Genetic diversity in old populations of sessile oak from Calabria assessed by nuclear and chloroplast SSR

Lupini, Antonio; Aci, Meriem Miyassa; Mauceri, Antonio; Luzzi, Giuseppe; Bagnato, Silvio; Menguzzato, Giuliano; Mercati, Francesco; Sunseri, Francesco

doi:10.1007/s11629-018-5335-1

Cited by 12 publications

(15 citation statements)

References 48 publications

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“…That was in accordance with the highest genetic diversity in tree species among all plant species, including high percentage of polymorphic loci and large number of alleles per locus (PORTH and EL-KASSABY, 2014). The number of effective alleles (Na) with an average value of 11.392 was significantly higher than that obtained in the study with Calabrian populations (LUPINI et al, 2019). The high level of genetic diversity was determined (He = 0.909), which was similar to the results obtained in Calabrian populations (He= 0.749) (LUPINI et al, 2019).…”

Section: Discussionsupporting

confidence: 79%

“…3). The number of the obtained alleles was higher than that obtained in the studies in Calabrian populations with 13.5 alleles (LUPINI et al, 2019) or in different Italian populations (BRUSCHI et al, 2003), and significantly higher than the number of alleles (12.4) obtained in populations from central Italy (ANTONECCHIA et al, 2015) and populations from Turkey with 12.5 alleles (YÜCEDAĞ and GAILING, 2013). That was in accordance with the highest genetic diversity in tree species among all plant species, including high percentage of polymorphic loci and large number of alleles per locus (PORTH and EL-KASSABY, 2014).…”

Section: Discussioncontrasting

confidence: 76%

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Genetic structure of Sessil oak (Quercus petraea (matt.) liebl) from the area of outstanding natural beauty “Avala“

et al. 2022

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The paper presents the results of the genetic diversity analysis of Sessile oak populations from the area of outstanding natural beauty (AONB) "Avala" which were obtained using SSR markers. Genomic DNA was isolated from leaf tissue of 50 test trees from two populations. Genotyping was performed using microsatellite markers QpZAG110, QpZAG15, QpZAG1/2, QpZAG3/64, QpZAG36, QpZAG1/5, and QrZAG108. All loci were polymorphic with the high mean value of PIC (0.934). The total number of alleles determined in the studied population was 127. The range of alleles varies from 15 (QpZAG1/5, QpZAG1/2) to 23 (QpZAG110) with an average of 18.14 alleles per locus. The number of effective alleles ranges from 8.273 (QpZAG1/5) to 13.830 (QrZAG108). The mean value of the gene flow (Nm) was 8.522 with a range from 5.548 to 14.876. Overall genetic diversity was high (He = 0.909) and ranged from 0.879 to 0.928. Due to the excess of homozygotes observed at most loci, a significant inbreeding coefficient was detected (Fis = 0.796). The Analysis of Molecular Variance (AMOVA) confirmed that genetic diversity was more pronounced within populations (77.5%) than between them (1.6%). The average allele frequency (Q) of the studied populations shows that the individuals originate from two or more populations. The obtained results can be used for the adoption of appropriate plans for the management of protected natural resources and the management of this ecologically and economically important tree species. Also, the obtained results enable the adoption of the necessary measures for the conservation of sessile oak genetic resources by in-situ and ex-situ methods. Based on the research results, the use of this important species can be recommended for its reintroduction in optimal microclimatic conditions, as well as in the selection of the best individuals for the reintroduction.

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Section: Discussionsupporting

confidence: 79%

Section: Discussioncontrasting

confidence: 76%

Genetic structure of Sessil oak (Quercus petraea (matt.) liebl) from the area of outstanding natural beauty “Avala“

et al. 2022

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“…Here, we used these SSR markers and further con rmed the polymorphism of the picked 9 markers. For the individuals of the 4 oak species in Beijing area, these SSR markers exhibit high polymorphism and 215 alleles were detected in total and 23.9 in average (Table 1), much higher than the studies in Quercus petraea (Lupini et al 2019) and similar with the studies in Q. mongolica and Q. liaotungensis which collected 1166 individuals (Zeng et al 2011). This result indicates that these SSR markers are e cient for oak species characterization (Guo 2018).…”

Section: Discussionsupporting

confidence: 59%

“…DNA molecular markers especially SSR (Simple Sequence Repeat) and SNP (Single Nucleotide Polymorphism) markers have been developed for many years and have been widely used in recognition of species or cultivars (Lupini et al 2019;Zurn et al 2020). In coconut, 74 polymorphic SSR markers were identi ed by genotyping-by-sequencing (GBS) analysis of 40 coconut accessions and different traits could be divided into several groups, which was consistent with the amplicons of SSR markers (Riangwong et al 2020).…”

Section: Introductionmentioning

confidence: 98%

Population study reveals genetic variation and introgression of four deciduous oaks at the junction between Taihang Mountain and Yanshan Mountain

Pei

Yang

Chen

et al. 2022

Preprint

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Oaks (Quercus spp.) are considered as model plants for studying plant evolution and natural gene introgression. However, interspecific hybridization often occurred in sympatric sibling specie, resulting in blurred interspecific boundaries and hindering the development of breeding. Beijing area is at the junction between Taihang Mountain and Yanshan Mountain. It is a key area for deciduous oaks native to China and an overlapping area of several oaks. It is urgently necessary to evaluate the genetic diversity and population structure of the 4 deciduous oak species to understand the degree of gene introgression and to screen out ideal breeding materials. In this study, we collected 11 populations of 4 oak species (Q. variabilis, Q. mongolica, Q. dentata and Q. aliena) in the junction between Taihang Mountain and Yanshan Mountain. By using the polymorphic SSR markers, we analyzed the genetic variation of the collected 400 individuals and investigated the population structure and found gene introgression events. Q. variabilis had a clearer genetic background as compared to the other three species and the artificial population of Q. variabilis might have been transplanted from other regions outside Beijing. Q. mongolica had a more frequent gene introgression with Q. dentata and Q. aliena in this area. In addition, our results provided DNA fingerprints of the sampled 40 individuals according 9 SSR markers. This research reported useful SSR data for analyzing the genetic variation of oak species native to China, laying the foundation of whole genome sequencing and conducting an oak germplasm nursery with clear genetic background.

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“…Within this context, it is essential to carry out genetic evaluations of endangered populations [12]. The evaluation of the genetic diversity and genetic structure of plant populations is the core of species genetic evaluation [13,14]. Genetic diversity provides templates for the survival, adaptation and evolution of species [15].…”

Section: Introductionmentioning

confidence: 99%

Genetic Evaluation of Ancient Platycladus orientalis L. (Cupressaceae) in the Middle Reaches of the Yellow River Using Nuclear Microsatellite Markers

Cui

Deng

Tian

et al. 2021

Forests

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As a precious and rare genetic resource, ancient Platycladus orientalis L. (Cupressaceae) has important scientific, cultural and historical value. The ancient temples and royal cemeteries in the middle reaches of the Yellow River contain the most concentrated and abundant distributions of ancient P. orientalis. Due to unfavorable conditions, the genetic resources of ancient trees are facing great threats and challenges; thus, it is urgent to strengthen the evaluation of the genetic resources of ancient P. orientalis. In this study, we used nine polymorphic nuclear simple sequence repeats (nSSRs) to evaluate the genetic resources of 221 individuals in 19 ancient P. orientalis populations in the middle reaches of the Yellow River. These selected polymorphic nSSR loci can be used reliably and rapidly in P. orientalis genetic studies. Our study showed that the 19 ancient P. orientalis populations have high genetic diversity (mean H = 0.562, He = 0.377). High historical gene flow (mean Nm = 1.179) and high genetic differentiation (mean Fst = 0.184) were observed in the ancient P. orientalis population. The analysis of molecular variance (AMOVA) showed that higher genetic variation existed within populations (93%) rather than among populations (7%). The genetic structures showed that the 19 populations were divided into two groups. The Mantel test and neighbor-joining (NJ) tree analysis showed no geographical distribution characteristics among populations, which may indicate a history of transplanting by ancient humans. Our research provides a theoretical basis for the protection and utilization of ancient P. orientalis germplasm resources and exploration of the historical origin and genetic relationships among the populations of P. orientalis on a large scale in the future.

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Genetic diversity in old populations of sessile oak from Calabria assessed by nuclear and chloroplast SSR

Cited by 12 publications

References 48 publications

Genetic structure of Sessil oak (Quercus petraea (matt.) liebl) from the area of outstanding natural beauty “Avala“

Genetic structure of Sessil oak (Quercus petraea (matt.) liebl) from the area of outstanding natural beauty “Avala“

Population study reveals genetic variation and introgression of four deciduous oaks at the junction between Taihang Mountain and Yanshan Mountain

Genetic Evaluation of Ancient Platycladus orientalis L. (Cupressaceae) in the Middle Reaches of the Yellow River Using Nuclear Microsatellite Markers

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