Comparative Study on the Transcriptome of Maize Mature Embryos from Two China Elite Hybrids Zhengdan958 and Anyu5

Ma, Jian; Li, Jingjing; Cao, Yongsong; Wang, Lifeng; Wang, Fei; Wang, Hao; Li, Huiyong

doi:10.1371/journal.pone.0158028

Cited by 6 publications

(5 citation statements)

References 45 publications

(46 reference statements)

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“…Finally, a thiazole biosynthetic Thi4 family enzyme (Q41739) exhibiting high parent abundance in the UENF/UEM01 hybrid was detected. This protein is involved in thiazole biosynthesis and catalyzes the conversion of NAD and glycine to adenosine diphosphate (ADT); Q41739 also functions in hybrid adaptations to various stress conditions and in DNA damage tolerance [ 46 ]. Moreover, many studies have reported that thiamine biosynthesis is up-regulated during plant adaptation responses to abiotic stress, including salt, cold, flooding, heat, drought, and osmotic stress [ 46 ].…”

Section: Discussionmentioning

confidence: 99%

Differentially abundant proteins associated with heterosis in the primary roots of popcorn

et al. 2018

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Although heterosis has significantly contributed to increases in worldwide crop production, the molecular mechanisms regulating this phenomenon are still unknown. In the present study, we used a comparative proteomic approach to explore hybrid vigor via the proteome of both the popcorn L54 ♀ and P8 ♂ genotypes and the resultant UENF/UEM01 hybrid cross. To analyze the differentially abundant proteins involved in heterosis, we used the primary roots of these genotypes to analyze growth parameters and extract proteins. The results of the growth parameter analysis showed that the mid- and best-parent heterosis were positive for root length and root dry matter but negative for root fresh matter, seedling fresh matter, and protein content. The comparative proteomic analysis identified 1343 proteins in the primary roots of hybrid UENF/UEM01 and its parental lines; 220 proteins were differentially regulated in terms of protein abundance. The mass spectrometry proteomic data are available via ProteomeXchange with identifier “PXD009436”. A total of 62 regulated proteins were classified as nonadditive, of which 53.2% were classified as high parent abundance (+), 17.8% as above-high parent abundance (+ +), 16.1% as below-low parent abundance (− −), and 12.9% as low parent abundance (-). A total of 22 biological processes were associated with nonadditive proteins; processes involving translation, ribosome biogenesis, and energy-related metabolism represented 45.2% of the nonadditive proteins. Our results suggest that heterosis in the popcorn hybrid UENF/UEM01 at an early stage of plant development is associated with an up-regulation of proteins related to synthesis and energy metabolism.

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Section: Discussionmentioning

confidence: 99%

Differentially abundant proteins associated with heterosis in the primary roots of popcorn

et al. 2018

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“…The high-heterosis hybrid Zhengdan 958 has been planted all over China. Its parental inbreeds belong to two different heterotic groups: Zheng 58 belongs to the PA heterotic group, a subgroup of SS, and Chang 7–2 belongs to TSPT heterotic group, a subgroup of NSS (Bai et al, 2015 ; Ma et al, 2016 ). Following the testcross (TC) progeny production scheme (Comstock and Robinson, 1952 ), 174 RILs (F 7 ) derived from the hybrid Zhengdan 958 were used as pollen parents to cross the parental lines Zheng 58 [TC (Zheng 58)] and Chang 7–2 [TC (Chang 7–2)].…”

Section: Methodsmentioning

confidence: 99%

Identification of Heterosis-Associated Stable QTLs for Ear-Weight-Related Traits in an Elite Maize Hybrid Zhengdan 958 by Design III

Yang

Gao

et al. 2017

Front. Plant Sci.

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Heterosis plays a decisive role in maize production worldwide, but its genetic basis remains unclear. In this study, we explored heterosis for ear-weight (EW)-related traits using a North Carolina Experiment III design (Design III) population derived from the elite maize hybrid Zhengdan 958. Quantitative trait loci (QTL) analysis was conducted based on phenotypic data collected from five environments using a high-density linkage map that consisted of 905 single nucleotide polymorphisms (SNP). A total of 38 environmentally stable QTLs were detected, and the numbers for the Z1 and Z2 populations were 18 and 20, respectively. All environmentally stable QTLs for Z2 were characterized by the overdominance effect (OD), which indicated that overdominance was one of the most important contributors to the heterosis of EW-related traits. Consistent with the significant positive correlations between EW-related traits, 9 genomic regions with overlapped QTLs for different traits were found and were located on chromosomes 1 (1), 3 (2), 4 (3), 7 (1), 8 (1), and 9 (1). Compared to previous reports, we found that the genomic regions for heterosis were not always congruent between different hybrids, which suggested that the combination of heterotic loci in different hybrids was genotype-dependent. Collectively, these data provided further evidence that the potential utilization of QTLs for heterosis may be feasible by pyramiding if we treat the QTLs as inherited units.

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“…This high percentage indicates that the expression divergence of most hybrid genes is not merely a result of the combined effect of allelic expressions, but a consequence of diverse gene expression regulatory mechanisms. A number of recent studies, including in maize [ 46 ], soybeans [ 47 ], rubber trees [ 10 ], interspecific hybrids between Brassica napus and B. rapa [ 48 ], and cauliflower [ 49 ], show a prevalence of non-additive gene action in the hybrids. Non-additive gene expressions may have both direct and indirect contributions to heterosis.…”

Section: Discussionmentioning

confidence: 99%

“…However, hybridization exposes the parental alleles to trans-regulatory factors originating from both parents, and therefore, the differences in allelic regulation may also be due to trans-effects. Numerous studies have shown that non-additive gene expression mainly results from the trans-effects, and may cause the gene expression in the hybrids to deviate significantly from additive expression [ 31 , 46 , 51 , 52 ]. In cabbage hybrids, of the genes showing non-conserved expressions, 39–54% showed cis-effects, compared to only 13–16% showing trans- effects ( Figure 6 a).…”

Section: Discussionmentioning

confidence: 99%

Comparative Transcriptomic Analysis of Gene Expression Inheritance Patterns Associated with Cabbage Head Heterosis

Jayasinghege

Guo

et al. 2021

Plants

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The molecular mechanism of heterosis or hybrid vigor, where F1 hybrids of genetically diverse parents show superior traits compared to their parents, is not well understood. Here, we studied the molecular regulation of heterosis in four F1 cabbage hybrids that showed heterosis for several horticultural traits, including head size and weight. To examine the molecular mechanisms, we performed a global transcriptome profiling in the hybrids and their parents by RNA sequencing. The proportion of genetic variations detected as single nucleotide polymorphisms and small insertion–deletions as well as the numbers of differentially expressed genes indicated a larger role of the female parent than the male parent in the genetic divergence of the hybrids. More than 86% of hybrid gene expressions were non-additive. More than 81% of the genes showing divergent expressions showed dominant inheritance, and more than 56% of these exhibited maternal expression dominance. Gene expression regulation by cis-regulatory mechanisms appears to mediate most of the gene expression divergence in the hybrids; however, trans-regulatory factors appear to have a higher effect compared to cis-regulatory factors on parental expression divergence. These observations bring new insights into the molecular mechanisms of heterosis during the cabbage head development.

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Comparative Study on the Transcriptome of Maize Mature Embryos from Two China Elite Hybrids Zhengdan958 and Anyu5

Cited by 6 publications

References 45 publications

Differentially abundant proteins associated with heterosis in the primary roots of popcorn

Differentially abundant proteins associated with heterosis in the primary roots of popcorn

Identification of Heterosis-Associated Stable QTLs for Ear-Weight-Related Traits in an Elite Maize Hybrid Zhengdan 958 by Design III

Comparative Transcriptomic Analysis of Gene Expression Inheritance Patterns Associated with Cabbage Head Heterosis

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