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Identification,Isolation and Genomic Characterization of Porcine Astrovirus in Shandong Province,China in 2021-2023
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作者 Liu Yueyuel Zhang Yu +7 位作者 Zhu Yuwei Guo Xiaozhen Yang Shifa Yin Bin Zhao Zengcheng Huang Zhonglil Wu Jiaqiang Lin Shuqian 《Animal Husbandry and Feed Science》 CAS 2024年第1期13-20,共8页
[Objective]The paper was to identify,isolate,and characterize porcine astrovirus in Shandong Province between 2021 and 2023.[Method]A total of 1025 samples of porcine diarrhea samples were collected from various regio... [Objective]The paper was to identify,isolate,and characterize porcine astrovirus in Shandong Province between 2021 and 2023.[Method]A total of 1025 samples of porcine diarrhea samples were collected from various regions of Shandong Province between January 2021 and October 2023.The samples were tested by RT-PCR,followed by sequencing and phylogenetic analyses of the polymerase.[Result]The total positive rate of PAstV was 34.6%(355/1025).The respective proportions of individuals infected with PAstV-1,PAstV-2,PAstV-4 and PAstV-5 were 25.4%(90/355),28.2%(100/355),35.2%(125/355)and 22.5%(80/355),respectively.Additionally,mixed infection was observed.Meanwhile,849 samples of healthy pigs were tested by RT-PCR,and the results demonstrated that the total positive rate of PAstV was 8.13%(69/849).Of these,the proportion of PAstV-1,PAstV-2 and PAstV-4 infection was 27.5%(19/69),37.7%(26/69)and 40.6%(28/69),and a mixed infection also existed.Further sequencing and characterization of some the selected isolates revealed low sequence identities(56.2%)with known PAstV strains,indicating the presence of novel types or genotypes of PAstVs.Furthermore,the isolation conditions of porcine astrovirus were optimized,resulting in the purification of a pure PAstV-4 strain(designated PAstV-4-GRF1).The virus was found to exhibit typical astroviral morphology,with nucleotide identity ranging from 89.9 to 95.4%with previously published PAstV-4 strains.Then,macrovirus transcriptome sequencing showed that 88.30%of the CRF1 samples were mammalian astroviruses.By species classification,PAstV 4 and PAstV 2 accounted for 21.79%and 0.32%,respectively.Phylogenetic tree analysis showed that the c15050 fragment was identical to the GRF-1 sequencing fragment of the isolated strain,and exhibited the highest homology with the Hunan PAstV-4 sequence MK460231 in China.[Conclusion]As the inaugural isolated PAstV-4 strain,it furnishes pivotal materialfor the investigation ofthe biological and pathogenic properties of this virus as well as for the prospectivedevelopment of relevant biological and diagnostic reagents. 展开更多
关键词 Porcine astrovirus Epidemic situation Genotype analysis Isolation and identification
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Analysis of genotype differences of rice response to low Zn^(2+) activity and some morphological characteristics 被引量:5
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作者 WANG Renmin, Dept of Agro YANG Xiao’e and YANG Yuai, Dept of Agri Chemistry, ZheJiang Agri Univ, Hangzhou 310029, China 《Chinese Rice Research Newsletter》 1998年第3期11-12,共2页
Zinc deficiency is one of the most widespreadmicro-nutritional disorder for rice. To solve the problem, screening Zn-efficient cultivars isan available method and understanding geno-
关键词 analysis of genotype differences of rice response to low Zn activity and some morphological characteristics root
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Study of TT-virus infection and genotype analysis inC hengdu blood donors
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《中国输血杂志》 CAS CSCD 2001年第S1期331-,共1页
关键词 TT Study of TT-virus infection and genotype analysis inC hengdu blood donors
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Analysis of rhesus genotypes of 39 unrelated RhD-negative donors in the southern area of Liaoning Province in China
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《中国输血杂志》 CAS CSCD 2001年第S1期378-,共1页
关键词 RHD analysis of rhesus genotypes of 39 unrelated RhD-negative donors in the southern area of Liaoning Province in China area
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The analysis of the results of HLA-B27 PCR-SSP genotyping
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《中国输血杂志》 CAS CSCD 2001年第S1期375-,共1页
关键词 PCR HLA SSP The analysis of the results of HLA-B27 PCR-SSP genotyping
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Genotyping of RHD by multiplex polymerase chain reaction analysis of six RHD-specific exons in Chinese population
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《中国输血杂志》 CAS CSCD 2001年第S1期359-,共1页
关键词 RHD Genotyping of RHD by multiplex polymerase chain reaction analysis of six RHD-specific exons in Chinese population
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The complete genomic sequence analysis of genotype 4 human astrovirus HASTVgz01 strain in Guangzhou
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作者 BING ZHU JIA YU ZHONG +5 位作者 XIAO LI YI CHEN TAO LIN ZAO HE WU RONG ZHOU SI TANG GONG 《Journal of Microbiology and Immunology》 2006年第3期173-176,共4页
To analyze the genomic molecular structure and genotype of human astrovirus isolated from infant in Guangzhou of China, the primers were designed based on the genomic sequence of astrovirus from the C, enBank and the ... To analyze the genomic molecular structure and genotype of human astrovirus isolated from infant in Guangzhou of China, the primers were designed based on the genomic sequence of astrovirus from the C, enBank and the target sequence were amplified by RT-PCR. Then the PCR-products were cloned to T vector and sequenced. The genomic nucleotide sequences were analyzed by the programs CLUSTAL W and DNASTAR. It was found that the full genomic length of HASTVgz01 strain was 6721 bp and the ORFs were 6558 bp. The 5' and 3'UTR were 82 and 81 nucleotides. The genome included 3 open reading frames (ORFs) : ORFla, ORFlb and ORF2. The 5'-terminal ORFla started at nueleotide 83 and extended to nucleotide 2845. ORFlb (nt 2785 to nt 4332) overlaped ORFla by 61 nueleotides. The 3'-terminal ORF2 began at nucleotide 4325 and terminated at nucleotide 6640. ORF2 had 2316 nucleotides. Compared with other astrovirus sequences in GenBank, the homology of the amino acid sequence of ORF2 of HASTVgz01 strain with that of serotype 4 was 93%. Homology with other serotypes ranged from 61% to 70%. The complete nucleotide sequence of astrovirus HASTVgz01 strain isolated from Guangzhou in China was 6721 bp in length, GenBank accession NO. DQ344027. Comparing the ORF2 of astrovirus HASTVgz01 with the known sequences of types 1-8 the highest homology was serotype 4 (93%). Comparative sequence analysis of the HASTVgz01 ORF2 with the reported human astrovirus sequences revealed that the isolated astrovirus belongs to genotype (serotype) 4. 展开更多
关键词 Human astrovirus Genome Genotype 4 Sequence analysis
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AMMI analysis of interaction of genotype and environment in chalkiness of indica rice
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作者 TANG Shengxiang JIANG Yunzhu YU Hangyong WANG Lei CNRRI,Hangzhou 310006,China 《Chinese Rice Research Newsletter》 1997年第1期1-2,共2页
Chalkiness is an unpleasant trait for rice con-sumer,which is known to be controlled geneti-cally and affected by environment during grainmaturing.We used the model of Additive Main
关键词 AMMI analysis of interaction of genotype and environment in chalkiness of indica rice CD
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Genome-wide association studies reveal the genetic basis of amino acid content variation in tea plants 被引量:1
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作者 GUO Ya-fei LI Dai-li +4 位作者 QIU Hai-ji ZHANG Xiao-liang LIU Lin ZHAO Jing-jing JIANG De-yuan 《Journal of Integrative Agriculture》 SCIE CAS CSCD 2023年第11期3364-3379,共16页
Tea is one of the most popular non-alcoholic beverages in the world,and free amino acids,especially theanine,make a major contribution to the umami taste of tea.However,the genetic basis of the variation in amino acid... Tea is one of the most popular non-alcoholic beverages in the world,and free amino acids,especially theanine,make a major contribution to the umami taste of tea.However,the genetic basis of the variation in amino acid content in tea plants remains largely unknown.Here,we measured the free amino acid content in fresh leaves of 174 tea accessions over two years using a targeted metabolomics approach and obtained genotype data via RNA sequencing.Genome-wide association studies were conducted to investigate loci affecting the content of free amino acids.A total of 69 quantitative trait loci(–log10(P-value)>5)were identified.Functional annotation revealed that branched-chain amino acid aminotransferase,glutamine synthetase,nitrate transporter,and glutamate decarboxylase might be important for amino acid metabolism.Two significant loci,glutamine synthetase(Glu1,P=3.71×10^(−4);Arg1,P=4.61×10^(−5))and branched-chain amino acid aminotransferase(Val1,P=4.67×10^(−5);I_Leu1,P=3.56×10^(−6)),were identified,respectively.Based on the genotyping result,two alleles of CsGS(CsGS-L and CsGS-H)and CsBCAT(CsBCAT-L and CsBCAT-H)were selected to perform function verification.Overexpression of CsGS-L and CsGS-H enhanced the contents of glutamate and arginine in transgenic plants,and overexpression of CsBCAT-L and CsBCAT-H promoted the accumulation of valine,isoleucine and leucine.Enzyme activity assay uncovered that SNP1054 is important for CsGS catalyzing glutamate into glutamine.Furthermore,CsGS-L and CsGS-H differentially regulated the accumulation of glutamine,and CsBCAT-L and CsBCAT-H differentially regulated the accumulation of branched-chain amino acids.In summary,the findings in our study would provide new insights into the genetic basis of amino acids contents variation in tea plants and facilitate the identification of elite genes to enhance amino acids content. 展开更多
关键词 Camellia sinensis amino acids genetic variation association studies genotype analysis functional verification
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The Inheritance of Early Heading in the Rice Variety USSR5 被引量:1
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作者 江玲 徐俊锋 +4 位作者 魏祥进 王松凤 唐九友 翟虎渠 万建民 《Journal of Genetics and Genomics》 SCIE CAS CSCD 北大核心 2007年第1期46-55,共10页
USSR5, a japonica rice variety from the former Soviet Union, is an extremely early maturing rice variety. To elucidate the genetic basis for its early heading, genetic analysis was carried out by crossing it with a se... USSR5, a japonica rice variety from the former Soviet Union, is an extremely early maturing rice variety. To elucidate the genetic basis for its early heading, genetic analysis was carried out by crossing it with a set of major gene nearly isogenic lines (NIL) and QTL-isogenic lines. The early heading of USSR5 was attributed to the presence of photoperiod-insensitive alleles at E1 and Se-1 gene, the photoperiod-sensitive inhibitor gene i-Se-1, and the dominant earliness gene Ef-1. Analysis of a backcrossed population (BCIF1) derived from the cross USSR5 x N22 indicated that two quantitative trait loci (QTL) for early heading were located on chromosomes 7 and 8, accounting for 27.4% and 11.2% of the phenotypic variance, respectively, with both early alleles originating from USSRS. From an F2 population of the same cross, early heading QTLs were detected on chromosomes 1, 2, 7, 9, and 10, with individual QTL accounting for between 4.1% and 15.4% of the phenotypic variance. Early heading alleles at four of these five QTLs originated from USSRS. A comparison of chromosomal locations suggests that one of these QTLs may be identical with the known gene Hd4 (E1). The relationship between the other QTLs and known genes for heading date are not clear. USSR5 is a promising source for propagating earliness for the development of improved early heading rice varieties. 展开更多
关键词 rice (Oryza sativa L.) heading date nearly isogenic line genotype analysis QTL mapping
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Parental Selection in Rice Cultivar Improvement
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作者 Stanley Omar P B.SAMONTE Rodante E.TABIEN Lloyd T.WILSON 《Rice science》 SCIE 2013年第1期45-51,共7页
The evaluation of rice (Oryza safiva L.) cultivars assists breeders in identifying useful trait relationships and in selecting parents as donors of specific traits. This study was conducted to compare long-grain ric... The evaluation of rice (Oryza safiva L.) cultivars assists breeders in identifying useful trait relationships and in selecting parents as donors of specific traits. This study was conducted to compare long-grain rice cultivars using genotype x trait (GT) biplot analysis and determine potential donors of traits related to grain yield and quality. Seventeen cultivars in the 2005 and 2006 Uniform Regional Rice Nursery in Beaumont, Texas, USA were analyzed for 20 traits using GT biplot analysis. The GT biplots showed the diversity among cultivars with regards to yield-related traits. Cultivars recommended as donor parents were: Trenasse, Spring, Presidio, and Cocodrie for high grain yield and head rice rate Trenasse and Presidio for semi-dwarfness; Banks for tall plant height; Wells for high flag leaf area, panicle weight, and number and mass of filled grains per panicle; Hidalgo for high tiller density; Francis for high number of spikelets per panicle; Spring and Trenasse for short flowering duration; Cheniere for more days to heading and maturity and Spring for less days; and Spring and Hidalgo for high grain weiqht. Breeders can use these cultivars with specific traits to increase qrain yield and quality. 展开更多
关键词 diversity genotype × trait biplot analysis grain yield grain quality parental selection RICE
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DNA sequence analysis of the triose phosphate isomerase gene from isolates of Giardia lamblia 被引量:1
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作者 卢思奇 文建凡 +1 位作者 李继红 王凤云 《Chinese Medical Journal》 SCIE CAS CSCD 2002年第1期99-102,151-152,共4页
Objective To confirm the genetic relation between Giardia lamblia (G. lamblia) isolates from different geographic regions of China and other countries.Methods Genomic DNA were extracted from the trophozoites or cyst... Objective To confirm the genetic relation between Giardia lamblia (G. lamblia) isolates from different geographic regions of China and other countries.Methods Genomic DNA were extracted from the trophozoites or cysts of Giardia lamblia. The triose phosphate isomerase (tim) gene was amplified using polymerase chain reaction (PCR) technique. PCR products were digested with endonuclease and sequenced. The data of sequencing were analyzed with the DNAstar software and compared with that of the isolates acquired from GenBank.Results Of nine isolates of Giardia lamblia from China (C1, C2, CH2 and CH3), Cambodia (CAM), Australia (A1 and A2) and America (BP and CDC), respectively, 3 (A1, A2 and CAM) fit into Group 1 (WB), 2 (CH2 and CH3)) into Group 2, and 4 (C1, C2, BP and CDC) into Group 3 (GS). The results confirmed the genetic relatedness of G. lamblia isolates from all over the world.Conclusion Genotyping isolates of G. Lamblia provides important information for establishing the phylogenetic relationship or for the epidemiological evaluation of the spreading of this organism. 展开更多
关键词 Giardia lamblia · triose phosphate isomerase · tim gene · gene sequence analysis · genotype
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Nucleoprotein gene analysis of the wild-type measles viruses circulated in Beijing in 2001
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作者 谢正德 申昆玲 +2 位作者 许文波 照日格图 朱贞 《Chinese Medical Journal》 SCIE CAS CSCD 2004年第1期140-142,共3页
关键词 measles virus·polymerase chain reaction·sequence analysis·genotype
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