Genetic diversity and population structure of European ground cherry ( Prunus fruticosa Pall.) using SSR markers

Barac, G; Ognjanov, V.; Vidaković, Dragana Obreht; Dorić, Dušica; Ljubojević, Mirjana; Dulić, Jovana; Miodragović, Maja; Gašić, Ksenija

doi:10.1016/j.scienta.2017.06.060

Cited by 12 publications

(11 citation statements)

References 55 publications

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“…A well-supported organellar DNA break was observed in different geographic populations. Some land plants also display high levels of admixture within their analyzed populations (Aranzana et al, 2010;Barać et al, 2017), which could be attributed to a complex breeding history. We speculate that the presence of a genetic organellar DNA break in the absence of a geographic barrier is the result of historic biogeographic events.…”

Section: Genetic Break Of Organellar Dna At Sympatric Localitiesmentioning

confidence: 99%

Organellar Genome Variation and Genetic Diversity of Chinese Pyropia yezoensis

Tang

et al. 2019

Front. Mar. Sci.

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Pyropia yezoensis is an economically important marine algae crop that, due to its large economic value, has generated considerable interest in the development of breeding programs to improve its production rates. Here, we sequenced the complete mitochondrial and plastid genomes of the P. yezoensis strain RZ-58 using the PacBio RS II sequencing technology. The mitochondrial genome (mtDNA) is 41,692 bp in size with an overall guanine-cytosine (GC) content of 32.72%, and the plastid genome (ptDNA) is 191,977 bp with a GC content of 33.09%. The complete mitochondrial and plastid genomes of 53 individuals from three geographical populations were then resequenced using the next-generation sequencing (NGS) technology to characterize their molecular features. When compared, the plastid genomes displayed similar genomic lengths and conserved gene synteny. However, mitochondrial genomes were quite different in length, which was mainly due to the different patterns of intron distributions. Single-nucleotide polymorphisms (SNPs) were examined to evaluate the genetic diversity of different geographical populations. High diversity was observed across the whole collection with moderate genetic variation between populations. In total, there were 463 and 366 highquality SNPs detected in the mtDNA and ptDNA, respectively. The Qingdao wild group has the highest diversity with a mean pi of 0.00348 for mtDNA and 0.000388 for ptDNA, while the Yantai group had the lowest diversity. Cluster-based grouping and principal component analysis revealed three subpopulations in the whole collections. However, a genetic break of organellar DNA was observed in populations at sympatric localities, which was inferred as the result of historic biogeographic events. Our findings provide important information to guide marker-assisted selective breeding of Chinese P. yezoensis in the future.

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Section: Genetic Break Of Organellar Dna At Sympatric Localitiesmentioning

confidence: 99%

Organellar Genome Variation and Genetic Diversity of Chinese Pyropia yezoensis

Tang

et al. 2019

Front. Mar. Sci.

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“…The use of molecular markers such as SSRs or RAD‐Seq might provide direct evidence for ongoing introgression and help identify the conservational most valuable (i.e., variable) populations of P. fruticosa (Barać et al., ; Beghe, Piotti, Satovic, de la Rosa, & Belaj, ; McVay, Hipp, & Manos, ). However, the complex cytological structure of our data set covering three ploidy levels seriously complicates data analyses.…”

Section: Discussionmentioning

confidence: 99%

“…One extreme case of crop‐to‐wild gene flow is the genus Aegilops L. in the Mediterranean, where more than one quarter of some wild populations bear signs of introgression from wheat (Arrigo et al., ). Besides conservation consequences, genetic swamping of wild relatives via hybridization with crops can lead to tremendous economic losses because wild taxa serve as an essential gene pool resource for breeding programmes (Barać et al., ; Ganopoulos, Aravanopoulos, & Tsaftaris, ).…”

Section: Introductionmentioning

confidence: 99%

“…It is tetraploid (2 n = 32 chromosomes; Oldén & Nybom, ; Scholz & Scholz, ) and self‐incompatible (also propagated by root shoots; Pruski, ; Scholz & Scholz, ). Prunus fruticosa is of potentially considerable importance in cherry breeding programmes, as it possesses suitable characters for growing in steppe conditions (Barać et al., ; Dzhangaliev, Salova, & Turekhanova, ; Iezzoni, ; Iezzoni & Mulinix, ; Pruski, ). Widely cultivated sour and sweet cherries ( Prunus cerasus L. and Prunus avium (L.) L.) are close relatives of P. fruticosa and easily hybridize with it (e.g., Scholz & Scholz, ).…”

Section: Introductionmentioning

confidence: 99%

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Crop‐to‐wild hybridization in cherries—Empirical evidence from Prunus fruticosa

Macková

Vít

Urfus

2018

Evolutionary Applications

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Crop cultivation can lead to genetic swamping of indigenous species and thus pose a serious threat for biodiversity. The rare Eurasian tetraploid shrub Prunus fruticosa (ground cherry) is suspected of hybridizing with cultivated allochthonous tetraploid P. cerasus and autochthonous diploid P. avium. Three Prunus taxa (447 individuals of P. fruticosa, 43 of P. cerasus and 73 of P. avium) and their hybrids (198 individuals) were evaluated using analysis of absolute genome size/ploidy level and multivariate morphometrics. Flow cytometry revealed considerable differentiation in absolute genome size at the tetraploid level (average 2C of P. fruticosa = 1.30 pg, average 2C of P. cerasus = 1.42 pg, i.e., a 9.2% difference). The combination of methods used allowed us to ascertain the frequency of hybrids occurring under natural conditions in Central Europe. The morphological evaluation of leaves was based upon distance‐based morphometrics supplemented by elliptic Fourier analysis. The results provided substantial evidence for ongoing hybridization (hybrids occurred in 39.5% of P. fruticosa populations). We detected homoploid introgressive hybridization with alien P. cerasus at the tetraploid level. We also found previously overlooked but frequent triploid hybrids resulting from heteroploid hybridization with indigenous P. avium, which, however, probably represent only the F1 generation. Although both hybrids differ in ploidy, they cannot be distinguished using morphometrics. Hybrids are frequent and may endanger wild populations of genuine P. fruticosa via direct niche competition or, alternatively or in addition, via introgression at the homoploid level (i.e., genetic swamping). The cultivation of cherries thus substantially threatens the existence of genuine P. fruticosa.

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“…As a potential dwarfing rootstock the shrub attracted the attention of cherry rootstock researchers. The species and derivatives have been considered as rootstock for sweet and sour cherry in several breeding projects (Cummins 1972;Plock 1973;Hein 1979;Gruppe 1985;Hrotkó and Facsar 1996;De Palma et al 1996;Eremin et al 2000;Eremin and Eremin 2002;Hrotkó 2004;Rozpara and Grzyb 2004;Hrotkó et al 2008;Hrotkó 2008, 2013;Barać et al 2013Barać et al , 2017Maas et al 2014).…”

Section: Introductionmentioning

confidence: 99%

Spontaneous hybrids of Prunus fruticosa Pall. in Hungary

Hrotkó

Feng

Halász

2019

Genet Resour Crop Evol

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The European ground cherry (Prunus fruticosa Pall.) as a potential dwarfing rootstock attracted the attention of cherry rootstock researchers in several breeding projects. In order to clarify some doubtful classification of collected and promising specimen of supposed hybrids, we compared morphological characteristics to literature data. Genetic analysis was also undertaken using simple-sequence repeat markers. Our results suggest that the investigated P. fruticosa forma fruticosa specimens are tetraploid and the genetic analysis did not contribute to distinguish the P. fruticosa forma fruticosa and forma aucta. Based on morphological characters, we identified few specimens of spontaneous hybrid P. fruticosa 9 P. mahaleb (P. 9 jávorkae). Our genetic analysis supports the hypothesis that the sample shrub is triploid and show genetic relationship with P. mahaleb. This triploid hybrid due to the flower sterility represents a blind alley in its evolution. We identified from each investigated habitat specimens of supposed hybrid derivatives of ground cherry P. fruticosa 9 P. avium (P. 9 mohácsyana). This hybrid clearly showed distinct morphological characteristics, easily distinguishable from the P. fruticosa f. fruticosa and f. aucta and the genetic analysis suggests that the accessions are triploid. The flower sterility limits the usage of this hybrid derivative for further crossbreeding but allows usage as clonal cherry rootstock. Our genetic analysis suggests that samples of P. 9 eminens are tetraploid, fertile hybrid derivative of ground cherry occurring in some habitats of the basic species and show similar morphological characters to the cultivated sour cherry.

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Genetic diversity and population structure of European ground cherry ( Prunus fruticosa Pall.) using SSR markers

Cited by 12 publications

References 55 publications

Organellar Genome Variation and Genetic Diversity of Chinese Pyropia yezoensis

Organellar Genome Variation and Genetic Diversity of Chinese Pyropia yezoensis

Crop‐to‐wild hybridization in cherries—Empirical evidence from Prunus fruticosa

Spontaneous hybrids of Prunus fruticosa Pall. in Hungary

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