Origins of Allium ampeloprasum horticultural groups and a molecular phylogeny of the section Allium (Allium: Alliaceae)

Hirschegger, Pablo; Jakse, Jernej; Trontelj, Peter; Bohanec, B.

doi:10.1016/j.ympev.2009.08.030

Cited by 71 publications

(86 citation statements)

References 46 publications

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“…(section Avulsea). Hirschegger et al (2010) found similar results for A. ampeloprasum group based on nuclear and chloroplast DNA sequences analyses.…”

Section: Discussionsupporting

confidence: 77%

Genetic diversity and interspecific relationships of some <i>Allium</i> species using inter simple sequence repeat markers

Samiei

Kiani

Zarghami

et al. 2015

Bangladesh J. Plant Taxon

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In this study genetic diversity and interspecific relationships of 11 Allium L. species from Khorassan province of Iran including 32 accessions were investigated by inter simple sequence repeat (ISSR) markers. Nine ISSR primers produced a total of 80 polymorphic markers and revealed high polymorphism among the studied species. The average gene diversity, effective number of alleles and Shannon's information index were 0.2, 1.28 and 0.3, respectively. Allium kuhsorkhense exhibited the greatest level of variation (H e : 0.18), whereas A. stipitatum demonstrated the lowest level of variability (H e : 0.05). UPGMA (Unweighted Pair Group Method with Arithmetic mean) analysis showed that Allium accessions have a similarity range of 0.60 to 0.95. Allium scapriscapum composed the most distant group in the dendrogram. The clustered groups of Allium species clearly reflect the recent taxonomic concept of the genus at the subgenus and section levels. The present study showed that the ISSR technique is an effective molecular approach for analyzing genetic diversity and relationship in Allium species.

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“…(section Avulsea). Hirschegger et al (2010) found similar results for A. ampeloprasum group based on nuclear and chloroplast DNA sequences analyses.…”

Section: Discussionsupporting

confidence: 77%

Genetic diversity and interspecific relationships of some <i>Allium</i> species using inter simple sequence repeat markers

Samiei

Kiani

Zarghami

et al. 2015

Bangladesh J. Plant Taxon

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“…This pattern agrees with recent findings (reviewed in Bailey et al, 2003) that intra-individual polymorphism is much more frequent than previously thought (Baldwin et al, 1995). Generally, three main sources of intra-individual polymorphisms are recognized: hybridization (Kaplan and Fehrer, 2007;Záveská Drábková et al, 2009;Hirschegger et al, 2010;Jacob and Blattner, 2010;Šingliarová et al, 2011), ancestral polymorphism (Pamilo and Nei, 1988;Muir and Schlötterer, 2005) or presence of pseudogenes (Buckler and Holtsford, 1996;Kita and Ito, 2000;Mayol and Rosselló, 2001). In our case, the presence of pseudogene(s) can be ruled out, as cloned sequences showed no long indels, mutations in coding 5.8 S rDNA were extremely rare, the G-C content was in the range 56.1-57.4% and the ribotypes showed normal secondary structure (data not shown).…”

Section: Haplotype Diversity Analysessupporting

confidence: 91%

Allopolyploid origin of highly invasive Centaurea stoebe s.l. (Asteraceae)

Mráz

Garcia‐Jacas

Gex-Fabry

et al. 2012

Molecular Phylogenetics and Evolution

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a b s t r a c tSpotted knapweed (Centaurea stoebe) occurs from Western Asia to Western Europe both as diploid and tetraploid cytotypes, predominantly in single-cytotype populations with higher frequency of diploid populations. Interestingly, only tetraploids have been recorded so far from its introduced range in North America where they became highly invasive.We performed phylogenetic and network analyses of more than 40 accessions of the C. stoebe and C. paniculata groups and other related taxa using cloned internal transcribed spacer (ITS) and sequences of the chloroplast trnT-trnL and atpBrbcL regions to (i) assess the evolutionary origin of tetraploid C. stoebe s.l., and (ii) uncover the phylogeny of the C. stoebe group. Both issues have not been studied so far and thus remained controversial.Cloned ITS sequences showed the presence of two slightly divergent ribotypes occurring in tetraploid cytotype, while only one major ribotype was present in diploid C. stoebe s.str. This pattern suggests an allopolyploid origin of tetraploids with contribution of the diploid C. stoebe s.str. genome. Although we were not able to detect the second parental taxon, we hypothesize that hybridization might have triggered important changes in morphology and life history traits, which in turn may explain the colonization success of the tetraploid taxon. Bayesian relaxed clock estimations indicate a relatively recent -Pleistocene origin of the tetraploid C. stoebe s.l. Furthermore, our analyses showed a deep split between the C. paniculata and C. stoebe groups, and a young diversification of the taxa within the C. stoebe group. In contrast to nrDNA analyses, the observed pattern based on two cpDNA regions was inconclusive with respect to the origin and phylogeny of the studied taxa, most likely due to shared ancient polymorphism and frequent homoplasies.

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“…For molecular characterization and phylogenetic analyses, the regions of the nuclear ribosomal DNA gene cluster were amplified using ITS4 and ITS5 primers (Tab. 1) [13]. PCR was carried out in a 20 μl reaction mixture containing: 1 μl of each primer (20 pmol/μl; Genomed), 7 μl free RNAse water (Fermentas), 10 μl MyTaq™RedMix ready-to-use 2× (0.05 u/μl Taq polymerase; reaction buffer, 4 mM MgCl 2 ; 0.4 mM each of dNTP: dATP, dCTP, dGTP, dTTP; loading color buffer) and 1 μl DNA (100 ng/µl).…”

Section: Phylogenetic Analysesmentioning

confidence: 99%

Investigations of the capacity and strength of seed germination in Allium victorialis L.

Winiarczyk¹,

Skrzypczak²,

Jaroszuk-Ściseł³

et al. 2014

Acta Soc Bot Pol

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The aim of the study was to examine the strength and energy of seed germination in Allium victorialis. Despite the normal structure of seeds containing a viable embryo and compliance with all International Seed Testing Association recommendations, no germination in A. victorialis was observed. Additionally, the scarification and stratification treatments applied did not improve the dynamics of germination of A. victorialis seeds. Microbiological analyses of soil sampled from natural localities of the plant revealed a typical composition of bacteria and fungi. The high number of fungi [4.5 log 10 CFU (colony forming units) of fungi × g −1 dry mass of soil] and various groups of bacteria (about 7.0 log 10 CFU of bacteria × g −1 dry mass of soil) were detected in the root-free-soil around garlic roots. In the interior of A. victorialis roots, the number of microorganisms decreased 1000 to 10 000 times but all the tested microbial groups, especially copiotrophic bacteria and fungi (1.6 and 2.2, respectively, log 10 CFU × g −1 dry mass of roots) were detected. Changes in such parameters as dehydrogenase activity, pH values, and the total organic C (TOC) content in the particular parts of the rhizosphere and in comparison to the rhizosphere with root-free-soil were observed. The dehydrogenase activity and TOC content were highly positively correlated with the total number of CFU of the microorganisms.

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Origins of Allium ampeloprasum horticultural groups and a molecular phylogeny of the section Allium (Allium: Alliaceae)

Cited by 71 publications

References 46 publications

Genetic diversity and interspecific relationships of some <i>Allium</i> species using inter simple sequence repeat markers

Genetic diversity and interspecific relationships of some <i>Allium</i> species using inter simple sequence repeat markers

Allopolyploid origin of highly invasive Centaurea stoebe s.l. (Asteraceae)

Investigations of the capacity and strength of seed germination in Allium victorialis L.

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