Isolation and characterization of microsatellite loci in the black pepper, Piper nigrum L. (piperaceae)

Menezes, I. C. de; Cidade, Fernanda Witt; Souza, Anete Pereira de; Sampaio, Iracilda

doi:10.1007/s12686-009-9051-6

Cited by 22 publications

(21 citation statements)

References 8 publications

(8 reference statements)

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“…Newly developed genomic SSR markers have been reported in some of the economically important spice crops such as Zingiber officinale (Lee et al 2007), Vanilla planifolia (Bory et al 2008), Piper nigrum L. (Menezes et al 2009;Joy et al 2011), and Curcuma longa (Sigrist et al 2009;Siju et al 2010). Recently cross species transferability of EST and genomic microsatellites from C. longa, Z.officinale and Amomum subulatum to E. cardamomum was reported (Anu et al 2015).…”

Section: Introductionmentioning

confidence: 99%

Isolation and characterization of genomic microsatellite markers for small cardamom (Elettaria cardamomum Maton) for utility in genetic diversity analysis

Cyriac

Rácz

Anupama

et al. 2016

Physiol Mol Biol Plants

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Microsatellite markers in small cardamom (Elettaria cardamomum Maton) were developed using the selective hybridization enrichment method. A total of 140 microsatellite repeats were identified from 270 clones. Primers were designed for 58 microsatellites and 44 primer pairs amplified products of expected size in cardamom. These markers were used for studying the diversity of 20 important small cardamom genotypes, and six markers were found to be polymorphic. The number of alleles ranged from 2 to 7 with an average of 3.6 per locus. Polymorphic information content values ranged from 0.14 to 0.38 based on dominant scoring. The two markers ECM 47a and ECMG 28 generated specific banding patterns for the genotypes MCC7 (Pink tiller) and APG434 (MA18) respectively. Dendrogram illustrated the genetic similarity between different genotypes of Kerala and Karnataka regions. It differentiated the closely related genotypes and released varieties into separate groups. Principal coordinate analysis revealed PV1 and ICRI 1 as the most divergent genotypes. The study demonstrated that these markers are informative and can be further utilized for generating reliable molecular data for assisting the crop improvement of small cardamom. Cross generic transferability (71.4 %) of the developed primers proved that they are useful for phylogenetic studies in the family Zingiberaceae. This is the first report of de novo isolation, characterisation and utilization of microsatellite markers for the genetic diversity analysis of small cardamom.

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Section: Introductionmentioning

confidence: 99%

Isolation and characterization of genomic microsatellite markers for small cardamom (Elettaria cardamomum Maton) for utility in genetic diversity analysis

Cyriac

Rácz

Anupama

et al. 2016

Physiol Mol Biol Plants

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“…For the analysis of transferability, we used 51 SSR markers (Tab. S3 in supplementary material) developed for Piper solmsianum (19) (Yoshida et al 2014), P. cordulatum (12) (Andree et al 2010), P. nigrum (9) (Menezes et al 2009), and P. polysyphonum (11) (Liao et al 2009). One DNA sample per species was used for the transferability analysis.…”

Section: Molecular Analysismentioning

confidence: 99%

“…SSR (Simple Sequence Repeats, or microsatellites) markers are available for some species of Piper of economic interest and importance for the food industry, such as P. nigrum, or of ecological interest, such as P. polysyphonum, P. cordulatum and P. solmsianum (Liao et al 2009;Menezes et al 2009;Andree et al 2010;Yoshida et al 2014). Due to their polymorphism, SSR markers have been used as an auxiliary tool to discriminate taxa by DNA fingerprinting (Duminil & Michele 2009;Nybom et al 2014) and are used in plant breeding for variety and cultivar selection (Arruda et al 2003;López-Olmos et al 2005).…”

Section: Introductionmentioning

confidence: 99%

DNA fingerprinting based on SSR amplification profiles for Piper species identification (Piperaceae)

et al. 2018

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DNA fingerprinting based on SSR amplification profiles was applied to native species of Piper from the Atlantic Forest to compare the utility of this type of molecular marker with the morphological characters traditionally applied in Piper taxonomy and identification. Fifty-one SSR markers developed for four species of Piper native to Asia and Mesoamerica were applied to 16 species, together with 63 morphological characters, for species characterization. Molecular and morphological data were analysed by cluster analysis, followed by a cluster sharpness test and the construction of a heat map to visualize the association of characters with species groups. A multivariate regression tree determined the number of loci needed for species identification. Forty-five primers were transferable to at least four species. Molecular data were more efficient in detecting sharp groups than morphological data. Species groups delimited by a set of shared morphological characters were differentiated based on molecular data. The sixteen studied species could be separated by nine primers, demonstrating the cross-species transferability of SSR markers and the usefulness of DNA fingerprinting for both the delimitation and the identification of species of Piper.

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“…However, studies on molecular phylogeny and population genetics are very scarce. Microsatellites are widely distributed across genomes and inherit in a codominant Mendelian manner and display high levels of polymorphism ( Li et al, 2002;Menezes et al, 2009). They have been developed into one of the most popular genetic markers used in parentage, genomic mapping, evolutionary population genetics, conservation biology, and other studies (Rao et al, 2000;Ellegren, 2004;Jarvis et al, 2008;Peng et al, 2009).…”

Section: Introductionmentioning

confidence: 99%

Polymorphic microsatellite loci for the genetic analysis of Lycoris radiata (Amaryllidaceae) and cross-amplification in other congeneric species

Sq¹,

Jy²,

Wang³

et al. 2011

Genet. Mol. Res.

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ABSTRACT. Lycoris radiata is a perennial herb that has been used in traditional Chinese medicine for a long time and has two main medicinal components in its bulb, lycorine and galanthamine. However, the original microsatellite loci have not been developed for any species of Lycoris. Total genomic DNA was extracted from fresh bulbs using a modified CTAB protocol. We isolated 10 microsatellite loci from 21 L. radiata individuals of a natural population from Yellow Mountain in Anhui Province, China. The number of alleles ranged from two to nine. The observed and expected heterozygosities ranged from 0.238 to 0.952 and from 0.455 to 0.784, respectively. One locus significantly deviated from Hardy-Weinberg equilibrium and no significant linkage disequilibrium was found between pairs of loci. Cross-species amplification of these microsatellite loci was characterized in additional five species (L. sprengeri, L. anhuiensis, L. albiflora, L. longituba, and L. chinensis) of Lycoris. The results suggest that these microsatellite markers would contribute to the population genetic studies of L. radiata and other related species.

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Isolation and characterization of microsatellite loci in the black pepper, Piper nigrum L. (piperaceae)

Cited by 22 publications

References 8 publications

Isolation and characterization of genomic microsatellite markers for small cardamom (Elettaria cardamomum Maton) for utility in genetic diversity analysis

Isolation and characterization of genomic microsatellite markers for small cardamom (Elettaria cardamomum Maton) for utility in genetic diversity analysis

DNA fingerprinting based on SSR amplification profiles for Piper species identification (Piperaceae)

Polymorphic microsatellite loci for the genetic analysis of Lycoris radiata (Amaryllidaceae) and cross-amplification in other congeneric species

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