Open Access

Gene-Targeted markers to assess genetic diversity and population structure within Tunisian Phoenix dactylifera L. cultivars


Cite

Al-Qurainy F, Khan S, Nadeem M, Tarroum M (2015) SCoT marker for the assessment of genetic diversity in Saudi Arabian date palm cultivars. Pakistan Journal of Botany 47(2): 637-643.Search in Google Scholar

Andersen JR, Lübberstedt T (2003) Functional markers in plant. Trends in Plant Science 8: 554-560. https://doi.org/10.1016/j.tplants.2003.09.01010.1016/j.tplants.2003.09.01014607101Search in Google Scholar

Balthazard MG (2013) Hybridization in the genus Phoenix: A review. Emirates Journal of Food and Agriculture 25(11): 831-842. https://doi.org/10.9755/ejfa.v25i11.1666010.9755/ejfa.v25i11.16660Search in Google Scholar

Collard BCY, Mackill DJ (2009) Start codon targeted (SCoT) polymorphism: A simple, novel DNA marker technique for generating gene-targeted markers in plants. Plant Molecular Biology Reporter 27: 86-93. https://doi.org/10.1007/s11105-008-0060-510.1007/s11105-008-0060-5Search in Google Scholar

Elhoumaizi MA, Saaidi M, Oihabi A, Cilas C (2002) Phenotypic diversity of date-palm cultivars (Phoenix dactylifera L.) from Morocco. Genetic Resources and Crop Evolution 49: 483-490. https://doi.org/10.1023/a:102096851349410.1023/A:1020968513494Search in Google Scholar

Evanno G, Regnaut S, Goudet J (2005) Detecting the number of clusters of individuals using the software structure: A simulation study. Molecular Ecology 14: 2611-2620. https://doi.org/10.1111/j.1365-294x.2005.02553.x10.1111/j.1365-294X.2005.02553.x15969739Search in Google Scholar

Gajera HP, Bambharolia RP, Domadiya RK, Patel SV, Golakiya BA (2014) Molecular characterization and genetic variability studies associated with fruit quality of indigenous mango (Mangifera indica L.) cultivars. Plant Systematics and Evolution 300 (5): 1011-1020. https://doi.org/10.1007/s00606-013-0939-y10.1007/s00606-013-0939-ySearch in Google Scholar

Ghislain M, Zhang DP, Fajardo D, Huamán Z, Hijmans RJ (1999) Marker-assisted sampling of the cultivated Andean potato Solanum phureja collection using RAPD markers. Genetic Resources and Crop Evolution 46: 547-555. https://doi.org/10.1023/a:100872400788810.1023/A:1008724007888Search in Google Scholar

Govaerts R, Dransfield J (2005) World checklist of palms. Roy. Bot. Gardens, Kew.Search in Google Scholar

Gupta PK, Rustgi S (2004) Molecular markers from the transcribed/ expressed region of the genome in higher plants. Functional and Integrative Genomics 4: 139-162. https://doi.org/10.1007/s10142-004-0107-010.1007/s10142-004-0107-015095058Search in Google Scholar

Hachicha M, Ben Aissa I (2014) Managing salinity in Tunisian oases. Life Science Journal 8(9): 775-782. https://doi.org/10.17265/1934-7391/2014.09.00710.17265/1934-7391/2014.09.007Search in Google Scholar

Hajibarat Z, Saidi A, Hajibarat Z, Talebi R (2015) Characterization of genetic diversity in chickpea using SSR markers, Start Codon Targeted Polymorphism (SCoT) and Conserved DNA-Derived Polymorphism (CDDP). Physiology and molecular biology of plants 21(3) : 365-373. https://doi.org/10.1007/s12298-015-0306-210.1007/s12298-015-0306-2452485726261401Search in Google Scholar

Hamza H, Jemni M, Benabderrahim MA, Mrabet A, Touil S, Othmani A, Salah MB (2015) Date Palm status and perspective in Tunisia. In Date Palm Genetic Resources and Utilization (pp. 193-221). Springer, Dordrecht. https://doi.org/10.1007/978-94-017-9694-1_610.1007/978-94-017-9694-1_6Search in Google Scholar

Holland JB (2001) Epistasis and plant breeding. Plant Breeding Reviews 21: 27-92. https://doi.org/10.1002/9780470650196.ch210.1002/9780470650196.ch2Search in Google Scholar

Jiang LF, Qi X, Zhang XQ, Huang LK, Ma X, Xie WG (2014) Analysis of diversity and relationships among orchardgrass (Dactylis glomerata L.) accessions using start codon-targeted markers. Genetics and molecular research 13 (2): 4406-4418. https://doi.org/10.4238/2014.june.11.410.4238/2014.June.11.425036346Search in Google Scholar

Kallamadi PR, Ganga Rao Nadigatlab VPR, Mulpuri S (2015) Molecular diversity in castor (Ricinus communis L.). Industrial Crops and Products 66: 271-281. https://doi.org/10.1016/j.indcrop.2014.12.06110.1016/j.indcrop.2014.12.061Search in Google Scholar

Peakall R, Smouse PE (2012) GenAlEx 6.5. Genetic analysis in Excel. Population genetic software for teaching and research an update. Bioinformatics 28: 2537-2539. https://doi.org/10.1093/bioinformatics/bts46010.1093/bioinformatics/bts460346324522820204Search in Google Scholar

Perrier X, Jacquemoud-Collet JP (2006) DARwin SoftwareSearch in Google Scholar

Prevost A, Wilkinson MJ (1999) A new system of comparing PCR primers applied to ISSR fingerprinting of potato cultivars. Theoretical and Applied Genetics 98: 107-112. https://doi.org/10.1007/s00122005104610.1007/s001220051046Search in Google Scholar

Pritchard JK, Stephens M, Rosenberg NA, Donnelly P (2000) Association mapping in structured populations. The American Journal of Human Genetics 67: 170-181. https://doi.org/10.1086/30295910.1086/302959128707510827107Search in Google Scholar

Que Y, Pan Y, Lu Y, Yang C, Yang Y, Huang N, Xu L (2014) Genetic Analysis of Diversity within a Chinese Local Sugarcane Germplasm Based on Start Codon Targeted Polymorphism. BioMed Research International 2014: 1-10. https://doi.org/10.1155/2014/46837510.1155/2014/468375398092224779012Search in Google Scholar

Rajesh MK, Sabana A, Rachana KE, Rahman S, Jerard BA, Karun A (2015) Genetic relationship and diversity among coconut (Cocos nucifera L.) accessions revealed through SCoT analysis. 3Biotech 5 : 999-1006. https://doi.org/10.1007/s13205-015-0304-710.1007/s13205-015-0304-7462412928324407Search in Google Scholar

Rhouma A (1994) Le palmier dattier en Tunisie. Le patrimoine génétique Vol I. Arabesques Editions et Créations, Tunis, Tunisie.Search in Google Scholar

Rhouma A (2005) Le palmier dattier en Tunisie. Le patrimoine génétique Vol II. IPGRI, Rome, Italy.Search in Google Scholar

Rhouma S, Dakhlaoui-Dkhil S, Ould Mohamed Salem A, Zehdi-Azouzi S, Rhouma A, Marrakchi M, Trifi M (2008) Genetic diversity and phylogenic relationships in date-palms (Phoenix dactylifera L.) as assessed by Random Amplified Microsatellite Polymorphism markers (RAMPOs). Scientia Horticulturae 117: 53-57. https://doi.org/10.1016/j.scienta.2008.03.01310.1016/j.scienta.2008.03.013Search in Google Scholar

Rhouma S, Zehdi S, Ould MSA, Rhouma A, Marrakchi M, Trifi M (2007) Genetic diversity in ecotypes of Tunisian date-palm (Phoenix dactylifera L.) assessed by AFLP markers. The Journal of Horticultural Science and Biotechnology 82 (6): 929-933. https://doi.org/10.1080/14620316.2007.1151232810.1080/14620316.2007.11512328Search in Google Scholar

Rhouma-Chatti S, Choulak S, Zehdi-Azouzi S, Chatti K, Said K (2014) Molecular polymorphism and phylogenetic relationships within Tunisian date palm (Phoenix dactylifera L.): evidence of non-coding trnL-trnF regions of chloroplast DNAs. Scientia Horticulturae 170: 32-38. https://doi.org/10.1016/j.scienta.2014.02.02710.1016/j.scienta.2014.02.027Search in Google Scholar

Ryman N, Leimar O (2009) Gst is still a useful measure of genetic differentiation – a comment on Jost’s D. Molecular Ecology 18: 2084-2087. https://doi.org/10.1111/j.1365-294x.2009.04187.x10.1111/j.1365-294X.2009.04187.x19389168Search in Google Scholar

Saitou N, Nei M (1987) The neighbor-joining method: A new method for reconstructing phylogenetic trees. Molecular Biology and Evolution 4:406-425. https://doi.org/10.1093/oxfordjournals.molbev.a04045410.1093/oxfordjournals.molbev.a0404543447015Search in Google Scholar

Sambrook J, Frithsch EF, Maniatis T (1989) Molecular Cloning: a Laboratory Manual, second ed. Cold Spring Harbor Laboratory, Cold Spring Harbor, New York.Search in Google Scholar

Sawant SV, Singh PK, Gupta SK, Madnala R, Tuli R (1999) Conserved nucleotide sequences in highly expressed genes in plants. Journal of Genetics 78: 123-131. https://doi.org/10.1007/bf0292456210.1007/BF02924562Search in Google Scholar

Shahlaei A, Torabi S, Khosroshahli M (2014) Efficiacy of SCoT and ISSR markers in assesment of tomato (Lycopersicum esculentum Mill.) genetic diversity. International Journal of Biosciences 5 (2): 14-22.10.12692/ijb/5.2.14-22Search in Google Scholar

Trifi M, Rhouma A, Marrakchi M (2000) Phylogenetic relationships in Tunisian date palm (Phoenix dactylifera L.) germplasm collection using DNA amplification fingerprinting. Agronomie 20: 1-7. https://doi.org/10.1051/agro:200015810.1051/agro:2000158Search in Google Scholar

Vivodik M, Gálová Z, Balážová Z, Petrovičová L (2016) Start codon targeted (SCoT) polymorphism reveals genetic diversity in European old maize (Zea mays L.) Genotypes. Potravinarstvo Scientific Journal for Food Industry 10: 563-569. https://doi.org/10.5219/66010.5219/660Search in Google Scholar

Xie WG, Zhang XQ, Ma X, Cai HW, Huang LK, Peng Y, Zeng B (2010) Diversity comparison and phylogenetic relationships of cocksfoot (Dactylis glomerata L.) germplasm as revealed by SSR markers. Canadian Journal of Plant Science 90: 13-21. https://doi.org/10.4141/cjps0819210.4141/CJPS08192Search in Google Scholar

Xie WG, Zhang XQ, Ma X, Huang LK, Zeng B (2009) Genetic variation of Dactylis glomerata germplasm from Southwest China detected by SSR markers. Acta Prataculturae Sinica 18: 138-146.Search in Google Scholar

Yan XB, Guo YX, Zhou H, Wang K (2006) Analysis of geographical conditions affected on genetic variation and relationship among populations of Elymus. Journal of Plant Resources and Environment 15: 17-24.Search in Google Scholar

Yeh F, Yang R, Boyle T (1999) POPGENE Version 1.32. Microsoft Window-based Freeware for Population Genetic Analysis. Molecular Biology and Biotechnology Center, University of Alberta, Edmonton.Search in Google Scholar

Zehdi S, Trifi M, Ould Mohamed Salem A, Rhouma A, Marrakchi M (2002) Survey of inter simple sequence repeat polymorphisms in Tunisian date palms (Phoenix dactylifera L.). Journal of Genetics & Breeding 56: 77-83.Search in Google Scholar

Zehdi S, Cherif E, Rhouma-Chatti S, Santoy S, Salhi Hannachi A, Pintaud JC (2012) Molecular polymorphism and genetic relationships in date palm (Phoenix dactylifera L.): the utility of nuclear microsatellite markers. Scientia Horticulturae 148: 255-263. https://doi.org/10.1016/j.scienta.2012.10.01110.1016/j.scienta.2012.10.011Search in Google Scholar

Zehdi-Azouzi S, Cherif E, Guenni K, Ben Abdelkrim A, Bermil A, Rhouma S, Ben Salah M, Santoni S, Pintaud JC, Aberlenc-Bertossi F, Salhi Hannachi A (2016) Endemic insular and coastal Tunisian date palm genetic diversity. Genetica 144:181-190. https://doi.org/10.1007/s10709-016-9888-z10.1007/s10709-016-9888-z26895027Search in Google Scholar

eISSN:
2509-8934
Language:
English
Publication timeframe:
Volume Open
Journal Subjects:
Life Sciences, Molecular Biology, Genetics, Biotechnology, Plant Science