title: A novel satellite DNA sequence in the Peromyscus genome (PMSat): Evolution via copy number fluctuation.
abstract: Satellite DNAs (satDNA) are tandemly arrayed repeated sequences largely present in eukaryotic genomes, which play important roles in genome evolution and function, and therefore, their analysis is vital. Here, we describe the isolation of a novel satellite DNA family (PMSat) from the rodent Peromyscus eremicus (Cricetidae, Rodentia), which is located in pericentromeric regions and exhibits a typical satellite DNA genome organization. Orthologous PMSat sequences were isolated and characterized from three species belonging to Cricetidae: Cricetus cricetus, Phodopus sungorus and Microtus arvalis. In these species, PMSat is highly conserved, with the absence of fixed species-specific mutations. Strikingly, different numbers of copies of this sequence were found among the species, suggesting evolution by copy number fluctuation. Repeat units of PMSat were also found in the Peromyscus maniculatus bairdii BioProject, but our results suggest that these repeat units are from genome regions outside the pericentromere. The remarkably high evolutionary sequence conservation along with the preservation of a few numbers of copies of this sequence in the analyzed genomes may suggest functional significance but a different sequence nature/organization. Our data highlight that repeats are difficult to analyze due to the limited tools available to dissect genomes and the fact that assemblies do not cover regions of constitutive heterochromatin.
authors.affiliation: University of Trás-os-Montes and Alto Douro (UTAD), Department of Genetics and Biotechnology (DGB), Laboratory of Cytogenomics and Animal Genomics (CAG), Apdo 1013, 5001-801 Vila Real, Portugal.
authors.forename: Sandra
authors.initials: S
authors.lastname: Louzada
authors.affiliation: University of Trás-os-Montes and Alto Douro (UTAD), Department of Genetics and Biotechnology (DGB), Laboratory of Cytogenomics and Animal Genomics (CAG), Apdo 1013, 5001-801 Vila Real, Portugal; University of Lisboa, Faculty of Sciences, BioISI - Biosystems & Integrative Sciences Institute, Campo Grande, Lisboa, Portugal.
authors.forename: Ana
authors.initials: A
authors.lastname: Vieira-da-Silva
authors.affiliation: University of Trás-os-Montes and Alto Douro (UTAD), Department of Genetics and Biotechnology (DGB), Laboratory of Cytogenomics and Animal Genomics (CAG), Apdo 1013, 5001-801 Vila Real, Portugal; University of Lisboa, Faculty of Sciences, BioISI - Biosystems & Integrative Sciences Institute, Campo Grande, Lisboa, Portugal.
authors.forename: Ana
authors.initials: A
authors.lastname: Mendes-da-Silva
authors.affiliation: Veterinary Research Institute, Brno, Czech Republic.
authors.forename: Svatava
authors.initials: S
authors.lastname: Kubickova
authors.affiliation: Veterinary Research Institute, Brno, Czech Republic.
authors.forename: Jiri
authors.initials: J
authors.lastname: Rubes
authors.affiliation: University of Trás-os-Montes and Alto Douro (UTAD), Department of Genetics and Biotechnology (DGB), Laboratory of Cytogenomics and Animal Genomics (CAG), Apdo 1013, 5001-801 Vila Real, Portugal; University of Lisboa, Faculty of Sciences, BioISI - Biosystems & Integrative Sciences Institute, Campo Grande, Lisboa, Portugal.
authors.forename: Filomena
authors.initials: F
authors.lastname: Adega
authors.affiliation: University of Trás-os-Montes and Alto Douro (UTAD), Department of Genetics and Biotechnology (DGB), Laboratory of Cytogenomics and Animal Genomics (CAG), Apdo 1013, 5001-801 Vila Real, Portugal; University of Lisboa, Faculty of Sciences, BioISI - Biosystems & Integrative Sciences Institute, Campo Grande, Lisboa, Portugal. Electronic address: rchaves@utad.pt.
authors.forename: Raquel
authors.initials: R
authors.lastname: Chaves
mesh_terms: D000818:Animals; D001483:Base Sequence; D015139:Blotting, Southern; D003198:Computer Simulation; D004276:DNA, Satellite / Q000235:genetics* / Q000302:isolation & purification; D019143:Evolution, Molecular; D018628:Gene Dosage; D016678:Genome; D008969:Molecular Sequence Data; D010542:Peromyscus / Q000235:genetics*; D010802:Phylogeny; D020161:Physical Chromosome Mapping; D015183:Restriction Mapping; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA; D013045:Species Specificity
chemical_list: D004276:DNA, Satellite
keywords: Copy number; Laser microdissection; Rodentia; Satellite DNA