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

Tynkevich, Y. O.; Kozub, Liudmyla V.; Волков, Р. А.

doi:10.7124/visnyk.utgis.19.1-2.1439

Cited by 4 publications

(2 citation statements)

References 38 publications

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“…Рівень подібності ділянки psbA-trnH між видами Aconitum та представниками інших родів складав 85,5-89,1 % для D. anthriscifolium та 71,4 %-77,3 % G. gymnandrum. Загалом цей показник для Aconitum знаходиться в межах, типових для інших родів покритонасінних рослин [25], але є суттєво вищим, порівняно з ядерними маркерами, які використовуються для таксонів низького рангу, зокрема IGS 5S рДНК [26,27,28,29,30] та ITS 35S рДНК [31,32,33].…”

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Utility of the trnH–psbA region for DNA barcoding of Aconitum anthora L. and related taxa

Tynkevich¹,

Biliay²,

Волков³

2022

Fakt. eksp. evol. org.

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Aim. The genus Aconitum is represented in the Carpathian region by a significant number of endemic species. Some of these species, in particular A. pseudanthora and A. jacquinii, are included in the Red List of Ukraine. However, their taxonomic status and consequently the importance of conserving their natural resources remain uncertain. DNA barcoding techniques, e.g., the application of molecular markers based on variable regions of the chloroplast genome can help clarify these questions. Methods. DNA isolation, PCR amplification, sequencing of PCR products, phylogenetic analysis. Results. The psbA-trnH intergenic spacer region of A. pseudanthora and A. jacquinii specimens from Western Ukraine was amplified and sequenced. It is shown that the spacer sequences for these two species are identical, but differ in short indels and nucleotide substitutions from the psbA-trnH sequences of A. anthora s.l. specimens from Western Europe and China. Phylogenetic analyzes showed the phylogenetic affinity of the members of the A. anthora complex to the subgenus Lycoctonum. Conclusions. The use of the psbA-trnH intergenic spacer region for DNA barcoding makes it possible to unambiguously distinguish samples of A. jacquinii and A. pseudanthora from western Ukraine from samples of A. anthora s.l. of other geographical origins. The results obtained confirm the reticular nature of the evolution in the genus Aconitum.

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Utility of the trnH–psbA region for DNA barcoding of Aconitum anthora L. and related taxa

Tynkevich¹,

Biliay²,

Волков³

2022

Fakt. eksp. evol. org.

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“…, а також у рослин(Simon et al, 2018;Tynkevich et al, 2015; Tynkevich, Volkov, 2019) і грибів(Tyler, 1987). В попередніх дослідженнях нами був виявлений АТбагатий мотив ТАТТТ у положенні від -30 до -26 нп перед початком кодувальної ділянки у A. m. carnica(Roshka et al, 2021).…”

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Molecular organization of 5S ribosomal DNA of Apis mellifera ligustica

Roshka¹,

Volkova²,

Panchuk³

2021

Visn. ukr. tov. genet. sel.

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Aim. 5S rDNA belongs to the moderately repeated, tandemly arranged sequences composed of coding regions and intergenic spacers (IGS). The IGS comparison is successfully used for the study of microevolution and in the molecular taxonomy of plants, vertebrates and some invertebrates. However, 5S rDNA of insects still remains insufficiently characterized. In this article, we analyze the molecular organization and polymorphism of 5S rDNA IGS of Apis mellifera ligustica. Methods. DNA extraction, PCR amplification, cloning of 5S rDNA, sequencing, bioinformatics analysis. Results. The 5S rDNA IGS of A. m. ligustica was cloned into the plasmid vector and sequenced. The obtained sequences were compared with the same genomic region of A. m. carnica. It was found that the genome of A. m. ligustica contains one class of IGS, which is represented by structural subclasses 1A, 1B, 1G and 1F. Two of these subclasses, 1G and 1F, which are identified here for the first time, are specific for A. m. ligustica. Conclusions. The obtained results show a high intra- and intergenomic polymorphism of 5S rDNA within the subspecies of Apis mellifera.Keywords: 5S rDNA, intergenic spacer, repeated sequences, Apis mellifera, Apidae.

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PHYLOGENETIC RELATIONSHIPS OF UKRAINIAN ACCESSIONS OF LATHYRUS VENETUS (MILL.) WOHLF. AND L. VERNUS (L.) BERNH. BASED ON THE ANALYSIS OF THE psbA-trnH REGION OF THE CHLOROPLAST GENOME

Tynkevich

Derevenko

Chorney

2022

Biolohichni systemy

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The member of the genus Lathyrus, L. venetus is listed in the Red Data Book of Ukraine as a vulnerable species. Estimation of L. venetus abundance is complicated by the prevalence of interspecies hybrids with L. vernus. These hybrid populations are often misidentified as populations of the L. venetus due to their morphological similarity. The study of genetic resources of L. venetus requires the use of molecular markers, both nuclear (to identify hybrid forms) and plastid (to determine the direction of hybridization) localization. One of the most promising chloroplast markers, the IGS region between the psbA and trnH genes, has not yet been sequenced for L. venetus and L. vernus. In this work, we evaluated the possibility of using the psbA-trnH region of the chloroplast genome to identify the parental forms of hybrids between L. venetus and L. vernus. We amplified and sequenced the psbA-trnH IGS for the collected in Ukraine accessions of L. venetus and L. vernus. For comparison, psbA-trnH sequences from the GenBank database were used that represent species from phylogenetically distant sections of the genus Lathyrus, as well as species of the Orobus section closely related to L. venetus and L. vernus. Based on the analysis of alignment of all sequences used, we found that the level of variability of psbA-trnH exceeds that of other chloroplast DNA regions used in phylogenetic studies of the genus Lathyrus. On the phylogenetic tree constructed by us, the genus Lathyrus forms a monophyletic group with high statistical support. The sequences analysis showed significant differences between the psbA-trnH IGS of L. venetus and L. vernus and confirmed the effectiveness of using this region for molecular identification of these species and for determining the direction of hybridization in the hybrid forms.

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

Cited by 4 publications

References 38 publications

Utility of the trnH–psbA region for DNA barcoding of Aconitum anthora L. and related taxa

Utility of the trnH–psbA region for DNA barcoding of Aconitum anthora L. and related taxa

Molecular organization of 5S ribosomal DNA of Apis mellifera ligustica

PHYLOGENETIC RELATIONSHIPS OF UKRAINIAN ACCESSIONS OF LATHYRUS VENETUS (MILL.) WOHLF. AND L. VERNUS (L.) BERNH. BASED ON THE ANALYSIS OF THE psbA-trnH REGION OF THE CHLOROPLAST GENOME

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