Whole-genome sequence of a novel Chinese cyprinid herpesvirus 3 isolate reveals the existence of a distinct European genotype in East Asia     

《Veterinary microbiology》2015,175(2-4):185-194

Cyprinid herpesvirus 3 (CyHV3), also known as koi herpesvirus (KHV), can be subdivided primarily into European and Asian genotypes, which are represented by CyHV3-U or CyHV3-I and CyHV3-J, respectively. In this study, the whole genome sequence of a novel Chinese CyHV3 isolate (GZ11) was determined and annotated. CyHV3-GZ11 genome was found to contain 295,119 nucleotides with 52.9% G/C content, which is highly similar to those of published CyHV3-U, CyHV3-I, and CyHV3-J strains. With reference to CyHV3-U, CyHV3-I, and CyHV3-J, CyHV3-GZ11 was also classified into 164 open reading frames (ORF), which include eight repeated ORFs. On the basis of the 12 alloherpeviruses core genes, results from phylogenetic analysis showed that CyHV3-GZ11 had closer evolutionary relationships with CyHV3-U and CyHV3-I than with CyHV3/KHV-J, which were also supported by genome wide-based single nucleotide substitution analysis and the use of a series of developed molecular markers. This study was the first to reveal the presence of a distinct European CyHV3 genotype in East and Southeast Asia at a whole genome level, which will evoke new insights on exploring the origin, evolution, and epidemiology of the virus.  相似文献   

蛙皮素样肽家族及其受体氨基酸序列信息学比较分析     

赵树林  李璐璐  孙小燕  阿迪莱·艾力  赵红琼 《新疆农业科学》2020,57(5):925-931

【目的】研究反刍动物蛙皮素样肽家族多肽及其受体的保守性。为不同动物,特别是反刍动物这2种蛙皮素样多肽及其受体蛋白抗原设计和活性多肽筛选等研究提供参考。【方法】采用生物信息分析学的方法,通过UniProt数据库比较牛的蛙皮素样肽家族胃泌素释放肽(Gastrin-releasing peptide, GRP)和神经介素B(Neuromedin B, NMB)2种多肽及其特异性受体GRP-R和NMB-R与其他动物氨基酸序列的差异性。【结果】13种动物成熟GRP多肽C-端的8个氨基酸序列完全相同,牛GRP氨基酸序列与绵羊、猪和豚鼠最高,分别为88.7%、77.8%和77.8%,与其他动物相似性低于74.1%。10种动物成熟NMB多肽C-端10个氨基酸序列完全相同。牛GRP-R与狗、马和猪等相似性最高,分别为96.1%、94.3%和94.0%,牛NMB-R与猪、人和马相似性最高,分别为92.3%、91.5%和91.0%;牛GRP-R与NMB-R相似性仅为62.2%。【结论】GRP和NMB的C-端氨基酸序列在不同动物之间均具有高度的保守性,而N-端为变化区域,且GRP-R和NMB-R氨基酸序列在动物之间保守性较高。  相似文献   

肉牛源细极链格孢菌的分离鉴定     

彭彦  杨超  姜尧章  马晓平  申纪饶  胡静  古玉  彭广能  钟志军  左之才 《中国预防兽医学报》2020,(1):80-83,93

为鉴定肉牛皮肤病病原及其致病性并筛选其敏感药物,本研究取患皮肤病肉牛病变部位皮屑、毛发和痂皮进行病原菌的分离,并对分离菌株进行了形态学鉴定、ITS序列分析、小鼠致病性试验和药敏试验。结果显示分离到1株形态特征与细极链格孢菌极其相似的菌株(PY2-1-2);经PCR扩增、测序和BLAST序列比对,结果显示分离株(PY2-1-2)的ITS基因序列与细极链格孢菌(MG975630.1)的ITS基因序列的相似性为99%,分离株PY2-1-2的ITS基因序列长度为543 bp,该片段包括ITS1、5.8S rDNA和ITS2的全部基因序列以及18S rDNA和28S rDNA的部分基因序列,提交GenBank(MH656780.1)。根据形态学结合ITS基因序列分析结果确定该分离株为细极链格孢菌。小鼠致病性试验结果显示该菌对小鼠有致病性。药敏试验结果显示:该菌对灰黄霉素、氟康唑、伊曲康唑、酮康唑的最小抑菌浓度(MIC)值分别为0.5μg/mL、4μg/mL、1μg/mL、1μg/mL。本研究为今后进一步探究细极链格孢菌引起的皮肤病诊治提供科学有效的参考。  相似文献   

一起山羊地方性鼻内肿瘤的诊断     

王景  周曼  何亚鹏  付明哲  许信刚 《动物医学进展》2017,38(2)

陕西省某山羊养殖场发生一起山羊鼻内肿瘤病,通过流行病学和临床症状调查、病理剖检、病理切片检查进行初步诊断。其次根据GenBank收录的山羊地方性鼻内肿瘤病毒基因组序列设计1对特异性引物,通过PCR方法从肿瘤组织中扩增获得目的片段并测序。序列比对分析表明,该目的基因和山羊地方性鼻内肿瘤病毒高度相似,最终确定该病为山羊地方性鼻内肿瘤病毒引起的山羊地方性鼻内肿瘤(ENT)。  相似文献   

柴达木盆地梭梭LEA基因的扩增及序列分析     

马玉花  冶贵生  冯志鹏 《湖北农业科学》2016,(9):2383-2385

为发掘梭梭(Haloxylon ammodendron)抗逆相关基因,以柴达木盆地梭梭的同化枝为材料,扩增其LEA基因并进行了序列测定与分析。结果表明,所得柴达木盆地梭梭的LEA基因碱基数为234 bp,其中A碱基70个,T碱基52个,G碱基59个,C碱基53个;氨基酸序列分析表明,所得LEA基因片段编码78个氨基酸,其中强碱性氨基酸有12个,强酸性氨基酸有6个,疏水性氨基酸有34个,亲水性氨基酸有26个。  相似文献   

Molecular Cloning,Sequence Analysis and Tissues Expression Profile of Part of Mink Toll-like Receptors (TLRs) Genes     

TONG Ming-wei  YI Li  YANG Yong  CHENG Yue-ning  WANG Jian-ke  ZHAO Hang  LIN Peng  CHENG Shi-peng 《中国畜牧兽医》2015,42(8):1917-1924

The present study was aimed to explore the potential role of Toll-like receptors (TLRs) on the mink immunity, and accumulate alternative genetic material for the mink breeding for disease-resistant.Four pairs of primers were designed according to ferret TLR sequences in GenBank to obtain the sequences of TLR genes (TLR4, TLR6, TLR7 and TLR8) of mink and then performed bioinformatics analysis of these sequences.In addition, the expression of TLR4 and TLR7 genes in various tissues in young and adult minks were analyzed by RT-PCR. Sequence homology analysis showed that mink had higher homology with carnivora (ferrets, polar bear, panda, walrus, seals, dog, tiger and cat) which had the nearest perimeter in the phylogenetic tree.Tissue expression analysis showed that TLR4 and TLR7 were widely and differently expressed in variety tissues of mink.Interestingly, the expression of TLR4 and TLR7 in young mink were much higher than that in adult mink.  相似文献   

Cloning and Sequence Analysis of Complete Genome of Porcine Circovirus Type 2 from Liaoning Province     

DONG Ye  GUO Shi-qi  SUN Xue  SHEN Guo-shun  LIU Li-xia 《中国畜牧兽医》2015,42(11):2895-2901

It was aimed to lay a foundation for epidemiological survey of porcine circovirus type 2(PCV2) in Liaoning province and selection of highly homologous strain inactivated vaccine.Some pigs suspected of having postweaning multisystemic wasting syndrome (PMWS) from Shenyang,Chaoyang,Tieling,Dalian and other places in Liaoning province,were detected by PCR method,then the whole genome of 10 positive samples were cloned and sequenced.The result showed that all of them were virulent strains,9 strains were 1767 bp and 1 strain was 1768 bp,and there was a T base additon at 1039 bp.The nucleotide homology was 95.1% to 98.5% with HM038034 and JQ692110.In the phylogenetic tree,JHZ2 was PCV2a type,the other 9 strains were PCV2b type,DLS38,LYD32 and SYX7 were in the same branch and same onset time.The amino acid homology of ORF2 was 89.6% to 100.0%,there were 35 mutation points,large degree of variation,the only glycosylation site (NYS) was conserved.10 strains did not change significantly,mutants were not due to PCVD,PCV2b was the predominant type,and PCV2 was related with seasonality.  相似文献   

棉花单核苷酸多态性标记研究进展   总被引：1，自引：0，他引：1  

王振玉  李威  周晓箭  裴小雨  刘艳改  周克海  张文生  孟清芹  王海风 《棉花学报》2016,28(4):399-406

单核苷酸多态性标记已在农作物研究中得到广泛应用并取得重大进展。为了便利棉花SNP(Single nucleotide polymorphism)标记的研究和应用,介绍了利用基因芯片、简化基因组测序、重测序等在棉花中开发SNP标记的方法 ,综述了SNP标记在棉花遗传图谱构建、数量位点的定位和分子标记辅助育种、基因组测序以及系统进化等研究中的应用。并对异源四倍体棉花中SNP标记开发时,同源序列位点和部分同源序列位点上的SNP标记辨别问题进行了系统探讨,对其快捷的开发、检测方式和在数量基因定位中的应用前景进行了展望。  相似文献   

Emerging issues in genomic selection     

Ignacy Misztal  Ignacio Aguilar  Daniela Lourenco  Li Ma  Juan Pedro Steibel  Miguel Toro 《Journal of animal science》2021,99(6)

Genomic selection (GS) is now practiced successfully across many species. However, many questions remain, such as long-term effects, estimations of genomic parameters, robustness of genome-wide association study (GWAS) with small and large datasets, and stability of genomic predictions. This study summarizes presentations from the authors at the 2020 American Society of Animal Science (ASAS) symposium. The focus of many studies until now is on linkage disequilibrium between two loci. Ignoring higher-level equilibrium may lead to phantom dominance and epistasis. The Bulmer effect leads to a reduction of the additive variance; however, the selection for increased recombination rate can release anew genetic variance. With genomic information, estimates of genetic parameters may be biased by genomic preselection, but costs of estimation can increase drastically due to the dense form of the genomic information. To make the computation of estimates feasible, genotypes could be retained only for the most important animals, and methods of estimation should use algorithms that can recognize dense blocks in sparse matrices. GWASs using small genomic datasets frequently find many marker-trait associations, whereas studies using much bigger datasets find only a few. Most of the current tools use very simple models for GWAS, possibly causing artifacts. These models are adequate for large datasets where pseudo-phenotypes such as deregressed proofs indirectly account for important effects for traits of interest. Artifacts arising in GWAS with small datasets can be minimized by using data from all animals (whether genotyped or not), realistic models, and methods that account for population structure. Recent developments permit the computation of P-values from genomic best linear unbiased prediction (GBLUP), where models can be arbitrarily complex but restricted to genotyped animals only, and single-step GBLUP that also uses phenotypes from ungenotyped animals. Stability was an important part of nongenomic evaluations, where genetic predictions were stable in the absence of new data even with low prediction accuracies. Unfortunately, genomic evaluations for such animals change because all animals with genotypes are connected. A top-ranked animal can easily drop in the next evaluation, causing a crisis of confidence in genomic evaluations. While correlations between consecutive genomic evaluations are high, outliers can have differences as high as 1 SD. A solution to fluctuating genomic evaluations is to base selection decisions on groups of animals. Although many issues in GS have been solved, many new issues that require additional research continue to surface.  相似文献   

The importance of manual white blood cell differential counts and platelet estimates in elephant hematology: blood film review is essential     

Tatiana C. Weisbrod  Ramiro Isaza  Carolyn Cray  Laurie Adler  Nicole I. Stacy 《The Veterinary quarterly》2021,41(1):30

Unique features of elephant hematology are known challenges in analytical methodology like two types of monocytes typical for members of the Order Afrotheria and platelet counts of the comparatively small elephant platelet. To investigate WBC differential and platelet data generated by an impedance-based hematology analyzer without availability of validated species-specific software for recognition of elephant WBCs and platelets, compared to manual blood film review. Blood samples preserved in ethylenediaminetetraacetic acid (EDTA) of 50 elephants (n = 35 Elephas maximus and n = 15 Loxodonta africana) were used. A Mann-Whitney test for independent samples was used to compare parameters between methods and agreement was tested using Bland-Altman bias plots. All hematological variables, including absolute numbers of heterophils, lymphocytes, monocytes, eosinophils, basophils, and platelets, were significantly different (p < 0.0001) between both methods of analysis, and there was no agreement using Bland-Altman bias plots. Manual review consistently produced higher heterophil and monocyte counts as well as platelet estimates, while the automated analyzer produced higher lymphocyte, eosinophil, and basophil counts. The hematology analyzer did not properly differentiate elephant lymphocytes and monocytes, and did not accurately count elephant platelets. These findings emphasize the importance of manual blood film review as part of elephant complete blood counts in both clinical and research settings and as a basis for the development of hematological reference intervals.  相似文献