Abstract
Main conclusion
High-quality and dense genetic maps were constructed, and leaf shape variation was dissected by QTL mapping in poplar.
Species in the genus Populus, also known as poplars, are important woody species and considered model plants for perennial trees. High-density genetic maps are valuable genomic resources for population genetics. Here, we generated a high-quality and dense genetic map for an F1 poplar population using high-throughput NGS-based genotyping. A total of 92,097 high-quality SNP markers were developed by stringent filtering and identification. In total, 889 and 1650 SNPs formed the female and male genetic maps, respectively. To test the application of the genetic maps, QTL mapping of leaf shape was conducted for this F1 population. A total of nine parameters were scored for leaf shape variation in three different environments. Combining genetic maps and measurements of the nine leaf shape parameters, we mapped a total of 42 significant QTLs. The highest LOD score of all QTLs was 9.2, and that QTL explained the most (15.13%) trait variation. A total of nine QTLs could be detected in at least two environments, and they were located in two genomic regions. Within these two QTL regions, some candidate genes for regulating leaf shape were predicted through functional annotation. The successful mapping of leaf shape QTLs demonstrated the utility of our genetic maps. According to the performance of this study, we were able to provide high-quality and dense genetic maps and dissect the leaf shape variation in poplar.
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Abbreviations
- CI:
-
Confidence interval
- GBS:
-
Genotyping by sequencing
- GWAS:
-
Genome-wide association
- LPI:
-
Leaf plastochron index
- LOD:
-
Logarithm of odds
- NGS:
-
Next generation sequencing
- QTL:
-
Quantity trait locus
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Acknowledgements
Financial support for this work was provided by the National Natural Science Foundation of China (NSFC Accession No. 31670651 and No. 31570665) and Fundamental Research Funds for the Central Universities (No. 520902-0900202801). The authors are grateful to American Journal Experts (AJE) for improving the English in this paper.
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Xia, W., Xiao, Z., Cao, P. et al. Construction of a high-density genetic map and its application for leaf shape QTL mapping in poplar. Planta 248, 1173–1185 (2018). https://doi.org/10.1007/s00425-018-2958-y
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DOI: https://doi.org/10.1007/s00425-018-2958-y