Abstract
Key message
A leaflet trait on different canopy layers may have different QTLs; leaflet trait QTLs may cluster to form joint QTL segments; all canopy layer QTLs form a complete QTL system for a leaflet trait.
Abstract
As the main part of the plant canopy structure, leaf/leaflet size and shape affect the plant architecture and yield. To explore the leaflet trait QTL system, a population composed of 199 recombinant inbred lines derived from Changling (annual wild, narrow leaflet) and Yiqianli (landrace, broad leaflet) with their parents was tested for leaflet length (LL), width (LW) and length to width (LLW). The population was genotyped with specific-locus amplified fragment sequencing (SLAF-seq) and applied for linkage mapping of the leaflet traits. The results showed that the leaflet traits varied greatly even within a plant, which supported a stratified leaflet sampling strategy to evaluate these traits at top, middle and bottom canopy layers. Altogether, 13 LL, 10 LW and 9 LLW in a total of 32 plus 3 duplicated QTLs were identified, in which, 17 QTLs were new ones, and 48.6%, 28.6% and 22.8% of QTLs were from the top, middle and bottom layers, respectively, indicating the genetic importance of the top layer leaves. Since a leaflet trait may have layer-specific QTLs, all layer QTLs form a complete QTL system. Five QTL clusters each with their QTL supporting intervals overlapped were designated as joint QTL segments (JQSs). In JQS-16, with its linkage map further validated using PCR markers, two QTLs, qLW-16-1 and qLLW-16-1 of the top layer leaflet, were identified six QTL·times. Six candidate genes were predicted, with Glyma.16G127900 as the most potential one for LW and LLW. Three PCR markers, Gm16PAV0653, BARCSOYSSR_16_0796 and YC-16-3, were suggested for marker-assisted selection for LW and LLW in JQS-16.
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Data availability
The datasets generated during and/or analyzed during the current study are available from the corresponding author on reasonable request.
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Acknowledgements
The bioinformatics analysis of present work was supported by the high-performance computing platform of Bioinformatics Center, Nanjing Agricultural University.
Funding
This study was funded by the National Key Research and Development Program of China (2021YFF1001204, 2021YFD1201604), the Natural Science Foundation of China (31571694), MOE 111 Project (B08025), MOA CARS-04 Program, Jiangsu Higher Education PAPD Program, and Jiangsu JCICMCP Program.
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JZ, ML and GX designed the experiment, YW, HQ and GX prepared the materials, ML, BF, YX, MR and XX carried out the field experiment. JZ conduct bioinformatics analysis. ML, JZ and FK performed PCR marker analysis. JZ, ML and GX drafted the manuscript, GX and JG revised and finalized the manuscript. All authors approved the final version.
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Communicated by Henry T. Nguyen.
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Zeng, J., Li, M., Qiu, H. et al. Identification of QTLs and joint QTL segments of leaflet traits at different canopy layers in an interspecific RIL population of soybean. Theor Appl Genet 135, 4261–4275 (2022). https://doi.org/10.1007/s00122-022-04216-7
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DOI: https://doi.org/10.1007/s00122-022-04216-7