Cloning and Expression Analysis of SiCDPK4, a Gene Related to Heterosis in Foxtail Millet [(Setaria italica (L.) P. Beauv.)]

Liu, Dan; Li, Suying; Wang, Lina; Li, Qiang; Cui, Yanjiao; Dai, Xiaodong; Zhao, Zilong; Chen, Chao; Li, Junxia; Liu, Zhengli

doi:10.1007/s00344-018-9866-z

Cited by 7 publications

(9 citation statements)

References 69 publications

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“…Here, a total of 1393 non-additive DEGs were also identified. Kinase and synthase, such as protein kinase and starch synthase, played important role in heterosis performance [23,43]. We found many genes involved in kinase and synthase, and the KEGG analysis results revealed an important pathway, i.e.…”

Section: Discussionmentioning

confidence: 79%

“…Since the heterosis was involved in all biological traits of rice hybrids, and the most important traits were grain yield and resistance, we analyzed the genes associated with kinase and synthase, including protein kinase, starch biosynthesis and their related genes [23,43]. Of the DEGFu-sp to the two hybrids, 279 and 89 genes were involved in kinase and synthase, respectively (Additional file 3: Table S9a, S9b; Table 10Se and 10Sf).…”

Section: Functional Analysis Of Degs Associated With Heterosis In Difmentioning

confidence: 99%

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Heterosis analysis and underlying molecular regulatory mechanism in a wide-compatible neo-tetraploid rice line with long panicles

et al. 2020

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Background: Neo-tetraploid rice, which is a new germplasm developed from autotetraploid rice, has a powerful biological and yield potential and could be used for commercial utilization. The length of panicle, as a part of rice panicle architecture, contributes greatly to high yield. However, little information about long panicle associated with heterosis or hybrid vigor is available in neo-tetraploid rice. Results: In the present study, we developed a neo-tetraploid rice line, Huaduo 8 (H8), with long panicles and harboring wide-compatibility genes for pollen and embryo sac fertility. All the hybrids generated by H8 produced significant high-parent yield heterosis and displayed long panicles similar to H8. RNA-seq analysis detected a total of 4013, 7050, 6787 and 6195 differentially expressed genes uniquely belonging to F 1 and specifically (DEGFu-sp) associated with leaf, sheath, main panicle axis and spikelet in the two hybrids, respectively. Of these DEGFu-sp, 279 and 89 genes were involved in kinase and synthase, and 714 cloned genes, such as GW8, OsGA20ox1, Ghd8, GW6a, and LP1, were identified and validated by qRT-PCR. A total of 2925 known QTLs intervals, with an average of 1~100 genes per interval, were detected in both hybrids. Of these, 109 yield-related QTLs were associated with seven important traits in rice. Moreover, 1393 non-additive DEGs, including 766 up-regulated and 627 down-regulated, were detected in both hybrids. Importantly, eight up-regulated genes associated with panicle were detected in young panicles of the two hybrids compared to their parents by qRT-PCR. Re-sequencing analysis depicted that LP (a gene controlling long panicle) sequence of H8 was different from many other neo-tetraploid rice and most of the diploid and autotetraploid lines. The qRT-PCR results showed that LP was up-regulated in the hybrid compared to its parents at very young stage of panicle development. Conclusions: These results suggested that H8 could overcome the intersubspecific autotetraploid hybrid rice sterility caused by embryo sac and pollen sterility loci. Notably, long panicles of H8 showed dominance phenomenon and played an important role in yield heterosis, which is a complex molecular mechanism. The neotetraploid rice is a useful germplasm to attain high yield of polyploid rice.

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Section: Discussionmentioning

confidence: 79%

Section: Functional Analysis Of Degs Associated With Heterosis In Difmentioning

confidence: 99%

Heterosis analysis and underlying molecular regulatory mechanism in a wide-compatible neo-tetraploid rice line with long panicles

et al. 2020

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“…Recently, much attention has been paid to heterosis associated genes [ 1 , 7 ]. As we known, various genes associated with heterosis have been located or been deeply studied, such as GA-related genes [ 8 ], ErbB-3 binding Protein 1 [ 9 ], calcium-dependent protein kinase [ 10 , 11 ], xyloglucan endotransglucosylase/hydrolase [ 12 ], cell number regulator gene [ 13 ]. With the development of life sciences-related technology, some new methods have also been used to study heterosis, including transcriptomic methods, especially proteomics [ 1 , 4 ].…”

Section: Introductionmentioning

confidence: 99%

Comparative proteomic analysis reveals that the Heterosis of two maize hybrids is related to enhancement of stress response and photosynthesis respectively

Wang

Xiu

et al. 2021

BMC Plant Biol

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Background Heterosis refers to superior traits exhibiting in a hybrid when compared with both parents. Generally, the hybridization between parents can change the expression pattern of some proteins such as non-additive proteins (NAPs) which might lead to heterosis. ‘Zhongdan808’ (ZD808) and ‘Zhongdan909’ (ZD909) are excellent maize hybrids in China, however, the heterosis mechanism of them are not clear. Proteomics has been wildly used in many filed, and comparative proteomic analysis of hybrid and its parents is helpful for understanding the mechanism of heterosis in the two maize hybrids. Results Over 2000 protein groups were quantitatively identified from second seedling leaves of two hybrids and their parents by label-free quantification. Statistical analysis of total identified proteins, differentially accumulated proteins (DAPs) and NAPs of the two hybrids revealed that both of them were more similar to their female parents. In addition, most of DAPs were up-regulated and most of NAPs were high parent abundance or above-high parent abundance in ZD808, while in ZD909, most of DAPs were down-regulated and most of NAPs were low parent abundance or below-low parent abundance. Pathway enrichment analysis showed that more of stress response-related NAPs in ZD808 were high parent abundance or above-high parent abundance, and most of PS related NAPs in ZD909 were high parent abundance or above-high parent abundance. Finally, four stress response-related proteins and eight proteins related to PS were verified by PRM, ten of them had significant differences between hybrid and midparent value. Conclusions Even though every one of the two hybrids were more similar to its female parent at proteome level, the biological basis of heterosis is different in the two maize hybrids. In comparison with their parents, the excellent agronomic traits of hybrid ZD808 is mainly correlated with the high expression levels of some proteins related to stress responses and metabolic functions, while traits of ZD909 is mainly correlated with high expressed proteins related to photosynthesis. Our proteomics results support previous physiological and morphological research and have provided useful information in understanding the reason of valuable agronomic traits.

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“…Recently, much attention has been paid to heterosis associated genes [1,7]. As we known, various genes associated with heterosis have been located or been deeply studied, such as GArelated genes [8], ErbB-3 binding Protein 1 [9], calcium-dependent protein kinase [10,11], xyloglucan endotransglucosylase/hydrolase [12], cell number regulator gene [13]. With the development of life sciences-related technology, some new methods have also been used to study heterosis, including transcriptomic methods, especially proteomics [1,4].…”

Section: Introductionmentioning

confidence: 99%

Comparative Proteomic Analysis Reveals That the Heterosis of Two Maize Hybrids is Related to Enhancement of Stress Response and Photosynthesis Respectively

Wang

et al. 2020

Preprint

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Background Heterosis refers to superior traits exhibiting in a hybrid when compared with both parents. Generally, the hybridization between parents can change the expression pattern of some proteins such as non-additive proteins (NAPs) which might lead to heterosis. ‘Zhongdan808’ (ZD808) and ‘Zhongdan909’ (ZD909) are excellent maize hybrids in China, however, the heterosis mechanism of them are not clear. Proteomics has been wildly used in many filed, and comparative proteomic analysis of hybrid and its parents is helpful for understanding the mechanism of heterosis in the two maize hybrids.Results Over 2,000 protein groups were quantitatively identified from second seedling leaves of two hybrids and their parents by label-free quantification. Statistical analysis of total identified proteins, differentially accumulated proteins (DAPs) and NAPs of the two hybrids revealed that both of them were more similar to their female parents. In addition, most of DAPs were up-regulated and most of NAPs were high parent abundance or above-high parent abundance in ZD808, while in ZD909, most of DAPs were down-regulated and most of NAPs were low parent abundance or below-low parent abundance. Pathway enrichment analysis showed that more of stress response-related NAPs in ZD808 were high parent abundance or above-high parent abundance, and most of PS related NAPs in ZD909 were high parent abundance or above-high parent abundance. Finally, four stress response-related proteins and eight proteins related to PS were verified by PRM, ten of them had significant differences between hybrid and midparent value. Conclusions Even though every one of the two hybrids were more similar to its female parent at proteome level, the biological basis of heterosis is different in the two maize hybrids. In comparison with their parents, the excellent agronomic traits of hybrid ZD808 is mainly correlated with the high expression levels of some proteins related to stress responses and metabolic functions, while traits of ZD909 is mainly correlated with high expressed proteins related to photosynthesis. Our proteomics results support previous physiological and morphological research and have provided useful information in understanding the reason of valuable agronomic traits.

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Cloning and Expression Analysis of SiCDPK4, a Gene Related to Heterosis in Foxtail Millet [(Setaria italica (L.) P. Beauv.)]

Cited by 7 publications

References 69 publications

Heterosis analysis and underlying molecular regulatory mechanism in a wide-compatible neo-tetraploid rice line with long panicles

Heterosis analysis and underlying molecular regulatory mechanism in a wide-compatible neo-tetraploid rice line with long panicles

Comparative proteomic analysis reveals that the Heterosis of two maize hybrids is related to enhancement of stress response and photosynthesis respectively

Comparative Proteomic Analysis Reveals That the Heterosis of Two Maize Hybrids is Related to Enhancement of Stress Response and Photosynthesis Respectively

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