采用SMART(switching metchanism at 5’end of RNA transcript)技术构建缢蛏cDNA基因文库。并对cDNA文库的滴度,重组率和插入片段的大小进行了检测。结果表明,该cDNA文库的滴度为5.50×104cfu/ml,重组率为92.5%,插入片段的长度大多...采用SMART(switching metchanism at 5’end of RNA transcript)技术构建缢蛏cDNA基因文库。并对cDNA文库的滴度,重组率和插入片段的大小进行了检测。结果表明,该cDNA文库的滴度为5.50×104cfu/ml,重组率为92.5%,插入片段的长度大多在1kb以上。对478个克隆子进行了测序,共得到430个有效序列,其中166个序列无同源性,264条序列具有同源性。从中得到肌动蛋白(actin)cDNA的全长1538bp,开放阅读框(ORF)为1131bp,编码376个氨基酸,其预测蛋白的分子量为41.78kD,等电点为5.30。该氨基酸序列与其它物种的同源性大都在90%以上。展开更多
Sinonovacula constricta is one of the important economic aquaculture species in China. In this study, we constructed genetic linkage maps of S. constricta based on 300 microsatellite markers derived from RAD-seq using...Sinonovacula constricta is one of the important economic aquaculture species in China. In this study, we constructed genetic linkage maps of S. constricta based on 300 microsatellite markers derived from RAD-seq using an F1 full-sib family. The female map contained 204 microsatellites assigned to 22 linkage groups, which covered 1529.5 cM with an average interval of 10.3 cM. The male consisted of 187 microsatellites in 19 linkage groups corresponding to the haploid chromosome number(n(28)19), which spanned 1429.3 cM with an average interval of 8.7 cM. The genome coverage was approximately 83.5% and 81.4%, respectively. An integrated map was constructed according to the common markers in parental linkage groups, which had a total length of 1683.8 cM with an average interval of 7.3 cM. The genome coverage of the integrated map was approximately 86.3%. The genetic linkage map would form the foundation for further studies on the quantitative trait loci(QTL), as well as accelerating the breeding process of this species.展开更多
Aromatic hydrocarbons,one of the persistent organic pollutants（POPs）,has been usually found in mussels,accumulated for their hard mobility and activities in harbours and estuaries.In this study,based on the 96 hr-LC...Aromatic hydrocarbons,one of the persistent organic pollutants（POPs）,has been usually found in mussels,accumulated for their hard mobility and activities in harbours and estuaries.In this study,based on the 96 hr-LC50 of 12 aromatic hydrocarbons with larval sinonvaculina constricta,three-dimensional quantitative structure-activity relationship（3D-QSAR） technique：comparative molecular similarity indices analysis（CoMSIA） and 2D-QSAR technique：multiple linear regression（MLR） were described to obtain more detailed insight into the structure-activity relationships between the molecular structure and bio-activity.The results show the MLR model based on density functional theory（DFT） calculation carried out at the B3LYP/6-311＊＊ level with Gaussian 03 program yielded a very good correlation with a coefficient squared R2 of 0.716 and a cross-validated Q2 of 0.874.The dipole moment and enthalpy,as the thermodynamic parameters,were two important factors influencing pLC50.Correspondingly,CoMSIA based on the partial least-squares（PLS） methodology with steric,electrostatic,hydrophobic,H-bond donor and acceptor fields contributing simultaneously were employed and the values of R2 and the cross validation with leave-One-Out（LOO） Q2LOO were 0.585 and 0.990,respectively,which reveals the structure features,such as the electronegative substituent（nitro-group）,hydrophobic groups（the benzene ring） and H-bond（nitro-group）,related to the toxicity.The results of 2D-QSAR employing MLR model and 3D-QSAR employing CoMSIA model provide the useful information for predicting the toxicity of other aromatic hydrocarbons by comparing the molecular structures of similar compounds.展开更多
文摘采用SMART(switching metchanism at 5’end of RNA transcript)技术构建缢蛏cDNA基因文库。并对cDNA文库的滴度,重组率和插入片段的大小进行了检测。结果表明,该cDNA文库的滴度为5.50×104cfu/ml,重组率为92.5%,插入片段的长度大多在1kb以上。对478个克隆子进行了测序,共得到430个有效序列,其中166个序列无同源性,264条序列具有同源性。从中得到肌动蛋白(actin)cDNA的全长1538bp,开放阅读框(ORF)为1131bp,编码376个氨基酸,其预测蛋白的分子量为41.78kD,等电点为5.30。该氨基酸序列与其它物种的同源性大都在90%以上。
基金supported by the grants from the Natural Science Foundation of Shandong Province(No.ZR2012 CM037)the Shandong Provincial Agriculture Thorough-bred Projectthe Innovation Project of Guangxi Graduate Education(No.YCBZ2015007)
文摘Sinonovacula constricta is one of the important economic aquaculture species in China. In this study, we constructed genetic linkage maps of S. constricta based on 300 microsatellite markers derived from RAD-seq using an F1 full-sib family. The female map contained 204 microsatellites assigned to 22 linkage groups, which covered 1529.5 cM with an average interval of 10.3 cM. The male consisted of 187 microsatellites in 19 linkage groups corresponding to the haploid chromosome number(n(28)19), which spanned 1429.3 cM with an average interval of 8.7 cM. The genome coverage was approximately 83.5% and 81.4%, respectively. An integrated map was constructed according to the common markers in parental linkage groups, which had a total length of 1683.8 cM with an average interval of 7.3 cM. The genome coverage of the integrated map was approximately 86.3%. The genetic linkage map would form the foundation for further studies on the quantitative trait loci(QTL), as well as accelerating the breeding process of this species.
基金Supported by the Special Research Fund for the National Non-profit Institutes (East China Sea Fisheries Research Institute) (2008M11, 2007M08)National Natural Science Foundation of China (41001188)National Basic Research Program (973) of China (2010CB429005)
文摘Aromatic hydrocarbons,one of the persistent organic pollutants（POPs）,has been usually found in mussels,accumulated for their hard mobility and activities in harbours and estuaries.In this study,based on the 96 hr-LC50 of 12 aromatic hydrocarbons with larval sinonvaculina constricta,three-dimensional quantitative structure-activity relationship（3D-QSAR） technique：comparative molecular similarity indices analysis（CoMSIA） and 2D-QSAR technique：multiple linear regression（MLR） were described to obtain more detailed insight into the structure-activity relationships between the molecular structure and bio-activity.The results show the MLR model based on density functional theory（DFT） calculation carried out at the B3LYP/6-311＊＊ level with Gaussian 03 program yielded a very good correlation with a coefficient squared R2 of 0.716 and a cross-validated Q2 of 0.874.The dipole moment and enthalpy,as the thermodynamic parameters,were two important factors influencing pLC50.Correspondingly,CoMSIA based on the partial least-squares（PLS） methodology with steric,electrostatic,hydrophobic,H-bond donor and acceptor fields contributing simultaneously were employed and the values of R2 and the cross validation with leave-One-Out（LOO） Q2LOO were 0.585 and 0.990,respectively,which reveals the structure features,such as the electronegative substituent（nitro-group）,hydrophobic groups（the benzene ring） and H-bond（nitro-group）,related to the toxicity.The results of 2D-QSAR employing MLR model and 3D-QSAR employing CoMSIA model provide the useful information for predicting the toxicity of other aromatic hydrocarbons by comparing the molecular structures of similar compounds.
