Organization of 5S ribosomal DNA of Litchi chinensis Sonn.

Ishchenko, O. O.; Kozub, V. V.; Панчук, І. І.

doi:10.7124/visnyk.utgis.18.1-2.1348

Visn. ukr. tov. genet. sel.

2021

DOI: 10.7124/visnyk.utgis.18.1-2.1348

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Organization of 5S ribosomal DNA of Litchi chinensis Sonn.

O. O. Ishchenko¹,

V. V. Kozub²,

І. І. Панчук³

Abstract: Aim. 5S ribosomal DNA (5S rDNA) represents a universal model for studying the evolution of repeated sequences in eukaryotic organisms. Taking into account that this region of the genome still remains almost undescribed in species of the family Sapindaceae, we investigated the molecular organization of a repeated unit of 5S rDNA in a member of this family, Litchi chinensis. Methods. PCR amplification, cloning and sequencing of 5S rDNA. Results. It was found that the length of the repeated unit of the 5S rDNA of… Show more

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Cited by 2 publications

References 29 publications

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Organization of the 5s Ribosomal Dna Intergenic Spacer of Apamea Monoglypha (Lepidoptera)

Roshka

2023

Biolohichni systemy

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A significant part of the moth species, representatives of the superfamily Noctuoidea distributed on the territory of Ukraine, are pests of crops, which attracts special attention of researchers. In particular, host plants for the larvae of the Apamea species are cereals. For the correct identification of the pest moth speciesit is necessary to conduct molecular genetic studies to create molecular passports (barcoding). One of the convenient molecular markers used to compare low-ranking taxa is the 5S rDNA region represented by tandemly arranged clusters, where each repeat unit consists of a highly conserved coding region and a variable intergenic spacer (IGS). Since the molecular organization of 5S rDNA in moth species is still insufficiently studied, the aim of our work was to analyze the 5S rDNA IGS of A. monoglypha, a representative of the Apamea genus. For this, 5S rDNA repeats were amplified by PCR, and the obtained products were ligated into the pJet1.2 plasmid vector. The inserts of the three recombinant plasmids, ApMon1-1, ApMon1-2, and ApMon1-8, which were of the expected size, were sequenced. It was found that the A. monoglypha genome contains several structural IGS variants that differ both in length and nucleotide sequence. The level of similarity of the compared IGS sequences varied from 38.0 to 76.2%, indicating a high level of intragenomic polymorphism in this region. An AT-rich motif, a GC dinucleotide, and a cytosine residue up-stream of the coding region were identified as putative external promoter elements, which can be involved in the initiation of transcription. Furthermore, the oligo-T motif located immediately down-stream of the coding region is probably involved in the transcription termination.

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Organization of the 5s Ribosomal Dna Intergenic Spacer of Apamea Monoglypha (Lepidoptera)

Roshka

2023

Biolohichni systemy

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Organization and polymorphysm of 5S rDNA intergenic spacer of blackthorn (Prunus spinosa L.)

Tynkevich¹,

Kozub²,

Волков³

2021

Visn. ukr. tov. genet. sel.

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Aim. The 5S rDNA repeated units consist of conserved regions encoding 5S rRNA and variable intergenic spacers (IGS). The IGS sequences are commonly used as molecular markers for low-ranking phylogenetic, phylogeographical and microevolutionary studies. However, this genomic region still remains undescribed for the waist majority of genera in the Rosaceae family. Here we present the first report of the IGS molecular organization and polymorphism for the widespread member of the Rosaceae family, Prunus spinosa. Methods. PCR amplification, cloning and sequencing of 5S rDNA, bioinformatics analysis. Results. The 5SrDNA IGS of P. spinosa was cloned sequenced and compared with the IGS of three other representatives of the genus Prunus. It was found that the IGS variants present in the genome of P. spinosa differ by the number of subrepeats located at the 5’end. Each of these subrepeats contain RNA Pol III transcription termination signal. The IGS sequences of Prunus species evolved mainly by accumulation of nucleotide substitutions. The level of intragenomic similarity of P. spinosa IGS is 96.5-100%, while the similarity between the IGS of different Prunus species ranges from 73.0 to 87.3%. Conclusions. The IGS of 5S rDNA represents a useful marker for phylogenetic and taxonomic studies in the genus Prunus.Keywords: 5S rDNA, molecular evolution, Prunus spinosa.

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Organization of 5S ribosomal DNA of Litchi chinensis Sonn.

Cited by 2 publications

References 29 publications

Organization of the 5s Ribosomal Dna Intergenic Spacer of Apamea Monoglypha (Lepidoptera)

Organization of the 5s Ribosomal Dna Intergenic Spacer of Apamea Monoglypha (Lepidoptera)

Organization and polymorphysm of 5S rDNA intergenic spacer of blackthorn (Prunus spinosa L.)

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