New set of microsatellite markers for the walnut hybrid progeny Mj209xRa and assessment of its transferability into Juglans genus

Angela Contreras, Ricardo Julian Licea-Moreno, Victor Campos, Julia Quintana, Irene Merino, Luis Gomez

Abstract


Aim of the study: The research was aimed to design microsatellite markers for genotyping and differentiation of trees from the walnut hybrid progeny Mj209×Ra. As a secondary objective, the transferability and classificatory capacity of some of these loci were assessed for Juglans genus.

Area of study: The most widely spread walnut hybrid progeny used in Europe for wood production was used. Pure species from Juglans genus as Arizona black walnut (J. major (Torrey) Heller) and European or common walnut (J. regia L.), as well as a different hybrid Mj209xRa lots, were also included.

Materials and methods: Genomic DNA from a hybrid tree was used for the construction of libraries enriched with dinucleotides repeats (CA/GA). From approximately 700 fragments containing SSR regions, 18 loci were finally selected for the genetic characterization. Eight of these genomic microsatellite markers were used to assess their transferability into Juglans genus. 

Main results: Despite the high degree of kinship of the hybrid progeny, it was possible to differentiate random trees with a low probability of error. Markers also allowed to differentiate unambiguously between Arizona black walnut and European walnut. They were even able to discriminate two hybrid Mj209×Ra lots with a high degree of certainty.

Research highlights: This new set of microsatellites might be considered a complement for the markers published up to date to perform studies into Juglandaceae family.

Keywords: Juglandaceae; wood production; genotyping; genotype identification; simple sequence repeats; SSR.

 


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References


Aletà N, Ninot A, Voltas J, 2003. Characterization of the agroforestry performance of 12 walnut (Juglans sp.) genotypes grown in two locations of Catalonia. Forest Systems 12(1): 39-50.

Aletà N, Ninot A, Voltas J, 2004. Retrospective evaluation of parental selection in nursery tests of Juglans regia L. using a mixed model analysis. Silvae Genet 53(1): 26-32. https://doi.org/10.1515/sg-2004-0005

Aradhya MK, Potter D, Gao F, Simon CJ, 2007. Molecular phylogeny of Juglans (Juglandaceae): a biogeographic perspective. Tree Genet Genomes 3(4): 363-378. https://doi.org/10.1007/s11295-006-0078-5

Baumgartner K, Fujiyoshi P, Browne GT, Leslie C, Kluepfel DA, 2013. Evaluating paradox walnut rootstocks for resistance to armillaria root disease. HortScience 48(1): 68-72. https://doi.org/10.21273/HORTSCI.48.1.68

Becquey J, 1997. Les noyers à bois. Forêt privée française. In: Les guides du sylviculteur. Institute pour le Développement Forestier. Troisème Edition. 144 pp.

Bey CF, Williams RD, 1975. Black walnut trees of southern origin growing well in Indiana. In Proceedings Indiana Academy Sci. 84. pp: 122-128.

Chen L, Ma Q, Chen Y, Wang B, Pei D, 2014. Identification of major walnut cultivars grown in China based on nut phenotypes and SSR markers. Sci Hortic 168: 240-248. https://doi.org/10.1016/j.scienta.2014.02.004

Clark J, Hemery G, 2010. Walnut hybrids in the UK: fast growing quality hardwoods. Q J Forest 104: 43-46.

Dang M, Liu ZX, Chen X, Zhang T, Zhou HJ, Hu YH, Zhao P, 2015. Identification, development, and application of 12 polymorphic EST-SSR markers for an endemic Chinese walnut (Juglans cathayensis L.) using next-generation sequencing technology. Biochem Syst Ecol 60: 74-80. https://doi.org/10.1016/j.bse.2015.04.004

Dangl GS, Woeste K, Aradhya MK, Koehmstedt A, Simon C, Potter D, Leslie C, McGranahan G, 2005. Characterization of 14 microsatellite markers for genetic analysis and cultivar identification of walnut. J Am Soc Hortic Sc 130(3): 348-354. https://doi.org/10.21273/JASHS.130.3.348

Fady B, Ducci F, Aletà N, Becquey J, Vazquez RD, Fernandez Lopez FF, Jay-Allemand C, Lefevre F, Ninot A, Panetsos K, et al., 2003. Walnut demonstrates strong genetic variability for adaptive and wood quality traits in a network of juvenile field tests across Europe. New Forest 25(3): 211-225. https://doi.org/10.1023/A:1022939609548

Glenn TC, Schable NA, 2005. Isolating microsatellite ADN loci. Method Enzymol 395: 202-222. https://doi.org/10.1016/S0076-6879(05)95013-1

Gunn BF, Aradhya M, Salick JM, Miller AJ, Yongping Y, Lin L, Xian H, 2010. Genetic variation in walnuts (Juglans regia and J. sigillata; Juglandaceae): species distinctions, human impacts, and the conservation of agrobiodiversity in Yunnan, China. Am J Bot 97(4): 660-671. https://doi.org/10.3732/ajb.0900114

Hrib M, Koblížek J, Maděra P, 2002. Juglans × intermedia Carr.-an interesting finding in the Židlochovice Forest Enterprise. J Forest Science 48: 475-481. https://doi.org/10.17221/11915-JFS

Hu YH, Zhao P, Zhang Q, Wang Y, Gao XX, Zhang T, Zhou HJ, Dang M, Woeste KE, 2015. De novo assembly and characterization of transcriptome using Illumina sequencing and development of twenty five microsatellite markers for an endemic tree Juglans hopeiensis Hu in China. Biochem Syst Ecol 63: 201-211. https://doi.org/10.1016/j.bse.2015.10.011

Jacobs DF, Davis AS, 2005. Genetic considerations in the operational production of hardwood nursery stock in the eastern United States. Native Plants J 6(1): 4-13. https://doi.org/10.1353/npj.2005.0023

Manchester SR, 1989. Early history of the Juglandaceae. Plant Syst Evol 162: 231-250. https://doi.org/10.1007/978-3-7091-3972-1_12

Merritt BJ, Culley TM, Avanesyan A, Stokes R, Brzyski J, 2015. An empirical review: characteristics of plant microsatellite markers that confer higher levels of genetic variation. Appl Plant Sci 3(8). https://doi.org/10.3732/apps.1500025

Morgante M, Olivieri AM, 1993. PCR‐amplified microsatellites as markers in plant genetics. The Plant J 3(1): 175-182. https://doi.org/10.1111/j.1365-313X.1993.tb00020.x

Phelps JE, McGinnes EA, Garrett, HE, Cox GS, 1983. Growth-quality evaluation of black walnut wood. Part II-Color analyses of veneer produced on different sites. Wood Fiber Sci 15(2), 177-185.

Perrier X, Jacquemoud-Collet JP, 2006. DARwin software. http://darwin.cirad.fr/

Pollegioni P, Woeste K, Major A, Mugnozza GS, Malvolti ME, 2009. Characterization of Juglans nigra (L.), Juglans regia (L.) and Juglans x intermedia (Carr.) by SSR markers: a case study in Italy. Silvae Genet 58(1-6): 68-78. https://doi.org/10.1515/sg-2009-0009

Pollegioni P, Woeste K, Chiocchini F, Del Lungo S, Ciolfi M, Olimpieri I, Tortolano V, Clark J, Hemery GE, Mapelli S, Malvolti ME, 2017. Rethinking the history of common walnut (Juglans regia L.) in Europe: Its origins and human interactions. PloS one, 12(3), e0172541. https://doi.org/10.1371/journal.pone.0172541

Robichaud RL, Glaubitz JC, Rhodes OE, Woeste K, 2006. A robust set of black walnut microsatellites for parentage and clonal identification. New Forest 32: 179-196. https://doi.org/10.1007/s11056-005-5961-7

Ross-Davis A, Woeste K, 2008. Microsatellite markers for Juglans cinerea L. and their utility in other Juglandaceae species. Conserv Genet 9(2): 465-469. https://doi.org/10.1007/s10592-007-9337-8

Selkoe KA, Toonen RJ, 2006. Microsatellites for ecologists: a practical guide to using and evaluating microsatellite markers. Ecol Lett 9(5): 615-629. https://doi.org/10.1111/j.1461-0248.2006.00889.x

Shifley, SR, 2004. The Black Walnut Resources in the United States. In Proceedings of the 6th Walnut Council Research Symposium. Black Walnut in a New Century. July 25-28; Lafayette, EUA. C.H. Michler, P.M. Pijut, J.W. Van Sambeek, M.V. Coggeshall, J. Seifert, K. Woeste, R. Overton and F.Jr. Ponder (eds). Gen. Tech. Rep. NC-243. St. Paul, MN: U.S. Department of Agriculture, Forest Service, North Central Research Station, pp 168-176.

Victory ER, Woeste KE, Rhodes OE, 2004. History of Black Walnut Genetics Research in North America. Proceedings of the 6th Walnut Council Research Symposium. Black Walnut in a New Century. July 25-28; Lafayette, EUA; Michler CH, Pijut PM, Van Sambeek JW, Coggeshall MV, Seifert J, Woeste K, Overton R, Ponder FJr (eds). Gen. Tech. Rep. NC-243. St. Paul, MN: U.S. Department of Agriculture, Forest Service, North Central Research Station. pp: 1-8.

Victory ER, Glaubitz JC, Rhodes OE, Woeste KE, 2006. Genetic homogeneity in Juglans nigra (Juglandaceae) at nuclear microsatellites. Am J Bot 93: 118-126. https://doi.org/10.3732/ajb.93.1.118

Wagner HW, Sefc KM, 1999. IDENTITY 1.0. Centre for Applied Genetics, University of Agricultural Sciences, Vienna 500.

Waits LP, Luikart G, Taberlet P, 2001. Estimating the probability of identity among genotypes in natural populations: cautions and guidelines. Mol Ecol 10(1): 249-256. https://doi.org/10.1046/j.1365-294X.2001.01185.x

Wang H, Pei D, Gu RS, Wang BQ, 2008. Genetic diversity and structure of walnut populations in central and southwestern China revealed by microsatellite markers. J Am Soc Hortic Sci 133(2): 197-203. https://doi.org/10.21273/JASHS.133.2.197

Weber JL, 1990. Informativeness of human (dC-dA) n·(dG-dT) n polymorphisms. Genomics 7(4): 524-530. https://doi.org/10.1016/0888-7543(90)90195-Z

Wiedenbeck J, Wiemann M, Alderman D, Baumgras J, Luppold W, 2004. Defining hardwood veneer log quality attributes. Gen. Tech. Rep. NE-313. Newtown Square, PA: US Department of Agriculture, Forest Service, Northeastern Research Station. 36. pp: 1-313. https://doi.org/10.2737/NE-GTR-313

Woeste KE, Burns R, Rhodes O, Michler C, 2002. Thirty Polymorphic Nuclear Microsatellite Loci from Black Walnut. The Journal of Heredity 93(1): 58-6. https://doi.org/10.1093/jhered/93.1.58

Woeste KE, McKenna JR, 2004. Walnut Genetic Improvement at the Start of a New Century. Proceedings of the 6th Walnut Council Research Symposium. Black Walnut in a New Century. July 25-28; Lafayette, EUA; Michler CH, Pijut PM, Van Sambeek JW, Coggeshall MV, Seifert J, Woeste K, Overton R, Ponder FJr (eds). Gen. Tech. Rep. NC-243. St. Paul, MN: U.S. Department of Agriculture, Forest Service, North Central Research Station. pp: 9-17.

Woods JG, Paetkau D, Lewis D, McLellan BN, Proctor M, Strobeck C, 1999. Genetic tagging of free-ranging black and brown bears. Wildlife Soc B 27(3): 616-627.

Zhang R, Zhu A, Wang X, Yu J, Zhang H, Gao J, Cheng Y, Deng X, 2010. Development of Juglans regia SSR markers by data mining of the EST database. Plant Mol Biol Rep 28(4): 646-653. https://doi.org/10.1007/s11105-010-0192-2




DOI: 10.5424/fs/2019282-14776

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