High diversity of 5S ribosomal DNA and evidence of recombination with the satellite DNA PcP190 in frogs

Targueta, Cíntia Pelegrineti; Gatto, Kaleb Pretto; Vittorazzi, Stenio Eder; Recco‐Pimentel, Shirlei Maria; Lourenço, Luciana Bolsoni

doi:10.1016/j.gene.2022.147015

Cited by 4 publications

(4 citation statements)

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“…For example, in the plant Plantago lagopus , PLsatB satDNA includes sequence parts which correspond with 5SrRNA and NTS fragments [ 29 ]. A similar process probably produced PcP190 satDNA in frogs, which is derived from the 5S rDNA and NTS [ 5 ]. In contrast to these examples, in T. freemani NTS sequences themselves show satDNA features forming tandemly arranged arrays in 5S rRNA clusters.…”

Section: Discussionmentioning

confidence: 99%

“…For example, single copies of the 5S rDNA are found inserted into 45S rDNA intergenic spacers in the genomes of some fishes [ 4 ]. Several studies on the organization and molecular evolution of 5S rDNA have reported association of 5S rRNA genes with satellite DNAs (satDNAs) [ 5 , 6 ]. SatDNAs are the most abundant and rapidly evolving noncoding DNAs of all eukaryotic genomes.…”

Section: Introductionmentioning

confidence: 99%

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The Genome Organization of 5S rRNA Genes in the Model Organism Tribolium castaneum and Its Sibling Species Tribolium freemani

Volarić,

Despot-Slade,

Veseljak

et al. 2024

Genes

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5S ribosomal DNAs (rDNAs) are arranged in tandem and are often under-represented in genome assemblies. In the present study, we performed a global and in-depth analysis of the 5S rDNAs in the model insect Tribolium castaneum and its closely related species Tribolium freemani. To accomplish this goal, we used our recently published genome assemblies based on Nanopore and PacBio long-read sequencing. Although these closely related species share the 5S rRNA gene sequence with high homology, they show a different organization of the 5S rDNA locus. Analysis of 5S rDNA arrays in T. castaneum revealed a typical tandemly repeated organization characterized by repeat units consisting of the 121 bp long 5S rRNA gene and the 71 bp long nontranscribed spacer (NTS). In contrast, T. freemani showed a much more complex organization of 5S rDNA arrays characterized by two patterns. The first is based on the association of 5S rRNA gene with arrays of a satellite DNA, representing the NTS sequence of the 5S rDNA genes in T. freemani. The second, more complex type is characterized by a somewhat less frequent occurrence of the 5S rRNA gene and its association with longer satellite DNA arrays that are regularly interrupted by Jockey-like retrotransposons. This organization, in which the ribosomal gene is associated with two completely different repetitive elements such as satellite DNAs and retrotransposons, suggests that the 5S rRNA gene, regardless of its crucial function in the genome, could be a subject of extremely dynamic genomic rearrangements.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

The Genome Organization of 5S rRNA Genes in the Model Organism Tribolium castaneum and Its Sibling Species Tribolium freemani

Volarić,

Despot-Slade,

Veseljak

et al. 2024

Genes

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“…Because of this recombination suppression, chromosome Y or W may undergo degeneration, which involves the loss of genes and the accumulation of repetitive DNA, leading to highly heteromorphic sex chromosomes (Charlesworth et al, 2005;Ellegren, 2011;Schartl et al, 2016). Among anurans, only 52 (review in Targueta et al, 2018;Ferro et al, 2018;Gazoni et al, 2018) of the karyotyped species show heteromorphic sex chromosomes, while most species possess homomorphic sex chromosomes, which are not differentiated by classical cytogenetic techniques. In this order of amphibians, an interesting case is observed in the genus Pseudis, in which species with different levels of sex chromosome differentiation are present.…”

Section: Introductionmentioning

confidence: 99%

“…Em anuros a ocorrência de cromossomos sexuais heteromórficos é limitada, sendo que apenas 52 das espécies de anuros já estudadas citogeneticamente possuem cromossomos sexuais heteromórficos, enquanto a maioria das espécies apresenta cromossomos sexuais homomórficos (revisão em Targueta et al, 2018;Gazoni et al, 2018;Ferro et al, 2018). A prevalência de cromossomos sexuais homomórficos pode ser explicada por uma alta taxa de transição entre sistemas de determinação de sexo que não permitiria a ocorrência da degeneração do cromossomo Y/W e o estabelecimento de cromossomos sexuais heteromórficos (Evans et al, 2012).…”

Section: Introductionunclassified

Comparative molecular cytogenetics of genus Pseudis (Anura, Hylidae) and genomic analysis of the sex chromosomes of Pseudis tocantins

Gatto¹

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Família/Espécies Cromossomos sexuais Sistema Heteromorfismo Referências Alsodidade Eupsophus insularis XX/XY ic, pbc Cuevas e Formas 1996 Eupsophus migueli XX/XY ic, pbc Iturra e Veloso 1989 Eupsophus roseus XX/XY pbc Iturra e Veloso 1989 Bufonidae Bufotes viridis ZZ/ZW pbr Odierna et al. 2007 Rhinella marina ZZ/ZW tc (Z < W), CGH Abramyan et al. 2009 Centrolenidae Vitreorana antisthenesi XX/XY ic, pbc Schmid et al. 1989 Craugastoridae Pristimantis euphronides ZZ/ZW tc (Z < W), ic, pbc Schmid et al. 2002c Pristimantis shrevei ZZ/ZW tc (Z < W), ic, pbc Schmid et al. 2002c Pristimantis pulvinatus XXAA/XYAA ou XAA Y tc (X < Y), ic Schmid et al. 2010 Pristimantis riveroi XXAA/XYAA ou XAA Y tc (X < Y), ic Schmid et al. 2003 Pristimantis sp. nov. H XXAA/XYAA ou XAA Y tc, ic, pbc, pn Schmid et al. 2010 Strabomantis biporcatus XXAA/XYAA ou XAA Y tc (X < Y), ic Schmid et al. 1992, 2002a Discroglossidae Haplobatrachus tigerinus ZZ/ZW pbc Saba e Tripathi 2014 Fejervarya limnocharis XX/XY tc, ic Patawang et al. 2014 Eleutherodactylidae Eleutherodactylus albipes ZZ/ZW tc (Z < W), pbc Schmid et al. 2010 Eleutherodactylus casparii ZZ/ZW tc (Z < W), pbc Schmid et al. 2010 Eleutherodactylus cuneatus ZZ/ZW tc (Z < W), ic, pbc Schmid et al. 2010 Eleutherodactylus emiliae ZZ/ZW tc (Z < W), pbc Schmid et al. 2010 Eleutherodactylus glamyrus ZZ/ZW tc (Z < W), ic, pbc Schmid et al. 2010 Eleutherodactylus turquinensis ZZ/ZW tc (Z < W), ic, pbc Schmid et al. 2010 Eleutherodactylus sp. nov. G ZZ/ZW tc (Z < W), pbc Schmid et al. 2010 Eleutherodactylus johnstonei XX/XY ic Schmid et al. 2010 Eleutherodactylus oxyrhyncus XX/XY tc (Z < W), pbc Schmid et al. 2010 Eleutherodactylus cavernicola XXAA/XYAA ou XAA Y tc (Z < W), ic, pbc Schmid et al. 2010 Hemiphractidae Gastrotheca ovifera XX/XY tc (X > Y), pbc Schmid et al. 1988, 2002b Gastrotheca peruana XX/XY ic, pbc Schmid et al. 2012 Gastrotheca pseutes XX/XY pbc Schmid et al. 1990 Gastrotheca riobambae XX/XY tc (X < Y), pbc, pn Schmid et al. 1983, 1986, 1988, 2002b Gastrotheca walkeri XX/XY tc (X > Y), pbc Schmid et al. 1988, 2002b Hylidae Hyla femoralis XX/XY pn Schmid e Steinlein 2003 Hyloscirtus alytolylax XX/XY tc (X > Y), pbc Ferro et al. 2018 Pseudis tocantins ZZ/ZW tc (Z < W), ic, pbc, pn Busin et al. 2008 Leiopelmatidae Leiopelma archeyi ZZ/ZW tc (Z < W), ic, pbc Green 2002 Leiopelma hamiltoni ZZ/ZW tc (Z < W), pbc Green 1988 a Leiopelma hochstetteri 00/0W snu Green 1988 b Leptodactylidae Engystomops coloradorum ZZ/ZW pn Targueta et al. 2011 Engystomops freibergi XX/XY tc (X > Y), ic, pbc Targueta et al. 2010 Engystomops petersi XX/XY tc (X > Y), ic, pbc Targueta et al. 2010 Physalaemus albifrons KM361694.1 -KM361698.1 Physalaemus albonotatus KM361689.1 -KM361693.1 Physalaemus cuvieri JF281109 -JF281125 and KM361673.1 -KM361683.1 Physalaemus centralis KM361684.1 -KM361688.1 Physalaemus ephippifer KM361699.1 and KM361700.1 Physalaemus marmoratus KM361701.1 -KM361706.1 Leptodactylus latrans KM361718.1 -KM361724.1 Crossocadctylus gaudichaudii KM361725.1 and KM361726.1

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The Taxonomic Status of Physalaemus cuqui Lobo, 1993, with the Description of a New Species of Physalaemus (Anura: Leptodactylidae) from Argentina and Paraguay

Cardozo,

Tomatis,

Duport Bru

et al. 2023

Herpetological Monographs

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High diversity of 5S ribosomal DNA and evidence of recombination with the satellite DNA PcP190 in frogs

Cited by 4 publications

References 63 publications

The Genome Organization of 5S rRNA Genes in the Model Organism Tribolium castaneum and Its Sibling Species Tribolium freemani

The Genome Organization of 5S rRNA Genes in the Model Organism Tribolium castaneum and Its Sibling Species Tribolium freemani

Comparative molecular cytogenetics of genus Pseudis (Anura, Hylidae) and genomic analysis of the sex chromosomes of Pseudis tocantins

The Taxonomic Status of Physalaemus cuqui Lobo, 1993, with the Description of a New Species of Physalaemus (Anura: Leptodactylidae) from Argentina and Paraguay

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