Evaluation of the genetic diversity of pomegranate accessions from Turkey using new microsatellite markers
Evaluation of the genetic diversity of pomegranate accessions from Turkey using new microsatellite markers
Turkey has many valuable genetic resources for pomegranate; however, there have not been many studies on the identificationand characterization of these important genetic resources. New microsatellite markers were used to characterize a set of 78 pomegranateaccessions from Turkey. Using six SSR primers, a total of 41 alleles were characterized with an average of 4.6 alleles per locus andmean probability of identity (PI) value of 0.366. These data indicated a high level of polymorphism in pomegranate germplasm. Fivesynonymous groups could be detected among 30 accessions. This microsatellite-based key is a first step towards a database for markerassisted identification of pomegranate accessions in Turkey. The present study provides essential information to devise a pomegranatecore germplasm collection without duplication of plant material, to sustainably manage pomegranate breeding programs, and toestablish conservation strategies for preserving local pomegranate genetic resources.
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- Alamuti MK, Zeinalabedini M, Derazmahalleh MM, Shojaie TR,
Irandoost HP, Zahravi M, Vazifehshenas M, Ebrahimi MA,
Nekouei SMK, Salekdeh GH et al. (2012). Extensive genetic
diversity in Iranian pomegranate (Punica granatum L.)
germplasm revealed by microsatellite markers. Sci Hortic 146:
104-114.
- Bashalkhanov S, Pandey M, Rajora OP (2009). A simple method for
estimation genetic diversity in large populations from finite
sample sizes. BMC Genetics 84: 1-10.
- Bellini E, Giordani E (1998). Descriptor List for Pomegranate
(Punica granatum L.). Project on “Minor Fruit Tree Species
Conservation”: RESGEN29. Florence, Italy: Horticulture
Department, University of Florence.
- Ben-Simhon Z, Judeinstein S, Trainin T, Harel-Beja R, Bar-Ya’akov I,
Borochov-Neori H, Holland H (2015). A “white” anthocyaninless pomegranate (Punica granatum L.) caused by an insertion
in the coding region of the leucoanthocyanidin dioxygenase
(LDOX; ANS) gene. PLoS One 10: e0142777.
- Berinyuy JE, Fontem DA, Focho DA, Schippers RR (2002).
Morphological diversity of Solanum scabrum accessions in
Cameroon. Plant Genet Res News 131: 42-48.
- Bowcock AM, Ruiz-Linares A, Tomfohrde J, Minch E, Kidd JR, CavalliSforza LL (1994). High resolution of human evolutionary trees
with polymorphic microsatellites. Nature 368: 455-457.
- Boz Y, Bakir M, Çelikkol BP, Kazan K, Yilmaz F, Çakir B, Aslantaş
S, Söylemezoğlu G, Yaşasin AS, Özer C et al. (2011). Genetic
characterization of grape (Vitis vinifera L.) germplasm from
Southeast Anatolia by SSR markers. Vitis 50: 99-106.
- Caliskan O, Bayazit S (2012). Phytochemical and antioxidant
attributes of autochthonous Turkish pomegranates. Sci Hortic
147: 81-88.
- Caliskan O, Bayazit S (2013). Morpho-pomological and chemical
diversity of pomegranate accessions grown in eastern
Mediterranean region of Turkey. J Agr Sci Tech 15: 1449-1460.
- Caliskan O, Polat AA, Celikkol P, Bakir M (2012). Molecular
characterization of autochthonous Turkish fig accessions. Span
J Agric Res 10: 130-140.
- Currὸ S, Caruso M, Distefano G, Gentile A, La Malfa S (2010).
New microsatellite loci for pomegranate, Punica granatum
(Lythraceae). Am J Bot 97: 58-60.
- Drogoudi PD, Tsipouridis C, Michailidis Z (2005). Physical and
chemical characteristics of pomegranates. Hort Sci 40: 1200-
1203.
- Ebrahimi S, Sayed-Tabatabaei BE, Sharifnabi B (2010) Microsatellite
isolation and characterization in pomegranate (Punica
granatum L.). Iran J Biotechnol 8: 156-163.
- Ellegren H (2004). Microsatellites: simple sequences with complex
evaluation. Nature Rev Genet 5: 435-445.
- Ercisli S (2009). Apricot culture in Turkey. Sci Res Essays 4: 715-719.
- Ercisli S, Gadze J, Agar G, Yildirim N, Hizarci Y (2011a). Genetic
relationships among wild pomegranate (Punica granatum)
genotypes from Coruh Valley in Turkey. Genet Mol Res 10:
459-464.
- Ercisli S, Kafkas E, Orhan E, Kafkas S, Dogan Y, Esitken A (2011b).
Genetic characterization of pomegranate (Punica granatum L.)
genotypes by AFLP markers. Biol Res 44: 345-350.
- Ergül A, Bakır M (2013). Development of genomic SSRs markers of
pomegranate (Punica granatum L.). In: National Agriculture
Symposium; 26–29 October; Antalya, Turkey (in Turkish).
- Ergül A, Marasali B, Ağaoğlu YS (2002). Molecular discrimination
and identification of some Turkish grape cultivars (Vitis
vinifera L.) by RAPD markers. Vitis 41: 159-160.
- Erturk Y, Ercisli S, Haznedar A, Cakmakci R (2010). Effects of plant
growth promoting rhizobacteria (PGPR) on rooting and root
growth of kiwifruit (Actinidia deliciosa) stem cuttings. Biol Res
43: 91-98.
- Ferrara G, Cavoski I, Pacifico A, Tedone L, Mondelli D (2011).
Morpho-pomological and chemical characterization of
pomegranates (Punica granatum L.) genotypes in Apulia
region, Southeastern Italy. Sci Hortic 130: 599-606.
- Ferrara G, Gianaspro A, Mazzeo A, Giove SL, Stella Matarrese AM,
Pacucci C, Punzi R, Trani A, Gambacorta G, Blanco A et al.
(2014) Characterization of pomegranate (Punica granatum L.)
genotypes collected in Puglia region, Southeastern Italy. Sci
Hortic 178: 70-78.
- Gil MI, Tomas-Barberan FA, Hess-Pierce B, Holcroft DM, Kader
AA (2000). Antioxidant activity of pomegranate juice and its
relationship with phenolic composition and processing. J Agric
Food Chem 48: 4581-4589.
- Hasnaoui N, Buonamici A, Sebastiani F, Mars M, Zhang D,
Vendramin GG (2012). Molecular genetic diversity of Punica
granatum L. (pomegranate) as revealed by microsatellite DNA
markers (SSR). Gene 493: 105-112.
- Hasnaoui N, Buonamici A, Sebastiani F, Mars Trifi M, Vendramin
GG (2010). Development and characterization of SSR markers
for pomegranate (Punica granatum L.) using an enriched
library. Conservation Genet Resour 2: 283-285.
- Hedrick PW (1999). Perspective: Highly variable loci and their
interpretation in evolution and conservation. Evolution 53:
313-318.
- Holland D, Hatib K, Bar-Ya’akov I (2009). Pomegranate: botany,
horticulture, breeding. Hort Rev 35: 127-191.
- Hricova A, Fejer J, Libiakova G, Szabova M, Gazo J, Gajdosova
A (2016). Characterization of phenotypic and nutritional
properties of valuable Amaranthus cruentus L. mutants. Turk
J Agric For 40: 761-771.
- Jbir R, Zehdi S, Hasnaoui N, Salhi-Hannachi A, Mars M (2012).
Microsatellite polymorphism in Tunisian pomegranates
(Punica granatum L.): cultivar genotyping and identification.
Biochem System Ecol 44: 27-35.
- Lefort F, Lally M, Thompson D, Douglas GC (1998). Morphological
traits, microsatellite fingerprinting and genetic relatedness of
a stand of elite oaks (Q. robur L.) at Tullynally, Ireland. Silvae
Genet 47: 5-6.
- Levin GM (2006). Pomegranate Roads: A Soviet Botanist’s Exile from
Eden. 1st ed. Forestville, CA, USA: Floreant Press.
- Mena P, Garcia-Viguera C, Navarro-Rico J, Moreno D, Bartual J,
Saura D, Marti N (2011). Phytochemical characterization for
industrial use of pomegranate (Punica granatum L.) cultivars
grown in Spain. J Sci Food Agric 91: 1893-1906.
- Minch E, Ruiz-Linares A, Goldstein DB, Feldman M, Cavalli-Sforza
LL (1995). Microsat (Version 1.5d): A Computer Program for
Calculating Various Statistics on Microsatellite Allele Data.
Palo Alto, CA, USA: Stanford, CA, USA.
- Moslemi M, Zahravi M, Khaniki GB (2010). Genetic diversity and
population genetic structure of pomegranate (Punica granatum
L.) in Iran using AFLP markers. Sci Hortic 126: 441-447.
- Nafees M, Jaskani MJ, Ahmed S, Awan FS (2015). Morpho-molecular
characterization and phylogenetic relationship in pomegranate
germplasm of Pakistan. Pak J Agri Sci 52: 97-106.
- Nemati Z, Tehranifar A, Farsi M, Mirshamsi Kakhki A, Nemati H,
Khayat M (2012). Evaluation of genetic diversity of Iranian
pomegranate cultivars using fruit morphological characteristics
and AFLP markers. Not Bot Hortic Agrobo 40: 261-268.
- Okatan V, Akca Y, Ercisli S, Gozlekci S (2015). Genotype selection for
physico-chemical fruit traits in pomegranate (Punica granatum
L.) in Turkey. Acta Scientiarum Polonorum Hortorum Cultus
14: 123-132.
- Onur C (1982). Akdeniz Bölgesi narlarının seleksiyonu. PhD,
Çukurova University, Adana, Turkey (in Turkish).
- Ophir R, Sherman A, Rubinstein M, Eshed R, Schwager MS, HarelBeja R, Bar-Yáakov I, Holland D (2014). Single-nucleotide
polymorphism markers from de-novo assembly of the
pomegranate transcriptome reveal germplasm genetic diversity.
PLOS One 9: e88998.
- Orhan E, Ercisli S, Esitken A, Sengul M (2014). Molecular and
morphological characterization of pomegranate (Punica
granatum L.) genotypes sampled from Coruh valley in Turkey.
Genet Mol Res 13: 6375-6382.
- Özgüven AI, Yılmaz M, Yılmaz C (2011). The fruit traits of some
pomegranate cultivars in Adana ecological conditions. Acta
Hortic 890: 197-200.
- Paetkau D, Calvert W, Stirling I, Strobeck C (1995). Microsatellite
analysis of population structure in Canadian polar bears. Mol
Ecol 4: 347-354.
- Parvaresh M, Talebi M, Sayed-Tabatabaei BE (2012). Molecular
diversity and genetic relationship of pomegranate (Punica
granatum L.) genotypes using microsatellite markers. Sci Hortic
138: 244-252.
- Pirseyedi SM, Valizadehghan S, Mardi M, Ghaffari MR, Mahmoodi
M, Zahravi M, Zeinalabedini M, Nekoui SMK (2010). Isolation
and characterization of novel microsatellite markers in
pomegranate (Punica granatum L.). Int J Mol Sci 11: 2010-2016.
- Poyrazoğlu E, Gökmen V, Artık N (2002). Organic acids and phenolic
compounds in pomegranates (Punica granatum L.) grown in
Turkey. J Food Comp Anal 15: 567-575.
- Ranade SA, Rana TS, Narzary D (2009). SPAR profiles and genetic
diversity amongst pomegranate (Punica granatum L.)
genotypes. Physiol Mol Biol Plants 15: 61-70.
- Rohlf FJ (1998). NTSYS-pc: Numerical Taxonomy and Multivariate
Analysis System, Version 2.0, User’s Guide. Setauket, NY, USA:
Exeter Software.
- Sánchez-Pérez R, Ruiz D, Dicenta F, Egea J, Martínez-Gómez P
(2005). Application of simple sequence repeat (SSR) markers in
apricot breeding: molecular characterization, protection, and
genetic relationships. Sci Hortic 103: 305-315.
- Sarıdaş MA, Kafkas NE, Zarifikhosroshahi M, Bozhaydar O, Paydaş
Kargı S (2016). Quality traits of green plums (Prunus cerasifera
Ehrh.) at different maturity stages. Turk J Agric For 40: 655-
663.
- Sarkhosh A, Zamani Z, Fatahi R, Ebadi A (2006). RAPD markers
reveal polymorphism among some Iranian pomegranate
(Punica granatum L.) genotypes. Sci Hortic 111: 24-29.
- Seeram NP, Henning SM, Zhang Y, Suchard M, Li Z, Heber D (2006).
Pomegranate juice ellagitannin metabolites are present in
human plasma and some persist in urine for up to 48 hours. J
Nutr 136: 2481-5.
- Sneath PHA, Sokal RR (1973). Numerical Taxonomy. San Francisco,
CA, USA: Freeman.
- Soleimani MH, Talebi M, Sayed-Tabatabaei BE (2012). Use of SRAP
markers to assess genetic diversity and population structure
of wild, cultivated, and ornamental pomegranates (Punica
granatum L.) in different regions of Iran. Plant Syst Evol 298:
1141-1149.
- Soriano JM, Zuriaga E, Rubio P, Llácer G, Infante R, Badenes M L
(2011). Development and characterization of microsatellite
markers in pomegranate (Punica granatum L.). Mol Breed 27:
119-128.
- Varshney RK, Graner A, Sorrells ME (2005). Genic microsatellite
markers in plants: features and applications. Trends Biotechnol
23: 48-55.
- Yamamoto T, Saito T, Kotobuki K, Matsuta N, Hayashi T, Kimura T,
van de Weg WE, Liebhard R, Gessler C (2003). Genetic linkage
maps of Japanese and European pears aligned to the apple
consensus map. In: Eucarpia Symposium in Fruit Breeding and
Genetics; 1–5 September 2003; Angers, France.
- Yazıcı K, Şahin A (2016). Characterization of pomegranate (Punica
granatum L.) hybrids and their potential use in further
breeding. Turk J Agric For 40: 813-824.
- Zaouay F, Mars M (2011). Diversity among Tunisian pomegranate
(Punica granatum) cultivars as assessed by pomological and
chemical traits. International Journal of Fruit Science 11: 151-
166.
- Zhao LH (2011). Population genetics structure of pomegranate
Punica granatum L. revealed by ISSR markers in China.
Northern Hortic 10: 038.