QTLs and candidate genes analyses for fruit size under domestication and differentiation in melon (Cucumis melo L.) based on high resolution maps
Open Access
- 3 March 2021
- journal article
- research article
- Published by Springer Science and Business Media LLC in BMC Plant Biology
- Vol. 21 (1), 1-13
- https://doi.org/10.1186/s12870-021-02904-y
Abstract
Background: Melon is a very important horticultural crop produced worldwide with high phenotypic diversity. Fruit size is among the most important domestication and differentiation traits in melon. The molecular mechanisms of fruit size in melon are largely unknown. Results: Two high-density genetic maps were constructed by whole-genome resequencing with two F2 segregating populations (WAP and MAP) derived from two crosses (cultivated agrestis × wild agrestis and cultivated melo × cultivated agrestis). We obtained 1,871,671 and 1,976,589 high quality SNPs that show differences between parents in WAP and MAP. A total of 5138 and 5839 recombination events generated 954 bins in WAP and 1027 bins in MAP with the average size of 321.3 Kb and 301.4 Kb respectively. All bins were mapped onto 12 linkage groups in WAP and MAP. The total lengths of two linkage maps were 904.4 cM (WAP) and 874.5 cM (MAP), covering 86.6% and 87.4% of the melon genome. Two loci for fruit size were identified on chromosome 11 in WAP and chromosome 5 in MAP, respectively. An auxin response factor and a YABBY transcription factor were inferred to be the candidate genes for both loci. Conclusion: The high-resolution genetic maps and QTLs analyses for fruit size described here will provide a better understanding the genetic basis of domestication and differentiation, and provide a valuable tool for map-based cloning and molecular marker assisted breeding.Keywords
This publication has 63 references indexed in Scilit:
- The genome of melon ( Cucumis melo L.)Proceedings of the National Academy of Sciences of the United States of America, 2012
- A consensus linkage map for molecular markers and Quantitative Trait Loci associated with economically important traits in melon (Cucumis meloL.)BMC Plant Biology, 2011
- Differentiating Arabidopsis Shoots from Leaves by Combined YABBY ActivitiesPlant Cell, 2010
- Parent-independent genotyping for constructing an ultrahigh-density linkage map based on population sequencingProceedings of the National Academy of Sciences of the United States of America, 2010
- A set of EST-SNPs for map saturation and cultivar identification in melonBMC Plant Biology, 2009
- Fast and accurate short read alignment with Burrows–Wheeler transformBioinformatics, 2009
- Efficient and Accurate Construction of Genetic Linkage Maps from the Minimum Spanning Tree of a GraphPLoS Genetics, 2008
- Molecular characterization the YABBY gene family in Oryza sativa and expression analysis of OsYABBY1Molecular Genetics and Genomics, 2007
- AUXIN RESPONSE FACTOR8Is a Negative Regulator of Fruit Initiation inArabidopsisPlant Cell, 2006
- Simple-sequence repeat markers used in merging linkage maps of melon (Cucumis melo L.)Theoretical and Applied Genetics, 2005