeography of four Apodemus species (Apodemus agrarius, Apodemus peninsulae, Apodemus latronum, and Apodemus draco) was studied in the Far East of Asia, based on sequences of the mitochondrial DNA cytochrome b gene. The results obtained show the existence of many different genetic lineages within the studied Apodemus species, suggesting the isolation and differentiation of populations in multiple refuge areas. Higher genetic diversities in some regions such as Yunnan, Sichuan (China), and eastern Russia suggest these areas are potential refuges for these species. The existence of such complex genetic structures could be linked to the presence of many biogeographic barriers (Himalaya Mountains, Tien-shan Mountains, Altai Mountains, Tibetan Plateau, Gobi desert, Yunnan Guizhou Plateau, Dzungaria basin, and others) in these regions, which were probably reinforced during the Quaternary climate changes. These barriers also played an important role concerning the low dispersal abilities of the two studied Apodemus species adapted to forest habitats (A. latronum and A. draco) with respect to colonizing regions other than China

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  • false phylogenies on wood mice due to cryptic cytochrome b pseudogene
    Molecular Phylogenetics and Evolution, 2009
    Co-Authors: Sylvain Dubey, Johan Michaux, Harald Brunner, Rainer Hutterer, Peter Vogel

    Abstract:

    Abstract The phylogeny and phylogeography of the Old World wood mice (subgenus Sylvaemus, genus Apodemus, Muridae) are well-documented. Nevertheless, the distributions of species, such as A. fulvipectus and A. ponticus remain dubious, as well as their phylogenetic relationships with A. sylvaticus. We analysed samples of Apodemus spp. across Europe using the mitochondrial cytochrome-b gene (cyt-b) and compared the DNA and amino-acid compositions of previously published sequences. The main result stemming from this study is the presence of a well-differentiated lineage of Sylvaemus including samples of various species (A. sylvaticus, A. fulvipectus, A. ponticus) from distant locations, which were revealed to be nuclear copies of the mitochondrial cyt-b. The presence of this cryptic pseudogene in published sequences is supported by different pathways. This has led to important errors in previous molecular trees and hence to partial misinterpretations in the phylogeny of Apodemus.

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Alexander S. Graphodatsky – One of the best experts on this subject based on the ideXlab platform.

  • Low-pass single-chromosome sequencing of human small supernumerary marker chromosomes (sSMCs) and Apodemus B chromosomes
    Chromosoma, 2018
    Co-Authors: Alexey I. Makunin, Marija Rajičić, Tatyana V. Karamysheva, Svetlana A. Romanenko, Anna S. Druzhkova, Jelena Blagojevic, Mladen Vujosevic, Nikolay B. Rubtsov, Alexander S. Graphodatsky, Vladimir A. Trifonov

    Abstract:

    Supernumerary chromosomes sporadically arise in many eukaryotic species as a result of genomic rearrangements. If present in a substantial part of species population, those are called B chromosomes, or Bs. This is the case for 70 mammalian species, most of which are rodents. In humans, the most common types of extra chromosomes, sSMCs (small supernumerary marker chromosomes), are diagnosed in approximately 1 of 2000 postnatal cases. Due to low frequency in population, human sSMCs are not considered B chromosomes. Genetic content of both B-chromosomes and sSMCs in most cases remains understudied. Here, we apply microdissection of single chromosomes with subsequent low-pass sequencing on Ion Torrent PGM and Illumina MiSeq to identify unique and repetitive DNA sequences present in a single human sSMC and several B chromosomes in mice Apodemus flavicollis and Apodemus peninsulae . The pipeline for sequencing data analysis was made available in Galaxy interface as an addition to previously published command-line version. Human sSMC was attributed to the proximal part of chromosome 15 long arm, and breakpoints leading to its formation were located into satellite DNA arrays. Genetic content of Apodemus B chromosomes was species-specific, and minor alterations were observed in both species. Common features of Bs in these Apodemus species were satellite DNA and ERV enrichment, as well as the presence of the vaccinia-related kinase gene Vrk1 . Understanding of the non-essential genome elements content provides important insights into genome evolution in general.

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  • complex structure of b chromosomes in two mammalian species Apodemus peninsulae rodentia and nyctereutes procyonoides carnivora
    Chromosome Research, 2002
    Co-Authors: Vladimir A. Trifonov, Masahiro A. Iwasa, Polina L Perelman, Si Kawada, Senichi Oda, Alexander S. Graphodatsky

    Abstract:

    B-chromosomes (Bs) of two mammalian species, raccoon dog (Nyctereutes procyonoides, Carnivora) and Asian wood mouse (Apodemus peninsulae, Rodentia) were investigated using chromosome segment microdissection and double-colour FISH. In the raccoon dog, all B-chromosomes showed homology with each other but not with the A-chromosomes. Two segment-specific probes (from proximal and distal parts of B) have been localized in corresponding chromosome parts, with significant variation in their sizes. In Asian wood mice, two types of B-specific chromatin were revealed – B1 and B2. Most Bs were either B1 or B2 specific; furthermore, some Bs were found to be composed of both types of chromatin. B-chromosome-specific libraries of A. peninsulae contain sequences homologous to the heterochromatic regions of sex and some A-chromosomes and dispersed repeated sequences. B1-specific probes gave signals on sex chromosomes of Apodemus speciosus and Apodemus agrarius. The origin and evolution of B-chromosomes in mammals are discussed.

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Przemysław Stolarz – One of the best experts on this subject based on the ideXlab platform.

  • Population increase and synurbization of the yellow-necked mouse Apodemus flavicollis in some wooded areas of Warsaw agglomeration, Poland, in the years 1983–2018
    Urban Ecosystems, 2020
    Co-Authors: Grzegorz Lesiński, Jakub Gryz, Dagny Krauze-gryz, Przemysław Stolarz

    Abstract:

    Studies on the contribution of the yellow-necked mouse Apodemus flavicollis and of other vertebrates to the diet of the tawny owl Strix aluco were carried out in Warsaw (central Poland) in the years 1983–2018. The frequency of the yellow-necked mouse in owl pellets increased at the break of the 20th and 21st centuries, particularly in some woodlands in the peri-urban area of the agglomeration. In the second half of the first decade of the twenty-first century, this mouse species colonised a park in the city centre. The yellow-necked mouse may become an important competitor for the synurbic population of the striped field mouse Apodemus agrarius.

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