Transcriptomics and metabolomics reveal improved performance of Hu sheep on hybridization with Southdown sheep

Kong, Ling-Ying; Yuan, Yongna; Li, Jianye; Yang, Bo‐Yi; Chen, Bowen; Liu, Jianbin; Lu, Zengkui

doi:10.1016/j.foodres.2023.113240

Cited by 4 publications

(8 citation statements)

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“…Our study found an overall significant positive correlation between weight and body size indicators, with the largest correlation coefficient being found between weight and chest circumference. The results of the present study are similar to those of previous studies, further confirming the developmental advantages of crossbred lambs [13][14][15]. The results of Wang et al [9] proved that host genetics explained 39% of the total phenotypic variation, and the rumen microbial community had a 20% effect on sheep body weight, taking into account host genetics.…”

Section: Functional Prediction Of Rumen Microbial In H Cah and Cdhsupporting

confidence: 91%

“…In production practice, researchers crossbreed introduced breeds with local breeds to enhance the productivity and meat quality of the offspring, or use this as a foundation for breeding new varieties [13][14][15]. In addition, when considering host genetics, the rumen microbial community can account for up to 20% of the effect on bodyweight in sheep [9].…”

Section: Introductionmentioning

confidence: 99%

“…Therefore, the Hu sheep is usually used as the mother parent to improve growth performance through cross improvement, breeding new strains and new varieties [36,37]. Through crossbreeding different sheep combinations, it was found that the progeny resulting from crossing exotic breeds with local sheep exhibited good production performance [13][14][15]. Our previous study found that 3-way crossbreeding significantly improved meat quality of lambs, such as increasing crude protein, essential amino acids, and non-essential amino acid content [38].…”

Section: Introductionmentioning

confidence: 99%

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Relationship between Rumen Microbial Differences and Phenotype Traits among Hu Sheep and Crossbred Offspring Sheep

Wang,

Zhan,

Jia

et al. 2024

Animals

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This experiment was conducted to investigate the effect of three−way hybrid sheep and Hu sheep on serum indicators, rumen fermentation, rumen enzyme activity, and microorganisms in sheep. Healthy and similar birth weights from three groups (Hu, n = 11; Charolais × Australian White × Hu, CAH, n = 11; Charolais × Dorper × Hu, CDH, n = 11) were selected to be fed by the ewes until 45 days of age. Subsequently, they were weaned intensively and underwent short−term fattening for 3 months along with selected male lambs fed intensively. During this period, they were fed and watered ad libitum. Blood and rumen fluid were collected and analyzed for serum indicators and rumen fluid microorganisms, enzyme activity, and VFA, respectively, at the end of the fattening period. Compared with Hu lamb, the offspring of the three−way hybrid lamb showed significant improvements in body weight, serum lactate dehydrogenase, and creatinine content. However, there was no significant effect on serum immunity and antioxidant indices. In addition, the rumen fluid volatile fatty acid (VFA) molar concentration and microcrystalline cellulose and lipase content were significantly lower in the three−way hybrid lamb compared to Hu lamb, but β−glucosidase, amylase, pepsin, and VFA molar ratio were not significantly affected. Subsequently, 16S rRNA sequencing diversity analysis revealed that three−way hybrid lamb significantly increased rumen microbial ACE and Chao1 indices compared to Hu lamb. Meanwhile, the abundance of Verrucomicrobiota and Synergistota significantly increased at the phylum level. Correlation analysis showed that Prevotella had the highest proportion, while Rikenellaceae_RC9_gut_group correlated most closely with others genus. The microbial communities isovaleric acid molar concentration and proportion were strongly correlated. In addition, there were significant differences in correlations between microbial communities and isobutyric acid, butyric acid and valeric acid content, and their molar proportion, but they were not significantly correlated with digestive enzymes. From the functional enrichment analysis, it was found that hybrid progeny were mainly enriched in the pyruvate metabolism, microbial metabolism in diverse environments, carbon metabolism, and quorum sensing pathways. In contrast, the Hu sheep were primarily enriched in the cysteine and methionine, amino sugar and nucleotide sugar, and biosynthesis of secondary metabolite pathways. These results suggest that hybridization can play a role in regulating organismal metabolism and improve animal production performance by influencing the structure and characteristics of microbial communities.

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Section: Functional Prediction Of Rumen Microbial In H Cah and Cdhsupporting

confidence: 91%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Relationship between Rumen Microbial Differences and Phenotype Traits among Hu Sheep and Crossbred Offspring Sheep

Wang,

Zhan,

Jia

et al. 2024

Animals

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“…Jia et al applied also applied this method to reveal the metabolite dynamic changes during irradiation of goat meat [13]. Kong et al combined transcriptomics and metabolomics to reveal improved performance of Hu sheep on hybridization with Southdown sheep [14]. Exploring the dynamics of muscle molecule metabolic markers among goat populations with different growth rates will be helpful to dissection the molecular mechanism of "gene-protein-metabolism-phenotype" related to complex traits such as meat production.…”

Section: Introductionmentioning

confidence: 99%

Transcriptomic and metabolomic dissection of skeletal muscle of crossbred Chongming white goats with different meat production performance

Lin,

Sun,

et al. 2024

BMC Genomics

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Background The transcriptome and metabolome dissection of the skeletal muscle of high- and low- growing individuals from a crossbred population of the indigenous Chongming white goat and the Boer goat were performed to discover the potential functional differentially expressed genes (DEGs) and differential expression metabolites (DEMs). Results A total of 2812 DEGs were detected in 6 groups at three time stages (3,6,12 Month) in skeletal muscle using the RNA-seq method. A DEGs set containing seven muscle function related genes (TNNT1, TNNC1, TNNI1, MYBPC2, MYL2, MHY7, and CSRP3) was discovered, and their expression tended to increase as goat muscle development progressed. Seven DEGs (TNNT1, FABP3, TPM3, DES, PPP1R27, RCAN1, LMOD2) in the skeletal muscle of goats in the fast-growing and slow-growing groups was verified their expression difference by reverse transcription-quantitative polymerase chain reaction. Further, through the Liquid chromatography-mass spectrometry (LC-MS) approach, a total of 183 DEMs in various groups of the muscle samples and these DEMs such as Queuine and Keto-PGF1α, which demonstrated different abundance between the goat fast-growing group and slow-growing group. Through weighted correlation network analysis (WGCNA), the study correlated the DEGs with the DEMs and identified 4 DEGs modules associated with 18 metabolites. Conclusion This study benefits to dissection candidate genes and regulatory networks related to goat meat production performance, and the joint analysis of transcriptomic and metabolomic data provided insights into the study of goat muscle development.

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“…Gene expression can be viewed as an intermediate phenotype that connects the genotype and specific traits [15]. Transcriptomic studies on crossbreeding have been reported in various species, including maize [16], rice [17], Arabidopsis [18], pufferfish [19], silkworms [20], pigs [21], and sheep [22], indicating that different factors such as species, hybrid combinations, and gender can influence the gene expression patterns between the parents and offspring. In chickens, additivity was identified as the predominant gene expression pattern in F1 chicken (Fayoumi × Leghorn) embryonic brain and liver by RNA-seq analysis [23].…”

Section: Introductionmentioning

confidence: 99%

Strand-Specific RNA Sequencing Reveals Gene Expression Patterns in F1 Chick Breast Muscle and Liver after Hatching

Zhao,

Chen,

Luo

et al. 2024

Animals

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Heterosis refers to the phenomenon where hybrids exhibit superior performance compared to the parental phenotypes and has been widely utilized in crossbreeding programs for animals and crops, yet the molecular mechanisms underlying this phenomenon remain enigmatic. A better understanding of the gene expression patterns in post-hatch chickens is very important for exploring the genetic basis underlying economically important traits in the crossbreeding of chickens. In this study, breast muscle and liver tissues (n = 36) from full-sib F1 birds and their parental pure lines were selected to identify gene expression patterns and differentially expressed genes (DEGs) at 28 days of age by strand-specific RNA sequencing (ssRNA-seq). This study indicates that additivity is the predominant gene expression pattern in the F1 chicken post-hatch breast muscle (80.6% genes with additivity) and liver (94.2% genes with additivity). In breast muscle, Gene Ontology (GO) enrichment analysis revealed that a total of 11 biological process (BP) terms closely associated with growth and development were annotated in the identified DEG sets and non-additive gene sets, including STAT5A, TGFB2, FGF1, IGF2, DMA, FGF16, FGF12, STAC3, GSK3A, and GRB2. Kyoto Encyclopedia of Genes and Genomes (KEGG) annotation presented that a total of six growth- and development-related pathways were identified, involving key genes such as SLC27A4, GLUL, TGFB2, COX17, and GSK3A, including the PPAR signaling pathway, TGF-beta signaling pathway, and mTOR signaling pathway. Our results may provide a theoretical basis for crossbreeding in domestic animals.

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Transcriptomics and metabolomics reveal improved performance of Hu sheep on hybridization with Southdown sheep

Cited by 4 publications

References 84 publications

Relationship between Rumen Microbial Differences and Phenotype Traits among Hu Sheep and Crossbred Offspring Sheep

Relationship between Rumen Microbial Differences and Phenotype Traits among Hu Sheep and Crossbred Offspring Sheep

Transcriptomic and metabolomic dissection of skeletal muscle of crossbred Chongming white goats with different meat production performance

Strand-Specific RNA Sequencing Reveals Gene Expression Patterns in F1 Chick Breast Muscle and Liver after Hatching

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