The strawberry genome: a complicated past and promising future

References

[1] Darrow, G. M. The Strawberry: history breeding and physiology. (Holt, Rinehart and Winston, New York, 1966).

[2] Hummer, K., Hancock, J. F. Strawberry genomics: botanical history, cultivation, traditional breeding and new technologies, in (eds K. M. Folta, S. E. Gardiner) Genetics and Genomics of Rosaceae (Springer, New York, 2009) pp. 238-495.

[3] Davis, T. M. et al. An examination of targeted gene neighborhoods in strawberry. BMC Plant Biol. 10, 81 (2010).

[4] Folta, K. M. et al. Expressed sequence tags (ESTs) and simple sequence repeat (SSR) markers from octoploid strawberry (Fragaria x ananassa) . BMC Plant Biol. 5, 12 (2005).

[5] Shulaev, V. et al. The genome of woodland strawberry (Fragaria vesca) . Nat. Genet. 43, 109-116 (2011).

[6] Hirakawa, H. et al. Dissection of the octoploid strawberry genome by deep sequencing of the genomes of Fragaria species . DNA Res. 21, 169-181 (2014).

[7] Tennessen, J. A., Govindarajulu, R., Ashman, T.-L. & Liston, A. Evolutionary origins and dynamics of octoploid strawberry subgenomes revealed by dense targeted capture linkage maps. Genome Biol. Evol. 6, 3295-3313 (2014).

[8] Edger, P. P. et al. Origin and evolution of the octoploid strawberry genome. Nat. Genet. 51, 541-547 (2019).

[9] Yarnell, S. H. Genetic and cytological studies on Fragaria . Genetics 16, 422-454 (1931).

[10] Federova, N. J. & der Erdbeere, Inter-undIntragattungshybridisation und ihre Bedeuting für die Züchtung. Gartenbauwissenschaft 10, 106-107 (1937).

[11] Senanayake, Y. D. A. & Bringhurst, R. S. Origin of Fragaria polyploids. I. Cytological analysis . Am. J. Bot. 54, 221-228 (1967).

[12] Bringhurst, R. S. Cytogenetics and evolution in american fragaria . Hortscience 25, 879-881 (1990).

[13] Rousseau-Gueutin, M. et al. Tracking the evolutionary history of polyploidy in Fragaria L. (strawberry): new insights from phylogenetic analyses of low-copy nuclear genes . Mol. Phylogenet. Evol. 51, 515-530 (2009).

[14] Liu, B., Poulsen, E. G. & Davis, T. M. Insight into octoploid strawberry (Fragaria) subgenome composition revealed by GISH analysis of pentaploid hybrids . Genome 59, 79-86 (2016).

[15] Duarte, J. M. et al. Identification of shared single copy nuclear genes in Arabidopsis, Populus, Vitis and Oryza and their phylogenetic utility across various taxonomic levels . BMC Evol. Biol. 10, 61 (2010).

[16] Njuguna, W., Liston, A., Cronn, R., Ashman, T.-L. & Bassil, N. Insights into phylogeny, sex function and age of Fragaria based on whole chloroplast genome sequencing . Mol. Phylogenet. Evol. 66, 17-29 (2013).

[17] Lundberg, M. Systematics and Polyploid Evolution in Potentilleae (Rosaceae) Ph. D. Dissertation, Department of Botany, Stockholm University, 28 (2011).

[18] Bottani, S., Zabet, N. R., Wendel, J. F. & Veitia, R. A. Gene expression dominance in allopolyploids: hypotheses and models. Trends Plant Sci. 23, 393-402 (2018).

[19] Hollister, J. D. & Gaut, B. S. Epigenetic silencing of transposable elements: a trade-off between reduced transposition and deleterious effects on neighboring gene expression. Genome Res. 19, 1419-1428 (2009).

[20] Lashermes, P., Hueber, Y., Combes, M.-C., Severac, D. & Dereeper, A. Intergenomic DNA exchanges and homeologous gene silencing shaped the nascent allopolyploid coffee genome (Coffea arabica L.) . G3 6, 2937-2948 (2016).

[21] Cockerton, H. M. et al. Identification of powdery mildew resistance QTL in strawberry (Fragaria × ananassa) . Theor. Appl. Genet. 131, 1995-2007 (2018).

[22] Verma, S. et al. Clarifying sub-genomic positions of QTLs for flowering habit and fruit quality in U.S. strawberry (Fragaria × ananassa) breeding populations using pedigree-based QTL analysis . Hort. Res. 4, 17062 (2017).

[23] Verma, S., Whitaker, V. A new technology enabling new advances in Strawberry genetics. J. Hort. 3, 2 (2016).