Abstract
Cranberry and blueberry are closely related and recently domesticated fruit crops in the genus Vaccinium. Both have a presumed American origin and likely evolved from a common ancestor; however, details of their adaptive radiation and the extent of their genomic divergence remains little understood. To better understand their evolutionary and genomic relationships, a set of 323 cross-transferable simple sequence repeat (SSR) markers were identified, added to existing marker datasets, and used to construct linkage maps for cranberry (582 SSRs) and an interspecific diploid blueberry population (V. darrowii x V. corymbosum) x V. corymbosum (409 markers, densest blueberry SSR map currently available). The maps allowed for the first comparative genetic mapping study in Vaccinium, and revealed a surprisingly high degree of macro-synteny and collinearity between the cranberry and blueberry genomes. Approximately 93% of the blueberry linkage map was collinear with cranberry, while the remaining 7% (66.3 cM) was spread across 15 non-collinear regions detected in eight of the 12 linkage groups. These observations suggest that large-scale genome differentiation between the cranberry and blueberry genomes has not occurred during their evolution, and that sequence information will be highly transferable between the species in future genetic research and breeding. Finally, the set of 323 cross-transferable SSRs and linkage maps they were used to construct can serve as a shared resource for the Vaccinium research community, enabling additional comparative mapping studies, the identification and transfer of quantitative trait loci and candidate genes between species, and future exploration of evolutionary relationships in Vaccinium.
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Abbreviations
- SSR:
-
Simple sequence repeat
- LG:
-
Linkage group
- cM:
-
CentiMorgan
- Mb:
-
Megabase
- USDA:
-
United States Department of Agriculture
- RAPD:
-
Randomly amplified polymorphic DNA
- EST:
-
Expressed sequence tag
- SCAR:
-
Sequence characterized amplified region
- SNP:
-
Single nucleotide polymorphism
- QTL:
-
Quantitative trait locus
- MQ:
-
Mullica Queen ®)
- CQ:
-
Crimson Queen ®
- PCR:
-
Polymerase chain reaction
- LOD:
-
Logarithm (base 10) of odds
- ML:
-
Maximum likelihood
- MST:
-
Multiple spanning tree
- NCR:
-
Non-collinear region
- SDR:
-
Segregation distortion region
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Acknowledgements
JZ and BS wish to express their gratitude through 1 Cor 10:31. We thank the anonymous reviewers who helped enhance the quality of this paper. This project was supported by USDA-SRCI under Grant 2008-51180-04878; USDA-NIFA-AFRI Competitive Grant USDA-NIFA-2013-67013-21107: USDA-ARS (project no. 3655-21220-001-00 provided to JZ); WI-DATCP (SCBG Project #14-002); National Science Foundation (DBI-1228280); Ocean Spray Cranberries, Inc.; NJ Cranberry and Blueberry Research Council; Wisconsin Cranberry Growers Association; and Cranberry Institute. BS was supported by the Frank B. Koller Cranberry Fellowship Fund for Graduate Students; GCP and LDG were supported by the Consejo Nacional de Ciencia and Tecnologia (CONACYT, Mexico). MI was supported by the USDA National Institute of Food and Agriculture, Hatch project 1008691.
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BS, JZ, LJR, and MI conceived and designed the study. JZ, LJR, MI, NV, and AB supervised the research. LJR, NV, JP, EO, and AB provided germplasm and marker datasets. BS and NS conducted the marker cross-transferability analysis and genotyped the populations with the transferable markers. LJR, AB, YCL, NB, EJB, CW, SM, and JG provided additional marker datasets and assisted BS in organizing the marker data from many sources into a single dataset. BS, GCP, and LDG performed linkage mapping; BS and GCP performed statistical analyses; BS and MI performed collinearity study; and BS and LDG prepared the final figures. BS, JZ, LJR, and MI wrote the paper. The manuscript was read, edited, and approved by all authors.
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Schlautman, B., Diaz-Garcia, L., Covarrubias-Pazaran, G. et al. Comparative genetic mapping reveals synteny and collinearity between the American cranberry and diploid blueberry genomes. Mol Breeding 38, 9 (2018). https://doi.org/10.1007/s11032-017-0765-y
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DOI: https://doi.org/10.1007/s11032-017-0765-y