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猪三维点云体尺自动计算模型Pig Back Transformer
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作者 王宇啸 石源源 +4 位作者 陈招达 吴珍芳 蔡更元 张素敏 尹令 《智慧农业(中英文)》 CSCD 2024年第4期76-90,共15页
[目的/意义]为了提高体尺关键点定位准确率,猪三维点云体尺自动测量方法会采用点云分割,在各个分割后局部点云定位测量关键点,以减少点云之间相互干扰。然而点云分割网络通常需要消耗较大计算资源,且现有测量点定位效果仍有待提升空间... [目的/意义]为了提高体尺关键点定位准确率,猪三维点云体尺自动测量方法会采用点云分割,在各个分割后局部点云定位测量关键点,以减少点云之间相互干扰。然而点云分割网络通常需要消耗较大计算资源,且现有测量点定位效果仍有待提升空间。本研究旨在通过设计关键点生成网络从猪体点云中提取出各体尺测量所需关键点。在降低显存资源需求的同时提高测量关键点定位效果,提高体尺测量的效率和精度。[方法]针对猪三维表面点云进行体尺测量,提出了一种定位猪体尺关键点的模型Pig Back Transformer。模型分为两个模块,分别设计了两种改进的Transformer自注意力编码器,第一模块为全局关键点模块,首先设计了一种猪背部边缘点提取算法用于获取边缘点,再使用edge encoder编码器以边缘点集合作为输入,edge encoder的edge attention中加入了边缘点和质点的偏移距离信息;第二模块为关键点生成模块,使用了back attention机制的back encoder,其中加入了与质心和第一模块生成的全局关键点的偏移量,并将偏移量与点云注意力通过按位max pooling操作结合,最后通过生成猪的体尺测量关键点和背脊走向点。最后设计了使用关键点和背脊走向点作为输入的体尺算法。[结果和讨论]对比关键点和背脊走向点生成任务上Pig Back Transformer表现最佳,并对比体尺计算结果与人工测量结果,体长相对误差为0.63%,相对PointNet++、Point Transformer V2、Point Cloud Transforme、OctFormer PointTr等模型有较大提升。[结论] Pig Back Transformer能相对准确地生成猪体尺关键点,提高体尺测量数据准确度,并且通过点云特征定位体尺关键点节省了计算资源,为无接触牲畜体尺测量提供了新思路。 展开更多
关键词 Pig Back Transformer 三维点云 体尺自动测量 测量关键点定位 深度相机 自注意力机制
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Pig H3K4me3,H3K27ac,and gene expression profiles reveal reproductive tissue-specific activity of transposable elements
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作者 Tao Jiang Zhi-Min Zhou +6 位作者 Zi-Qi Ling Qing Zhang Zhong-Zi Wu Jia-Wen Yang Si-Yu Yang Bin Yang Lu-Sheng Huang 《Zoological Research》 SCIE CSCD 2024年第1期138-151,共14页
Regulatory sequences and transposable elements(TEs)account for a large proportion of the genomic sequences of species;however,their roles in gene transcription,especially tissue-specific expression,remain largely unkn... Regulatory sequences and transposable elements(TEs)account for a large proportion of the genomic sequences of species;however,their roles in gene transcription,especially tissue-specific expression,remain largely unknown.Pigs serve as an excellent animal model for studying genomic sequence biology due to the extensive diversity among their wild and domesticated populations.Here,we conducted an integrated analysis using H3K27ac ChIP-seq,H3K4me3 ChIP-seq,and RNA-seq data from 10 different tissues of seven fetuses and eight closely related adult pigs.We aimed to annotate the regulatory elements and TEs to elucidate their associations with histone modifications and mRNA expression across different tissues and developmental stages.Based on correlation analysis between mRNA expression and H3K27ac and H3K4me3 peak activity,results indicated that H3K27ac exhibited stronger associations with gene expression than H3K4me3.Furthermore,1.45%of TEs overlapped with either the H3K27ac or H3K4me3 peaks,with the majority displaying tissue-specific activity.Notably,a TE subfamily(LTR4C_SS),containing binding motifs for SIX1 and SIX4,showed specific enrichment in the H3K27ac peaks of the adult and fetal ovaries.RNA-seq analysis also revealed widespread expression of TEs in the exons or promoters of genes,including 4688 TE-containing transcripts with distinct development stage-specific and tissue-specific expression.Of note,1967 TE-containing transcripts were enriched in the testes.We identified a long terminal repeat(LTR),MLT1F1,acting as a testis-specific alternative promoter in SRPK2(a cell cycle-related protein kinase)in our pig dataset.This element was also conserved in humans and mice,suggesting either an ancient integration of TEs in genes specifically expressed in the testes or parallel evolutionary patterns.Collectively,our findings demonstrate that TEs are deeply embedded in the genome and exhibit important tissue-specific biological functions,particularly in the reproductive organs. 展开更多
关键词 Transposable elements PORCINE Histone modification Alternative promoter TE-containing transcript
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Preliminary Measurement of Internal Organs of Congjiang Fragrance Pig and Huanjiang Fragrance Pig
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作者 Shen Xuelin Duan Yongbang +1 位作者 Zhang Yi Liu Peiqiong 《Animal Husbandry and Feed Science》 CAS 2014年第4期209-211,共3页
Fragrance pig is a famous miniature local breed in China,which is similar to human on the aspects of physical structure,anatomy,nutrition,metabolism and blood biochemical indicators. The internal organs of Congjiang f... Fragrance pig is a famous miniature local breed in China,which is similar to human on the aspects of physical structure,anatomy,nutrition,metabolism and blood biochemical indicators. The internal organs of Congjiang fragrance pig and Huanjiang fragrance pig with different month ages were weighed. The results showed that the proportion of stomach in body weight in Congjiang fragrance pig was higher than that in Min pig,Harbin white and Landrace,and the proportion of large intestine in body weight in Congjiang fragrance pig was also higher than that in ordinary pigs; the weights of heart,liver and kidney in 8- 10 months old Congjiang fragrance pig were similar to that in Chinese adults. This provided reference data for future in-depth development and utilization of fragrance pig. 展开更多
关键词 Congjiang fragrance pig Huanjiang fragrance pig Internal organs Weight measurement
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Epigenomic revolution in autoimmune diseases
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作者 Christelle Le Dantec Wesley H Brooks Yves Renaudineau 《World Journal of Immunology》 2015年第2期62-67,共6页
Autoimmunity is believed to develop when genetically predisposed individuals undergo epigenetic modifcations in response to environmental factors. Recent advances in the understanding of epigenetic mechanisms suggest,... Autoimmunity is believed to develop when genetically predisposed individuals undergo epigenetic modifcations in response to environmental factors. Recent advances in the understanding of epigenetic mechanisms suggest, in autoimmune diseases, a multi-step process involving environmental factors (e.g. , drugs, stress) and endogenous factors (e.g. , cytokines, gender), both leading to the deregulation of the epigenetic machinery (DNA methylation, histone modifications, miRNA), that in turn specifically affects the immune system and/or the target organ(s). Such effect is reinforced in those patients with risk variants mapping to epigenetically-controlled regulators of immune cells. As a consequence, autoreactive lymphocytes and autoantibodies are produced leading to the development of the autoimmune disease. Potential new therapeutic strategies and biomarkers are also addressed. 展开更多
关键词 AUTOIMMUNITY EPIGENETICS Epigenetic drugs DNA methylation IMMUNOLOGY
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Coordinated transcriptional and post-transcriptional epigenetic regulation during skeletal muscle development and growth in pigs
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作者 Du Zhang Shumei Wu +3 位作者 Xinxin Zhang Shuqiang Ren Zhonglin Tang Fei Gao 《Journal of Animal Science and Biotechnology》 SCIE CAS CSCD 2023年第2期564-577,共14页
Background:N6-methyladenosine(m^(6)A)and DNA 5-methylcytosine(5mC)methylation plays crucial roles in diverse biological processes,including skeletal muscle development and growth.Recent studies unveiled a potential li... Background:N6-methyladenosine(m^(6)A)and DNA 5-methylcytosine(5mC)methylation plays crucial roles in diverse biological processes,including skeletal muscle development and growth.Recent studies unveiled a potential link between these two systems,implicating the potential mechanism of coordinated transcriptional and post-transcrip-tional regulation in porcine prenatal myogenesis and postnatal skeletal muscle growth.Methods:Immunofluorescence and co-IP assays were carried out between the 5mC writers and m^(6)A writers to investigate the molecular basis underneath.Large-scale in-house transcriptomic data were compiled for applying weighted correlation network analysis(WGCNA)to identify the co-expression patterns of m^(6)A and 5mC regulators and their potential role in pig myogenesis.Whole-genome bisulfite sequencing(WGBS)and methylated RNA immu-noprecipitation sequencing(MeRIP-seq)were performed on the skeletal muscle samples from Landrace pigs at four postnatal growth stages(days 30,60,120 and 180).Results:Significantly correlated expression between 5mC writers and m^(6)A writers and co-occurrence of 5mC and m^(6)A modification were revealed from public datasets of C2C12 myoblasts.The protein-protein interactions between the DNA methylase and the m^(6)A methylase were observed in mouse myoblast cells.Further,by analyzing tran-scriptome data comprising 81 pig skeletal muscle samples across 27 developmental stages,we identified a 5mC/m^(6)A epigenetic module eigengene and decoded its potential functions in pre-or post-transcriptional regulation in postnatal skeletal muscle development and growth of pigs.Following integrative multi-omics analyses on the WGBS methylome data and MeRIP-seq data for both m^(6)A and gene expression profiles revealed a genome/transcriptome-wide correlated dynamics and co-occurrence of 5mC and m^(6)A modifications as a consequence of 5mC/m^(6)A crosstalk in the postnatal myogenesis progress of pigs.Last,we identified a group of myogenesis-related genes collaboratively regulated by both 5mC and m^(6)A modifications in postnatal skeletal muscle growth in pigs.Conclusions:Our study discloses a potential epigenetic mechanism in skeletal muscle development and provides a novel direction for animal breeding and drug development of related human muscle-related diseases. 展开更多
关键词 DNA methylation Epigenetic modification Epigenomic analysis 5mC regulators m^(6)A methylation m^(6)A regulators MYOGENESIS
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The liver transcriptome of two full-sibling Songliao black pigs with extreme differences in backfat thickness 被引量:3
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作者 Kai Xing Feng Zhu +4 位作者 Liwei Zhai Huijie Liu Zhijun Wang Zhuocheng Hou Chuduan Wang 《Journal of Animal Science and Biotechnology》 SCIE CAS CSCD 2015年第1期13-21,共9页
Background: Fatness traits in animals are important for their growth, meat quality, reproductive performance, and immunity. The liver is the principal organ of the regulation of lipid metabolism, and this study used ... Background: Fatness traits in animals are important for their growth, meat quality, reproductive performance, and immunity. The liver is the principal organ of the regulation of lipid metabolism, and this study used massive parallelized high-throughput sequencing technologies to determine the porcine liver tissue transcriptome architecture of two full-sibling Songliao black pigs harboring extremely different phenotypes of backfat thickness. Results: The total number of reads produced for each sample was in the region of 53 million, and 8,226 novel transcripts were detected. Approximately 92 genes were differentially regulated in the liver tissue, while 31 spliced transcripts and 33 primary transcripts showed significantly differential expression between pigs with higher and lower backfat thickness. Genes that were differentially expressed were involved in the metabolism of various substances, smal molecule biochemistry, and molecular transport. Conclusions: Genes involved in the regulation of iipids could play an important role in lipid and fatty acid metabolism in the liver. These results could help us understand how liver metabolism affects the backfat thickness of pigs. 展开更多
关键词 Backfat thickness LIVER PIG RNA-SEQ
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Short-chain fatty acids can improve lipid and glucose metabolism independently of the pig gut microbiota 被引量:10
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作者 Hua Zhou Bing Yu +4 位作者 Jing Sun Zuohua Liu Hong Chen Liangpeng Ge Daiwen Chen 《Journal of Animal Science and Biotechnology》 SCIE CAS CSCD 2021年第4期1414-1427,共14页
Background:Previous studies have shown that exogenous short-chain fatty acids(SCFAs)introduction attenuated the body fat deposition in conventional mice and pigs.However,limited studies have evaluated the effects of e... Background:Previous studies have shown that exogenous short-chain fatty acids(SCFAs)introduction attenuated the body fat deposition in conventional mice and pigs.However,limited studies have evaluated the effects of exogenously introduced SCFAs on the lipid and glucose metabolism independently of the gut microbiota.This study was to investigate the effects of exogenous introduction of SCFAs on the lipid and glucose metabolism in a germ-free(GF)pig model.Methods:Twelve hysterectomy-derived newborn pigs were reared in six sterile isolators.All pigs were hand-fed with sterile milk powder for 21 d,then the sterile feed was introduced to pigs for another 21 d.In the second 21-d period,six pigs were orally administrated with 25 mL/kg sterile saline per day and considered as the GF group,while the other six pigs were orally administrated with 25 mL/kg SCFAs mixture(acetic,propionic,and butyric acids,45,15,and 11 mmol/L,respectively)per day and regarded as FA group.Results:Orally administrated with SCFAs tended to increase the adiponectin concentration in serum,enhance the CPT-1 activity in longissimus dorsi,and upregulate the ANGPTL4 mRNA expression level in colon(P<0.10).Meanwhile,the mRNA abundances of ACC,FAS,and SREBP-1C in liver and CD36 in longissimus dorsi of the FA group were decreased(P<0.05)compared with those in the GF group.Besides,the mRNA expression of PGC-1αin liver and LPL in longissimus dorsi tended to(P<0.10)upregulate and downregulate respectively in the FA group.Moreover,oral administration of SCFAs tended to increase the protein level of GPR43(P<0.10)and decrease the protein level of ACC(P<0.10)in liver.Also,oral administration of SCFAs upregulated the p-AMPK/AMPK ratio and the mRNA expressions of GLUT-2 and GYS2 in liver(P<0.05).In addition,the metabolic pathway associated with the biosynthesis of unsaturated fatty acids was most significantly promoted(P<0.05)by oral administration of SCFAs.Conclusions:Exogenous introduction of SCFAs might attenuate the fat deposition and to some extent improve the glucose control in the pig model,which occurred independently of the gut microbiota. 展开更多
关键词 GERM-FREE Glucose metabolism Lipid metabolism Pig model Short-chain fatty acids
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Lactobacillus frumenti mediates energy production via fatty acid β-oxidation in the liver of early-weaned piglets 被引量:1
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作者 Zhichang Wang Jun Hu +4 位作者 Wenyong Zheng Tao Yang Xinkai Wang Chunlin Xie Xianghua Yan 《Journal of Animal Science and Biotechnology》 SCIE CAS CSCD 2020年第1期268-279,共12页
Background:Early-weaning of piglets is often accompanied by severe disorders,especially diarrhea.The gut microbiota and its metabolites play a critical role in the maintenance of the physiologic and metabolic homeosta... Background:Early-weaning of piglets is often accompanied by severe disorders,especially diarrhea.The gut microbiota and its metabolites play a critical role in the maintenance of the physiologic and metabolic homeostasis of the host.Our previous studies have demonstrated that oral administration of Lactobacillus frumenti improves epithelial barrier functions and confers diarrhea resistance in early-weaned piglets.However,the metabolic response to L.frumenti administration remains unclear.Then,we conducted simultaneous serum and hepatic metabolomic analyses in early-weaned piglets administered by L.frumenti or phosphatebuffered saline(PBS).Results:A total of 1006-day-old crossbred piglets(Landrace×Yorkshire)were randomly divided into two groups and piglets received PBS(sterile,2 m L)or L.frumenti(suspension in PBS,10~8 CFU/m L,2 m L)by oral administration once per day from 6 to 20 days of age.Piglets were weaned at 21 days of age.Serum and liver samples for metabolomic analyses were collected at 26 days of age.Principal components analysis(PCA)showed that L.frumenti altered metabolism in serum and liver.Numerous correlations(P<0.05)were identified among the serum and liver metabolites that were affected by L.frumenti.Concentrations of guanosine monophosphate(GMP),inosine monophosphate(IMP),and uric acid were higher in serum of L.frumenti administration piglets.Pathway analysis indicated that L.frumenti regulated fatty acid and amino acid metabolism in serum and liver.Concentrations of fatty acidβ-oxidation related metabolites in serum(such as3-hydroxybutyrylcarnitine,C4-OH)and liver(such as acetylcarnitine)were increased after L.frumenti administration.Conclusions:Our findings suggest that L.frumenti regulates lipid metabolism and amino acid metabolism in the liver of early-weaned piglets,where it promotes fatty acidβ-oxidation and energy production.High serum concentrations of nucleotide intermediates,which may be an alternative strategy to reduce the incidence of diarrhea in early-weaned piglets,were further detected.These findings broaden our understanding of the relationships between the gut microbiota and nutrient metabolism in the early-weaned piglets. 展开更多
关键词 Early-weaned PIGLETS Fatty acidβ-oxidation Gut MICROBIOTA LACTOBACILLUS frumenti METABOLOMIC analysis
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Effects of different amino acid levels and a carvacrol-thymol blend on growth performance and intestinal health of weaned pigs 被引量:3
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作者 Yanan Wang Zhipeng Yang +6 位作者 Yuanfei Zhou Jiajian Tan Haiqing Sun Defa Sun Yuyun Mu Jian Peng Hongkui Wei 《Journal of Animal Science and Biotechnology》 SCIE CAS CSCD 2022年第5期1428-1439,共12页
Background:Over the past years,antibiotic growth promoter had been restricted in animal husbandry production in many countries because of antimicrobial resistance and foodborne antibiotic residues.However,the problems... Background:Over the past years,antibiotic growth promoter had been restricted in animal husbandry production in many countries because of antimicrobial resistance and foodborne antibiotic residues.However,the problems of poor intestinal health and low growth efficiency of piglets have not been solved completely in an antibiotic-free diet,and it is urgent to explore alternatives to antimicrobial growth promoters.Methods:Here,a total of 532 weaned pigs were assigned to one of 4 treatments,the low amino acid(AA)level diet(d 1 to d 14 is 1.35%,d 15 to d 42 is 1.25%)(Low AA),the low AA level diet supplementation with a carvacrol-thymol blend(50 mg carvacrol and 50 mg thymol/kg of diet)(CB)(Low AA+CB),the high AA level diet(d 1 to d 14 is 1.50%,d 15 to d 42 is 1.40%)(High AA),and the high AA level diet supplementation with a CB(High AA+CB),respectively.Then we measured growth performance and intestinal health indicators of weaned pigs.Results:Results showed that high AA level significantly reduced plasma urea nitrogen,plasma Interleukin-6(IL-6)and fecal lipocalin-2 contents(P<0.05),significantly increased the relative abundance of fecal Lactobacillus and Enterococcus,and had a trend to increase the fecal secretory immunoglobulin A(sIgA)and mucin 2(MUC 2)contents(P<0.05)in piglets,thereby alleviating the diarrhea of piglets and reducing the feed conversion ratio(FCR)of piglets during d 1~14 after weaning.Dietary supplementation with CB significantly increased the activity of plasma antioxidant enzymes T-SOD and GSH-px(P<0.05),while significantly reduced plasma malondialdehyde(MDA),plasma interleukin-1β(IL-1β),plasma endotoxin and D-lactic acid contents(P<0.05).Meanwhile,CB significantly decreased fecal lipocalin-2 contents and the abundance of fecal Escherichia coli(P<0.05).Thus,we hypothesis that dietary supplementation with CB significantly increased the average daily gain(ADG)of piglets(P<0.05)during d 1~14 after weaning through promoting intestinal health.Conclusion:These results suggest that high AA level and dietary supplementation with CB improved the growth performance of weaned pigs in an antibiotic-free diet by improving AA metabolism and intestinal antioxidant capacity. 展开更多
关键词 Amino acids Antioxidant capacity Carvacrol and thymol Intestinal health Plant extracts Weaned pigs
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BMPR-IB gene disruption causes severe limb deformities in pigs 被引量:1
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作者 Qiang Yang Chuan-Min Qiao +5 位作者 Wei-Wei Liu Hao-Yun Jiang Qi-Qi Jing Ya-Ya Liao Jun Ren Yu-Yun Xing 《Zoological Research》 SCIE CAS CSCD 2022年第3期391-403,共13页
In an attempt to generate g.A746G substitution in the BMPR-IB gene,we unexpectedly obtained BMPR-IB homozygous knockout piglets(BMPR-IB^(-/-))and heterogeneous knockout piglets with one copy of the A746G mutation(BMPR... In an attempt to generate g.A746G substitution in the BMPR-IB gene,we unexpectedly obtained BMPR-IB homozygous knockout piglets(BMPR-IB^(-/-))and heterogeneous knockout piglets with one copy of the A746G mutation(BMPR-IB-/746G)via CRISPR/Cas9 editing.Polymerase chain reaction(PCR)and sequencing revealed complex genomic rearrangements in the target region.All BMPR-IBdisrupted piglets showed an inability to stand and walk normally.Both BMPR-IB^(-/-)and BMPR-IB-/746G piglets exhibited severe skeletal dysplasia characterized by distorted and truncated forearms(ulna,radius)and disordered carpal,metacarpal,and phalangeal bones in the forelimbs.The piglets displayed more severe deformities in the hindlimbs by visual inspection,including fibular hemimelia,enlarged tarsal bone,and disordered toe joint bones.Limb deformities were more profound in BMPR-IB^(-/-)piglets than in the BMPR-IB-/746G piglets.Proteomic analysis identified 139 differentially expressed proteins(DEPs)in the hindlimb fibula of BMPR-IB-/746G piglets compared to the wild-type(WT)controls.Most DEPs are involved in skeletal or embryonic development and/or the TGF-βpathway and tumor progression.Gene Ontology(GO)and protein domain enrichment analysis suggested alterations in these processes.Of the top 50 DEPs,a large proportion,e.g.,C1QA,MYO1H,SRSF1,P3H1,GJA1,TCOF1,RBM10,SPP2,MMP13,and PHAX,were significantly associated with skeletal development.Our study provides novel findings on the role of BMPR-IB in mammalian limb development. 展开更多
关键词 BMPR-IB A746G PIGS Limb deformities
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Study on Multi-variables Decoupled Fuzzy Controller for Confined Pig House in Northern China 被引量:1
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作者 Shen Wei-zheng Zhang Si-yuan +4 位作者 Yin Yan-ling Zhang Yu Wang Run-tao Yu Hai-jiao Nagi Eltieb 《Journal of Northeast Agricultural University(English Edition)》 CAS 2019年第1期73-85,共13页
In winter, the confined pig house of northern China is severe. The environment variables are nonlinear, time-varying and coupled, which seriously affect the health of pigs and the qualities of the meat. In order to so... In winter, the confined pig house of northern China is severe. The environment variables are nonlinear, time-varying and coupled, which seriously affect the health of pigs and the qualities of the meat. In order to solve the problem multi-variables coupling, a multi-variables decoupled fuzzy logic control method was proposed. Two fuzzy logic controllers were designed based on fuzzy logic theory. The fans, heaters and humidifiers were used to control temperature, humidity and ammonia. The reductions of temperature and humidity caused by ventilating were compensated by heaters and humidifiers respectively which realized the multivariables decoupling. The proposed methods were validated through theoretical, experimental and simulation analysis. The results suggested that the methods were able to regulate the confined pig house environment effectively. In addition, comparing to the manual regulation, the proposed methods could reduce 19% power consumption as well. 展开更多
关键词 PIG house environment fuzzy CONTROL variable DECOUPLING environmental CONTROL
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Transcriptomic analysis elucidates the enhanced skeletal muscle mass, reduced fat accumulation, and metabolically benign liver in human follistatin-344 transgenic pigs 被引量:3
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作者 LONG Ke-ren LI Xiao-kai +13 位作者 ZHANG Ruo-wei GU Yi-ren DU Min-jie XING Xiang-yang DU Jia-xiang MAI Miao-miao WANG Jing JIN Long TANG Qian-zi HU Si-lu MA Ji-deng WANG Xun PAN Deng-ke LI Ming-zhou 《Journal of Integrative Agriculture》 SCIE CAS CSCD 2022年第9期2675-2690,共16页
Follistatin(FST) is an important regulator of skeletal muscle growth and adipose deposition through its ability to bind to several members of the transforming growth factor-β(TGF-β) superfamily, and thus may be a go... Follistatin(FST) is an important regulator of skeletal muscle growth and adipose deposition through its ability to bind to several members of the transforming growth factor-β(TGF-β) superfamily, and thus may be a good candidate for future animal breeding programs. However, the molecular mechanisms underlying the phenotypic changes have yet to be clarified in pig. We generated transgenic(TG) pigs that express human FST specifically in skeletal muscle tissues and characterized the phenotypic changes compared with the same tissues in wild-type pigs. The TG pigs showed increased skeletal muscle growth, decreased adipose deposition, and improved metabolism status(P<0.05). Transcriptome analysis detected important roles of the PIK3–AKT signaling pathway, calcium-mediated signaling pathway, and amino acid metabolism pathway in FST-induced skeletal muscle hypertrophy, and depot-specific oxidative metabolism changes in psoas major muscle. Furthermore, the lipid metabolism-related process was changed in adipose tissue in the TG pigs. Gene set enrichment analysis revealed that genes related to lipid synthesis, lipid catabolism, and lipid storage were down-regulated(P<0.01) in the TG pigs for subcutaneous fat, whereas genes related to lipid catabolism were significantly up-regulated(P<0.05) in the TG pigs for retroperitoneal fat compared with their expression levels in wild-type pigs. In liver, genes related to the TGF-β signaling pathway were over-represented in the TG pigs, which is consistent with the inhibitory role of FST in regulating TGF-β signaling. Together, these results provide new insights into the molecular mechanisms underlying the phenotypic changes in pig. 展开更多
关键词 FOLLISTATIN transgenic pig TRANSCRIPTOME skeletal muscle LIVER ADIPOSE
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Effect of Different Oligosaccharides on Immunity and Production Performance of Piglets 被引量:1
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作者 LI Mei LIU Wen-li +5 位作者 ZHAO Gui-ying YU Li-ming WU Yong-hao WU Yan-fen PAN Zi-qiang SHEN Zhi-hua 《Animal Husbandry and Feed Science》 CAS 2010年第8期9-11,共3页
[ Objective] To study the effects of different oligosaccharides on immunity and production performance of piglets.[ Method] A total of 75 Yorkshire x Rongchang piglets were assigned into five groups, 15 in each group.... [ Objective] To study the effects of different oligosaccharides on immunity and production performance of piglets.[ Method] A total of 75 Yorkshire x Rongchang piglets were assigned into five groups, 15 in each group. Isomalto-oligosaccharide ( IMO), fructo-oligosaccharide ( FOS), mannan-oligosacchadde (MOS), and mixed oligosacchadde were supplemented to basal diet (7.5 g/kg), respectively. The control group was also set. The experimental period lasted for 53 d. The clinic symptoms and diarrhea were observed. All piglets were weighed once a week. Feed intake was also recorded. Blood was collected via precaval vein for determination of immunology indexes at the age of 30 and 60 d, respectively. [ Result] The IMO and FOS enhanced cellular immunity of 30-day-old piglets significantly (P 〈 0.05), and the IMO also enhanced their humoral immunity. The MOS enhanced cellular immunity and humoral immunity of 60-day-old piglets significantly (P 〈 0.05). It also improved production performance largest, and its diarrhea rate was the lowest. [ Conclusion] Different oligosaccharides have various effects on immunity and production performance of oiolets. 展开更多
关键词 OLIGOSACCHARIDES PIGLETS Cellular immunity Humoral immunity
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Imprinting Analysis of RTL1 and DIO3 Genes and Their Association with Carcass Traits in Pigs (Sus scrofa) 被引量:1
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作者 YANG Zong-lin CHENG Huan-chen +3 位作者 XIA Qing-you JIANG Cao-de DENG Chang-yan LI Yue- min 《Agricultural Sciences in China》 CAS CSCD 2009年第5期613-619,共7页
Imprinted genes play significant roles in the regulation of fetal growth, development, function of the placenta and postnatal behavior in mammals, but little is known in pigs. In order to investigate the imprinting st... Imprinted genes play significant roles in the regulation of fetal growth, development, function of the placenta and postnatal behavior in mammals, but little is known in pigs. In order to investigate the imprinting status of porcine retro-transposon like 1 (RTL1) and type 3 iodothyronine deiodinase (DIO3) genes, DNA or RNA samples of the parents and F1 animals, generated with reciprocal crosses between Large White and Meishan breeds, were isolated, and analyzed by reverse transcription polymerase chain reaction restriction fragment length polymorphism (RT-PCR-RFLP). The results demonstrated that the RTL1 gene was paternally expressed in 10 tissues, such as the skeletal muscle, heart, spleen, liver, kidney, lung, stomach, fat, small intestine and brain, and D103 gene exhibited paternal expression in the skeletal muscle, heart, spleen, lung, stomach, and brain, in 2-month-old pigs. The association of RTL1 and DI03 with carcass traits was further analyzed in the F2 population of Large White×Meishan pigs. The statistical results showed that the R TL1 A1101G polymorphism (EU781029) was significantly associated with lean meat percentage (LMP) and fat meat percentage (FMP) (P〈0.05), while the D103 A744C polymorphism (AY533208) was not significantly associated with any carcass traits. These results indicate that the imprinting status of RTL1 and DIO3 is well kept across the mammalian species, and porcine RTL1 may have important roles in muscle growth and fat deposition. 展开更多
关键词 imprinted gene RTLI DIO3 carcass trait PIG
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Molecular characterization and tissue expression profile of the Dnmts gene family in pig 被引量:1
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作者 LUO Zong-gang ZHANG Kai +8 位作者 CHEN Lei YANG Yuan-xin FU Peng-hui WANG Ke-tian WANG Ling LI Ming-zhou LI Xue-wei ZUO Fu-yuan WANG Jin-yong 《Journal of Integrative Agriculture》 SCIE CAS CSCD 2017年第6期1367-1374,共8页
DNA methyltransferases(Dnmts)comprise a family of proteins which involved in the establishment and maintenance of DNA methylation patterns.In pig,the molecular characterization and tissue expression profile of Dnmt ... DNA methyltransferases(Dnmts)comprise a family of proteins which involved in the establishment and maintenance of DNA methylation patterns.In pig,the molecular characterization and tissue expression profile of Dnmt gene family are not clear.To solve this problem,reverse transcriptase PCR and rapid amplification of c DNA ends were used to clone the sequences of the porcine Dnmt2 and Dnmt3b genes.Furthermore,the m RNA expression profiles of Dnmt1,Dnmt2,Dnmt3a and Dnmt3b genes from 54 adult tissues and 2 entire fetuses of Rongchang pig were analyzed by quantitative real-time PCR(q RT-PCR).As a result,the lengths of porcine Dnmt2 and Dnmt3b gene c DNAs were 1 227 and 2 559 bp with cytosine-C5specific DNA methylase domain,respectively.The four Dnmt genes were highly expressed in longissimus dorsi muscle(P〈0.01).Dnmt1 is highly expressed in heart(P〈0.01)and Dnmt 2 shows its preference in liver and seminal vesicle tissue(P〈0.01).Dnmt3a and Dnmt3b are highly expressed in the two fetus stages(P〈0.01).All these results suggested that each gene has its specific expression profile,and deeper study is required to dig more details between the methylation level and Dnmt family m RNA expressions in different tissues. 展开更多
关键词 PIG Dnmt gene family CLONING mRNA expression
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Mapping short tandem repeats for liver gene expression traits helps prioritize potential causal variants for complex traits in pigs
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作者 Zhongzi Wu Huanfa Gong +6 位作者 Zhimin Zhou Tao Jiang Ziqi Lin Jing Li Shijun Xiao Bin Yang Lusheng Huang 《Journal of Animal Science and Biotechnology》 SCIE CAS CSCD 2022年第3期707-720,共14页
Background:Short tandem repeats(STRs)were recently found to have significant impacts on gene expression and diseases in humans,but their roles on gene expression and complex traits in pigs remain unexplored.This study... Background:Short tandem repeats(STRs)were recently found to have significant impacts on gene expression and diseases in humans,but their roles on gene expression and complex traits in pigs remain unexplored.This study investigates the effects of STRs on gene expression in liver tissues based on the whole-genome sequences and RNA-Seq data of a discovery cohort of 260 F6 individuals and a validation population of 296 F7 individuals from a heterogeneous population generated from crosses among eight pig breeds.Results:We identified 5203 and 5868 significantly expression STRs(eSTRs,FDR<1%)in the F6 and F7 populations,respectively,most of which could be reciprocally validated(π1=0.92).The eSTRs explained 27.5%of the cisheritability of gene expression traits on average.We further identified 235 and 298 fine-mapped STRs through the Bayesian fine-mapping approach in the F6 and F7 pigs,respectively,which were significantly enriched in intron,ATAC peak,compartment A and H3K4me3 regions.We identified 20 fine-mapped STRs located in 100 kb windows upstream and downstream of published complex trait-associated SNPs,which colocalized with epigenetic markers such as H3K27ac and ATAC peaks.These included eSTR of the CLPB,PGLS,PSMD6 and DHDH genes,which are linked with genome-wide association study(GWAS)SNPs for blood-related traits,leg conformation,growth-related traits,and meat quality traits,respectively.Conclusions:This study provides insights into the effects of STRs on gene expression traits.The identified eSTRs are valuable resources for prioritizing causal STRs for complex traits in pigs. 展开更多
关键词 Cis-eQTL CO-LOCALIZATION Gene expression LIVER Pig heterogeneous population Short tandem repeats
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Effects of carcass weight, sex and breed composition on meat cuts and carcass trait in finishing pigs
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作者 XIE Lei QIN Jiang-tao +5 位作者 RAO Lin CUI Deng-shuai TANG Xi XIAO Shi-jun ZHANG Zhi-yan HUANG Lu-sheng 《Journal of Integrative Agriculture》 SCIE CAS CSCD 2023年第5期1489-1501,共13页
Pork cutting is a very important processing in promoting economic appreciation across the swine business chain. The goal of this research is to determine the proportion and weight of meat cuts, as well as to analyze t... Pork cutting is a very important processing in promoting economic appreciation across the swine business chain. The goal of this research is to determine the proportion and weight of meat cuts, as well as to analyze the effects of carcass weight, sex and breed composition on meat cuts. Simultaneously, we investigate the correlation between meat cuts, carcass traits and meat quality traits. To assess 17 meat cut traits, 12 carcass traits and 6 meat quality traits, we sample 2 012 pigs from four breeds, including Landrace(LD), Yorkshire(YK), Landrace Yorkshire(LY), and Duroc Landrace Yorkshire(DLY). The results showed that carcass weight, sex and breed composition have significant effects on the weight and proportion of most meat cuts. The proportion of cuts for muscle and bone decrease as carcass weight grows, whereas the proportion of cuts for fat increases. Moreover, the thickness of four-point backfat was significantly increasing(P<0.001) with increase of carcass weights, indicating that large amount of intaking energy in the late finishing stage was used for fat deposition. Besides, the proportion of Shoulder cut(SC) and Back fat(BF) in barrows was significantly higher(P<0.001) than that in sows, whereas the Leg cut(LC) showed the opposite trend. The Loin(LO) proportion and Loin muscle area(LMA) of barrows were significantly lower(P<0.001), but the proportion of fat areas in the image(PFAI) and visual marbling score(VMS) were significantly higher(P<0.001) than those of sows, respectively. In terms of breeds, LD had the longest straight carcass length, significantly longer(P<0.001) than the other three breeds, which partially explains why LD had the largest proportion of the Middle cut(MC). Moreover, the proportion of SC in DLY was the highest. Last but not least, the correlations between the proportions of most meat cuts, and also between meat cuts and meat quality or carcass traits were low or not significant(P>0.05). The effects of carcass weight, sex and breed composition on the meat cuts, meat quality and carcass traits are breed and growth stage dependent. It also reflects the asynchrony of the growth curve between different sexes. Our results laid an important foundation for breeding pig carcass cuts and composition. 展开更多
关键词 CARCASS MEAT CUTS CARCASS TRAITS commercial pig MEAT quality
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Construction of a transposase accessible chromatin landscape reveals chromatin state of repeat elements and potential causal variant for complex traits in pigs
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作者 Tao Jiang Ziqi Ling +8 位作者 Zhimin Zhou Xiaoyun Chen Liqing Chen Sha Liu Yingchun Sun Jiawen Yang Bin Yang Jianzhen Huang Lusheng Huang 《Journal of Animal Science and Biotechnology》 SCIE CAS CSCD 2023年第2期529-545,共17页
Background:A comprehensive landscape of chromatin states for multiple mammalian tissues is essential for elucidating the molecular mechanism underlying regulatory variants on complex traits.However,the genome-wide chr... Background:A comprehensive landscape of chromatin states for multiple mammalian tissues is essential for elucidating the molecular mechanism underlying regulatory variants on complex traits.However,the genome-wide chromatin accessibility has been only reported in limited tissue types in pigs.Results:Here we report a genome-wide landscape of chromatin accessibility of 20 tissues in two female pigs at ages of 6 months using ATAC-seq,and identified 557,273 merged peaks,which greatly expanded the pig regulatory ele-ment repository.We revealed tissue-specific regulatory elements which were associated with tissue-relevant biologi-cal functions.We identified both positive and negative significant correlations between the regulatory elements and gene transcripts,which showed distinct distributions in terms of their strength and distances from corresponding genes.We investigated the presence of transposable elements(TEs)in open chromatin regions across all tissues,these included identifications of porcine endogenous retroviruses(PERVs)exhibiting high accessibility in liver and homology of porcine specific virus sequences to universally accessible transposable elements.Furthermore,we prior-itized a potential causal variant for polyunsaturated fatty acid in the muscle.Conclusions:Our data provides a novel multi-tissues accessible chromatin landscape that serve as an important resource for interpreting regulatory sequences in tissue-specific and conserved biological functions,as well as regula-tory variants of loci associated with complex traits in pigs. 展开更多
关键词 Chromatin accessibility Pig Tissue specific TRANSCRIPTOME Transposable elements
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Pasteurella multocida capsular:lipopolysaccharide types D:L6 and A:L3 remain to be the main epidemic genotypes of pigs in China 被引量:2
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作者 Songtao Liu Lin Lin +12 位作者 Hao Yang Wenqing Wu Long Guo Yue Zhang Fei Wang Xueying Wang Wenbo Song Lin Hua Wan Liang Xibiao Tang Huanchun Chen Zhong Peng Bin Wu 《Animal Diseases》 2021年第4期262-267,共6页
Pasteurella multocida is a leading cause of respiratory disorders in pigs.This study was designed to understand the genotypical and antimicrobial resistant characteristics of P.multocida from pigs in China.To achieve ... Pasteurella multocida is a leading cause of respiratory disorders in pigs.This study was designed to understand the genotypical and antimicrobial resistant characteristics of P.multocida from pigs in China.To achieve this,we briefly investigated 158 P.multocida isolates from pigs with respiratory disorders in China between 2019 and 2020.Genotyping through multiplex PCR assays assigned these 158 isolates into capsular genotypes A(60.13%,95/158),D(35.44%,56/158),F(4.43%,7/158),and/or lipopolysaccharide(LPS)genotypes L3(28.48%,45/158)and L6(66.46%,105/158).In addition,eight isolates(5.06%,8/158)were found to be nontypable using the LPS genotyping method.When combining the capsular genotypes and the LPS genotypes,D:L6(34.81%,55/158)and A:L6(31.65%,50/158)were the predominant genotypes,followed by A:L3(24.05%,38/158).PCR detection of virulence factor-encoding genes showed that over 80%of the isolates were positive for exbB,tonB,exbD,ompH,ptfA,fimA,sodA,sodC,fur,ompA,oma87,plpB,hsf-2,nanH and hgbB,suggesting the presence of these genes were broad characteristics of P.multocida.We also found approximately 63.92%(101/158),51.27%(81/158),8.86%(14/158),7.59%(12/158),3.16%(5/158),0.63%(1/158),and 0.63%(1/158)of the isolates grew well in media with the presence of colistin(4μg/mL),tetracycline(16μg/mL),tigecycline(1μg/mL),ampicillin(32μg/mL),chloramphenicol(32μg/mL),cefepime(16μg/mL),and ciprofloxacin(1μg/mL),respectively.This study contributes to the understanding of genotypes and antimicrobial resistance profile of P.multocida currently circulation in pigs of China. 展开更多
关键词 Pasteurella multocida Capsular and LPS genotypes Virulence factor-encoding genes Antimicrobial susceptibility PIGS China
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Production of homeobox A10 gene transgenic pigs by somatic cell nuclear transfer
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作者 XIAO Qian ZHAO Chang-zhi +7 位作者 LIN Rui-yi LI Guang-lei LI Chang-chun WANG Hai-yan XU Jing XIE Sheng-song YU Mei ZHAO Shu-hong 《Journal of Integrative Agriculture》 SCIE CAS CSCD 2019年第5期1072-1079,共8页
Homeobox A10(Hoxa10) gene is one of the most important candidate genes associated with the reproductive performance of humans and mice. Overexpression of Hoxa10 in mouse endometrium can increase litter size. Moreover,... Homeobox A10(Hoxa10) gene is one of the most important candidate genes associated with the reproductive performance of humans and mice. Overexpression of Hoxa10 in mouse endometrium can increase litter size. Moreover, Hoxa10 plays a key role in regulating the embryo implantation of sows. This study aimed to generate transgenic pigs using Hoxa10 via somatic cell nuclear transfer(SCNT). We established seven Hoxa10-transgenic cell lines, and two of the cell lines were selected as nuclear donors for the transfer. A total of 1 270 cloned embryos were generated and transferred to five surrogate mothers(Landrace×Yorkshire). Eight cloned male piglets were produced including one with cryptorchidism. Six transgenic piglets grew up healthy and produced 56 offspring. Finally, we obtained six transgenic male pigs and 26 transgenic positive offspring that can be used to further study the regulatory mechanism of Hoxa10 on the reproductive performance of pigs. 展开更多
关键词 HOXA10 GENE transgenic pig SOMATIC cell nuclear transfer fetal FIBROBLASTS OOCYTE
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