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D’Aiuto, Leonardo; Barsanti, Paolop; Mauro, Sonia Di; Cserpán, Imre; Lanave, Cecilia; Ciccarese, Salvatrice

doi:10.1023/a:1018444325085

Cited by 19 publications

(5 citation statements)

References 17 publications

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“…BovB-LINE1 constituted a major fraction of the LINE retrotransposons, consistent with the expansion of these elements during the evolution of the Bovidae (Szemraj et al 1995; Adelson et al 2009; Nilsson et al 2012). We also found that approximately 536 Mb of the genome was composed of an 804 bp bovine-specific satellite DNA, which is usually located in the centromeric and pericentric regions of chromosomes (D’Aiuto et al 1997; Kopecna et al 2014).…”

Section: Resultsmentioning

confidence: 83%

Whole Genome Sequencing and Re-sequencing of the Sable Antelope (Hippotragus niger): A Resource for Monitoring Diversity inex Situandin SituPopulations

Koepfli

Tamazian

Wildt

et al. 2019

G3 Genes|Genomes|Genetics

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Genome-wide assessment of genetic diversity has the potential to increase the ability to understand admixture, inbreeding, kinship and erosion of genetic diversity affecting both captive ( ex situ ) and wild ( in situ ) populations of threatened species. The sable antelope ( Hippotragus niger ), native to the savannah woodlands of sub-Saharan Africa, is a species that is being managed ex situ in both public (zoo) and private (ranch) collections in the United States. Our objective was to develop whole genome sequence resources that will serve as a foundation for characterizing the genetic status of ex situ populations of sable antelope relative to populations in the wild. Here we report the draft genome assembly of a male sable antelope, a member of the subfamily Hippotraginae (Bovidae, Cetartiodactyla, Mammalia). The 2.596 Gb draft genome consists of 136,528 contigs with an N50 of 45.5 Kbp and 16,927 scaffolds with an N50 of 4.59 Mbp. De novo annotation identified 18,828 protein-coding genes and repetitive sequences encompassing 46.97% of the genome. The discovery of single nucleotide variants (SNVs) was assisted by the re-sequencing of seven additional captive and wild individuals, representing two different subspecies, leading to the identification of 1,987,710 bi-allelic SNVs. Assembly of the mitochondrial genomes revealed that each individual was defined by a unique haplotype and these data were used to infer the mitochondrial gene tree relative to other hippotragine species. The sable antelope genome constitutes a valuable resource for assessing genome-wide diversity and evolutionary potential, thereby facilitating long-term conservation of this charismatic species.

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Section: Resultsmentioning

confidence: 83%

Whole Genome Sequencing and Re-sequencing of the Sable Antelope (Hippotragus niger): A Resource for Monitoring Diversity inex Situandin SituPopulations

Koepfli

Tamazian

Wildt

et al. 2019

G3 Genes|Genomes|Genetics

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“…DNA satellite I is located mainly at or near centromeres ( D'Aiuto et al ., 1997 ). As expected, sequences were detected on every acrocentric autosome.…”

Section: Discussionmentioning

confidence: 99%

“…A significant portion of eukaryotic genomes is represented by repeated sequences, among which a large fraction includes sequences repeated in tandem, known as satellite DNAs (for a review, see Plohl et al ., 2008 ), often located at or near the centromeres ( D'Aiuto et al ., 1997 ). A typical satellite DNA is composed of thousands of monomeric units, arrayed in tandem in head-to-tail configuration and located in constitutive heterochromatin ( Plohl et al ., 2008 ).…”

Section: Introductionmentioning

confidence: 99%

Evolution of satellite DNA sequences in two tribes of Bovidae: A cautionary tale

et al. 2015

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Two clones, Bt1 from Bos taurus and Om1 from Ovis orientalis musimon, were used as probes for hybridization on genomic DNA and on metaphase chromosomes in members of Bovini and Caprini tribes. Bt1 and Om1 are sequences respectively belonging to the 1.715 and 1.714 DNA satellite I families. Southern blots and fluorescence in situ hybridization experiments showed completely coherent results: the Bovini probe Bt1 hybridized only to members of the Bovini tribe and not to members of Caprini. Likewise, the Caprini probe Om1 hybridized only to members of the Caprini tribe and not to members of Bovini. Hybridization signals were detected in the heterochromatic regions of every acrocentric autosome, except for two pairs of autosomes from Capra hircus that did not show hybridization to probe Om1. No signal was detected on X and Y chromosomes or on bi-armed autosomes. Remarkably, probe Om1 showed almost 100% homology with a bacterial sequence reported in Helicobacter pylori.

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“…The cenDNA probe, on the other hand, hybridized to the region between satI and satII domains. The distribution of satellite DNA into separate domains has www.nature.com/scientificreports/ been previously described among others, in sheep, Kirk's dik-dik and dama gazelle [39][40][41] and more broadly within the Bovinae 26 .…”

Section: Resultsmentioning

confidence: 74%

Chromosomal evolution in Raphicerus antelope suggests divergent X chromosomes may drive speciation through females, rather than males, contrary to Haldane's rule

Robinson

Černohorská

Kubı́čková

et al. 2021

Sci Rep

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Chromosome structural change has long been considered important in the evolution of post-zygotic reproductive isolation. The premise that karyotypic variation can serve as a possible barrier to gene flow is founded on the expectation that heterozygotes for structurally distinct chromosomal forms would be partially sterile (negatively heterotic) or show reduced recombination. We report the outcome of a detailed comparative molecular cytogenetic study of three antelope species, genus Raphicerus, that have undergone a rapid radiation. The species are largely conserved with respect to their euchromatic regions but the X chromosomes, in marked contrast, show distinct patterns of heterochromatic amplification and localization of repeats that have occurred independently in each lineage. We argue a novel hypothesis that postulates that the expansion of heterochromatic blocks in the homogametic sex can, with certain conditions, contribute to post-zygotic isolation. i.e., female hybrid incompatibility, the converse of Haldane’s rule. This is based on the expectation that hybrids incur a selective disadvantage due to impaired meiosis resulting from the meiotic checkpoint network’s surveillance of the asymmetric expansions of heterochromatic blocks in the homogametic sex. Asynapsis of these heterochromatic regions would result in meiotic silencing of unsynapsed chromatin and, if this persists, germline apoptosis and female infertility.

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Cited by 19 publications

References 17 publications

Whole Genome Sequencing and Re-sequencing of the Sable Antelope (Hippotragus niger): A Resource for Monitoring Diversity inex Situandin SituPopulations

Whole Genome Sequencing and Re-sequencing of the Sable Antelope (Hippotragus niger): A Resource for Monitoring Diversity inex Situandin SituPopulations

Evolution of satellite DNA sequences in two tribes of Bovidae: A cautionary tale

Chromosomal evolution in Raphicerus antelope suggests divergent X chromosomes may drive speciation through females, rather than males, contrary to Haldane's rule

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