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Application of High-Throughput Sequencing Technology in the Diagnosis of Swine Diseases
CAI Shaotong,LI Jin,BO Haotian,ZHANG Junhui,GONG Lang,WANG Heng,ZHANG Guihong,SUN Yankuo
Guangdong Journal of Animal and Veterinary Science 2026, 51 (
2
): 8-16. DOI:
10.19978/j.cnki.xmsy.2026.02.02
Abstract
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30
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High?throughput sequencing(HTS)has been increasingly applied in animal disease diagnosis and molecular epidemiological investigations in recent years. In intensive swine production systems,clinical syndromes such as respiratory disease,diarrhea,and reproductive disorders are often associated with multiple co ? infecting pathogens,making comprehensive pathogen identification difficult using conventional targeted diagnostic assays. By enabling large ? scale parallel sequencing of nucleic acids in clinical samples,HTS allows unbiased detection of pathogens and provides high ? resolution genomic information. This capability offers significant advantages for the discovery of emerging pathogens,characterization of mixed infections,analysis of viral genetic variation,and epidemiological source tracing. In this review,we summarize recent advances in the application of HTS technologies for viral detection in swine diseases. Particular attention is given to three major sequencing strategies—Whole?Genome Sequencing(WGS),Metagenomic Next?Generation Sequencing(mNGS),and Targeted Next?Generation Sequencing (tNGS)—and their applications in the detection of major swine viruses. In addition,the potential of HTS for swine disease surveillance and precision disease control is discussed.
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Isolation and Identification of One Strain of Bovine Mannheimella Haemolytica
LI Jintao, WANG Jinping, AN Qingcong, YAO Jun
Guangdong Journal of Animal and Veterinary Science 2025, 50 (
5
): 52-56. DOI:
10.19978/j.cnki.xmsy.2025.05.08
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87
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To investigate the cause of the disease and death of Simmental beef cattle from a large-scale farm in Malong County,Yunnan Province,PCR tests were carried out on some bovine virus diseases(
BVDV、BCV、BAdV-7、 BAdV-3、BRSV and BEFV
)and bacterial pathogens(
MB
and
Pasteurella pultocida
)in the lung tissues of the sick and dead cattle sent for testing,followed by bacteria isolation,purification,Gram stained,biochemical identification and antimicrobial susceptibility testing. The results showed that the nucleic acid and bacterial PCR test results of the tested bovine virus were negative. The isolated and purified bacteria were Gram - negative short rods,biochemically characterized as Mannheimella hemolytica. Antimicrobial susceptibility testing revealed sensitivity to polymyxin B and resistant to spectinomycin,chloramphenicol,cefoperazone,cefotaxime,minocycline,ceftriaxone,ceftazidime and cefuroxime. These findings provide theoretical reference for the effective diagnosis and treatment of“ shipping fever” (bovine
Mannheimella hemolytica
infection,either single or mixed)
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Application of Molecular Marker⁃assisted Technique of Recessive White Feather and Dwarf Gene in New Resource Luokeng Chicken
YAN Xia, WANG Chunlan, LI Jing, XU Xinchun, CHEN Weisen, HE Yanhua, CHEN Xihao
Guangdong Journal of Animal and Veterinary Science 2025, 50 (
2
): 66-70. DOI:
10.19978/j.cnki.xmsy.2025.02.10
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129
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To quickly find out the variety characteristics of the new resources of Luokeng chicken,in this study, molecular assisted marker technology involving recessive white⁃feathered (TYR)allele and Z⁃linked
dw
allele were performed. Consequently,46 heterozygous recessive white⁃feathered individuals were detected,the frequency of the heterozygous recessive white⁃feathered allele in the F0 and F1 generation were 11% and 13.67%,respectively and no Z⁃linked
dw
allele individual were detected across 356 samples. Altogether,the potential recessive white⁃feathered heterozygotes were totally eliminated within one generation,thus laying a foundation for the further genetic protection of Luokeng chicken.
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Development of Quantitative PCR Method based on SYBR GreenⅠFluorescence for Detecting Subgroup F Avian Leukosis Virus
PAN Honyan, LI Jinqun, LI Qi, YUAN Yilin, CAO Weisheng
Guangdong Journal of Animal and Veterinary Science 2025, 50 (
2
): 23-29. DOI:
10.19978/j.cnki.xmsy.2025.02.04
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229
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To accurately detect subgroup F avian leukosis virus(ALV⁃F),a pair of specific primers F1/F2 were designed according to the env gene of the ALV⁃F epidemic strains,and a SYBR Green Ⅰ fluorescence quantitative PCR detection method for ALV⁃F was established. The condition optimization experiment results showed that the optimal annealing temperature was 64.5 ℃,and the optimal primer concentration was 0.4 μM. The standard curve equation established using the optimal reaction conditions was
y
=-3.303
x
+42.525,
R
2
=0.997,amplification efficiency E=100.8% ,and the copy number of the standard plasmid had a good linear relationship with the Ct value. The specificity results showed that this method can only specifically detect ALV⁃F,and has no cross⁃reaction to ALV⁃A, ALV⁃B,ALV⁃J,ALV⁃K,avian influenza virus(AIV),Marek's virus(MDV),reticuloendotheliosis virus(REV) and chicken infectious anemia virus(CIAV). The sensitivity results showed that the minimum detection limit of standard plasmid was 4.67×102 copies/μL,and the sensitivity was 1000 times that of routine PCR. The reproducibility results showed that the coefficient of variation of intra⁃assay and inter⁃assay reproducibility was less than 2%. 23 primary cell(PEF)samples prepared from pheasant embryos were detected by using this method,ALV p27 ELISA and routine PCR respectively,and the results showed that the positive detection rates of this method and PCR method were both 95.65%(22/23),while the positive detection rate of ALV p27 ELISA was only 39.13%(9/23). The total consistency rate of this method with routine PCR was 100%,while the total consistency rate with ALV p27 ELISA was 43.48%. 20 anticoagulated blood samples of pheasant were further detected by using this method,virus isolation method through ALV p27 ELISA and routine PCR method,and the results showed that the positive detection rates of this method and ordinary PCR method were 100.00%(20/20)and 75.00%(15/20),respectively,with an overall compliance rate of 75.00%,while the positive detection rate of the virus isolation method was 0.00%(0/20). All results indicated that the method established in this study has good specificity,sensitivity and stability to provide technical support for the accurate detection of ALV⁃F.
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Inhibition of Reuterin on Clostridium perfringens in vitro
LI Jinyan ,MA Xinyan ,XIANG Rong ,LIAO Shenquan ,LV Xiaohui ,YANG Qiao , ZHANG Xiaoling ,YANG Xi
Guangdong Journal of Animal and Veterinary Science 2023, 48 (
1
): 29-34. DOI:
10.19978/j.cnki.xmsy.2023.01.06
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523
)
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Clostridium perfringens(Cp)is the leading pathogen of necrotizing enteritis——an acute zoonotic disease. Reuterin is a product of few probiotics in glycerol substrate,which exhibited broad spectrum antibacterial activity. The objective of this study was to observe the growth inhibition feature of Reuterin in vitro on different types of C. perfringens and to explore the stability of Reuterin under different storage temperatures. Lactobacillus reuteri was induced to synthesize Reuterin from glycerol,its concentration was determined by Acrolein ?Tryptophan method. The minimum inhibitory concentration(MIC)of C. perfringens types A,B,C,D and E were determined by 96?well plate OD600 measurement and plate titration. The antibacterial properties of Reuterin against C.perfringens was compared after 24 hours storage at - 20 ℃ ,room temperature(25 ℃)and 37 ℃ . The results exhibited that the Reuterin production concentration was 26.13 μmol/mL. Type A and D C. perfringens were the most sensitive to the Reuterin, with MIC values of 0.78 μmol/mL and 0.52 μmol/mL,respectively. Type B,C and E strains were also sensitive,MIC values were 1.57 μmol/mL,1.57 μmol/mL and 1.83 μmol/mL. In the plate titration method,all five serotype bacteria were inhibited under 0.26 μmol/mL Reuterin treatment. The bacteriostatic effect of Reuterin were measured after different storage temperatures. For C.perfringens type A and C,the growth inhibition capacity did not change,and the MICs were 0.78 μmol/mL and 1.57 μmol/mL. This study proved that Reuterin has the grow inhibitory ability on C. perfringens in vitro as one of the probiotic metabolits,and its antibacterial ability is not affected by storage temperature.
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Design of cat foster space based on cat behavior welfare
LI Jinhang1,TAN Youheng2
Guangdong Journal of Animal and Veterinary Science 2022, 47 (
3
): 122-125. DOI:
10.19978/j.cnki.xmsy.2022.03.24
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582
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With the increasing number of domestic cats in China,the business trips or vacations of pet owners have also spawned the need for cat boarding in cat hotels or pet stores,and good boarding facilities should be able to meet the behavioral needs of cats. This article starts from the characteristics of cats' needs for living space and the characteristics of foster care activities,and then provides the design ideas of cat fostering space. In the end,the characteristics,scene arrangement and daily cleaning methods in the fostering space are discussed.
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Changes on the microbial community at different ages of Yellow⁃feathered broilers fed with or without antibiotic diets
LUO Xiaolu, LI Lina, LI Jingrong, PENG Xiaofeng, WU Peng, ZHU Cui
Guangdong Journal of Animal and Veterinary Science 2022, 47 (
1
): 6-13. DOI:
10.19978/j.cnki.xmsy.2022.01.02
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342
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This study aimed to investigate the changes of microbial composition and diversity of cecal digesta of yellow?feathered broilers fed with or without antibiotic diets at different ages(21 d,42 d,and 63 d). A total of 360 one?day?old yellow?feathered broilers were randomly allotted 3 groups and fed a basal diet without antibiotic (NC group),or a basal diet containing 200 mg/kg oxytetracycline calcium and 250 mg/kg nasitid(PC group), or 250 mg/kg berberine(BBR group). Each treatment consisted of 6 replicates,with 20 broulers per replicate. At the phylum level,the results showed that the abundance of Firmicutes of cecal digesta of yellow?feathered broilers on day 42 and 63 was significantly lower than on day 21(P<0.05),while the abundance of Bacteroidetes was significantly higher (P<0.05). 2) At the genus level, different ages significantly changed the relative abundance of Faecalibacterium and Phascolarctobacterium in NC group,Bacteroides in PC group,and Bacteroides,unidentified Ruminococcaceae,unidentified Lachnospiraceae,Lactobacillus in BBR group(P<0.05). 3)The Shannon index of BBR group and Simpson index of PC group were significantly changed at different ages(P<0.05). 4)The t ? test analysis of differential microbiota showed that the relative abundance of Faecalibacterium was significantly increased in NC group at 21 d,while the abundance of Bacteroides was significantly decreased at 63 d in PC group. In BBR group,the relative abundance of Bacteroides was significantly increased at 42 d,and that of unidentified Lachnospiraceae in BBR group was significantly decreased at 63 d. Collectively,the relative abundance of microbes at the phylum level and genus level,and microbial diversity of cecal digesta in fast ? growing yellow ?feathered broilers were significantly different at different days of age(21,42,and 63 d),and the differential gut microbiota in response to the increasing ages varied in different diets.
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