DNA markers for variety identification in date palm (Phoenix dactyliferaL.)
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Abstract:
SummarySimple sequence repeats (SSRs; microsatellites) are currently the favoured type of molecular marker for identifying plant germplasm. However, identifying polymorphic SSRs and then using them to distinguish closely-related varieties can be time-consuming. Polymorphic markers originating from particularly labile regions of the genome are likely to be easier to develop and also have the potential to identify markers that have higher polymorphic information contents. Genomic regions that vary in somaclonal “off-types” are a possible source of such labile regions of the genome. Thirty-seven primer pairs, developed from sequences that differed between normal and mantled somaclonal mutant oil palm (Elaeis guineensis Jacq.) plants, were used in polymerase chain reactions to screen DNA from 18 varieties of date palm (Phoenix dactylifera L.). From the resulting polymorphisms, three primer pairs were selected which, when used in combination, could identify each of the date palm varieties, unambiguously. The polymorphic bands were isolated, sequenced, and new internal primers were designed. However, all of the amplifications using these new primers yielded only monomorphic bands, indicating that the variation among these date palm varieties lay mainly at or near the original primer sites, and that the internal sequences were conserved.Keywords:
Phoenix dactylifera
Primer (cosmetics)
Germ plasm
Elaeis guineensis
genomic DNA
Arecaceae
Molecular marker
Microsatellite markers (SSRs) were used to screen and analyse the genetic diversity among clonal genotypes of date palm ( Phoenix dactylifera L.) derived by somatic embryogenesis in Oman. Twenty-one palms, representing 14 Omani, five Bahraini, one Iraqi and one Moroccan genotype, were screened with ten microsatellite markers. All primer pairs produced an amplification product in the expected size range and detected high levels of polymorphism among the analysed samples. Correspondence analysis revealed that the genotypes from Bahrain and Iraq showed a close relationship with accessions already grown in Oman. The genotype from Morocco (Medjool) appeared distinct from the rest of the material. Three independent clonal lines derived from a single Khalas Aldahra genotype were found to give identical genetic fingerprints. The value of this work for date palm production and conservation in Oman is discussed.
Phoenix dactylifera
Arecaceae
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본 연구는 재래돼지 특이적인 marker를 개발하고 이들 marker와 육질과의 연관성을 규명하기 위하여 실시하였다. 실험동물로 재래돼지와 랜드레이스 각각 30두씩 총 60두를 사용하였으며, 품종 특이 marker를 찾기 위하여 4번과 7번 염색체에 존재하는 총 60개의 microsatellite를 이용하여 PCR (polymerase chain reaction)을 수행하였다. PCR 증폭은 형광물질 Fam과 Hex, Ned로 표지된 한쌍의 microsatellite primer를 이용하였으며, 형광물질로 표식된 PCR 산물은 Genetic Analyzer ABI 310으로 전기영동하여 대립 유전자를 규명하고 통계 분석하였다. 대립 유전자에 대한 통계 분석 결과 총 60개의 microsatellite중 27개가 다양한 유전적 다형현상을 보이는 대립 유전자가 증폭되었으며 (p<0.05), 특히 SW1364와 SW445, SW1369, SWR773 microsatellite의 증폭 산물에서 재래돼지와 랜드레이스 두 품종간을 구분할 수 있는 품종 특이적인 대립 유전자를 확인하였다 (p<0.01). 또한 육질에 영향을 미치는 유전적 marker를 얻기 위해 60두 전체에 대한 육색, 지방색, 지방산 조성, 콜레스테롤 함량, 연도와 경도에 대한 육질 분석을 실시하여 육질 형질과 marker와의 연관성을 분석한 결과 육질 형질에 영향을 미치는 28개 marker를 확인하였으며, 육색과 지방색에 연관된 4개, 조직감과 연관된 10개의 marker를 확인하였다. 이렇게 선발된 marker들은 고급육 생산을 위한 돼지의 유전적 개량을 위하여 유용하게 이용될 수 있다.
Primer (cosmetics)
Molecular marker
Marker gene
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SummarySeedlings of Phoenix dactylifera can be male or female, and this is not obvious until the plant matures. Sex determination of date palm seedlings is useful to design plantations, in order to plant the optimum ratio of male and female palms. In the present study, PCR-based RAPD analysis with 36 random primers was used to generate a marker to identify sex in date palm. One male-specific marker of 520 bp was amplified from the genomic DNA of ‘Zamardan’, a male cultivar of Iranian date palm. This band was absent in the PCR products of genomic DNA from female trees.
Phoenix dactylifera
Molecular marker
genomic DNA
Identification
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Sixteen microsatellite markers (simple sequence repeat (SSR) markers) were employed to examine the genetic stability of 27 randomly chosen date palm (Phoenix dactylifera L.) plants produced through somatic embryogenesis with upto forty two in vitro subcultures. No microsatellite DNA variation was observed among all micropropagated plants. Our results indicate that the micropropagation protocol used for rapid in vitro multiplication is appropriate and suitable for clonal propagation of date palm and corroborated that somatic embryogenesis can also be used as one of the safe modes for production of true-to-type plants of date palm. This is the first report on the use of microsatellite DNA markers to establish the genetic stability in micropropagated date palm plants.
Phoenix dactylifera
Arecaceae
Somaclonal variation
Molecular marker
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Abstract A (GA) n microsatellite‐enriched library was constructed and 16 nuclear simple sequence repeat (SSR) loci were characterized in Phoenix dactylifera . Across‐taxa amplification and genotyping tests showed the utility of most SSR markers in 11 other Phoenix species and the transferability of some of them in Elaeis guineensis , 11 species of Pritchardia , Pritchardiopsis jeanneneyi and six species of Astrocaryum . The first to be published for P. dactylifera , these new SSR resources are available for cultivar identification, pedigree analysis, germplasm diversity as well as genetic mapping studies.
Phoenix dactylifera
Arecaceae
Germ plasm
Phoenix
Elaeis guineensis
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Microsatellite markers containing simple sequence repeats (SSRs) are a valuable tool for genetic analysis. Our objective was to identify microsatellite markers that could be used to differentiate between male and female date palm (Phoenix dactylifera). The date palm is a dioecious plant whose sex cannot be determined until it reaches a reproductive age between 5 and 10 years. An early selection and/or differentiation of young seedlings into males and females could enhance breeding and assist research programs for genetic improvements of the date palm. Here, we report on the use of microsatellites for determining the sex of immature date palm. Using 14 microsatellite primer pairs with 129 date palm leaves and tissue culture samples from 34 cultivars which represent the major date palm diversity of Qatar, 254 microsatellite loci were detected, of these, 22 microsatellite loci could be used to identify 9 out of 12 male date palm samples (75%). The data also indicated that the heterozygous allele with the size 160/190 produced by the primer mPdCIR048 reoccurred 4 times exclusively in the 12 individual male samples but not in any of the 117 female date palm samples tested, and hence it is a promising candidate marker to detect male sex in date palm. Principal coordinate analysis (PCoA) of 12 male samples with 7 female Khasab cultivars produced 2 autonomous groups of males and females and similar results were observed with 13 female Shishi cultivars. Our results suggest that the SSR markers described here have potential in sex identification of date palm.
Phoenix dactylifera
Arecaceae
Primer (cosmetics)
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Characterization of date palm cultivars is a complex task using morphological traits alone since morphological markers are dependent on plant developmental stage and influenced by the environment. However, DNA fingerprinting can complement and enhance the discriminatory power of morphological traits. The study was conducted to investigate genetic diversity amongst fourteen cultivars of date palm (Phoenix dactylifera L.) from Nigeria and Saudi Arabia using microsatellite markers. The aim was to determine the genetic and geographical patterns of Nigeria and Saudi Arabia date palms. Molecular study conducted using six microsatellite markers employed on fourteen cultivars, ten from Nigeria and four from Saudi Arabia, revealed 83.3% polymorphism which indicated high genetic diversity among the cultivars studied. The amplified products ranged in size from 127 to 304 bp. A total of 42 alleles with an average of seven alleles per locus were scored. Two of the markers, MpdCIR025 and MpdCIR050, distinctively characterized six cultivars. This study indicated that variation observed among the cultivars followed a geographical pattern. However, this study was not able to show any alleles that might be linked to gender in date cultivars. Inclusion of more molecular markers in such a study might provide more accurate differentiation and possibly gender discrimination in date palm.
Phoenix dactylifera
Germ plasm
DNA profiling
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The palm tree family (Arecaceae) is constituted by approximately 3000 species mainly distributed in the tropics and subtropics. As a source of a variety of products they contribute to the world and local economies, and also to peoples lifestyles. Historically their use has been based on wild populations, but also on local domestication. Very few species are subject of plant breeding programs and are cultivated in the world. This is the case of the African oil palm (Elaeis guineensis), in which investment and development consortiums invest high sums. Another kind of crop is the date palm (Phoenix dactylifera), which was domesticated thousand of years ago and whose success is based in the export of a fine product with worldwide recognition. In this case the production is based on traditional varieties and has very incipient breeding programs. A third group of palms includes those species from which products are obtained and manufactured for local development. The objective of this literature review is to contribute in the analysis of opportunities and weaknesses to investing in domestication and plant breeding programs in those palm trees with a recognized productive value.
Phoenix dactylifera
Elaeis guineensis
Arecaceae
Germ plasm
Plant Breeding
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Date palm ( Phoenix dactylifera L.) is cultivated in arid and semiarid regions worldwide. Given the dioecious nature of this plant, gender identification is very important at the seedling stage. Molecular markers are very effective tools that help in gender identification at this stage. A sequence characterized amplified region (SCAR) marker linked to sex-specific regions in the genome of date palm was developed. Of the 300 tested randomly amplified polymorphic DNA (RAPD) primers, only one primer (OPC-06) produced reproducible band (294 bp) in male plants. The PCR product of this primer was cloned and sequenced. The specific primers were synthesized for amplification of a 186 bp fragment in male date palm plants. These primers were validated in male and female date palm plants, wherein the designed SCAR marker was reported only in male plants and no amplification was observed in female plants. The developed SCAR marker was used with seedlings of date palm and proved very effective in identification of gender.
Phoenix dactylifera
Primer (cosmetics)
Molecular marker
Identification
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Citations (18)