Identification of Soybean Genes Whose Expression is Affected by the Ensifer fredii HH103 Effector Protein NopP
Abstract
:1. Introduction
2. Results
2.1. NopP Effects on Soybean Germplasm
2.2. Phenotypic Analysis
2.3. Mapping of Conditional QTL for Nodulation-Related Traits
2.4. Validation of Candidate Genes by qRT-PCR
3. Discussion
4. Materials and Methods
4.1. Strains, Plasmids and Primers
4.2. Generation of the HH103ΩNopP Mutant
4.3. Nodulation Tests
Plant Materials and Nodulation-Related Traits
4.4. The Conditional QTL Mapping of Nodulation-Related Traits
4.5. Delimitation of QTL Regions and Identification of Candidate Genes
4.6. RNA Isolation and qRT-PCR Analyses of NopP Candidate Genes
Supplementary Materials
Author Contributions
Funding
Acknowledgments
Conflicts of Interest
References
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RILs (n = 150) | Parents (Average) | |||||
---|---|---|---|---|---|---|
Traits | Average | Standard Deviation | Coefficient of Variation | Charleston | Dongnong594 | |
HH103 RifR | Nodule number | 23.9 | 15.1 | 76.38 | 14.0 ± 3.5 ** | 26.0 ± 6.6 |
Nodule dry-weight (mg) | 18.4 * | 17.2 | 93.25 | 13.0 ± 2.6 ** | 22.5 ± 1.8 | |
HH103 RifRΩNopP | Nodule number | 11.5 ** | 13.822 | 58.07 | 13.0 ± 3.0 ** | 27.0 ± 3.0 |
Nodule dry-weight (mg) | 29.4 | 0.0236 | 80.34 | 10.0 ± 2.6 ** | 41.5 ± 5.6 |
Trait | LG/QTL | Chrom. | Position (cM) | LOD a | R2 (%) b | ADD c |
---|---|---|---|---|---|---|
Nodule number | QN/NN01 | 03 | 55.5 | 3.8 | 8.21 | −2.46 |
QB2/NN02 | 14 | 74.0 | 4.6 | 9.04 | −2.95 | |
QD2/NN03 | 17 | 133.2 | 5.0 | 8.19 | 2.61 | |
Nodule dry weight | QN/NDW01 | 03 | 74.0 | 5.0 | 2.54 | −0.001 |
QH/NDW02 | 12 | 51.8 | 4.0 | 9.78 | 0.005 | |
QH/NDW03 | 12 | 55.5 | 5.4 | 3.75 | 0.002 | |
QJ/NDW04 | 16 | 88.8 | 4.5 | 5.26 | −0.002 |
No. | Gene | Function |
---|---|---|
1 | Glyma.12G028300 | Cell elongation protein/DWARF1/diminuto (DIM) |
2 | Glyma.12G030000 | Leucine-rich repeat protein kinase family protein |
3 | Glyma.12G030300 | Disease resistance-responsive (dirigent-like protein) family protein |
4 | Glyma.12G030900 | Like auxin resistant 2 |
5 | Glyma.12G031000 | Pathogenesis-related thaumatin superfamily protein |
6 | Glyma.12G031200 | Pathogenesis-related thaumatin superfamily protein |
7 | Glyma.12G032400 | Calcium-dependent lipid-binding (CaLB domain) family protein |
8 | Glyma.12G036700 | NAD(P)-linked oxidoreductase superfamily protein |
9 | Glyma.12G036900 | NAD(P)-binding rossmann-fold superfamily protein |
10 | Glyma.12G040000 | Leucine-rich receptor-like protein kinase family protein |
11 | Glyma.12G043600 | Protein kinase superfamily protein |
12 | Glyma.12G052400 | Protein kinase family protein |
13 | Glyma.12G055500 | Leucine-rich repeat (LRR) family protein |
14 | Glyma.12G055600 | Leucine-rich repeat (LRR) family protein |
15 | Glyma.12G073000 | Mitogen-activated protein kinase 3 |
16 | Glyma.12G076200 | Auxin response factor 10 |
17 | Glyma.12G079300 | SAUR-like auxin-responsive protein family |
No. | Gene | Function |
---|---|---|
1 | Glyma.12G028300 | Cell elongation protein/DWARF1/Diminuto (DIM) |
2 | Glyma.12G030000 | Leucine-rich repeat protein kinase family protein |
3 | Glyma.12G031200 | Pathogenesis-related thaumatin superfamily protein |
4 | Glyma.12G036900 | NAD(P)-binding rossmann-fold superfamily protein |
5 | Glyma.12G052400 | Protein kinase family protein |
6 | Glyma.12G055500 | Leucine-rich repeat (LRR) family protein |
7 | Glyma.12G073000 | Mitogen-activated protein kinase 3 |
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Wang, J.; Wang, J.; Liu, C.; Ma, C.; Li, C.; Zhang, Y.; Qi, Z.; Zhu, R.; Shi, Y.; Zou, J.; et al. Identification of Soybean Genes Whose Expression is Affected by the Ensifer fredii HH103 Effector Protein NopP. Int. J. Mol. Sci. 2018, 19, 3438. https://doi.org/10.3390/ijms19113438
Wang J, Wang J, Liu C, Ma C, Li C, Zhang Y, Qi Z, Zhu R, Shi Y, Zou J, et al. Identification of Soybean Genes Whose Expression is Affected by the Ensifer fredii HH103 Effector Protein NopP. International Journal of Molecular Sciences. 2018; 19(11):3438. https://doi.org/10.3390/ijms19113438
Chicago/Turabian StyleWang, Jinhui, Jieqi Wang, Chunyan Liu, Chao Ma, Changyu Li, Yongqian Zhang, Zhaoming Qi, Rongsheng Zhu, Yan Shi, Jianan Zou, and et al. 2018. "Identification of Soybean Genes Whose Expression is Affected by the Ensifer fredii HH103 Effector Protein NopP" International Journal of Molecular Sciences 19, no. 11: 3438. https://doi.org/10.3390/ijms19113438