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

Terzoli, Serena; Cattan, E.; Sabatti, Maurizio; Валентини, Р.; Zilberstain, A.; Kuzminsky, Elena

doi:10.1515/sg-2013-0013

Cited by 3 publications

(4 citation statements)

References 16 publications

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“…Reactions included 10 mM Tris-HCl, 50 mM KCl, 1.5 mM MgCl 2 , 0.2 mM dNTPs, 0.5 U Taq DNA polymerase and 5 µM of each primer. Amplification was conducted using a Biorad T100 thermocycler (Biorad) and using the protocol reported by Terzoli et al (2013) . Microsatellite loci were targeted using the primers described in Terzoli et al (2013) .…”

Section: Methodsmentioning

confidence: 99%

“…Amplification was conducted using a Biorad T100 thermocycler (Biorad) and using the protocol reported by Terzoli et al (2013) . Microsatellite loci were targeted using the primers described in Terzoli et al (2013) . To test the microsatellite primers on T. taklamakanensis , PCR was conducted with 30 samples from 6 populations.…”

Section: Methodsmentioning

confidence: 99%

“…To test the microsatellite primers on T. taklamakanensis , PCR was conducted with 30 samples from 6 populations. PCR products were screened by gel electrophoresis using 2 % agarose gel that was run for 2 h. Primer sets that produced bands of the expected length ( Terzoli et al 2013 ) were used for genotyping.…”

Section: Methodsmentioning

confidence: 99%

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Genetic diversity and structure of an endangered desert shrub and the implications for conservation

Richardson

et al. 2017

AoB PLANTS

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Tamarix taklamakanensis is an endangered shrub endemic to arid basins of northwestern China. Based on seven microsatellite loci, we assessed the genetic diversity and structure of 15 populations in the Tarim Basin, China. We found that the total gene diversity was moderate, whereas the allelic diversity was low; we also found high levels of gene flow among populations of T. taklamakanensis in the center of Tarim Basin, but higher levels genetic differentiation in geographically outlying populations. Our study will provide useful information for conservation and restoration.

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Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

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Genetic diversity and structure of an endangered desert shrub and the implications for conservation

Richardson

et al. 2017

AoB PLANTS

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“…Bunge, and T. tetragyna Ehrenb. was tested (Terzoli et al., ). A set of 10 genomic microsatellites of T. ramosissima Ledeb.…”

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confidence: 99%

Development and characterization of genomic SSR markers for Tamarix chinensis (Tamaricaceae)

Zhang

Wen

2019

Appl Plant Sci

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Premise of the Study We developed a set of microsatellite markers to study the population genetic structure, mating system, and interspecific hybridization of Tamarix chinensis (Tamaricaceae), an alkali‐ and salt‐tolerant shrub endemic to China, Korea, and Japan. Methods and Results Using Illumina sequencing, we developed 10 polymorphic and 11 monomorphic microsatellite primers. High levels of polymorphism were detected in four T. chinensis populations. Allele numbers ranged from two to 11, and the levels of observed and expected heterozygosity ranged from 0.182 to 0.846 and from 0.165 to 0.794, respectively. The polymorphism information content values ranged from 0.201 to 0.803. Cross‐species amplification showed two to 15 alleles per locus in 24 individuals from one natural population of the congener T. ramosissima, and the levels of observed and expected heterozygosity ranged from 0.042 to 0.864 and from 0.041 to 0.892, respectively. Conclusions These markers should be useful for exploring the population genetic structure, mating system, and gene flow of T. chinensis.

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Seventeen new microsatellites for Tamarix gallica and cross‐amplification in Tamarix species

Terrones

Juan

2020

Appl Plant Sci

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Tamarix gallica L. is a widespread tree that forms woodlands in the western Mediterranean Basin in saline habitats such as salt marshes, ravines, and rivers with brackish waters (Baum, 1978). This species is closely related to and commonly confused with T. canariensis Willd. because of their similar morphology, anatomy, and phenology (Villar et al., 2019). Hybridization is common in the genus Tamarix L., making the species delimitation of T. gallica not well resolved (Villar et al., 2019). In addition, this and various other species of Tamarix have been reported as widespread invasives in North America (Villar et al., 2019). Simple sequence repeat (SSR) markers (also referred to as microsatellites) are useful tools to help resolve species delimitation. Some microsatellite markers have already been described in the genus Tamarix (Gaskin et al., 2006; Terzoli et al., 2010, 2013; Zhang et al., 2019), but no study has focused on describing genomic SSR markers for T. gallica. Consequently, as part of a study of the genetic diversity and structure of T. gallica in the western Mediterranean Basin, the aim of this work is to characterize new polymorphic microsatellite markers for T. gallica. Cross-species amplification was also tested in 19 species of Tamarix to aid with future taxon delimitation studies and population genetic studies of the genus both in native and invaded areas, particularly with respect to hybridization. METHODS AND RESULTS DNA extraction was carried out from silica gel-dried leaves by a modified cetyltrimethylammonium bromide (CTAB) method (Csiba and Powell, 2006). For the microsatellite library, 12 individuals of T. gallica and T. boveana Bunge were selected from two different populations. A microsatellite library enriched with TG, TC, AAC, AAG, AGG, ACG, ACAT, and ACTC motifs was prepared from the pooled DNA by Genoscreen (Lille, France) using a 454 GS-FLX (Roche Diagnostics, Meylan, France) high-throughput DNA sequencer (Malausa et al., 2011). Sequencing provided 22,418 reads with an average length of 220 bp. Raw sequences were searched for microsatellites with QDD version 3.1.2 (Meglécz et al., 2014) with default settings, which produced primers for 248 loci. To identify and eliminate known transposable elements and contaminants, these sequences were queried with RepeatMasker version open-4.0.3 (Smit et al., 2015) in the database Repbase version 20140131 (Bao et al., 2015), and with BLAST+ version 2.2.28+ (https ://blast.ncbi.nlm.nih.gov/Blast.cgi) in the National Center for Biotechnology Information (NCBI) nucleotide database. A total of 219 loci were developed for downstream testing. The number of primer pairs was reduced according to the following criteria (based on Guichoux et al., 2011 and Meglécz et al.,

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

Cited by 3 publications

References 16 publications

Genetic diversity and structure of an endangered desert shrub and the implications for conservation

Genetic diversity and structure of an endangered desert shrub and the implications for conservation

Development and characterization of genomic SSR markers for Tamarix chinensis (Tamaricaceae)

Seventeen new microsatellites for Tamarix gallica and cross‐amplification in Tamarix species

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