Development of a novel set of EST‐SSR markers and cross‐species amplification in <i>Tamarix africana</i> (Tamaricaceae)

Terzoli, Serena; Beritognolo, Isacco; Sabatti, Maurizio; Kuzminsky, Elena

doi:10.3732/ajb.1000112

Cited by 8 publications

(4 citation statements)

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“…The range of transferability of EST-SSRs observed in this work was consistent with values reported in scientific papers, which assessed a range of 60-80 % of transferability for these kind of markers (ELLIS and BURKE, 2007). The observed number of alleles, considering all the analyzed samples, (vouchered and unidentified), ranged from four to 14 with an average of 8.54 alleles per locus which was the highest value compared to other SSR loci in Tamarix (GASKIN et al, 2006;TERZOLI et al, 2010). It is worth noting that the present work concentrates on four differ- Table 1.…”

Section: Resultssupporting

confidence: 90%

“…A total of 22713 ESTs, derived from T. hispida Willd., T. androssowii Litv., T. ramosissima Ledeb., and T. albiflonum M. T. Liu, are currently recorded on the NCBI database. These sequences were assembled and screened to develop EST-SSRs in T. africana (TERZOLI et al, 2010). The scarcity of genetic resources and the increasing interest in Tamarix determine the requirement for more available molecular markers for the scientific community.…”

Section: Introductionmentioning

confidence: 99%

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Primer Note: A novel set of EST-SSR markers in Tamarix: a resource to characterize this genus

et al. 2013

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Both the negative and positive ecological impact of Tamarix plants is controversial, and thus a more comprehensive understanding is necessary. Tamarisks are invasive in many countries but the inter-specific transferability that characterizes simple sequence repeats (SSRs) could be harnessed to track the spread of specific genotypes or to study invasive populations. Thirteen polymorphic SSR markers, derived from expressed sequence tag (EST), were identified by first screening 26 samples of T. aphylla, T. jordanis, T. nilotica, and T. tetragyna and then 33 unidentified tamarisks from Yotvata, Israel. The mean number of alleles per locus ranged from two to 14 and the mean expected heterozygosity was 0.415. These EST-SSR markers will undoubtedly be useful in the genetic characterization of the genus Tamarix due to their high cross-species transferability which enables the estimation of the genetic diversity among and within different species, that are adapted to the same desert habitat under severe environmental constraints.

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Section: Resultssupporting

confidence: 90%

Section: Introductionmentioning

confidence: 99%

Primer Note: A novel set of EST-SSR markers in Tamarix: a resource to characterize this genus

et al. 2013

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“…A large amount of EST data in the public domain provides a valuable resource for genetic research, including molecular marker identification, and SSRs have been discovered from EST data for many plant species [7,[11][12][13][14][15][16] . The SSR frequency in the P. trifoliata ESTs was 1/4.0 kb and a similar SSR frequency has been reported in poplar (1/4.0 kb), citrus (1/5.2 kb), Arabidopsis (1/6.0 kb) and sweet potato (1/7.1 kb) [17,18] , although much higher and lower SSR frequencies have also been reported in plants, viz., rice (1/40.0 kb) and cucumber (1/1.8 kb) [19,20] .…”

Section: Discussionmentioning

confidence: 99%

Novel polymorphic EST-based microsatellite marker isolation and characterization from Poncirus trifoliata (Rutaceae)

Biswas¹,

Chen²,

Amar³

et al. 2015

Front. Agr. Sci. Eng.

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Novel Poncirus trifoliata simple sequence repeat (SSR) markers were developed to evaluate their utility for genetic diversity and breeding studies of P. trifoliata and related species. A total of 108 primer pairs were characterized by PCR amplification experiments. Among these, 61 were polymorphic and transferable to other citrus species. The number of alleles per locus ranged from 2 to 6, with an average of 2.37 alleles per locus. The expected heterozygosity and observed heterozygosity ranged from 0 to 0.83 and 0 to 1.00, respectively. These novel polymorphic SSR markers will be useful for citrus cultivar identification and evaluation as well as breeding studies.

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“…A cross-species polymerase chain reaction (PCR) amplification of 10 genomic SSRs (Gaskin et al 2006) and 13 EST-SSRs (Terzoli et al 2010) was conducted. Ten genomic SSRs, developed in T. ramosissima and T. chinensis (Gaskin et al 2006), were tested and nine of them amplified in T. gallica and T. canariensis while only seven loci amplified in T. africana, suggesting that the latter species may have divergent primer site sequences.…”

Section: Microsatellite Analysismentioning

confidence: 99%

Genetic characterization of aTamarixspp. germplasm collection in Italy

Terzoli

Abbruzzese

Beritognolo

et al. 2014

Botany

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Tamarix L. plants are tolerant to extreme environmental conditions and represent a resource for the recovery of marginal areas. The aim of this study is to develop a molecular method for species assignment and to characterize the genetic differentiation of Italian Tamarix populations. Blind sampling was performed and individuals were gathered without any regard for species identity from seven sites in Italy. If possible, flowers for species identification were collected, but 60% of samples remained unidentified. The genotypic profile of 17 microsatellite markers and a Bayesian statistical approach allowed the individuals to split among genetic entities rather than by their species identity. A clear assignment of Tamarix africana Poir. individuals was found, but this was not the case for Tamarix gallica L. and Tamarix canariensis Willd., whose individuals were clustered in a unique group (T. gallica-like). In T. africana, the Bayesian analysis of the genetic structure pointed out the existence of a unique gene pool, whereas according to principal coordinates analysis (PCOA) and F ST values, the populations from Lazio and Sardinia were more differentiated. All the analyses performed showed a differentiation between Sicily and peninsular Southern Italy in the T. gallica-like group. This study is the first to report the characterization of the natural genetic resources of Italian tamarisks and it suggests the absence of genetic differentiation between T. gallica and T. canariensis.Résumé : Les plantes de Tamarix L. sont tolérants à des conditions environnementales extrêmes et représentent une ressource pour la restauration des zones marginales. Le but de cette étude était de développer une méthode moléculaire permettant d'assigner un individu à une espèce et de caractériser la différenciation génétique des populations de Tamarix en Italie. Un échantillonnage au hasard a été réalisé et des individus ont été récoltés à partir de sept sites en Italie, peu importe l'identité des espèces. Lorsque cela était possible, les fleurs permettant d'identifier l'espèce ont été recueillies, mais 60 % des échantillons demeuraient non identifiés. Le profil génotypique de 17 marqueurs microsatellites et une approche statistique bayésienne ont permis de séparer les individus en entités génétiques plutôt que par leur identité en tant qu'espèce. Une assignation claire des individus appartenant à Tamarix africana Poir. a été trouvée, contrairement à Tamarix gallica L. et Tamarix canariensis Willd., dont les individus s'agrégeaient en un seul groupe (apparenté à T. gallica). Chez T. africana, l'analyse bayésienne de la structure génétique a souligné l'existence d'un pool génétique unique, alors que selon l'analyse en coordonnées principales (PCOA) et les valeurs de F ST , les populations de Lazio et de Sardaigne étaient davantage différenciées. Toutes les analyses réalisées ont montré une différenciation du groupe apparenté à T. gallica entre la Sicile et la péninsule de l'Italie du Sud. Cette étude est la première à rapporter la caractéri...

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Development of a novel set of EST‐SSR markers and cross‐species amplification in Tamarix africana (Tamaricaceae)

Abstract: Amplification products of these 13 loci were also generated for T. gallica. These new EST-SSR markers will be useful in genetic characterization of Tamarix, as additional tools for taxonomic clarification, and for studying invasive populations where they are a threat.

Cited by 8 publications

References 6 publications

Primer Note: A novel set of EST-SSR markers in Tamarix: a resource to characterize this genus

Primer Note: A novel set of EST-SSR markers in Tamarix: a resource to characterize this genus

Novel polymorphic EST-based microsatellite marker isolation and characterization from Poncirus trifoliata (Rutaceae)

Genetic characterization of aTamarixspp. germplasm collection in Italy

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