Molecular markers in the genetic diversity studies of representatives of the genus &lt;i&gt;Rubus&lt;/i&gt; L. and prospects of their application in breeding

Kamnev, A. M.; Antonova, Olga; Дунаева, С. Е.; Гавриленко, Т. А.; Chukhina, I. G.

doi:10.18699/vj20.591

Cited by 9 publications

(4 citation statements)

References 90 publications

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“…Overexploitation of nature often results in habitat loss for wild resources, while habitat fragmentation leads to smaller population sizes, which will also endanger the long-term survival of R. chingii through asexual reproduction and genetic drift [ 66 ]. Therefore, it seems that poor habitat conditions, low distribution density and severe human intervention are the main reasons for the reduction in genetic diversity [ 73 ]. However, the small number of materials in some regions may not be a true reflection of the low diversity level, and further studies with larger samples are needed.…”

Section: Discussionmentioning

confidence: 99%

Genetic Diversity Analysis and Core Germplasm Construction of Rubus chingii Hu

Zhou,

Liu,

et al. 2024

Plants

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Rubus chingii Hu is the only species that is used for both edible and medicinal purposes among the 194 species of the genus Rubus in China. It is well known for its sweet and sour fresh fruits that are rich in vitamins and for its dried immature fruits that are used to treat kidney-related ailments. This study aims to evaluate genetic diversity and population structure and build a core germplasm repository of 132 R. chingii accessions from the provinces of Jiangxi and Fujian, using Hyper-seq-derived single-nucleotide polymorphism (SNP) markers. This is the first genetic study of R. chingii based on SNP molecular markers, and a total of 1,303,850 SNPs and 433,159 insertions/deletions (InDels) were identified. Low values for observed heterozygosity, nucleotide diversity (Pi) and fixation indexes (Fis) indicated low genetic diversity within populations, and an analysis of molecular variance (AMOVA) showed that 37.4% and 62.6% of the variations were found between populations and within samples, respectively. Four main clusters were identified by means of neighbor-joining (NJ) trees, the ADMIXTURE program and principal component analysis (PCA). Based on the genetic diversity, we finally constructed 38 representative core collections, representing 50% of the total core germplasm samples and 95.3% of the genotypes. In summary, the results of our study can provide valuable information on the genetic structure of R. chingii germplasm resources, which is helpful for further explorations of potential high-quality genes and for formulating future breeding and conservation strategies.

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Section: Discussionmentioning

confidence: 99%

Genetic Diversity Analysis and Core Germplasm Construction of Rubus chingii Hu

Zhou,

Liu,

et al. 2024

Plants

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“…[1; 2]. Путем ДНК-маркирования проводятся выявление ценных генотипов, мониторинг генетической изменчивости исследуемого вида, его адаптации к негативным факторам среды обитания [3]. Точное определение уровня генетического разнообразия может быть востребовано для изучения и сохранения редких и исчезающих видов, в селекционных программах различного направления, в том числе для древесно-кустарниковых растений [4; 5].…”

Section: постановка проблемы (Introduction)unclassified

Selection and optimization of DNA extraction methods from the leaves of Gleditsia triacanthos L.

Ryabuha,

Kuz'min

2024

Agrarian Bulletin of The

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Abstract. Currently, molecular genetic methods using DNA markers are increasingly used in studies of polymorphism of various populations of woody and shrubby plants. The purpose of this work was the evaluation and selection of protocols for the isolation and purification of DNA from the leaves of Gleditsia triacanthos L. for further studies using DNA labeling. Methods. Four protocols were used to isolate DNA from the leaf blade of Gleditsia triacanthos L. Anionic detergent sodium dodecyl sulfate was used in three isolation protocols for cell lysis, potassium acetate was used for purification from polysaccharides and proteins. In the fourth protocol, a cationic surfactant cetyltrimethyl ammonium bromide was used for cell lysis, the extract was purified with a mixture of chloroform-isoamyl alcohol (24 : 1). Precipitation of the isolated DNA was carried out with isopropanol. The quality of the isolated DNA was evaluated by spectrophotometry, horizontal electrophoresis and Real-time PCR with two types of primers. Results. Optimal conditions for DNA extraction from samples of Gleditsia triacanthos L. containing a large number of metabolites affecting the quality of the isolated extract were selected. By electrophoresis, it was found that both the isolation protocol with sodium dodecyl sulfate and the isolation protocol with cetyltrimethyl ammonium bromide make it possible to obtain a sufficient amount of DNA. The most purified DNA was obtained by the third protocol using sodium dodecyl sulfate and dithiotreitol and by the fourth protocol using cetyltrimethylammonium bromide. The results of PCR of the obtained samples with ITS and psbI-psbK primers indicate that a sufficient amount of product has been obtained and the reproducibility of ISSR markers. The scientific novelty of the work consists in choosing the optimal method of DNA extraction from the leaves of Gleditsia triacanthos L., which is a complex object containing a large number of potential PCR inhibitors. The protocol with sodium dodecyl sulfate and dithiotreitol made it possible to obtain DNA in the right amount and of acceptable quality.

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“…The genus Rubus belongs to the subfamily Rosoideae Fokke and consists of 10 to 16 subgenera (Fokke 1910(Fokke -1911(Fokke , 1914 Huang et al 2023). Two large subgenera of raspberries (Idaeobatus (Focke) Focke) and blackberries (Rubus) establish two evolutionary lines, where isolation is con rmed by molecular genetic studies, as well as morphological features, the most important of which is the fruit structure (Alice et al 1999;Krasovskaya 2001;Kalkman 2004;Potter et al 2007; Kamnev et al 2020;Dunaeva et al 2022). Raspberries have sticky drupelets (as a result of mesocarp outgrowth) and are easily separated from the thalamus.…”

Section: Introductionmentioning

confidence: 99%

Palynomorphological study of Azerbaijanian Rubus species in comparison with the morphology of pollen of the whole genus

Asilbeyova,

Gavrilova,

Krasovskaya

et al. 2023

Preprint

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We investigated pollen morphology of Rubus species from Azerbaijan. Pollen of 24 specimens from 15 species of all three Rubus subgenera has been studied using light, confocal laser scanning and scanning electron microscopes to estimate pollen characteristic variability and to describe pollen polymorphism and taxonomic value. Pollen grains are small or medium-sized, mainly three-colporate and spheroidal; composed apertures include meridional directed, long, narrow colpi and clear ori on the equator. Exine is thin, tectate and columellate, ornamentation is striate or striate-perforate with thin mainly long striae and perporations from zero to numerous between striae. Pollen of Azeri Rubus species are similar to European ones and it is difficult to distinguish from each other. Intraspecific and individual variability is manifested in size, shape, number and location of apertures, and patterns of ornamentation. The ordered structure of the individual variability of the characteristic shape (number and location of apertures) of pollen grains in the genus Rubus is described. An abundance of deviant forms was noted in the subgenus Rubus. An analysis of pollen morphology of investigated Rubus taxa around the world demonstrated that diagnostic feature into genus is ornamentation which can be divided into three groups: typical striate; non-typical striate and non-striate. The subgenus Rubus is uniform in exine pattern. Typical striate pollen is found throughout the world; however, variations of non-typical striate and non-striate pollen is revealed in Southeast Asia. Pollen data indicate a geographical center of species diversity in Southeast Asia.

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Molecular markers in the genetic diversity studies of representatives of the genus <i>Rubus</i> L. and prospects of their application in breeding

Cited by 9 publications

References 90 publications

Genetic Diversity Analysis and Core Germplasm Construction of Rubus chingii Hu

Genetic Diversity Analysis and Core Germplasm Construction of Rubus chingii Hu

Selection and optimization of DNA extraction methods from the leaves of Gleditsia triacanthos L.

Palynomorphological study of Azerbaijanian Rubus species in comparison with the morphology of pollen of the whole genus

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