Distribution of 45S rDNA in Modern Rose Cultivars &lt;b&gt;&lt;i&gt;(Rosa hybrida)&lt;/i&gt;&lt;/b&gt;, &lt;b&gt;&lt;i&gt;Rosa rugosa&lt;/i&gt;&lt;/b&gt;, and Their Interspecific Hybrids Revealed by Fluorescence in situ Hybridization

Ding, Xiao-Liu; Xu, Tingliang; Wang, Jing; Luo, Le; Yu, Chao; Dong, G.; Zhang, Qixiang

doi:10.1159/000448063

Cited by 11 publications

(7 citation statements)

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“…In Citrus L. (Rutaceae) and related genera, heteromorphism of chromosomal types is considered to be a reliable indicator of interspecific crosses, where variation in the number and location of CMA positive bands and rDNA sites is related to the fact that most species are apomictic hybrids [ 16 , 31 , 43 – 45 ]. Rapid changes in 35S rDNA loci in response to interspecific or intergeneric hybridization, when comparing to the progenitors, have also been reported in Potamogeton L. (Potamogetonaceae) [ 46 ], Rosa L. (Rosaceae) [ 47 ] and Lolium L. × Festuca L. [ 48 , 49 ] hybrids.…”

Section: Discussionmentioning

confidence: 98%

Karyotype heterogeneity in Philodendron s.l. (Araceae) revealed by chromosome mapping of rDNA loci

Vasconcelos

Ribeiro

et al. 2018

PLoS ONE

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Philodendron s.l. (Araceae) has been recently focus of taxonomic and phylogenetic studies, but karyotypic data are limited to chromosome numbers and a few published genome sizes. In this work, karyotypes of 34 species of Philodendron s.l. (29 species of Philodendron and five of Thaumatophyllum), ranging from 2n = 28 to 36 chromosomes, were analyzed by fluorescence in situ hybridization (FISH) with rDNA and telomeric probes, aiming to understand the evolution of the karyotype diversity of the group. Philodendron presented a high number variation of 35S rDNA, ranging from two to 16 sites, which were mostly in the terminal region of the short arms, with nine species presenting heteromorphisms. In the case of Thaumatophyllum species, we observed a considerably lower variation, which ranged from two to four terminal sites. The distribution of the 5S rDNA clusters was more conserved, with two sites for most species, being preferably located interstitially in the long chromosome arms. For the telomeric probe, while exclusively terminal sites were observed for P. giganteum (2n = 30) chromosomes, P. callosum (2n = 28) presented an interstitial distribution associated with satellite DNA. rDNA sites of the analyzed species of Philodendron s.l. species were randomly distributed considering the phylogenetic context, probably due to rapid evolution and great diversity of these genomes. The observed heteromorphisms suggest the accumulation of repetitive DNA in the genomes of some species and the occurrence of chromosomal rearrangements along the karyotype evolution of the group.

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Section: Discussionmentioning

confidence: 98%

Karyotype heterogeneity in Philodendron s.l. (Araceae) revealed by chromosome mapping of rDNA loci

Vasconcelos

Ribeiro

et al. 2018

PLoS ONE

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“…Somatic metaphase chromosome spreads were prepared from fresh shoot apical meristems of 19 accessions and pretreated according to the methods of Ding et al . 30 . Briefly, fresh young shoot apical meristems were treated with 0.002 M 8-oxyquinoline for 4 h in dark conditions at room temperature, then fixed in freshly prepared ethanol: acetic acid (3: 1, v/v) for 24 h. The shoot apical meristem was isolated, washed 3–5 times with distilled water and enzymatically digested in 2% pectinase plus 4% cellulose at 37 °C for 2–3 h. Subsequently, the samples were squashed with 1–2 drops of 45% acetic acid after 30 min of immersion in distilled water.…”

Section: Methodsmentioning

confidence: 99%

“…Fluorescence in situ hybridization was performed according to the methods described by Ding et al . 30 . Briefly, the slides were pretreated with RNase A for 1 h in a constant temperature humidity chamber at 37 °C, washed in 2 × SSC for 10 min, fixed in 4% paraformaldehyde solution for 10 min and then dehydrated in a −20 °C pre-cooled ethanol series.…”

Section: Methodsmentioning

confidence: 99%

“…Cytogenetic analyses have also been used for taxonomic, evolution and speciation analyses of the genus Rosa 17 – 21 . Despite rDNA-FlSH (fluorescence in situ hybridization) analyses of the genetic relationships among several cultivars and species in the subgenus Rosa 22 – 30 , the physical positions of rDNA have rarely been used in studies of the evolutionary relationships among rose cultivars 31 . Molecular markers and FISH have been combined to analyse the genetic variability of rose cultivars and species 32 .…”

Section: Introductionmentioning

confidence: 99%

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Genetic relationships and evolution of old Chinese garden roses based on SSRs and chromosome diversity

Tan

Wang

Luo

et al. 2017

Sci Rep

Self Cite

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Old Chinese garden roses are the foundation of the modern rose, which is one of the best-selling ornamental plants. However, the horticultural grouping and evolution of old Chinese garden roses are unclear. Simple sequence repeat (SSR) markers were employed to survey genetic diversity in old Chinese garden roses and genetic differentiation was estimated among different rose groups. Fluorescence in situ hybridization was used to study the physical localization of 5 S rDNA genes and a karyotype analysis was performed. The SSR data suggest that old Chinese garden roses could be divided into Old Blush group, Odorata group and Ancient hybrid China group. The Old Blush group had the most primitive karyotype. The Ancient hybrid China group and modern rose had the most evolved karyotypes and the highest genetic diversity. During the evolution of rose cultivars, 5 S rDNA increased in number, partially weakened in signal intensity and exhibited variation in distance from the centromere. In conclusion, rose cultivars evolved from the Old Blush Group to the Odorata group, the Ancient Hybrid China group and the modern rose. This work provides a basis for the collection, identification, conservation and innovation of rose germplasm resources.

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“…These mobilized fragments of rDNA can be thought of newly birthed, rDNA-like repetitive elements. Mobilization of rDNA has been documented using cytogenetic methods in many groups including plants (Raskina et al 2004;Qi et al 2015;Ding et al 2016;Wang et al 2016), fish (Martins et al 2006;Da Silva et al 2012;Symonová et al 2013Symonová et al , 2017, protists (Gong et al 2013), insects (Cabral-de-Mello et al 2010, 2011Nguyen et al 2010;Panzera et al 2012;Palacios-Gimenez and Cabral-de-Mello 2015), bivalves (Pérez-García et al 2014), and mammals (Sotero-Caio et al 2015), and is regarded as strong evidence of rapid rearrangements over short time scales (Jiang and Gill 1994;Raskina et al 2004Raskina et al , 2008. Mobilization of such multicopy gene families into heterochromatic regions is thought to be mediated through processes such as retrotransposon activity (Dimitri et al 1997;Dimitri and Junakovic 1999;Symonová et al 2013;de Bello Cioffi et al 2015) and ectopic recombination (Nguyen et al 2010).…”

Section: Introductionmentioning

confidence: 99%

Repetitive DNA profiles Reveal Evidence of Rapid Genome Evolution and Reflect Species Boundaries in Ground Beetles

Sproul

Barton

Maddison

2020

Preprint

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AbstractGenome architecture is a complex, multidimensional property of an organism defined by the content and spatial organization of the genome’s component parts. Comparative study of entire genome architecture in model organisms is shedding light on mechanisms underlying genome regulation, evolution, and diversification; but such studies require costly analytical approaches which make extensive comparative study impractical for most groups. However, lower-cost methods that measure a single architectural component (e.g., distribution of one class of repeats) have potential as a new data source for evolutionary studies insofar as that measure correlates with more complex biological phenomena, and for which it could serve as part of an explanatory framework. We investigated copy number variation (CNV) profiles in ribosomal DNA (rDNA) as a simple measure reflecting the distribution of rDNA subcomponents across the genome. We find that signatures present in rDNA CNV profiles strongly correlate with species boundaries in the breve species group of Bembidion, and vary across broader taxonomic sampling in Bembidion subgenus Plataphus. Profiles of several species show evidence of re-patterning of rDNA-like sequences throughout the genome, revealing evidence of rapid genome evolution (including among sister pairs) not evident from analysis of traditional data sources such as multi-gene data sets. Major re-patterning of rDNA-like sequences has occurred frequently within the evolutionary history of Plataphus. We confirm that CNV profiles represent an aspect of genomic architecture (i.e., the linear distribution of rDNA components across the genome) via fluorescence in-situ hybridization. In at least one species, novel rDNA-like elements are spread throughout all chromosomes. We discuss the potential of copy number profiles of rDNA, or other repeats, as a low-cost tool for incorporating signal of genomic architecture variation in studies of species delimitation and genome evolution.

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Distribution of 45S rDNA in Modern Rose Cultivars <b><i>(Rosa hybrida)</i></b>, <b><i>Rosa rugosa</i></b>, and Their Interspecific Hybrids Revealed by Fluorescence in situ Hybridization

Cited by 11 publications

References 47 publications

Karyotype heterogeneity in Philodendron s.l. (Araceae) revealed by chromosome mapping of rDNA loci

Karyotype heterogeneity in Philodendron s.l. (Araceae) revealed by chromosome mapping of rDNA loci

Genetic relationships and evolution of old Chinese garden roses based on SSRs and chromosome diversity

Repetitive DNA profiles Reveal Evidence of Rapid Genome Evolution and Reflect Species Boundaries in Ground Beetles

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