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Licensed Unlicensed Requires Authentication Published by De Gruyter April 12, 2016

Genetic Diversity and Core Collection Constitution for Subsequent Creation of New Sunflower Varieties in Tunisia

  • Khoufi Sahari EMAIL logo , Pouilly Nicolas , Muños Stéphane , Bérard Aurélie , Ben Jeddi Fayçal , Vincourt Patrick and Brunel Dominique
From the journal Helia

Abstract

Sunflower (Helianthus annuus L.) is used as “seed snacks”, so called “pipas”, in the Mediterranean countries which may offer an interesting opportunity for agricultural diversification of this crop. The morpho-phenological variability already demonstrated in the Tunisian local populations can be a basis for the creation of new varieties well adapted to climate and soil conditions in that region. The molecular characterization of 59 accessions and reference lines generated 194 alleles from 30 SSR loci (3–10 alleles per locus) and 54 haplotypes, built from 117 SNP detected by NGS sequencing of 7 genes (4–16 haplotypes per gene). These data highlight some uniqueness of the Tunisian material compared to 7 control lines but a low genetic dispersion between accessions. However, a core collection of 8 populations, capturing 88 % of the Tunisian genetic diversity, could be proposed for a future sunflower breeding program.

Resumé

Analyse des ressources génétiques et constitution d’une core-collection pour la création de nouvelles variétés de tournesol en Tunisie

Résumé

Le Tournesol (Helianthus annuus L.) est utilisé dans les pays méditerranéens en tant que fruit sec (pipas) pourrait offrir un débouché intéressant de diversification de cette culture. La variabilité morpho-phénologique déjà mise en évidence dans les populations locales de Tunisie peut être une base à la création de nouvelles variétés bien adaptées aux conditions climatiques et pédologiques de cette région. La caractérisation moléculaire des lignées références et des 59 accessions a permis d’identifier 194 allèles pour trente locus microsatellites (soit 3 à 10 allèles par locus) et 54 haplotypes à partir de 117 SNPs détectés par le séquençage NGS de 7 gènes (soit 4 à 16 haplotypes par gène). Ces résultats confirme l’originalité génétique du matériel tunisien par rapport à des lignées témoin ainsi qu’une faible distance génétique entre les accessions. Néanmoins, une core collection de 8 populations, capturant 88 % de la diversité génétique, peut être proposée comme base pour un futur programme d’amélioration du Tournesol.

Acknowledgements

This research was financially supported and performed by the laboratory of Plant-Microbe Interactions (LIPM) and US_EPGV (Etude du Polymorphisme des Génomes Végétaux) of the French National Institute for Agricultural Research (INRA). We are grateful also to Brigitte Gouesnard for the discussions about MSTRAT analysis and to Maha Ponnaiah for critical reading and help for English translation of the manuscript.

References

Al-Charaani, G.R., Gentzbittel, L., Huang, X., Sarrafi, A., 2004. Genotypic variation and identification of QTLs for agronomic traits using AFLP and SSR in recombinant inbred lines of sunflower (Helianthus annuus L.). Theoretical and Applied Genetics 109: 1353–1360.10.1007/s00122-004-1770-1Search in Google Scholar PubMed

Bachlava, E., Taylor, C.A., Tang, S., Bowers, J.E., Mandel, J.R., Burke, J.M., Knapp, S.J., 2012. SNP Discovery and development of a high-density genotyping array for sunflower. PLos one 7: 1–8.10.1371/journal.pone.0029814Search in Google Scholar PubMed PubMed Central

Benassi, J.L., Labonne, M., 2004. Perspectives pour les oleagineux dans les pays du Maghreb: Algerie, Maroc et Tunisie 2000–2015. Oleagineux, Corps Gras, Lipides 11: 92–96.10.1051/ocl.2004.0092Search in Google Scholar

Berry, S.T., Leon, A.J., Challis, P., Livin, C., Jones, R., Hanfrey, C.C., Griffiths, S., Roberts, A., 2003. Construction of a high density, composite RFLP linkage map for cultivated sunflower Helianthus annuus. In: Proc. Int. Sunflower Conference. Beijing, China, p. 14, 12–20th June, 2003.Search in Google Scholar

Berry, S.T., Leon, A.J., Hanfrey, C.C., Challis, P., Burkholz, A., Barnes, S.R., Rufener, G.K., Lee, M., Caligari, P.D.S., 1995. Molecular marker analysis of Helianthus annuus L. and construction of an RFLP map for cultivated sunflower. Theoretical and Applied Genetics 91: 195–199.10.1007/BF00220877Search in Google Scholar PubMed

Berry, S.T., León, A.J., Peerbolte, R., Challis, P., Livini, C., Jones, R., Feingold, S. 1997. Presentation of the Advanta sunflower RFLP linkage map for public research. In: Proc. 19th Sunflower Res., Fargo, USA.Search in Google Scholar

Brunel, D., 1994. A microsatellite marker in Helianthus annuus L. Plant Molecular Biology 24: 397–400.10.1007/BF00020177Search in Google Scholar PubMed

DGPA, 2013. Rapport annuel de suivi des emblavures, direction des grandes cultures, direction générale de la production agricole. Ministère de l’agriculture, de l’environnement et des ressources hydrauliques.Search in Google Scholar

FAO., 2012. FAOSTAT Database from the Food and Agriculture Organization. www.fao.org.Search in Google Scholar

Gedil, M.A., Wye, C., Berry, S., Segers, B., Peleman, J., Jones, R., Leon, A., Slabaugh, M.B., Knapp, S.J., 2001. An integrated restriction fragment length polymorphismamplified fragment length polymorphism linkage map for cultivated sunflower. Genome 44: 213–221.10.1139/g00-111Search in Google Scholar

Gentzbittel, L., Mestries, E., Mouzeyar, S., Mazyrat, F., Badaoul, S., Vear, F., Tourvieille de Labrouche, D., Nicolas, P., 1999. A composite map of expressed sequences and phenotypic traits of sunflower (Helianthus annuus L.) genome. Theoretical and Applied Genetics 99: 218–234.10.1007/s001220051228Search in Google Scholar

Gentzbittel, L., Vear, F., Zhang, Y.-X., Bervillé, A., Nicolas, P., 1995. Development of a consensus linakge RFLP map of cultivated sunflower (Helianthus annuus L.). Theoretical and Applied Genetics 90: 1079–1086.10.1007/BF00222925Search in Google Scholar PubMed

Gouesnard, B., Bataillon, T.M., Decoux, G., Rozale, C., Schoen, D.J., David, J.L.., 2001. MSTRAT: An algorithm for building germplasm core collections by maximizing allelic or phenotypic richness. Journal of heredity 92: 93–94.10.1093/jhered/92.1.93Search in Google Scholar PubMed

Heesacker, A., Kishore, V.K., Gao, W., Tang, S., Kolkman, J.M., Gingle, A., Matvienko, M., Kozik, A., Michelmore, R., Lai, Z., Rieseberg, L.H., Knapp, S.J., 2008. SSRs and INDELs mined from the sunflower EST database: Abundance, polymorphisms and cross-taxa utility. Theoretical and Applied Genetics 117: 1021–1029. http://www.ncbi.nlm.nih.gov/genbank.10.1007/s00122-008-0841-0Search in Google Scholar PubMed

Hu, J., Seiler, G., Kole, C., 2010. Genetics, Genomics and Breeding of Sunflower, Science publishers, British Channel Islands, p. 326.10.1201/b10192Search in Google Scholar

Hulke, B.S., Grassa, C.J., Bowers, J.E., Burke, J.M., Qi, L., Talukder, Z.I., Rieseberg, L.H., 2015. A unified SNP map of sunflower (Helianthus annuus L.) derived from the Sunflower Genome Project resources. Crop Science 55: 1696–1702.10.2135/cropsci2014.11.0752Search in Google Scholar

Jan, C.C., Vick, B.A., Miller, J.F., Kahler, A.L., Butler, E.T., 1998. Construction of an RFLP linkage map for cultivated sunflower. Theoretical and Applied Genetics 96: 15–22.10.1007/s001220050703Search in Google Scholar

Kane, N.C., Gill, N., King, M.G., Bowers, J.E., Berges, H., Gouzy, J., Bachlava, E., Langlade, N.B., Lai, Z., Stewart, M., Vincourt, P., Knapp, S.J., Rieseberg, L.H., 2011. Progress towards a reference genome for sunflower. Botany 89: 429–437.10.1139/b11-032Search in Google Scholar

Khoufi, S., Khamassi, K., Teixeira da Silva, J.A., Aoun, N., Rezgui, S., Ben Jeddi, F., 2013. Assessment of diversity of phenologically and morphologically related traits among adapted populations of sunflower (Helianthus annuus L.). Helia 36: 29–40.10.2298/HEL1358029KSearch in Google Scholar

Kolkman, J.M., Berry, S.T., Leon, A.J., Slabaugh, M.B., Tang, S., Gao, W., Shintani, D.K., Burke, J.M., Knapp, S.J., 2007. Single nucleotide polymorphisms and linkage disequilibrium in sunflower. Genetics 177: 457–468.10.1534/genetics.107.074054Search in Google Scholar PubMed PubMed Central

Lai, Z., Livingstone, K., Zou, Y., Church, S.A., Knapp, S.J., Andrews, J., Rieseberg, L.H., 2005. Identification and mapping of SNPs from ESTs in sunflower. Theoretical and Applied Genetics 111: 1532–1544.10.1007/s00122-005-0082-4Search in Google Scholar PubMed PubMed Central

Livaja, M., Unterseer, S., Erath, W., Lehermeier, C., Wieseke, R., Plieske, J., Polley, A., Luerßen, H., Wieckhorst, S., Mascher, M., Hahn, V., Ouzunova, M., Schön, C.C., Ganal, M.W., 2016. Diversity analysis and genomic prediction of Sclerotinia resistance in sunflower using a new 25 K SNP genotyping array. Theoretical Applied Genetics 129: 317–329.10.1007/s00122-015-2629-3Search in Google Scholar PubMed

Miller, M.P., 1997. Tools for Population Genetic Analysis. Version 1.3, Department of Biological Sciences, Northern Arizona University, Flagstaff.Search in Google Scholar

Mokrani, L., Gentzbittel, L., Azanza, F., Al-Chaarani, G., Sarrafi, A., 2002. Mapping and analysis of quantitative trait loci for grain oil content and agronomic traits using AFLP and SSR in sunflower (Helianthus annuus L.). Theoretical Applied Genetics 106: 149–156.10.1007/s00122-002-1011-4Search in Google Scholar PubMed

Paniego, N., Echaide, M., Muñoz, M., Fernández, L., Torales, S., Faccio, P., Fuxan, I., Carrera, M., Zandomeni, R., Suárez, I., Hopp, E.H., 2002. Microsatellite isolation and characterisation in sunflower (Helianthus annuus L.). Genome 45: 34–43.10.1139/g01-120Search in Google Scholar PubMed

Pashley, C.H., Ellis, J.R., Mccauley, D.E., Burke, J.M., 2006. EST databases as a source for molecular markers: Lessons from Helianthus. Journal of Heredity 4: 381–388.10.1093/jhered/esl013Search in Google Scholar PubMed

Peerbolte, R.P. and Peleman, J., 1996. The Cartisol sunflower RFLP map (146 loci) extended with 291 AFLP markers. In: Proc. 18th Sunflower Res. Forum. Fargo, N.D., USA, 18, 1–12th January, 1996.Search in Google Scholar

Pegadaraju, V., Nipper, R., Hulke, B.S., Qi, L., Schultz, Q., 2013. De novo sequencing of sunflower genome for SNP discovery using RAD (Restriction site Associated DNA) approach. BMC Genomics 14: 556.10.1186/1471-2164-14-556Search in Google Scholar PubMed PubMed Central

Rieseberg, L., Baird, S.J.E., Desrochers, A.M., 1998. Patterns of mating in wild sunflower hybrid zones. Evolution 52: 713–726.10.1111/j.1558-5646.1998.tb03696.xSearch in Google Scholar PubMed

Schoen, D.E., Brown, A.H.D., 1983. Conservation of allelic richness in wild crop relatives is aided by assessment of genetic markers. Proceedings of the National Academy of Sciences 90: 10623–10627.10.1073/pnas.90.22.10623Search in Google Scholar PubMed PubMed Central

Tang, S., Heesacker, A., Kishore, V.K., Fernandez, A., Sadik, E.S., Cole, G., Knapp, S.J., 2003. Genetic mapping of the Or5 gene for resistance to Orobanche race E in sunflower. Crop Science 43: 1021–1028.10.2135/cropsci2003.1021Search in Google Scholar

Tang, S., Slabaugh, M.B., Shintani, D.K., Knapp, S.J., 2002. Simple sequence repeat map of the sunflower genome. Theoretical and Applied Genetics 105: 1124–1136.10.1007/s00122-002-0989-ySearch in Google Scholar PubMed

Yu, J.K., Mangor, J., Thompson, L., Edwards, K.J., Slabaugh, M.B., Knapp, S.J., 2002. Allelic diversity of simple sequence repeat markers among elite inbred lines in cultivated sunflower. Genome 45: 652–660.10.1139/g02-025Search in Google Scholar PubMed

Yu, J.K., Tang, S., Slabaugh, M.B., Heesacker, A., Cole, G., Herring, M., Soper, J., Han, F., Chu, W.C., Webb, D.M., Thompson, L., Edwards, K.J., Berry, S., Leon, A.J., Grondona, M., Olungu, C., Maes, N., Knapp, S.J., 2003. Towards a saturated molecular genetic linkage map for cultivated sunflower. Crop Science 43: 367–387.10.2135/cropsci2003.3670Search in Google Scholar

Yue, B., Radi, S.A., Vick, B.A., Cai, X., Tang, S., Knapp, S.J., Gulya, T.J., Miller, J.F., Hu, J., 2008. Identifying quantitative trait loci for resistance to Sclerotinia head rot in two USDA sunflower germplasms. Phytopathology 98: 926–931.10.1094/PHYTO-98-8-0926Search in Google Scholar PubMed

Zhang, L.S., Le Clerc, V., Li, S., Zhang, D., 2005. Establishment of an effective set of simple sequence repeat markers for sunflower variety identification and diversity assessment. Canadian Journal of Botany 83: 66–72.10.1139/b04-155Search in Google Scholar


Supplemental Material

The online version of this article (DOI: 10.1515/helia-2016-0002) offers supplementary material, available to authorized users.


Received: 2016-1-6
Accepted: 2016-3-21
Published Online: 2016-4-12
Published in Print: 2016-7-1

©2016 by De Gruyter

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