Multimarker and rare variants genomewide association studies for bone weight in Simmental cattle          下载免费PDF全文

J. Miao  X. Wang  J. Bao  S. Jin  T. Chang  J. Xia  L. Yang  B. Zhu  L. Xu  L. Zhang  X. Gao  Y. Chen  J. Li  H. Gao 《Zeitschrift für Tierzüchtung und Züchtungsbiologie》2018,135(3):159-169

Bone weight, defined as the total weight of the bones in all the forequarter and hindquarter joints, can reflect somebody conformation traits and skeletal diseases. To gain a better understanding of the genetic determinants of bone weight, we used a composite strategy including multimarker and rare‐marker association to perform genomewide association studies (GWAS) for that character in Simmental cattle. Our strategy consisted of three models: (i) A traditional linear mixed model (LMM) was applied (Q+K‐LMM); (ii) single nucleotide polymorphisms (SNPs) with p‐values less than .05 from the LMM were selected to undergo the least absolute shrinkage and selector operator (Lasso) in the second stage (LMM‐Lasso); (iii) genes containing two or more rare SNPs were examined by performing the sequence kernel association test (gene‐based SKAT). A total of 1,225 cattle were genotyped with an Illumina BovineHD BeadChip containing 770,000 SNPs. After the quality‐control procedures, 1,217 individuals with 608,696 common SNPs and 105,787 rare SNPs (with 0.001 < minor allele frequency [MAF] <0.05) remained in the sample for analysis. A traditional LMM successfully mapped three genes associated with bone weight, while LMM‐Lasso identified nine genes, which included all genes found by traditional LMM. Only a single gene, EPHB3, surpassed the significance threshold after Bonferroni correction in gene‐based SKAT. In conclusion, based on functional annotation and results from previous endeavours, we believe that LCORL, RIMS2, LAP3, PRKAR2B, CHSY1, MAP2K6 and EPHB3 are candidate genes for bone weight. In general, such a comprehensive strategy for GWAS may be useful for researchers seeking to probe the full genetic architecture underlying economic traits in livestock.  相似文献   

芒属植物叶绿体InDel标记的开发与应用     

薛宏  易自力  肖亮  丁力  彭思佳  蒋建雄 《现代农业科技》2015,(7)

研究利用芒属植物(芒02381和荻04005)叶绿体全基因组测序的结果,开发12对InDel标记。采用正交设计法优化cpInDelPCR体系,得到模板DNA、dNTPs、Mg2+、引物、TaqDNA聚合酶5个关键因素在体系中的最佳组合。12对InDel标记对43份芒属和2份甘蔗材料进行扩增,共扩增出538条条带,其中3对引物扩增出13条多态性条带,占总数的2.4%。将所有位点读带转化为数值矩阵并用UPGMA法聚类,在遗传相似系数1.4的水平上,和南荻聚为一类,而芒和与五节芒、双药芒、红山茅、尼泊尔芒、甘蔗聚为一类,4个具有杂交种特征的材料单独聚为一类。试验开发的芒属植物cpInDel标记可用于芒与荻的区分,指导芒属植物的杂交育种。  相似文献   

Development New Molecular Markers for Quantitative Trait Locus (QTL) Analysis of the Seed Protein Content Based on Whole Genome Re-Sequencing in Soybean     

WANG Jia  ZENG ZhaoQiong  LIANG JianQiu  YU XiaoBo  WU HaiYing  ZHANG MingRong 《中国农业科学》2019,52(16):2743-2757

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Effects of Jiedu-Qingfei mixture on NF-κB and p38 MAPK pathways in lung tissues of rats with Mycoplasma pneumoniae infection     

YAN Chun-xia  HE Guo-chan  WEN Ren-qing  ZHANG Yan-fang 《园艺学报》2019,35(5):926-932

AIM: To observe the therapeutic effect of Jiedu-Qingfei mixture on Mycoplasma pneumoniae (MP)-infected rat lung tissues and to explore its mechanism. METHODS: SD rats (n=40) were randomly divided into 4 groups:blank control group, model group, Jiedu-Qingfei group and positive control group, with 10 rats in each group. The rats in experimental groups were slowly dripped with 1×10⁹ CFU/L MP solution into their nostrils for 4 d. One rat in each group was sacrificed for MP nucleic acid detection at the second day after inoculation, and the other rats were given gavage therapy. The rats in blank control group and model group were intragastrically given the same volume of normal saline, the rats in Jiedu-Qingfei group were given 8 mL/kg Jiedu-Qingfei mixture daily for 4 weeks, and the rats in psoitive control group were given dexmethasone sodium phosphate (0.5 mg·kg^-1·d^-1). After the experiment, the rats were killed. The serum and bronchoalveolar lavage fluid (BALF) were collected for detecting the levels of interleukin-12 (IL-12), IL-13 and TNF-α by ELISA. The right lung tissues were used for pathological observation and HE staining, while the left lung tissues were used to detect the expression of NF-κB p50, I-κBα and p38 mitogen-activated protein kinase (p38 MAPK) at mRNA and protein levels. RESULTS: The results of MP nucleic acid detection showed that all the rats except blank control group were MP nucleic acid positive, indicating that the rat model of MP infection was successfully established. On the 1st day of the treatment, the pathological scores of the lung tissues in model group and Jiedu-Qingfei group were significantly higher than those in blank control group (P<0.05). After treatment, the pathological scores of the lung tissues in mo-del group were significantly higher than those in blank control group and Jiedu-Qingfei group. The levels of IL-12 in the serum and BALF in model group were significantly lower than those in blank control group after MP infection (P<0.05), while those after treatment with Jiedu-Qingfei mixture were significantly higher than those in model group (P<0.05). The levels of IL-13 and TNF-α in the serum and BALF of MP-infected rats were increased significantly, while those after treatment with Jiedu-Qingfei mixture were significantly lower than those in model group (P<0.05). The mRNA expression levels of NF-κB p50 and p38 MAPK in model group were increased significantly (P<0.01). After treatment, the mRNA expression levels of NF-κB p50 and p38 MAPK were decreased significantly compared with model group (P<0.01). The mRNA expression level of I-κBα in model group was significantly lower than that in control group. After treatment, the mRNA expression of I-κBα in Jiedu-Qingfei group was significantly higher than that in model group (P<0.05). The protein levels of NF-κB p50 and p38 MAPK in the lung tissues of model group were significantly higher than those of blank control group. After treatment, the protein expression of NF-κB p50 and p38 MAPK was decreased significantly. The protein level of I-κBα in model group was significantly lower than that in blank control group, and after treatment with Jiedu-Qingfei mixture, the protein expression level of I-κBα was increased significantly (P<0.05). CONCLUSION: Jiedu-Qingfei mixture may attenuate lung tissue inflammation caused by MP through NF-κB and p38 MAPK pathways.  相似文献   

EZH2-mediated regulation of NF-κB target gene expression in gastric cancer     

WU Xue-lei  CAI Yao-wu  ZHUANG Zhi-zhong  CHEN Yuan-jing  GUO Ren-jie  ZHENG Mao-song 《园艺学报》2015,31(12):2169-2175

AIM: To explore the mechanism by which over-expression of enhancer of zeste homolog 2 (EZH2) in a panel of gastric cancer cell lines is involved in tumorigenesis of gastric cancer. METHODS: Real-time PCR and Western blot were employed to examine the mRNA and protein levels of EZH2, respectively. MTS assay, cell migration and soft agar assay were performed to investigate the role of EZH2 in the regulation of stomach cancer behaviors. The effect of EZH2 on NF-κB target gene expression was determined by Luciferase reporter and real-time PCR. Co-immunoprecipitation was used to analyze the interaction of EZH2 and p65 in HEK293T cells. RESULTS: The expression levels of EZH2 were significantly increased in the gastric cancer cells compared with normal gastric epithelial cells. Pharmacological inhibition by DZNep or knockdown of EZH2 significantly compromised AGS and SNU-16 cell activity, cell migration and anchorage-independent cell growth. Moreover, siRNA knockdown of EZH2 impaired NF-κB downstream targets, such as IL-8, CXCL5 and CCL20. In addition, the interaction of EZH2 and p65 was detected. CONCLUSION: EZH2 mediates the growth of gastric cancer cells through the regulation of NF-κB downstream gene expression.  相似文献   

草莓白化相关病毒中国分离物全基因组分析   总被引：1，自引：0，他引：1  

陈道  张洁  吴祖建  丁新伦 《园艺学报》2021,37(1):146-150

草莓白化相关病毒(strawberrypallidosis-associatedvirus,SPa V)属于长线形病毒科(Closteroviridae)毛形病毒属(Crinivirus),可引起草莓病害,2017年在中国首次报道。采用高通量测序、RACE和RT-PCR技术获得了SPa V中国分离物(FJ)的基因组全长。该病毒含有两条正单链基因组RNA1和RNA2。RNA1全长8 048 nt,5′和3′非编码区序列分别为264和197 nt,含有3个开放阅读框(ORF),分别编码ORF 1a/1b融合蛋白和p9蛋白。RNA2全长7 977 nt,5′和3′非编码区序列分别为248和186 nt,含有8个开放阅读框(ORF),分别编码HSP70h、CPh、CP、CPm、p7、p6、p9和p28等8个蛋白。RNA1和RNA2与美国M1分离物分别具有98.5%和99.0%的核苷酸一致性;系统发育分析结果表明,SPa V中国分离物(FJ)单独处在一个分支。对SPa V来源的小RNA的分析表明,来源于SPa V的小RAN长度以21和22 nt为主。  相似文献   

Effects of baicalin on glial fibrillary acidic protein and nuclear factor-κB expression in juvenile rat hippocampus after status convulsion     

ZHOU Zhu-ying  CHEN Xiu-li  LI Guang-qian 《园艺学报》2015,31(8):1510-1515

AIM: To study the effects of baicalin (BC) on glial fibrillary acidic protein (GFAP) and nuclear factor-κB (NF-κB) expression and neuronal apoptosis in juvenile rat hippocampus after status convulsion (SC). METHODS: One hundred and ninety five juvenile male Sprague-Dawley rats were randomly divided into 3 groups: normal saline pretreatment group (NS group), SC group and SC with BC pretreatment group (BC group). Each of these 3 groups would be subdivided into 5 subgroups sacrificed at 4 h, 12 h, 24 h, 48 h and 72 h after SC. The rat SC model was prepared by lithium-pilocarpine chemical method. The protein expression of GFAP and NF-κB was detected by the method of immunohistochemistry. The mRNA expression of GFAP was detected by RT-PCR. The neuronal apoptosis was observed by TdT-mediated dUTP nick end labeling (TUNEL). RESULTS: Compared with NS group, the GFAP positive cells was increased in SC group (P<0.05). Compared with SC group, the expression of GFAP was significantly reduced in BC group (P<0.05). Compared with NS group, the NF-κB positive cells was increased in SC group (P<0.05). Compared with SC group, the expression of NF-κB was significantly reduced in BC group. RT-PCR showed that the expression trend of GFAP mRNA was similar to that of the protein. Compared with NS group, the TUNEL positive cells in the hippocampus CA1 area in SC group increased significantly 12 h after SC (P<0.01), and reached a peak at 48 h. After the intervention with BC, the TUNEL positive cells decreased significantly between 12~48 h after SC (P<0.05 or P<0.01), but the number of TUNEL positive cells remained significantly greater than that in NS group (P<0.05). CONCLUSION: The expression of GFAP and NF-κB in the hippocampus increased after SC in rats. Baicalin decreases the expression of GFAP and NF-κB in hippocampus of rats with pilocarpine-induced seizures, and reduces the number of neuronal apoptosis, suggesting that baicalin may protect against the brain damage caused by status convulsion.  相似文献   

Effect of eleutheroside B/E on proliferation and expression of PPARγ and TGF-β1 in HBZY-1 cells cultured with high glucose     

WU Jian-hua  DU Yin-xiang  HUANG Qiang 《园艺学报》2015,31(3):511-517

AIM: To explore the effects and mechanism of eleutheroside (ETS) B or E on the proliferation of HBZY-1 cells treated with high glucose. METHODS: The HBZY-1 cells were cultured under high glucose condition. The 4th generation of HBZY-1 cells was used for determining the optimal cell density, which was consistent with the growth regulation curve of the cells. The cells were divided into 6 groups: low glucose (LG) group, high glucose (HG) group, high glucose plus ETS-B/E (low dose, medium dose and high dose) groups, and high glucose plus losartan (LTG) group. After all cells were treated with the corresponding drugs at 24 h, 48 h and 72 h, the inhibitory rate of the proliferation was measured, and the expression of TGF-β1 and PPARγ was detected by immunocytochemistry and Western blotting. RESULTS: The best cell density was 2 000 cells/well, which was complied with the basic rules of the cell growth, and high glucose significantly promoted the HBZY-1 cell proliferation. At each time point, the inhibitory effects of ETS-B/E were significantly different between HG group and LTG group on the proliferation of the HBZY-1 cells (P<0.05). The expression of TGF-β1 was significantly inhibited, and the expression of PPARγ was significantly promoted by ETS-B/E (P<0.05). ETS-E showed stronger effect than ETS-B (P<0.05) in a concentration- and time-dependent manner. CONCLUSION: ETS-B/E significantly inhibits the proliferation of HBZY-1 cells under high glucose condition by decreasing TGF-β1 expression and promoting PPARγ expression.  相似文献   

基于EST-SSR和SNP标记的大麦麦芽纯度检测   总被引：3，自引：0，他引：3  

张利莎  董国清  扎桑  卓嘎  王德良  谷方红  袁兴淼  张京  郭刚刚 《作物学报》2015,41(8):1147-1154

大麦麦芽作为啤酒酿造的主要原料之一,其纯度决定了麦芽原料的均一性,进而影响加工工艺和啤酒品质。为高效准确地鉴定麦芽纯度,在啤酒企业进行麦芽原料采购和质量监测时提供参考依据。本研究分别利用EST-SSR和SNP标记定性检测了按比例预混的麦芽样品纯度,并利用SNP标记定量检测了4份送检的麦芽盲样纯度。结果表明,EST-SSR标记能定性检测混杂度高于10%的麦芽样品,而SNP标记能够有效鉴定混杂度低至5%的麦芽样品。SNP标记对纯度定量检测的单次抽样的测定值与真实值之间的误差在3%以内。比较发现,本研究所用的两类分子标记均可用于麦芽样品的纯度检测,但基于KASP技术的SNP标记可以满足麦芽纯度的快速定量检测需要。  相似文献   

福州市周边蛋鸡场禽白血病亚群的血清流行病学检测     

林伯全  徐磊  黄招玲  廖惠珍  林祚贵  杜海江  杨慧 《福建农林大学学报(自然科学版)》2015,44(2)

应用ELISA方法对分别采集自福州市周边30个蛋鸡场的597羽海兰蛋鸡、512羽罗曼蛋鸡、486羽伊莎蛋鸡和553羽特佳蛋鸡共2148羽的血样进行禽白血病病毒(ALV)亚群ALV-A/B和ALV-J抗体检测.结果表明:样品ALV-A/B抗体阳性率由高至低依次为:特佳蛋鸡群11.39%(63/553)、罗曼蛋鸡群11.32%(58/512)、海兰蛋鸡群8.54%(51/597)和伊莎蛋鸡群7.61%(37/486);样品ALV-J抗体阳性率由高至低依次为:特佳蛋鸡群5.24%(29/553)、罗曼蛋鸡群4.10%(21/512)、伊莎蛋鸡群3.51%(13/486)和海兰蛋鸡群3.18%(19/597);而样品ALV-A/B抗体总阳性率为9.73%(209/2148),高于ALV-J抗体总阳性率3.82%(82/2148),其中有0.70%(15/2148)的ALV-A/B和ALV-J抗体双阳性样品;蛋鸡场ALV-A/B抗体阳性率为70.00%(21/30),高于ALV-J抗体阳性率36.7%(11/30),其中有16.7%(5/30)的ALVA/B和ALV-J抗体双阳性样品.结论:福州市周边蛋鸡场不同品系和不同鸡群间存在不同程度的ALV流行,相比ALV-J,ALV-A/B流行更普遍,且存在ALV-A/B和ALV-J抗体双阳性样品,应予重视.  相似文献