GENETIC TRACEABILITY OF OIL PALM PROGENIES (Elaeis guineensis JACQ.) USING SIMPLE SEQUENCE REPEAT (SSR)

Progenies traceability status becomes an important activity in the oil palm breeding program, especially to obtain propriety of individual and progenies population with their parents. This study is concerned to analyze genetic traceability based on pattern and allele size of their parent using Simple Sequence Repeat (SSR) markers. There were 90 palms from 7 progenies populations in the AD02S, AD03S Adolina and MA22S Marihat Estate PT. Perkebunan Nusantara IV used in this research. Leaf and pollen samples were used to get genomic DNA. Then, DNA genomic was amplified using multiplexing method of 8 SSR markers and fluorescence labels of 6-FAM, HEX, and NED. Fragment analysis and extracted genotype data was obtained using Gene Marker® versi 2.4.0 Soft Genetics® LLC program. Genetic traceability analysis was based on alelle segregation pattern of Mendelian Law. The results described inappropriate alleles 4 individuals from 3 progenies (N, P, and S). Those individuals were palmrow of 22-30 in the AD02S; 29-27 in the MA22S; 9-22 and 9-28 in the AD02S. Other 4 progenies showed an appropriate segregation of genotype with their parents, which are crosses number of M, Q, R, and O.

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LEGITIMACY OF PROGENIES USING SSR MARKERS AS CONTROLLING SYSTEM AND EARLIER SELECTION IN THE OIL PALM NURSERY (Elaeis guineensis JACQ.)

Jurnal Penelitian Kelapa Sawit ◽

10.22302/10.22302/iopri.jur.jpks.v25i1.22 ◽

2018 ◽

Vol 25 (1) ◽

pp. 21-30

Author(s):

Rokhana Faizah ◽

Sri Wening ◽

Abdul Razak Purba

Keyword(s):

Dna Fingerprinting ◽

Ssr Markers ◽

Oil Palm ◽

Dna Markers ◽

Elaeis Guineensis ◽

Gene Marker ◽

Controlling System ◽

Crossing Probability ◽

Simple Sequence

Information of legitimacy of oil palm progenies is important to guaranty the quality and to control commercial seeds procedures. A true and legitimate cross will produce progeny which has a combination of their parent's allele. The information could be obtained early in the nursery stage through DNA fingerprinting analysis. Simple Sequence Repeats (SSR) is one of DNA markers used for DNA fingerprinting, since the marker system has advantages to acquire information of allele per individual in population and efficiency diverse allele of progeny and their parents. The aim of the research is to obtain legitimacy of 12 progenies analyzing in the oil palm nursery stage. Thirteen SSR markers were used to analyze 12 crossings number of oil palm. The genotypes data by alleles of SSR inferred and quantified using Gene Marker® Software version 2.4.0 Soft Genetics® LLC and analyzed based on Mendel's Law of Segregation. The result showed based on heredity pattern of progeny and their parent's allele that progenies H were indicated genetically derived from their known parents while progenies from A and G indicated as illegitimate crossing. Probability value for legitimacy of progenies of 9 other crosses has 0.031 and 0.5. Legitimacy analysis of progeny using SSR markers could be used to control the quality of crossing material and earlier selection in the oil palm nursery.

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LEGITIMACY OF PROGENIES USING SSR MARKERS AS CONTROLLING SYSTEM AND EARLIER SELECTION IN THE OIL PALM NURSERY (Elaeis guineensis JACQ.)

Jurnal Penelitian Kelapa Sawit ◽

10.22302/iopri.jur.jpks.v25i1.22 ◽

2017 ◽

Vol 25 (1) ◽

pp. 21-30

Author(s):

Rokhana Faizah ◽

Sri Wening ◽

Abdul Razak Purba

Keyword(s):

Dna Fingerprinting ◽

Ssr Markers ◽

Oil Palm ◽

Dna Markers ◽

Elaeis Guineensis ◽

Gene Marker ◽

Controlling System ◽

Crossing Probability ◽

Simple Sequence

Information of legitimacy of oil palm progenies is important to guaranty the quality and to control commercial seeds procedures. A true and legitimate cross will produce progeny which has a combination of their parent's allele. The information could be obtained early in the nursery stage through DNA fingerprinting analysis. Simple Sequence Repeats (SSR) is one of DNA markers used for DNA fingerprinting, since the marker system has advantages to acquire information of allele per individual in population and efficiency diverse allele of progeny and their parents. The aim of the research is to obtain legitimacy of 12 progenies analyzing in the oil palm nursery stage. Thirteen SSR markers were used to analyze 12 crossings number of oil palm. The genotypes data by alleles of SSR inferred and quantified using Gene Marker® Software version 2.4.0 Soft Genetics® LLC and analyzed based on Mendel's Law of Segregation. The result showed based on heredity pattern of progeny and their parent's allele that progenies H were indicated genetically derived from their known parents while progenies from A and G indicated as illegitimate crossing. Probability value for legitimacy of progenies of 9 other crosses has 0.031 and 0.5. Legitimacy analysis of progeny using SSR markers could be used to control the quality of crossing material and earlier selection in the oil palm nursery.

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Association between basal stem rot disease and simple sequence repeat markers in oil palm, Elaeis guineensis Jacq.

Euphytica ◽

10.1007/s10681-014-1270-6 ◽

2014 ◽

Vol 202 (2) ◽

pp. 199-206 ◽

Cited By ~ 3

Author(s):

Emad Omer Hama-Ali ◽

Jothi Malar Panandam ◽

Soon Guan Tan ◽

Sharifah Shahrul Rabiah Syed Alwee ◽

Tan Joon Sheong ◽

...

Keyword(s):

Oil Palm ◽

Simple Sequence Repeat ◽

Elaeis Guineensis ◽

Stem Rot ◽

Sequence Repeat ◽

Basal Stem Rot ◽

Simple Sequence Repeat Markers ◽

Elaeis Guineensis Jacq ◽

Rot Disease ◽

Simple Sequence

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Analysis of genetic diversity and population structure of oil palm (Elaeis guineensis) from China and Malaysia based on species-specific simple sequence repeat markers

Genetics and Molecular Research ◽

10.4238/2015.december.8.15 ◽

2015 ◽

Vol 14 (4) ◽

pp. 16247-16254 ◽

Cited By ~ 7

Author(s):

L.X. Zhou ◽

Y. Xiao ◽

W. Xia ◽

Y.D. Yang

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Oil Palm ◽

Simple Sequence Repeat ◽

Elaeis Guineensis ◽

Sequence Repeat ◽

Simple Sequence Repeat Markers ◽

Species Specific ◽

Simple Sequence

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Assessment of genetic diversity in Fusarium wilt tolerant and susceptible oil palm (Elaeis guineensis Jacq) progenies in Nigeria using inter- simple sequence repeat (ISSR) molecular markers

10.21203/rs.2.12913/v1 ◽

2019 ◽

Author(s):

Nnamdi Ifechukwude Chidi ◽

Adedotun Adeyinka Adekunle ◽

Temitope Oluwaseun Samuel ◽

Emmanuel Ifechukwude Eziashi ◽

David Okeh Igwe

Keyword(s):

Genetic Diversity ◽

Molecular Markers ◽

Oil Palm ◽

Simple Sequence Repeat ◽

Elaeis Guineensis ◽

Gene Diversity ◽

Inter Simple Sequence Repeat ◽

Mean Value ◽

Sequence Repeat ◽

Simple Sequence

Abstract Background Improving oil palm in Nigeria for food security and subsequent export requires a better understanding of the genetic diversity among oil palm progenies tolerant and susceptible to Fusarium wilt disease. In view of the limitations of the orthodox method used in screening this disease, and the advantages of molecular markers, fourteen (14) Inter-simple sequence repeat (ISSR) DNA markers were applied to evaluate the genetic diversity, population structure and cluster resolutions of alleles responsible for tolerance of 560 Elaeis guineensis Jacq palms representing 8 different progenies distributed across NigeriaResults The amplification product revealed a moderately high level of genetic diversity with a total of 46 alleles identified, resulting in an average of 4.9091 alleles per locus detected between the oil palm progenies. Polymorphic information content (PIC) values varied between 0.3706-0.7861, with a mean value of 0.6829. The genetic diversity values ranged from 0.4063-0.8125 with a mean of 0.7216, while the major allele frequency ranged from 0.2500- 0.7500 with a mean value of 0.3750. Shannon's information index (I), Nei's gene diversity (H), and the effective number of alleles (Ne) had values of 0.6931, 0.5000, and 2.000, respectively. The genetic diversity was highest in progeny 3023, and lowest in progeny 4189. Mean values of the total gene diversity (Ht), gene diversity within the population (Hs) of the progenies, coefficient of gene differentiation among the progenies (Gst) and level of gene flow (Nm) were 0.4899, 0.3520, 0.2815 and 1.2764, respectively. The dendrogram clustered the progenies into six major clusters, while Principal Component Analysis (PCA) grouped the progenies into five clusters. PCA further identified the coordinate positions of tolerant and susceptible alleles of oil palm progeniesConclusion This study confirmed the identification of the coordinate positions of tolerant alleles in the gene loci, which could be exploited by breeders to developing tolerant oil palm seedlings.

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Studi Pendahuluan Keanekaragaman Genetik Kelapa Sawit Asal Kamerun di PT. Binasawit Makmur

Jurnal Lahan Suboptimal ◽

10.33230/jlso.8.2.2019.424 ◽

2019 ◽

Vol 8 (2) ◽

pp. 126-133

Author(s):

Upit Sarimana ◽

Nurcahyono Indarto ◽

Javier Herrero ◽

Pratiwi Erika ◽

Fahmi Wendra ◽

...

Keyword(s):

Genetic Diversity ◽

Ssr Markers ◽

Oil Palm ◽

Simple Sequence Repeat ◽

Sequence Repeat ◽

Plant Breeding Program ◽

Total Genetic Diversity ◽

Preliminary Study ◽

Preliminary Research ◽

Simple Sequence

Sarimana U, Indarto N, Herrero J, Erika P, Wendra F, Zulhermana Z, Asmono D. 2019. Genetic diversity preliminary study of cameroon origin oil palm at PT. Binasawit Makmur. Jurnal Lahan Suboptimal: Journal of Suboptimal Lands. 8(2):126-133. A plant breeding program needs genetic diversity information of germplasm, but the source of genetic diversity of oil palm plants in Indonesia is very narrow. In order to increase genetic diversity, the introduction of germplasm from Cameroon was conducted. The purpose of this study was to obtain a useful molecular marker in order to get genetic diversity information in Elaeis guinensis germplasm materials from Cameroon at PT. Binasawit Makmur (BSM). This preliminary research has been done in 2013. In this study, 300 samples of Cameroon oil palm DNA from 99 accessions and 10 samples DNA BSM material were analyzed by 9 microsatellite markers (simple sequence repeat; SSR). The 9 SSR markers used were very informative and we obtained 93 alleles with an average of 10.33 alleles per locus. The value of polymorphism information content (PIC) was around 0.746-0.889. The total genetic diversity was relative high (HT = 0.814). The coordinate analysis showed no groups in both 99 accessions and BSM material. Based on phylogenetic analysis, 9 SSR markers could show the genetic diversity between the populations. To validate this fact, it needs further research using more molecular markers and samples.

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Genotyping of Peach and Nectarine Cultivars with SSR and SRAP Molecular Markers

Journal of the American Society for Horticultural Science ◽

10.21273/jashs.129.2.0204 ◽

2004 ◽

Vol 129 (2) ◽

pp. 204-210 ◽

Cited By ~ 37

Author(s):

Riaz Ahmad ◽

Dan Potter ◽

Stephen M. Southwick

Keyword(s):

Molecular Markers ◽

Ssr Markers ◽

Simple Sequence Repeat ◽

Sweet Cherry ◽

Prunus Persica ◽

Sequence Repeat ◽

Srap Markers ◽

Upgma Cluster Analysis ◽

Commercially Important ◽

Simple Sequence

Simple sequence repeat (SSR) and sequence related amplified polymorphism (SRAP) molecular markers were evaluated for detecting intraspecific variation in 38 commercially important peach and nectarine (Prunus persica) cultivars. Out of the 20 SSR primer pairs 17 were previously developed in sweet cherry and three in peach. The number of putative alleles revealed by SSR primer pairs ranged from one to five showing a low level of genetic variability among these cultivars. The average number of alleles per locus was 2.2. About 76% of cherry primers produced amplification products in peach and nectarine, showing a congeneric relationship within Prunus species. Only nine cultivars out of the 38 cultivars could be uniquely identified by the SSR markers. For SRAP, the number of fragments produced was highly variable, ranging from 10 to 33 with an average of 21.8 per primer combination. Ten primer combinations resulted in 49 polymorphic fragments in this closely related set of peaches and nectarines. Thirty out of the 38 peach and nectarine cultivars were identified by unique SRAP fingerprints. UPGMA Cluster analysis based on the SSR and SRAP polymorphic fragments was performed; the relationships inferred are discussed with reference to the pomological characteristics and pedigree of these cultivars. The results indicated that SSR and SRAP markers can be used to distinguish the genetically very close peach and nectarine cultivars as a complement to traditional pomological studies. However, for fingerprinting, SRAP markers appear to be much more effective, quicker and less expensive to develop than are SSR markers.

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Assessment of the Genetic Diversity of Rice Germplasms Characterized by Black-Purple and Red Pericarp Color Using Simple Sequence Repeat Markers

Plants ◽

10.3390/plants8110471 ◽

2019 ◽

Vol 8 (11) ◽

pp. 471

Author(s):

Jae-Ryoung Park ◽

Won-Tae Yang ◽

Yong-Sham Kwon ◽

Hyeon-Nam Kim ◽

Kyung-Min Kim ◽

...

Keyword(s):

Genetic Diversity ◽

Ssr Markers ◽

Simple Sequence Repeat ◽

Germplasm Collection ◽

Group Method ◽

Sequence Repeat ◽

Rice Varieties ◽

Red Pericarp ◽

Simple Sequence ◽

Colored Rice

The assessment of the genetic diversity within germplasm collections can be accomplished using simple sequence repeat (SSR) markers and association mapping techniques. The present study was conducted to evaluate the genetic diversity of a colored rice germplasm collection containing 376 black-purple rice samples and 172 red pericarp samples, conserved by Dong-A University. There were 600 pairs of SSR primers screened against 11 rice varieties. Sixteen informative primer pairs were selected, having high polymorphism information content (PIC) values, which were then used to assess the genetic diversity within the collection. A total of 409 polymorphic amplified fragments were obtained using the 16 SSR markers. The number of alleles per locus ranged from 11 to 47, with an average of 25.6. The average PIC value was 0.913, ranging from 0.855 to 0.964. Four hundred and nine SSR loci were used to calculate Jaccard’s distance coefficients, using the unweighted pair-group method with arithmetic mean cluster analysis. These accessions were separated into several distinctive groups corresponding to their morphology. The results provided valuable information for the colored rice breeding program and showed the importance of protecting germplasm resources and the molecular markers that can be derived from them.

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