Transcriptome analysis revealed the mechanism of skeletal muscle growth and development in different hybrid sheep.

Objective: To analyze the molecular mechanism of heterosis in East Friesian sheep × Hu sheep (EH) hybrid sheep and Suffolk × EH (SHE) hybrid sheep (Ovis aries). Methods: In this research, the growth performance data of Hu sheep (H), EH and SHE from birth to 8 months of age were analyzed. Three 8-month-old sheep of each of the three strains (9 sheep in total) were chosen and their longissimus dorsi muscles were collected for transcriptome sequencing. We verified the expression of seven differentially expressed genes (DEGs) by RT-qPCR. Results: The results showed: (1) body weight and chest circumference of EH were significantly greater than H (p<0.05), except at 4 months of age. Body weight and chest circumference of SHE was significantly higher than EH (p<0.05), except at 6 months of age. (2) 310 DEGs were screened in the EH and H, GO and KEGG showed DEGs were mainly concentrate on the categories of actin cytoskeleton, calcium binding, cGMP-PKG and MAPK signaling pathway, which correlating the development of skeletal muscle and energy metabolism. 329 DEGs were screened in the SHE and EH. DEGs were mainly enriched in ECM-receptor interactions and cell adhesion molecules. (3) PPI screening yielded five (MYL2, TNNI1, TNNI3, MYH11, TNNC1) and three (SOX10, COL2A1, MPZ) pivotal DEGs regulating muscle development in EH and SHE. (4) RT-qPCR test results were consistent with transcriptome sequencing. Conclusion: This study provides candidate genes for improving sheep growth traits. It provides a theoretical basis for analyzing the mechanism of muscle development in crossbred sheep.

Historic breeding practices contribute to germplasm divergence in leaf specialized metabolism and ecophysiology in cultivated sunflower (Helianthus annuus).

PREMISE: The use of hybrid breeding systems to increase crop yields has been the cornerstone of modern agriculture and is exemplified in the breeding and improvement of cultivated sunflower (Helianthus annuus). However, it is poorly understood what effect supporting separate breeding pools in such systems, combined with continued selection for yield, may have on leaf ecophysiology and specialized metabolite variation. METHODS: We analyzed 288 lines of cultivated H. annuus to examine the genomic basis of several specialized metabolites and agronomically important traits across major heterotic groups. RESULTS: Heterotic group identity supports phenotypic divergences between fertility restoring and cytoplasmic male-sterility maintainer lines in leaf ecophysiology and specialized metabolism. However, the divergence is not associated with physical linkage to nuclear genes that support current hybrid breeding practices in cultivated H. annuus. Additionally, we identified four genomic regions associated with leaf ecophysiology and specialized metabolism that colocalize with previously identified QTLs for quantitative self-compatibility traits and with S-protein homolog (SPH) proteins, a recently discovered family of proteins associated with self-incompatibility and self/nonself recognition in Papaver rhoeas (common poppy) with suggested conserved downstream mechanisms among eudicots. CONCLUSIONS: Further work is necessary to confirm the self-incompatibility mechanisms in cultivated H. annuus and their relationship to the integrative and polygenic architecture of leaf ecophysiology and specialized metabolism in cultivated sunflower. However, because self-compatibility is a derived quantitative trait in cultivated H. annuus, trait linkage to divergent phenotypic traits may have partially arisen as a potential unintended consequence of historical breeding practices and selection for yield.

Exploitation of heterosis in chilli using genetic male sterile lines for red fruit yield with special reference to high rainfall conditions.

High-quality red/dry chilli for spice, pharmaceutical and medicinal purposes is a major goal in chilli breeding. The male sterile lines have greater potential for the exploitation of heterosis in chilli to achieve this objective. Genetic male sterile lines with special traits like destalking and ability to withstand high rainfall were involved in heterosis breeding to identify hybrids for commercial and industrial purposes. Forty F1 hybrids were developed by crossing 4 diverse GMS lines with 10 testers using Line × Tester mating design to estimate heterosis, combing ability and gene action. The experiment involving 14 parents and 40 F1s, along with standard variety 'CH-27' was laid out in α-lattice square design in three replications during summer 2020 and 2021. The GMS lines MS 9-2 and MS 26-1 along with testers DPCh 10, VVG, DPCh 40 and Him Palam Mirch-2 showed significant GCA for marketable red/dry fruit yield and majority of their component traits. Ten F1 hybrids were identified with superiority for fruit yield based on mean performance, significant heterosis and SCA effects, providing an opportunity to utilize them in value-added products and dried spice purposes viz., MS 9-2 × HPM-2, MS 11-2 × DPCh 40, MS 9-2 × DPCh 40 and MS 9-2 × DPCh 101 with erect fruiting habit and that of MS 9-2 × DPCh 10, MS 26-1 × DPCh 10, MS 9-2 × PBC 535, MS 26-1 × VVG, MS 29-2 × DPCh 10 and MS 26-1 × DPCh 22- C with pendent fruits. The non-additive gene action was predominant in the expression of fruit yield, total red fruits/plant, oleoresin and capsanthin. A significant positive correlation among SCA, economic heterosis and per se performance is an indicative to identify superior hybrids. Multi-location testing of these hybrids shall pave way to exploit them commercially by making them available to the farmers.

Non-additive expression genes play a critical role in leaf vein ratio heterosis in Nicotiana tabacum L.

Heterosis, recognized for improving crop performance, especially in the first filial (F1) generation, remains an area of significant study in the tobacco industry. The low utilization of leaf veins in tobacco contributes to economic inefficiency and resource waste. Despite the positive impacts of heterosis on crop genetics, investigations into leaf-vein ratio heterosis in tobacco have been lacking. Understanding the mechanisms underlying negative heterosis in leaf vein ratio at the molecular level is crucial for advancing low vein ratio leaf breeding research. This study involved 12 hybrid combinations and their parental lines to explore heterosis associated with leaf vein ratios. The hybrids displayed diverse patterns of positive or negative leaf vein ratio heterosis across different developmental stages. Notably, the F1 hybrid (G70 × Qinggeng) consistently exhibited substantial negative heterosis, reaching a maximum of -19.79% 80 days after transplanting. A comparative transcriptome analysis revealed that a significant proportion of differentially expressed genes (DEGs), approximately 39.04% and 23.73%, exhibited dominant and over-dominant expression patterns, respectively. These findings highlight the critical role of non-additive gene expression, particularly the dominance pattern, in governing leaf vein ratio heterosis. The non-additive genes, largely associated with various GO terms such as response to abiotic stimuli, galactose metabolic process, plant-type cell wall organization, auxin-activated signaling pathway, hydrolase activity, and UDP-glycosyltransferase activity, were identified. Furthermore, KEGG enrichment analysis unveiled their involvement in phenylpropanoid biosynthesis, galactose metabolism, plant hormone signal transduction, glutathione metabolism, MAPK signaling pathway, starch, and sucrose metabolism. Among the non-additive genes, we identified some genes related to leaf development, leaf size, leaf senescence, and cell wall extensibility that showed significantly lower expression in F1 than in its parents. These results indicate that the non-additive expression of genes plays a key role in the heterosis of the leaf vein ratio in tobacco. This study marks the first exploration into the molecular mechanisms governing leaf vein ratio heterosis at the transcriptome level. These findings significantly contribute to understanding leaf vein ratios in tobacco breeding strategies.

PAGER: A novel genotype encoding strategy for modeling deviations from additivity in complex trait association studies.

BACKGROUND: The additive model of inheritance assumes that heterozygotes (Aa) are exactly intermediate in respect to homozygotes (AA and aa). While this model is commonly used in single-locus genetic association studies, significant deviations from additivity are well-documented and contribute to phenotypic variance across many traits and systems. This assumption can introduce type I and type II errors by overestimating or underestimating the effects of variants that deviate from additivity. Alternative genotype encoding strategies have been explored to account for different inheritance patterns, but they often incur significant computational or methodological costs. To address these challenges, we introduce PAGER (Phenotype Adjusted Genotype Encoding and Ranking), an efficient pre-processing method that encodes each genetic variant based on normalized mean phenotypic differences between diallelic genotype classes (AA, Aa, and aa). This approach more accurately reflects each variant's true inheritance model, improving model precision while minimizing the costs associated with alternative encoding strategies. RESULTS: Through extensive benchmarking on SNPs simulated with both binary and continuous phenotypes, we demonstrate that PAGER accurately represents various inheritance patterns (including additive, dominant, recessive, and heterosis), achieves levels of statistical power that meet or exceed other encoding strategies, and attains computation speeds up to 55 times faster than a similar method, EDGE. We also apply PAGER to publicly available real-world data and identify a novel, relevant putative QTL associated with body mass index in rats (Rattus norvegicus) that is not detected with the additive model. CONCLUSIONS: Overall, we show that PAGER is an efficient genotype encoding approach that can uncover sources of missing heritability and reveal novel insights in the study of complex traits while incurring minimal costs.

Molecular mechanisms of heterosis under drought stress in maize hybrids Zhengdan7137 and Zhengdan7153.

Maize is one of the most successful crops in utilizing heterosis which significantly improves maize stresses resistance and yield. Drought is a destructive abiotic stress that significantly reduces crop yield, particularly in maize. Drought stress and re-watering frequently occur during the growth and development of maize; however, the molecular mechanisms of heterosis under drought stress and re-watering have rarely been systematically investigated. Zhengdan7137 and Zhengdan7153 are two maize hybrid varieties with robust heterosis, and separately belongs to the SS×NSS and Reid×Tangsipingtou heterotic groups. 54 transcriptomes of these two hybrids and their parental inbred lines were analyzed under well-watering (WW), water-deficit (WD), and re-watering (RW) conditions using RNA-Seq. In this study, we identified 3,411 conserved drought response genes (CDRGs) and 3,133 conserved re-watering response genes (CRRGs) between Zhengdan7137 and Zhengdan7153. When comparing CDRGs and CRRGs to overdominance and underdominance genes, we identified 303 and 252 conservative drought response overdominance genes (DODGs) and underdominance genes (DUDGs), respectively, and 165 and 267 conservative re-watering response overdominance genes (RODGs) and underdominance genes (RUDGs), respectively. DODGs are involved in stress response-related processes, such as L-phenylalanine metabolism, carbohydrate metabolism, and heat response, whereas DUDGs are associated with glucose metabolism, pentose-phosphate shunt, and starch metabolism. RODGs and RUDGs contribute to the recovery of hybrids from drought stress by upregulating cell propagation and photosynthesis processes, and repressing stress response processes, respectively. It indicated overdominant and underdominant genes conservatively contributed to hybrid heterosis under drought stress. These results deepen our understanding of the molecular mechanisms of drought resistance, uncover conservative molecular mechanisms of heterosis under drought stress and re-watering, and provide potential targets for improving drought resistance in maize.

One Hundred Years of Progress and Pitfalls: Maximising Heterosis through Increasing Multi-Locus Nuclear Heterozygosity.

The improvement in quantitative traits (e.g., yield, size) in F1 offspring over parent lines is described as hybrid vigour, or heterosis. There exists a fascinating relationship between parental genetic distance and genome dosage (polyploidy), and heterosis effects. The contribution of nuclear heterozygosity to heterosis is not uniform across diploid and polyploid crops, even within same species, thus demonstrating that polyploid crops should be part of any discussion on the mechanisms of heterosis. This review examines the records of correlating heterosis with parental genetic distance and the influence of adding supplementary genomes in wide crosses. Increasing nuclear heterozygosity through parental genetic distance has been shown to be an imperfect predictor for heterosis in a variety of commercial crops such as maize, rice, and pepper. However, increasing the ploidy level raises the maximum number of alleles that can be harboured at any one locus, and studies on crops such as oilseed rape, potato, alfalfa, maize, and rice have demonstrated that heterosis may be maximised upon increasing multi-locus nuclear heterozygosity. The novel heterotic phenotypes observed above the diploid level will contribute to our understanding on the mechanisms of heterosis and aid plant breeders in achieving the righteous goal of producing more food with fewer inputs.

The formation of nicotine heterosis is mainly achieved by enhancing the nicotine transport capacity in hybrids.

Nicotine exhibits obvious heterosis, which can be used to create Nicotiana tabacum L. (tobacco) varieties with varying nicotine content. However, the reasons for the formation of nicotine heterosis and its relationship to nicotine transport and accumulation remain unknown. This study conducted a comprehensive analysis of six tobacco hybrids with varying heterosis levels and their parent materials from various aspects, such as phenotype, physiology, and transcriptomics. The results showed that the direct path coefficient of transport heterosis to nicotine heterosis was highest in hybrids, at 0.98, and a highly significant positive correlation between the two. The plant height, thick stalk circumference, large flow of tissue fluid in the stalk, and high nicotine concentration of tobacco were the underlying factors that led to the strong nicotine transport capacity of hybrids. The formation of nicotine transport heterosis in hybrids was mainly influenced by non-additive gene effects (accounting for 89.93%), with over-dominant effects playing a dominant role (accounting for 58.79%). Among non-additive expression DEGs, nicotine transporter related multi antimicrobial extrusion protein, drug/metabolite transporter, ABC family transporter, and glutathione S-transferase were significantly upregulated in hybrid strains. The RT-qPCR results indicated that these genes related nicotine transport also exhibited heterosis at the expression level. Our results revealed that the formation of nicotine heterosis is mainly achieved by enhancing the nicotine transport capacity in hybrids. The results are not only beneficial for promoting the theoretical study of nicotine heterosis in tobacco and the breeding and utilization of hybrids, but are also of great significance for guiding nicotine production and promoting its multipurpose utilization.

Hybrid Prediction in Horticulture Crop Breeding: Progress and Challenges.

In the context of rapidly increasing population and diversified market demands, the steady improvement of yield and quality in horticultural crops has become an urgent challenge that modern breeding efforts must tackle. Heterosis, a pivotal theoretical foundation for plant breeding, facilitates the creation of superior hybrids through crossbreeding and selection among a variety of parents. However, the vast number of potential hybrids presents a significant challenge for breeders in efficiently predicting and selecting the most promising candidates. The development and refinement of effective hybrid prediction methods have long been central to research in this field. This article systematically reviews the advancements in hybrid prediction for horticultural crops, including the roles of marker-assisted breeding and genomic prediction in phenotypic forecasting. It also underscores the limitations of some predictors, like genetic distance, which do not consistently offer reliable hybrid predictions. Looking ahead, it explores the integration of phenomics with genomic prediction technologies as a means to elevate prediction accuracy within actual breeding programs.

Exploitation of heterosis and combining ability potential for improvement in okra (Abelmoschus esculentus L.).

Okra (Abelmoschus esculentus L. Moench) is a vital vegetable crop known for its nutritional and economic significance, especially in tropical and subtropical regions. Studying heterosis and combining ability in okra is crucial for enhancing its yield, quality, and resistance to pests and diseases. Heterosis can lead to superior offspring with enhanced traits while understanding combining ability helps in identifying the best parent combinations for breeding programs. Okra is an often cross-pollinated crop; therefore, exploiting heterosis is advantageous. The study was conducted from 2021 to 2022 at the Experimental Farm and Quality Analysis Laboratory, Department of Vegetable Science, College of Horticulture, Dr Yashwant Singh Parmar University of Horticulture and Forestry, Nauni, Solan, Himachal Pradesh, India to evaluate the heterosis and combining ability in okra to facilitate the development of high-yielding, resilient cultivars. The experimental material consisted of an F1 population of 30 crosses obtained from 10 parental lines crossed with three testers in a Line × Tester mating design, plus a standard check (Punjab-8). Estimates of heterosis (heterobeltiosis and standard heterosis) of the cross combinations UHFO-6 × Pusa Bhindi-5, UHFO-6 × Arka Anamika and UHFO-9 × Arka Anamika were high for inter-nodal distance, number of pods per plant, average pod weight, pod yield per plant, harvest duration, hundred seed weight, mucilage content, etc. Higher estimates of general combining ability (GCA) effects for pod yield per plant were observed in the parental lines UHFO-6 (123.47) and UHFO-9 (7.49). Among the cross combinations, UHFO-10 × Hisar Unnat (38.81), UHFO-2 × Pusa Bhindi-5 (38.29), UHFO-2 × Arka Anamika (17.42), and UHFO-5 × Arka Anamika (15.06) demonstrated higher estimates of specific combining ability (SCA) effects for pod yield per plant. The cross UHFO-2 × Hisar Unnat (160.00) exhibited the highest heterobeltiosis for mucilage content, while UHFO-10 × Arka Anamika (562.03) showed the highest standard heterosis for total polyphenol content. These cross combinations could produce okra with enhanced nutritional and medicinal properties. The highest GCA and SCA effects for pod yield per plant were observed in UHFO-6 (123.47) and UHFO-10 × Hisar Unnat (38.81), respectively. Identifying these parental lines and cross combinations based on their combining ability can result in the development of okra hybrids with substantially higher yields. In future, after multi-location trials, these parents and crosses can be released to replace existing okra cultivars (hybrids/varieties). Higher yielding and better quality okra cultivars can enhance the profitability for farmers, contribute to food security, and meet market demands more efficiently.

Estimation of breed effects and non-additive genetic variation for ostrich slaughter and skin traits.

The study quantified breed effects and putative non-additive genetic variation for quantitative and qualitative slaughter and skin traits involving three ostrich breeds: South African Black (SAB), Zimbabwean Blue (ZB), and Kenyan Red (KR) ostriches. Such data from contemporary slaughter groups with all three pure breeds represented were analyzed together (SAB: n = 457; ZB: n = 74; KR: n = 50). Two 2 × 2 diallel crossbreeding designs were used to assess crosses of ZB and KR birds with the SAB strain. Subsequently, the data from SAB, ZB and their reciprocal crosses, slaughtered together; as well as the data from SAB and KR ostriches, along with their reciprocal crosses, respectively, were analyzed separately. ZB and KR birds outperformed SAB birds for most size-related slaughter and skin traits. Linear contrasts were used to distinguish the effects of breed, heterosis, and the dam line. For the ZB x SAB design, additive breed effects were significant for slaughter weight (10.4%), crust skin size (3.9%) and nodule shape score (1.6%) (all P < 0.05). Significant heterosis were found for slaughter weight (4.3%), crust skin size (1.7%) and nodule size score (3.7%) (P < 0.05). Dam line effects were observed for skin weight (4.1%) and hair follicle score (4.1%). In the KR x SAB design, additive breed effects were like outcomes for the ZB x SAB design. Heterosis estimates were significant (P < 0.05) for slaughter weight (5.8%), crust skin size (2.9%), crown length (1.7%) and nodule size score (4.4%). Dam line effects were significant for slaughter weight (3.7%) and nodule size score (3.8%). In conclusion, ZB and KR birds outperformed their SAB contemporaries for size and size-related traits. Crossbreeding with these genotypes could improve some size-related traits over the mid-parent value of purebreds.

DNA Methylation and Subgenome Dominance Reveal the Role of Lipid Metabolism in Jinhu Grouper Heterosis.

Heterosis of growth traits in economic fish has benefited the production of aquaculture for many years, yet its genetic and molecular basis has remained obscure. Nowadays, a new germplasm of hybrid Jinhu grouper (Epinephelus fuscoguttatus ♀ × E. tukula ♂), abbreviated as EFT, exhibiting paternal-biased growth heterosis, has provided an excellent model for investigating the potential regulatory mechanisms of heterosis. We integrated transcriptome and methylome to unravel the changes of gene expression, epigenetic modification, and subgenome dominance in EFT compared with maternal E. fuscoguttatus. Integration analyses showed that the heterotic hybrids showed lower genomic DNA methylation levels than the purebred parent, and the up-regulated genes were mostly DNA hypomethylation. Furthermore, allele-specific expression (ASE) detected paternal subgenome dominance-regulated paternal-biased heterosis, and paternal bias differentially expressed genes (DEGs) were wholly up-regulated in the muscle. Multi-omics results highlighted the role of lipid metabolism, particularly "Fatty acid synthesis", "EPA biosynthesis", and "Signaling lipids", in EFT heterosis formation. Coherently, our studies have proved that the eicosapentaenoic acid (EPA) of EFT was greater than that of maternal E. fuscoguttatus (8.46% vs. 7.46%). Finally, we constructed a potential regulatory network for control of the heterosis formation in EFT. Among them, fasn, pparg, dgat1, igf1, pomca, fgf8a, and fgfr4 were identified as key genes. Our results provide new and valuable clues for understanding paternal-biased growth heterosis in EFT, taking a significant step towards the molecular basis of heterosis.

Heterotic grouping of wheat hybrids based on general and specific combining ability from line × tester analysis.

The most important step in plant breeding is the correct selection of parents, and it would be wise to use heterotic groups for this. The purpose of this study is to analyse yield and its components as well as genetic diversity in line × tester wheat populations. It also seeks to present a coherent framework for the isolation of early superior families and the development of heterotic groups in bread wheat. F1 and F2 generations of 51 genotypes, including 36 combinations between 12 lines and three testers and 15 parents, were evaluated for yield and its components in a three-replication experiment according to the randomized block design. Line ×  tester analysis of variance, general and specific combining abilities, heterosis, heterobeltiosis and inbreeding depression were calculated. Heterotic groups created based on general and specific combining abilities were compared with each other. The results showed that there was sufficient genetic variation in the population and that further genetic calculations could be made. The selections made based on general and specific combining abilities, heterosis values and average performance of genotypes without heterotic grouping indicated different genotypes for each feature. The creation of heterotic groups made it possible to select genotypes that were superior in terms of all the criteria listed. It was concluded that heterotic groups created based on specific combining abilities may be more useful for breeding studies.

Pelage variation and morphometrics of closely related Callithrix marmoset species and their hybrids.

BACKGROUND: Hybrids are expected to show greater phenotypic variation than their parental species, yet how hybrid phenotype expression varies with genetic distances in closely-related parental species remains surprisingly understudied. Here, we investigate pelage and morphometric trait variation in anthropogenic hybrids between four species of Brazilian Callithrix marmosets, a relatively recent primate radiation. Marmoset species are distinguishable by pelage phenotype and morphological specializations for eating tree exudates. In this work, we (1) describe qualitative phenotypic pelage differences between parental species and hybrids; (2) test whether significant quantitative differences exist between parental and hybrid morphometric phenotypes; and (3) determine which hybrid morphometic traits show heterosis, dysgenesis, trangression, or intermediacy relative to the parental trait. We investigated cranial and post-cranial morphometric traits, as most hybrid morphological studies focus on the former instead of the latter. Finally, we estimate mitogenomic distances between marmoset species from previously published data. RESULTS: Marmoset hybrid facial and overall body pelage variation reflected novel combinations of coloration and patterns present in parental species. In morphometric traits, C. jacchus and C. penicillata were the most similar, while C. aurita was the most distinct, and C. geoffroyi trait measures fell between these species. Only three traits in C. jacchus x C. penicillata hybrids showed heterosis. We observed heterosis and dysgenesis in several traits of C. penicillata x C. geoffroyi hybrids. Transgressive segregation was observed in hybrids of C. aurita and the other species. These hybrids were also C. aurita-like for a number of traits, including body length. Genetic distance was closest between C. jacchus and C. penicillata and farthest between C. aurita and the other species. CONCLUSION: We attributed significant morphometric differences between marmoset species to variable levels of morphological specialization for exudivory in these species. Our results suggest that intermediate or parental species-like hybrid traits relative to the parental trait values are more likely in crosses between species with relatively lesser genetic distance. More extreme phenotypic variation is more likely in parental species with greater genetic distance, with transgressive traits appearing in hybrids of the most genetically distant parental species. We further suggest that fewer developmental disturbances can be expected in hybrids of more recently diverged parental species, and that future studies of hybrid phenotypic variation should investigate selective pressures on Callithrix cranial and post-cranial morphological traits.

Research note: differential heterosis of spent laying hens' carcass characteristics and meat quality in reciprocal crosses between White Leghorn and Beijing-You chickens.

Hybridization is used extensively in commercial layer production. However, heterosis for carcass performance and meat quality of spent laying hens remains unclear, especially under the trend of extended laying cycles. In this study, indigenous Beijing-You chickens (Y) and elite White Leghorn layers (W) were selected to generate purebreds (WW and YY) and reciprocal crosses (WY and YW). Data on traits including carcass compositions, meat quality, and main nutrients for breast muscle were collected when chickens were fed to 100 wk of age. Results showed that body weight (BW) and dressed weight for WY and YW with positive heterosis were significantly higher than WW (P < 0.05). YW had the heaviest breast and thigh of 232.28 g and 278.48 g, respectively. The abdominal fat weight for WY and YW were greatly higher than that for WW (P > 0.05). The yields of carcass compositions, including the dressed yield, half eviscerated yield, eviscerated yield, breast yield and thigh yield, did not differ among the four genetic groups (P > 0.05), except for the yield of abdominal fat. The largest heterosis differences appeared in breast weight (12.26% in YW vs. -0.46% in WY) and abdominal fat yield (15.26% in YW vs. 24.55% in WY). Although BW for crossbreds were similar, the specific parts of the carcass between them were different. For meat quality, WY had negative heterosis (P < 0.05) with the lowest lightness and yellowness, whereas YW had the completely opposite trend. Neither pH1h nor pH24h values had differences among purebreds and reciprocal crossbreds (P > 0.05). The drip loss and cooking loss were 4.01%-4.77% and 15.59%-21.31% respectively among the four genetic groups. The main nutrients of breast, including moisture, crude protein, intramuscular fat and unsaturated fatty acid, did not differ for purebreds and crossbreds (P > 0.05), except for saturated fatty acid. In general, the crossbreds even at the later laying period still showed divergent heterosis on carcass performance and meat characteristics. In view of the heterosis, Beijing-You chickens can be used as the sire line in the crossbreeding to improve carcass compositions of spent hens.

Transcriptome Analysis Revealed the Paternal Importance to Vegetative Growth Heterosis in Populus.

Parental selection is important for heterosis formation during crossbreeding of Populus. However, in poplar hybrids, the effect of parents on vegetative growth heterosis is not well understood. In this study, one female parent (P. simonii XY4) and two male parents (P. nigra OH and P. deltoides × P. nigra BJLY3#) were used to produce two progenies (Hyb1 and Hyb2). Vegetative growth investigation showed that both Hyb1 and Hyb2 performed heterosis in plant growth and ground diameter. The vegetative growth of hybrids was strongly correlated with the male parents but not with the female parents. The gene expression levels in the hybrids were more biased toward the male parents. In Hyb1 and Hyb2, 51.93% and 45.03% of the expressed genes showed the non-additive effect, respectively, and over 65% of the non-additively expressed genes showed the dominant effect. It is noteworthy that genes of paternal expression dominant effect (ELD_♂) account for the majority of dominantly expressed genes, suggesting the paternal contribution to heterosis. KEGG enrichment analysis indicated that a large number of non-additively expressed genes were enriched in the plant hormone signal transduction pathway. WGCNA analysis showed that MEcyan was significantly correlated with the traits of hybrids, and 12 plant hormone signal transduction pathway genes were enriched in this module. Transcription factors (TFs) MYB88, LHY, and TCP4 may be involved in the regulation of these pathway genes. This finding supported that the male parents play an important role in the formation of vegetative growth heterosis of Populus. In addition, the non-additively expressed genes of the signal transduction pathway and the regulation of TFs related to these pathway genes may be one of the reasons for the generation of heterosis.

Heterosis formation mechanism, prediction methods, and their application and prospect in pig production.

Heterosis is the phenomenon that the hybrid offspring outperform two-parent population. Hybridisation has been widely used in plant and animal production as it effectively improves the growth and developmental performance, reproductive performance and disease resistance of the offspring. Hybridization can effectively improve the growth and development performance, reproductive performance and disease resistance of offspring, so it is widely used in animal and plant production. Researchers have used cross-breeding techniques to cultivate excellent new agricultural and animal husbandry strains and supporting lines such as super-excellent Chaoyou 1000 hybrid rice, Xiaoyan No.6 hybrid wheat, Dumeng sheep, and Shanxia black pigs. However, there are still some urgent problems in the current hybrid dominance research: the existing hybrid dominance theory can only partially explain the phenomenon of plant and animal hybrid dominance, and the theory of animal hybrid dominance is less researched, and the accuracy of the existing hybrid dominance prediction methods is limited. China is the world's largest pork production and consumption country. Heterosis can effectively improve the production performance of pigs, and its application in the pig industry has important economic and research value. However, the existing research on pig hybrid production is in its infancy and needs to be further studied. In this review, we summarize the existing heterosis theory, heterosis prediction methods, and their application in pig production, to provide a reference for the application of heterosis in pig breeding.

Rewards and dangers of regulatory innovation.

Adaptive evolution often involves structural variation affecting genes or cis-regulatory changes that engender novel and favorable gain-of-function gene regulation. Such mutation could result in a favorable dominant trait. At the same time, the gene product could be dosage sensitive if its change in concentration disrupts another trait. As a result, the mutant allele would display dosage-sensitive pleiotropy (DSP). By minimizing imbalance while conserving the favorable dominant effect, heterozygosity can increase fitness and result in heterosis. The properties of these alleles are consistent with evidence from multiple studies that indicate increased fitness of heterozygous regulatory mutations. DSP can help explain mysterious properties of heterosis as well as other effects of hybridization.

Clonal gamete-mediated polyploid genome design for stacking genomes.

Hybrid vigor in plants confers better agronomically significant traits in offspring compared with either parent. Recently, Wang et al. reported a mitosis instead of meiosis (MiMe) system in tomato for clonal gamete production, showing the potential to exploit autopolyploid progressive heterosis by stacking genomes from four grandparents in tetraploid hybrids, developed from crossing MiMe hybrids.

Beyond plant genetics: microbiome-enhancing heterosis in plants.

Plant heterosis has been recognized as being primarily dependent on the genetics of contrasting parents. However, in recent work, Liu et al. describe 'endophytic microbiome-induced heterosis', showing distinct and diverse seed microbiomes in hybrids, which boosted seed germination compared with their parents. Here, we discuss the possible impact of this finding for sustainable agriculture.