Centromeric enrichment of LINE-1 retrotransposons and its significance for the chromosome evolution of Phyllostomid bats
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Cesar Martins | C. Sotero-Caio | G. Valente | C. Martins | M. S. Calixto | D. C. Cabral-de-Mello | N. Santos | V. Loreto | Maria José de Souza | Cibele Gomes Sotero-Caio | Diogo Cavalcanti Cabral-de-Mello | Merilane da Silva Calixto | Guilherme Targino Valente | Vilma Loreto | Maria José Souza | Neide Santos | D. Cabral-de-Mello
[1] N. Santos,et al. Characterization of the constitutive heterochromatin of Carollia perspicillata (Phyllostomidae, Chiroptera) using the base-specific fluorochromes, CMA3 (GC) and DAPI (AT) , 1998 .
[2] M. Bullejos,et al. Retroelements (LINEs and SINEs) in vole genomes: Differential distribution in the constitutive heterochromatin , 2008, Chromosome Research.
[3] Adam Godzik,et al. Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences , 2006, Bioinform..
[4] A. Troxel,et al. Genomic characterization of recent human LINE-1 insertions: evidence supporting random insertion. , 2001, Genome research.
[5] M. Ferguson-Smith,et al. Chromosomal Homologies among Vampire Bats Revealed by Chromosome Painting (Phyllostomidae, Chiroptera) , 2010, Cytogenetic and Genome Research.
[6] August E. Woerner,et al. Gibbon genome and the fast karyotype evolution of small apes , 2014 .
[7] G. Valente,et al. Organization of Repeated DNA Elements in the Genome of the Cichlid Fish Cichla kelberi and Its Contributions to the Knowledge of Fish Genomes , 2009, Cytogenetic and Genome Research.
[8] Molecular cytogenetic characterization of the Amazon River dolphin Inia geoffrensis , 2012, Genetica.
[9] M. Ferguson-Smith,et al. Reciprocal chromosome painting between two South American bats: Carollia brevicauda and Phyllostomus hastatus (Phyllostomidae, Chiroptera) , 2005, Chromosome Research.
[10] Paul R. Sesink Clee,et al. Environmental variation and rivers govern the structure of chimpanzee genetic diversity in a biodiversity hotspot , 2015, BMC Evolutionary Biology.
[11] J. V. Moran,et al. The Influence of LINE-1 and SINE Retrotransposons on Mammalian Genomes , 2015, Microbiology spectrum.
[12] H. Akaike. A new look at the statistical model identification , 1974 .
[13] R. Baker,et al. Reduced Number of Ribosomal Sites in Bats: Evidence for a Mechanism to Contain Genome Size , 1992 .
[14] M. Varella‐Garcia,et al. A survey of cytogenetic data on Brazilian bats , 1989 .
[15] Miriam K. Konkel,et al. Centromere Remodeling in Hoolock leuconedys (Hylobatidae) by a New Transposable Element Unique to the Gibbons , 2012, Genome biology and evolution.
[16] R. Baker,et al. TIMESCALE OF DIVERSIFICATION OF FEEDING STRATEGY AND MORPHOLOGY IN NEW WORLD LEAF-NOSED BATS ( PHYLLOSTOMIDAE ) : A PHYLOGENETIC PERSPECTIVE , 2010 .
[17] C. Redi,et al. Quantitative variation of LINE-1 sequences in five species and three subspecies of the subgenus Mus and in five Robertsonian races of Mus musculus domesticus , 2009, Chromosome Research.
[18] D. Mager,et al. Gene Properties and Chromatin State Influence the Accumulation of Transposable Elements in Genes , 2012, PloS one.
[19] G. Presting,et al. Widespread Gene Conversion in Centromere Cores , 2010, PLoS biology.
[20] R. O’Neill,et al. Recent Amplification of the Kangaroo Endogenous Retrovirus, KERV, Limited to the Centromere , 2011, Journal of Virology.
[21] P. Martinez,et al. A comparative study on karyotypic diversification rate in mammals , 2017, Heredity.
[22] Fengtang Yang,et al. Integration of molecular cytogenetics, dated molecular phylogeny, and model-based predictions to understand the extreme chromosome reorganization in the Neotropical genus Tonatia (Chiroptera: Phyllostomidae) , 2015, BMC Evolutionary Biology.
[23] H. Hameister,et al. ZOO-FISH Analysis in a Species of the Order Chiroptera: Glossophaga soricina (Phyllostomidae) , 2004, Chromosome Research.
[24] P. Racey. Ecological and Behavioral Methods for the Study of Bats , 2011 .
[25] O. Ryder,et al. Genomic distribution of heterochromatic sequences in equids: implications to rapid chromosomal evolution. , 1991, The Journal of heredity.
[26] S. Henikoff,et al. Diversity in the organization of centromeric chromatin. , 2015, Current opinion in genetics & development.
[27] R. Bass. Systematics of the Desmodonitinae and Phyllonycterinae (Chiroptera: Phyllostomatidae) based on G-band chromosomal homologies , 1978 .
[28] T. Gregory,et al. Patterns of genome size diversity in bats (order Chiroptera). , 2013, Genome.
[29] R. Baker,et al. Transposable elements and the evolution of genome organization in mammals , 2004, Genetica.
[30] R. Baker,et al. RETROTRANSPOSON MYS IS CONCENTRATED ON THE SEX CHROMOSOMES: IMPLICATIONS FOR COPY NUMBER CONTAINMENT , 1990, Evolution; international journal of organic evolution.
[31] B. Ng,et al. Molecular Cytogenetic Characterization of the Genome Organization of the 6-Banded Armadillo (Euphractus sexcinctus) , 2010, Cytogenetic and Genome Research.
[32] A. T. Sumner. A simple technique for demonstrating centromeric heterochromatin. , 1972, Experimental cell research.
[33] J. Sambrook,et al. Molecular Cloning: A Laboratory Manual , 2001 .
[34] T. Eickbush,et al. Reverse transcription of R2Bm RNA is primed by a nick at the chromosomal target site: A mechanism for non-LTR retrotransposition , 1993, Cell.
[35] R. O’Neill,et al. Species-specific shifts in centromere sequence composition are coincident with breakpoint reuse in karyotypically divergent lineages , 2007, Genome Biology.
[36] F. Elder,et al. Yeast stimulation of bone marrow mitosis for cytogenetic investigations. , 1980, Cytogenetics and cell genetics.
[37] M. Batzer,et al. Mammalian retroelements. , 2002, Genome research.
[38] Robert C. Edgar,et al. MUSCLE: multiple sequence alignment with high accuracy and high throughput. , 2004, Nucleic acids research.
[39] Y. Yonenaga-Yassuda,et al. Comparative karyology of Brazilian vampire bats Desmodus rotundus and Diphylla ecaudata (Phyllostomidae, Chiroptera): banding patterns, base-specific fluorochromes and FISH of ribosomal genes. , 2004, Hereditas.
[40] N. Santos,et al. Use of fluorochromes chromomycin A3 and DAPI to study constitutive heterochromatin and NORs in four species of bats (Phyllostomidae) , 1998 .
[41] S. Elgin,et al. Epigenetic Codes for Heterochromatin Formation and Silencing Rounding up the Usual Suspects , 2002, Cell.
[42] C. ozouF-cosTaz,et al. LINE-1 amplification accompanies explosive genome repatterning in rodents , 2005, Chromosome Research.
[43] S. Boissinot,et al. The Genomic Distribution of L1 Elements: The Role of Insertion Bias and Natural Selection , 2006, Journal of biomedicine & biotechnology.
[44] Can Alkan,et al. Genome-wide characterization of centromeric satellites from multiple mammalian genomes. , 2011, Genome research.
[45] M. Bullejos,et al. Distribution of L1-retroposons on the giant sex chromosomes of Microtus cabrerae (Arvicolidae, Rodentia): functional and evolutionary implications , 2006, Chromosome Research.
[46] S. O’Brien,et al. Atlas of mammalian chromosomes , 2006 .
[47] Mark A. Miller,et al. Creating the CIPRES Science Gateway for inference of large phylogenetic trees , 2010, 2010 Gateway Computing Environments Workshop (GCE).
[48] Robert C. Edgar,et al. MUSCLE: a multiple sequence alignment method with reduced time and space complexity , 2004, BMC Bioinformatics.
[49] T. J. Robinson,et al. Absence of hypomethylation and LINE-1 amplification in a white × black rhinoceros hybrid , 2006, Genetica.
[50] J W Gray,et al. Cytogenetic analysis using quantitative, high-sensitivity, fluorescence hybridization. , 1986, Proceedings of the National Academy of Sciences of the United States of America.
[51] Y. Gray,et al. It takes two transposons to tango: transposable-element-mediated chromosomal rearrangements. , 2000, Trends in genetics : TIG.
[52] J. Salces-Ortiz,et al. Looking for adaptive footprints in the HSP90AA1 ovine gene , 2015, BMC Evolutionary Biology.
[53] R. O’Neill,et al. Cytogenetic and Molecular Evaluation of Centromere-Associated DNA Sequences From a Marsupial (Macropodidae: Macropus rufogriseus) X Chromosome , 2006, Genetics.
[54] LINE-1 distribution in six rodent genomes follow a species-specific pattern , 2016, Journal of Genetics.
[55] R. Baker,et al. Evolutionary History of Bats: Molecular time scale of diversification of feeding strategy and morphology in New World Leaf-Nosed Bats (Phyllostomidae): a phylogenetic perspective , 2012 .
[56] P. Deininger,et al. Inviting instability: Transposable elements, double-strand breaks, and the maintenance of genome integrity. , 2007, Mutation research.
[57] Fengtang Yang,et al. Phylogenetic Reconstruction by Cross-Species Chromosome Painting and G-Banding in Four Species of Phyllostomini Tribe (Chiroptera, Phyllostomidae) in the Brazilian Amazon: An Independent Evidence for Monophyly , 2015, PloS one.
[58] D. Posada. jModelTest: phylogenetic model averaging. , 2008, Molecular biology and evolution.
[59] T. Eickbush,et al. The diversity of retrotransposons and the properties of their reverse transcriptases. , 2008, Virus research.
[60] R. Baker,et al. Distribution of LINEs and other repetitive elements in the karyotype of the bat Carollia: implications for X-chromosome inactivation , 2002, Cytogenetic and Genome Research.
[61] H. Wichman,et al. Reviving the Dead: History and Reactivation of an Extinct L1 , 2014, PLoS genetics.
[62] J. Jurka,et al. L1 repeat is a basic unit of heterochromatin satellites in cetaceans. , 1998, Molecular biology and evolution.
[63] T. J. Robinson,et al. LINE-1 distribution in Afrotheria and Xenarthra: implications for understanding the evolution of LINE-1 in eutherian genomes , 2004, Chromosoma.
[64] M. S. Calixto,et al. Cytotaxonomy of the subgenus Artibeus (Phyllostomidae, Chiroptera) by characterization of species-specific markers , 2012, Comparative cytogenetics.
[65] R. Baker,et al. Karyotypic Evolution in Bats: Evidence of Extensive and Conservative Chromosomal Evolution in Closely Related Taxa , 1980 .
[66] V. Pande,et al. Undermethylation associated with retroelement activation and chromosome remodelling in an interspecific mammalian hybrid , 2022 .
[67] Y. Matsuda,et al. X accumulation of LINE-1 retrotransposons in Tokudaia osimensis, a spiny rat with the karyotype XO , 2006, Cytogenetic and Genome Research.
[68] G. Dobigny,et al. Robertsonian fusions, pericentromeric repeat organization and evolution: a case study within a highly polymorphic rodent species, Gerbillus nigeriae , 2010, Chromosome Research.
[69] S. Boissinot,et al. Adaptive evolution in LINE-1 retrotransposons. , 2001, Molecular biology and evolution.
[70] S. Boissinot,et al. L1 (LINE-1) retrotransposon diversity differs dramatically between mammals and fish. , 2004, Trends in genetics : TIG.
[71] A. Rambaut,et al. BEAST: Bayesian evolutionary analysis by sampling trees , 2007, BMC Evolutionary Biology.
[72] Fengtang Yang,et al. Chromosomal evolution among leaf-nosed nectarivorous bats – evidence from cross-species chromosome painting (Phyllostomidae, Chiroptera) , 2013, BMC Evolutionary Biology.
[73] Fengtang Yang,et al. Two new cytotypes reinforce that Micronycteris hirsuta Peters, 1869 does not represent a monotypic taxon , 2013, BMC Genetics.
[74] N. Fedoroff,et al. Investigation of the organization of mammalian chromosomes at the DNA sequence level. , 1976, Federation proceedings.
[75] N. Santos,et al. Comparative cytogenetic analysis between Lonchorhina aurita and Trachops cirrhosus (Chiroptera, Phyllostomidae) , 2009, Genetics and molecular biology.
[76] R. O’Neill,et al. The Evolution of Centromeric DNA Sequences , 2014 .