scholarly journals Deciphering Ancestral Sex Chromosome Turnovers Based on Analysis of Male Mutation Bias

2019 ◽  
Vol 11 (11) ◽  
pp. 3054-3067 ◽  
Author(s):  
Armando Acosta ◽  
Mónica L Martínez-Pacheco ◽  
Karina Díaz-Barba ◽  
Niccole Porras ◽  
Mariana Gutiérrez-Mariscal ◽  
...  
Keyword(s):  
Sex Chromosomes ◽  
Sex Chromosome ◽  
Same Sex ◽  
Mutation Bias ◽  
Substitution Rates ◽  
Transcriptomic Data ◽  
Phylogenetic Reconstructions ◽  
Sex Chromosome System ◽  
Male Mutation Bias

Abstract The age of sex chromosomes is commonly obtained by comparing the substitution rates of XY gametologs. Coupled with phylogenetic reconstructions, one can refine the origin of a sex chromosome system relative to specific speciation events. However, these approaches are insufficient to determine the presence and duration of ancestral sex chromosome systems that were lost in some species. In this study, we worked with genomic and transcriptomic data from mammals and squamates and analyzed the effect of male mutation bias on X-linked sequences in these groups. We searched for signatures indicating whether monotremes shared the same sex chromosomes with placental mammals or whether pleurodonts and acrodonts had a common ancestral sex chromosome system. Our analyses indicate that platypus did not share the XY chromosomes with placental mammals, in agreement with previous work. In contrast, analyses of agamids showed that this lineage maintained the pleurodont XY chromosomes for several million years. We performed multiple simulations using different strengths of male mutation bias to confirm the results. Overall, our work shows that variations in substitution rates due to male mutation bias could be applied to uncover signatures of ancestral sex chromosome systems.

scholarly journals Evolution of a Multiple Sex-Chromosome System by Three-Sequential Translocations among Potential Sex-Chromosomes in the Taiwanese Frog Odorrana swinhoana

Cells ◽  
2021 ◽  
Vol 10 (3) ◽  
pp. 661
Author(s):  
Ikuo Miura ◽  
Foyez Shams ◽  
Si-Min Lin ◽  
Marcelo de Bello Cioffi ◽  
Thomas Liehr ◽  
...  
Keyword(s):  
Sex Chromosomes ◽  
Rare Case ◽  
Sex Chromosome ◽  
Sex Chromosome System ◽  
Brown Frog ◽  
Male Specific

Translocation between sex-chromosomes and autosomes generates multiple sex-chromosome systems. It happens unexpectedly, and therefore, the evolutionary meaning is not clear. The current study shows a multiple sex chromosome system comprising three different chromosome pairs in a Taiwanese brown frog (Odorrana swinhoana). The male-specific three translocations created a system of six sex-chromosomes, ♂X1Y1X2Y2X3Y3 -♀X1X1X2X2X3X3. It is unique in that the translocations occurred among three out of the six members of potential sex-determining chromosomes, which are known to be involved in sex-chromosome turnover in frogs, and the two out of three include orthologs of the sex-determining genes in mammals, birds and fishes. This rare case suggests sex-specific, nonrandom translocations and thus provides a new viewpoint for the evolutionary meaning of the multiple sex chromosome system.

scholarly journals Male Mutation Bias Is the Main Force Shaping Chromosomal Substitution Rates in Monotreme Mammals

2017 ◽  
Vol 9 (9) ◽  
pp. 2198-2210 ◽  
Author(s):  
Vivian Link ◽  
Diana Aguilar-Gómez ◽  
Ciro Ramírez-Suástegui ◽  
Laurence D. Hurst ◽  
Diego Cortez
Keyword(s):  
Mutation Bias ◽  
Substitution Rates ◽  
Male Mutation Bias

scholarly journals A new sympatric region for distinct karyotypic forms of Hoplias malabaricus (Pisces, Erythrinidae)

2006 ◽  
Vol 66 (1b) ◽  
pp. 205-210 ◽  
Author(s):  
G. G. Born ◽  
L. A. C. Bertollo
Keyword(s):  
Sex Difference ◽  
Sex Chromosomes ◽  
Diploid Number ◽  
Sex Chromosome ◽  
Minas Gerais ◽  
Female Specimen ◽  
Male Specimen ◽  
Hoplias Malabaricus ◽  
Sex Chromosome System ◽  
Sympatric Cytotypes

Specimens of Hoplias malabaricus from Lagoa Carioca, an isolated lake of the Rio Doce State Park (state of Minas Gerais, Brazil), were cytogenetically studied. The diploid number was found to be constant, i.e., 2n = 42 chromosomes, although two karyotypic forms were found: karyotype A, characterized by 22M + 20SM chromosomes, observed only in a male specimen, and karyotype B, characterized by 24M + 16SM + 2ST and 24M + 17SM + 1ST chromosomes in female and male specimens, respectively. This sex difference found in karyotype B is related to an XX/XY sex chromosome system. Another female specimen of H. malabaricus, also carrying karyotype A, had previously been found in the same lake. The available data indicate that two sympatric cytotypes of H. malabaricus exist in the Lagoa Carioca, with cytotype A occurring at a lower frequency and differing from cytotype B by undifferentiated sex chromosomes.

scholarly journals The probability of fusions joining sex chromosomes and autosomes

2020 ◽  
Vol 16 (11) ◽  
pp. 20200648
Author(s):  
Nathan W. Anderson ◽  
Carl E. Hjelmen ◽  
Heath Blackmon
Keyword(s):  
Sex Chromosomes ◽  
Sex Chromosome ◽  
Null Model ◽  
Closed Form Expression ◽  
Sexual Antagonism ◽  
Form Expression ◽  
Chromosome Fusion ◽  
Sex Chromosome System ◽  
Males And Females ◽  
Heterogametic Sex

Chromosome fusion and fission are primary mechanisms of karyotype evolution. In particular, the fusion of a sex chromosome and an autosome has been proposed as a mechanism to resolve intralocus sexual antagonism. If sexual antagonism is common throughout the genome, we should expect to see an excess of fusions that join sex chromosomes and autosomes. Here, we present a null model that provides the probability of a sex chromosome autosome fusion, assuming all chromosomes have an equal probability of being involved in a fusion. This closed-form expression is applicable to both male and female heterogametic sex chromosome systems and can accommodate unequal proportions of fusions originating in males and females. We find that over 25% of all chromosomal fusions are expected to join a sex chromosome and an autosome whenever the diploid autosome count is fewer than 16, regardless of the sex chromosome system. We also demonstrate the utility of our model by analysing two contrasting empirical datasets: one from Drosophila and one from the jumping spider genus Habronattus . We find that in the case of Habronattus , there is a significant excess of sex chromosome autosome fusions but that in Drosophila there are far fewer sex chromosome autosome fusions than would be expected under our null model.

Heteromorphic Sex Chromosomes and Their DNA Content in Fish: An Insight through Satellite DNA Accumulation in Megaleporinus elongatus

2020 ◽  
Vol 160 (1) ◽  
pp. 38-46 ◽  
Author(s):  
Carolina Crepaldi ◽  
Patricia P. Parise-Maltempi
Keyword(s):  
Sex Chromosomes ◽  
Dna Content ◽  
Satellite Dna ◽  
Sex Chromosome ◽  
Neotropical Fish ◽  
High Throughput Analysis ◽  
Multiple Sex Chromosomes ◽  
Heteromorphic Sex Chromosomes ◽  
Sex Chromosome System ◽  
Graph Based Clustering

The repetitive DNA content of fish sex chromosomes provides valuable insights into specificities and patterns of their genetic sex determination systems. In this study, we revealed the genomic satellite DNA (satDNA) content of Megaleporinuselongatus, a Neotropical fish species with Z1Z1Z2Z2/Z1W1Z2W2 multiple sex chromosomes, through high-throughput analysis and graph-based clustering, isolating 68 satDNA families. By physically mapping these sequences in female metaphases, we discovered 15 of the most abundant satDNAs clustered in its chromosomes, 9 of which were found exclusively in the highly heterochromatic W1. This heteromorphic sex chromosome showed the highest amount of satDNA accumulations in this species. The second most abundant family, MelSat02-26, shared FISH signals with the NOR-bearing pair in similar patterns and is linked to the multiple sex chromosome system. Our results demonstrate the diverse satDNA content in M. elongatus, especially in its heteromorphic sex chromosome. Additionally, we highlighted the different accumulation patterns and distribution of these sequences across species by physically mapping these satDNAs in other Anostomidae, Megaleporinusmacrocephalus and Leporinusfriderici (a species without differentiated sex chromosomes).

scholarly journals Chromosome fusions shape an ancient UV sex chromosome system

2020 ◽  
Author(s):  
Sarah B. Carey ◽  
Jerry Jenkins ◽  
Adam C. Payton ◽  
Shenqiang Shu ◽  
John T. Lovell ◽  
...  
Keyword(s):  
Gene Regulatory Networks ◽  
Sex Chromosomes ◽  
Regulatory Networks ◽  
Sex Chromosome ◽  
Structural Complexity ◽  
Sex Chromosome System ◽  
Chromosome Fusions ◽  
Gene Regulatory ◽  
Suppressed Recombination ◽  
Reference Genomes

AbstractSex chromosomes occur in diverse organisms, but their structural complexity has often prevented evolutionary analyses. Here we use two chromosome-scale reference genomes of the moss Ceratodon purpureus to trace the evolution of the sex chromosomes in bryophytes. Comparative analyses show the moss genome comprises seven remarkably stable ancestral chromosomal elements. An exception is the sex chromosomes, which share thousands of broadly-expressed genes but lack any synteny. We show the sex chromosomes evolved over 300 million years ago and expanded via at least two distinct chromosomal fusions. These results link suppressed recombination between the sex chromosomes with rapid structural change and the evolution of distinct transposable element compositions, and suggest haploid gene expression promotes the evolution of independent female and male gene-regulatory networks.One Sentence SummaryMoss sex chromosomes retain thousands of broadly-expressed genes despite millions of years of suppressed recombination.

scholarly journals Seed sexing revealed female bias in two Rumex species

2011 ◽  
Vol 80 (2) ◽  
pp. 93-97 ◽  
Author(s):  
Dagmara Kwolek ◽  
Andrzej J. Joachimiak
Keyword(s):  
Sex Ratio ◽  
Sex Chromosomes ◽  
Dna Markers ◽  
Sex Chromosome ◽  
Sex Ratios ◽  
Ratio Bias ◽  
Sex Ratio Bias ◽  
Y Chromosomes ◽  
Sex Chromosome System ◽  
Female Bias

Sex-ratio bias in seeds of dioecious <em>Rumex</em> species with sex chromosomes is an interesting and still unsettled issue. To resolve gender among seeds of <em>R. acetosa</em> and <em>R. thyrsiflorus</em> (two species with an XX/XY1Y2 sex chromosome system), this work applied a PCR-based method involving DNA markers located on Y chromosomes. Both species showed female-biased primary sex ratios, with female bias greater in <em>R. acetosa</em> than in <em>R. thyrsiflorus</em>. The observed predominance of female seeds is consistent with the view that the female biased sex ratios in <em>Rumex </em>are conditioned not only postzygotically but also prezygotically.

scholarly journals Extreme heterogeneity in sex chromosome differentiation and dosage compensation in livebearers

2019 ◽  
Author(s):  
Iulia Darolti ◽  
Alison E. Wright ◽  
Benjamin A. Sandkam ◽  
Jake Morris ◽  
Natasha I. Bloch ◽  
...  
Keyword(s):  
Y Chromosome ◽  
Dosage Compensation ◽  
Sex Chromosomes ◽  
Poecilia Reticulata ◽  
Sex Chromosome ◽  
Sequencing Data ◽  
Chromosome Differentiation ◽  
Shared Ancestry ◽  
Sex Chromosome System ◽  
Suppressed Recombination

ABSTRACTOnce recombination is halted between the X and Y chromosome, sex chromosomes begin to differentiate and transition to heteromorphism. While there is a remarkable variation across clades in the degree of sex chromosome divergence, far less is known about variation in sex chromosome differentiation within clades. Here, we combined whole genome and transcriptome sequencing data to characterise the structure and conservation of sex chromosome systems across Poeciliidae, the livebearing clade that includes guppies. We found that the Poecilia reticulata XY system is much older than previously thought, being shared not only with its sister species, Poecilia wingei, but also with Poecilia picta, which diverged 30 mya. Despite the shared ancestry, we uncovered an extreme heterogeneity across these species in the proportion of the sex chromosome with suppressed recombination, and the degree of Y chromosome decay. The sex chromosomes in P. reticulata are largely homomorphic, with recombination persisting over a substantial fraction. However, the sex chromosomes in P. picta are completely non-recombining and strikingly heteromorphic. ln addition to being highly divergent, the sex chromosome system in P. picta includes a neo-sex chromosome, the result of a fusion between the ancestral sex chromosome and part of chromosome 7. Remarkably, the profound degradation of the ancestral Y chromosome in P. picta is counterbalanced by the evolution of complete dosage compensation in this species, the first such documented case in teleost fish. Our results offer important insight into the initial stages of sex chromosome evolution and dosage compensation.

scholarly journals Guppy Y Chromosome Integrity Maintained by Incomplete Recombination Suppression

2020 ◽  
Vol 12 (6) ◽  
pp. 965-977 ◽  
Author(s):  
Iulia Darolti ◽  
Alison E Wright ◽  
Judith E Mank
Keyword(s):  
Y Chromosome ◽  
X Chromosome ◽  
Sex Chromosomes ◽  
Poecilia Reticulata ◽  
Sex Chromosome ◽  
Rna Seq ◽  
Recombination Suppression ◽  
Sex Chromosome System ◽  
Chromosome Integrity ◽  
Heterogametic Sex

Abstract The loss of recombination triggers divergence between the sex chromosomes and promotes degeneration of the sex-limited chromosome. Several livebearers within the genus Poecilia share a male-heterogametic sex chromosome system that is roughly 20 Myr old, with extreme variation in the degree of Y chromosome divergence. In Poecilia picta, the Y is highly degenerate and associated with complete X chromosome dosage compensation. In contrast, although recombination is restricted across almost the entire length of the sex chromosomes in Poecilia reticulata and Poecilia wingei, divergence between the X chromosome and the Y chromosome is very low. This clade therefore offers a unique opportunity to study the forces that accelerate or hinder sex chromosome divergence. We used RNA-seq data from multiple families of both P. reticulata and P. wingei, the species with low levels of sex chromosome divergence, to differentiate X and Y coding sequences based on sex-limited SNP inheritance. Phylogenetic tree analyses reveal that occasional recombination has persisted between the sex chromosomes for much of their length, as X- and Y-linked sequences cluster by species instead of by gametolog. This incomplete recombination suppression maintains the extensive homomorphy observed in these systems. In addition, we see differences between the previously identified strata in the phylogenetic clustering of X–Y orthologs, with those that cluster by chromosome located in the older stratum, the region previously associated with the sex-determining locus. However, recombination arrest appears to have expanded throughout the sex chromosomes more gradually instead of through a stepwise process associated with inversions.

Great Abundance of Satellite DNA in Proceratophrys (Anura, Odontophrynidae) Revealed by Genome Sequencing

2020 ◽  
Vol 160 (3) ◽  
pp. 141-147 ◽  
Author(s):  
Marcelo J. da Silva ◽  
Raquel Fogarin Destro ◽  
Thiago Gazoni ◽  
Hideki Narimatsu ◽  
Paulo S. Pereira dos Santos ◽  
...  
Keyword(s):  
Repetitive Dna ◽  
Sex Chromosomes ◽  
Dna Sequences ◽  
Satellite Dna ◽  
Sex Chromosome ◽  
Repetitive Sequences ◽  
Centromere Function ◽  
Sex Chromosome System ◽  
First Time ◽  
Eukaryotic Genomes

Most eukaryotic genomes contain substantial portions of repetitive DNA sequences. These are located primarily in highly compacted heterochromatin and, in many cases, are one of the most abundant components of the sex chromosomes. In this sense, the anuran Proceratophrys boiei represents an interesting model for analyses on repetitive sequences by means of cytogenetic techniques, since it has a karyotype with large blocks of heterochromatin and a ZZ/ZW sex chromosome system. The present study describes, for the first time, families of satellite DNA (satDNA) in the frog P. boiei. Its genome size was estimated at 1.6 Gb, of which 41% correspond to repetitive sequences, including satDNAs, rDNAs, transposable elements, and other elements characterized as non-repetitive. The satDNAs were mapped by FISH in the centromeric and pericentromeric regions of all chromosomes, suggesting a possible involvement of these sequences in centromere function. SatDNAs are also present in the W sex chromosome, occupying the entire heterochromatic area, indicating a probable contribution of this class of repetitive DNA to the differentiation of the sex chromosomes in this species. This study is a valuable contribution to the existing knowledge on repetitive sequences in amphibians. We show the presence of repetitive DNAs, especially satDNAs, in the genome of P. boiei that might be of relevance in genome organization and regulation, setting the stage for a deeper functional genome analysis of Proceratophrys.

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