Investigation of Genetic Relationships and Hybrid Detection in Longan by High Annealing Temperature Rapd

Sitthiphrom, S.; Anuntalabhochai, S.; Dum-ampai, N.; Thakumphu, Boontham; Dasanonda, M.

doi:10.17660/actahortic.2005.665.18

Cited by 6 publications

(5 citation statements)

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“…(Fig 2) and D. longan Lour. (Fig 3), found in earlier research, 1,14 were similar to our findings. These dendrograms, which were generated by bootstrapping the character state data can be viewed at the web site indicated above and were printed using the program TREEVIEW.…”

Section: Resultssupporting

confidence: 93%

“…The HAT-RAPD fingerprint database of tropical plants is a collection of HAT-RAPD band size data. HAT-RAPD species data was determined previously by our laboratory 1,14 for all species except Peuraria. The database discussed in this manuscript can be viewed at http://science.bard.edu/thaiplant/.…”

Section: Resultsmentioning

confidence: 99%

“…2 By noting the presence or absence of conserved bands in the amplified products (which we designate as a character state measure for the Phylip DISCRETE software package 7 ), varieties and hybrids of L. chinensis Sonn. 1 and D. longan Lour., 14 were effectively and reliably identified. Thus, the HAT-RAPD profiles can further be adapted for plant identification.…”

Section: Introductionmentioning

confidence: 95%

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Wangspa¹,

Cutler²,

Sitthiprom³

et al. 2005

ScienceAsia

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The high annealing temperature random amplified polymorphic DNA (HAT-RAPD) method can be used to generate highly polymorphic data from PCR amplification of DNA samples to determine relatedness in plant cultivars. Using the HAT-RAPD method, we created a fingerprint database of tropical plants for fourteen subspecies of Dimocarpus longan Lour., twelve subspecies of Litchi chinensis Sonn., and seven distinct varieties of the genus Peuraria, two of which were previously uncharacterized. Out of a total of 22 distinct primer sets, a subset of primers with reproducible DNA band patterns was characterized for each species. From this data, we developed a web-accessible database that both graphically and quantitatively depicts the existent bands and species phylogenies using character state data generated from the banding patterns. Using historical and geographic data for these plant species and subspecies, the generated phylogenies support the currently accepted species relationships for D. longan and L. chinensis and characterize the unidentified varieties of Peuraria. The HAT-RAPD experimental method combined with band pattern recognition is a cost effective and easily characterized methodology that can be used to identify plant varieties, as well as to advance the knowledge of biodiversity in previously uncharacterized species.

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Section: Resultssupporting

confidence: 93%

Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 95%

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Wangspa¹,

Cutler²,

Sitthiprom³

et al. 2005

ScienceAsia

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“…In this paper we demonstrate the possible relationship of several important Thai banana cultivars based on a stringent RAPD technique, now called high annealing temperature (HAT)-RAPD (Sitthipron et al 2005). We report on the use of this technique in investigating the classification and establishment of genetic relationship between the cultivars and discuss the potential of the molecular data.…”

Section: Introductionmentioning

confidence: 99%

Molecular phylogeny of banana cultivars from Thailand based on HAT-RAPD markers

Ruangsuttapha

Eimert

Schröder

et al. 2007

Genet Resour Crop Evol

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Musa acuminata Colla (AA genomes) and Musa balbisiana Colla (BB genomes) are the wild progenitors of the cultivated banana, they are highly variable in Thailand. The genetic system is relatively unknown and complicated due to interspecific hybridization, heterozygosity and polyploidy, which are common in most clones. These factors make identification of closely related banana cultivars difficult, especially when sterile. The high annealing temperature-random amplified polymorphic DNA (RAPD) technique was used to estimate the genetic relationship between 22 selected banana cultivars, utilizing 14 random primers. Phylogenetic relationship was determined by unweighted pair group method with arithmetical averages cluster analysis. The dendrogram constructed from the similarity data showed that all the 22 cultivars analysed were closely related with a narrow genetic base. There were sufficient RAPD polymorphisms that were collectively useful in distinguishing the cultivars. The dendrogram grouped all the AA, BB, AAA, AAB and ABB genomes into a major cluster. Several subgroups are recognized within the major clade. As expected, Ensete glauca Roxb. (Musaceae) and Strelitzia reginae Banks (Strelitziaceae) were clearly differentiated from the analysed edible bananas. Our study showed that RAPD markers are sufficiently abundant to classify and readily dissect genetic differences between the closely related Musa germplasm and provide a basis for the selection of parents for improvement of this germplasm.Keywords Banana Á Molecular phylogeny Á Musa Á HAT-RAPD Á Thailand Abbreviations HAT-RAPD High annealing temperaturerandom amplified polymorphic DNA BpBase pair(s) UPGMA Unweighted pair group method with arithmetical averages

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“…By increasing the temperature for the primer annealing step in the PCR, a high-annealing-temperature RAPD (HAT-RAPD) methodology has increased the reproducibility of this technique, and has already been effectively used to investigate the genetic relationship of hybrids in longan (Sitthiprom et al 2005). Once a set of amplified regions have been secured, sequence characterized amplified region (SCAR) markers (Paran and Michelmore 1993) can be developed to produce reliable unique PCR-based results from the polymorphic HAT-RAPD markers.…”

Section: Introductionmentioning

confidence: 99%

Development of Sequence‐characterized DNA Markers Linked to Temperature Insensitivity for Fruit Production in Longan (Dimocarpus longan Lour.) Cultivars

Cutler¹,

Sitthiphrom²,

Marha³

et al. 2006

J Agronomy Crop Science

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In this paper, we characterize a temperature dependence in longan (Dimocarpus longan Lour.) cultivars using the high annealing temperature random-amplified polymorphic DNA (HAT-RAPD) methodology. This form of genomic analysis allows a random sampling of the complete genome to provide information about phenotypic traits of interest. Using a set of 18 unique decamer primers, polymorphic bands ranging from 100 to 2500 bp were examined for 14 longan varieties from which banding patterns of interest were selected for conversion to the more reproducible and robust sequence characterized amplified region (SCAR) markers. In particular, one SCAR marker produced an electrophoresis banding pattern which could distinguish between longan varieties requiring a sustained interval at low temperatures for fruit production vs. those that do not. This band was composed of a nucleotide region 275 bases in length (DQ539047) in which the initial 90 nucleotides were >85 % identical to the 12-oxophytodienoic acid (OPDA) reductase gene. OPDA is an immediate precursor to jasmonic acid which has been described as the Ômaster switchÕ for lipid-derived environmental signalling to factors such as flowering and osmotic stress. The possible involvement of the jamonic acid signalling pathway could explain the recent success of potassium chlorate to induce off-season flowering and fruit formation.

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Investigation of Genetic Relationships and Hybrid Detection in Longan by High Annealing Temperature Rapd

Cited by 6 publications

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Molecular phylogeny of banana cultivars from Thailand based on HAT-RAPD markers

Development of Sequence‐characterized DNA Markers Linked to Temperature Insensitivity for Fruit Production in Longan (Dimocarpus longan Lour.) Cultivars

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