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1. Major histocompatibility complex II B allele polymorphism and its association with Vibrio anguillarum infection in half-smooth tongue sole | |||
WANG Xubo,LI Chunmei,QI Jie,WANG Zhigang,YU Haiyang | |||
Biology 14 July 2011 | |||
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Abstract:Major histocompatibility complex (MHC) class II B molecules play an important role in the adaptive immune response in fish. Previous study has reported that two highly polymorphic class II B genes, Cyse-DAB and Cyse-DBB exist in half-smooth tongue sole (Cynoglossus semilaevis). In this study, the polymorphism within exon 2 of the class II B genes following bacterial challenge was evaluated. Two hundred individuals were injected intraperitoneally with Vibrio anguillarum. Muscle tissue from the first 20 dead and 20 of the survivors was collected for genotyping. Sixty alleles from the 40 individuals were isolated, of which 32 belonged to Cyse-DAB and 28 belonged to Cyse-DBB. The rate of dN (non-synonymous substitution) was higher than that of dS (synonymous substitution) in the PBRs (peptide binding residues) of both class II B genes. Conversely, the rate of dS was higher than dN in the non-PBRs and the complete exon 2 sequence. Thus, the results suggest that positive selection has occurred in the PBRs and purifying selection in the non-PBRs and exon 2. Thirteen class II B alleles were used to study the association between alleles and resistance to infection. Though not significant, alleles Cyse-DAB*0601, Cyse-DAB*0706, and Cyse-DBB*0101, Cyse-DBB*1301 were only found in surviving individuals and may represent alleles that have resistance against V. anguillarum infection. Alleles Cyse-DAB*0701 and Cyse-DAB*1301 were significantly more prevalent in dead individuals than in surviving ones and may represent alleles that are associated with increased susceptibility to V. anguillarum infection. | |||
TO cite this article:WANG Xubo,LI Chunmei,QI Jie, et al. Major histocompatibility complex II B allele polymorphism and its association with Vibrio anguillarum infection in half-smooth tongue sole[OL].[14 July 2011] http://en.paper.edu.cn/en_releasepaper/content/4435459 |
2. Ontogenic expression pattern and genetic polymorphisms of fatty acid transport protein 4 (FATP4) gene in chinese populations | |||
WANG Yan,ZHU Qing,YANG Ling,YAO Yonggang,LIU Yiping | |||
Biology 25 May 2011 | |||
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Abstract:Mountainous Black-boned chickens were used to test whether the single nucleotide polymorphisms (SNPs) and mRNA expression pattern of FATP4 gene may affect fatness and body composition, thus contribute to carcass traits. Quantitative real-time PCR analysis showed that the FATP4 mRNA had the highest expression in liver tissue compared to other tissues. The FATP4 mRNA levels presented a remarkable developmental change in leg muscle, breast muscle, and liver with increased age. Nine genetic variants were identified in FATP4 gene in all chicken samples and two SNPs (g.5608778C>T and g.5608814G>A in exon 6) were focused on to test as these two variations might be functional according to in silico analysis by the PANTHER. The results suggest that the FATP4 gene might play an important role in controlling chicken carcass traits and the two FATP4 gene SNPs may be useful for marker-assisted selection in chicken breeding program. | |||
TO cite this article:WANG Yan,ZHU Qing,YANG Ling, et al. Ontogenic expression pattern and genetic polymorphisms of fatty acid transport protein 4 (FATP4) gene in chinese populations[OL].[25 May 2011] http://en.paper.edu.cn/en_releasepaper/content/4429621 |
3. Origin and differentiation of a special fragment from Capra hircus agouti gene | |||
Weiwei WU,Xianglong LI,Rongyan ZHOU,Lanhui LI,Huiqin ZHENG | |||
Biology 15 March 2010 | |||
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Abstract:A special fragment, 136 bp fragment previously considered only existed in Capra hircus agouti gene but not in agouti gene of cow, sheep, pig, and horse, was analyzed using BLAST program in NCBI and some powerful molecular biology softwares. The results indicated that the special fragment existed in different regions of the agouti gene of Capra hircus and Ovis aries, but not in the agouti gene of Bos taurus. Meanwhile, it appeared in coding or non-coding regions with forward and reverse sequence in other genes of Ovis aries and Bos taurus. The number of forward sequences was higher than that of reverse ones in Bos taurus, but with similar genetic diversity. While the reverse sequence from Ovis aries had higher genetic diversity than forward ones. The differentiation between Bos taurus and Capra hircus was more obvious than between Bos taurus and Ovis aries, but not within species. The BACR5 (AC150540) from Bos taurus and OEEF2 (EE751186) from Ovis aries could be considered as the farmost ancestral sequences. | |||
TO cite this article:Weiwei WU,Xianglong LI,Rongyan ZHOU, et al. Origin and differentiation of a special fragment from Capra hircus agouti gene[OL].[15 March 2010] http://en.paper.edu.cn/en_releasepaper/content/40689 |
4. Bioinformatics analysis of tyrosinase-related protein 1 gene (TYRP1) from different species | |||
Huiqin Zheng,Xianglong Li,Rongyan Zhou,Lanhui Li,Xiuli Guo,Jingfen Kang,Dongfeng Li | |||
Biology 25 January 2010 | |||
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Abstract:As one member of tyrosinase-related family directly involved in the production of melanin, TYRP1 is involved in not only melanogenesis but also prevention of melanocyte death, stabilizing tyrosinase and helping determine the shape of melanosomes, etc. Multi-species sequence comparisons showed that there were two evolutionally conserved non-coding regions (from -1306 to -733 and from -642 to -515 according to AL138753) upstream of translational initiation sites, representing putative regulatory regions subject to subsequent experimental test. CDS length variation and genetic diversity analysis showed that Felis catus, Homo sapiens and Canis familiaris had more genetic diversities than the other species for TYRP1, especially Felis catus that could be a better choice for studying the TYRP1-associated genetic basis underlying the color diversity. As a 75 kDa type-1 transmembrane glycoprotein, Mature TYRP1 possesses about 17 kDa modifying components, whose function predominantly depends on the existing glycosyl- groups and the Cu components. In addition, the mutated amino acids within species and the highly conserved amino acids among species were listed in our paper. | |||
TO cite this article:Huiqin Zheng,Xianglong Li,Rongyan Zhou, et al. Bioinformatics analysis of tyrosinase-related protein 1 gene (TYRP1) from different species[OL].[25 January 2010] http://en.paper.edu.cn/en_releasepaper/content/39346 |
5. ESTs involved in interaction between genomic and plasmid DNA in E. coli JM109 | |||
Yao Xinling,Ma Yijing,Zhiping Hong,Qin Wu,Aiguang Guo | |||
Biology 14 January 2010 | |||
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Abstract:An essential issue for genome annotation is to identify genes involving in interaction between genomes in the same cell. It is difficult to do so in eukaryotic cells, because each type of genome is required for cell survival. Escherichia coli, however, is a suitable model for the study of specific gene interactions, because E. coli can grow in the presence or absence of a plasmid. In this paper, genes that are expressed in a cell-specific manner were tested using E. coli JM109 with or without plasmid with modified suppression subtractive hybridization, named transcript subtractive hybridization (TSH). Four out of five genes that were specific to the plasmid were detected by the SSH. Meanwhile, 10 expressed sequence tags (ESTs) were identified that may be involved in interaction between the JM109 genome and the plasmid. This technique provides a potential approach for the study of interaction between genomes in prokaryotes. | |||
TO cite this article:Yao Xinling,Ma Yijing,Zhiping Hong, et al. ESTs involved in interaction between genomic and plasmid DNA in E. coli JM109[OL].[14 January 2010] http://en.paper.edu.cn/en_releasepaper/content/38944 |
6. 2,878 horizontally transferred genes in rice genome revealed by BLAST homology and phylogenetic tree | |||
Xingyi Guo,Yu Wang | |||
Biology 12 January 2010 | |||
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Abstract:Horizontal gene transfer (HGT) is considered to have an important role to explore new niche, which has been widely described between different species of prokaryotes. The least well-documented form of large-scale HGT deals with the uptake of DNA from prokaryotes into higher eukaryotes. However, the number of genes introgress into rice genome through HGT is still not investigated. Based on large-scale sequences comparisons and phylogenetic analyses, 2, 878, or 6.7% of total 42, 653 genes were isolated from rice genome. More than 55.7% of the transferred genes were identified as duplication genes based sequence similarity. Of the 2,878 genes, total 1515 genes can be divided into 587 neighbour gene groups (2 to 8 members per group) based on their physical positions, which forms 52.6% of the total transferred genes. Meanwhile, many of the groups can be found their syntenic regions in prokaryotes. Among the HGT genes, genes involved in cellular process and metabolism are over-representation, For example, hydrolase, an important enzymes involved in the degradation of carbohydrates from the plant cell wall. There are more HGT genes involved in response to stress and stimulus of biotic and endogenous than non-HGT genes. A high proportion (6.7%) of horizontal transferred genes was observed in rice genome. The rate is the highest one reported for eukaryotes up to now. Many short syntenic regions of HGT genes between rice and prokaryotes suggest that segmental insertion might be a transfer mechanism for HGT in rice. Gene duplication plays an important role in expanding of the horizontally transferred genes in new territory. HGT genes seem tend to target adaptation to an advantage environment. | |||
TO cite this article:Xingyi Guo,Yu Wang. 2,878 horizontally transferred genes in rice genome revealed by BLAST homology and phylogenetic tree[OL].[12 January 2010] http://en.paper.edu.cn/en_releasepaper/content/38803 |
7. Relationship between trehalose accumulation and freeze tolerance of baker’s yeast | |||
Xiao Dongguang ,Zhang Cuiying ,Lv Ye | |||
Biology 30 October 2009 | |||
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Abstract:Accumulation of trehalose is suggested to be a critical determinant in improving the stress tolerance of the yeast Saccharomyces cerevisiae. To test the influence of trehalose accumulation on response to freeze stress, we constructed all single and double gene disruption mutants of the trehalase genes ATH1, NTH1 and NTH2 and examined the changes of their trehalose accumulations and their freeze tolerance. Under the condition of freeze stress, three mutants, Δnth1, Δnth2Δnth1, and Δath1Δnth1, all of which carry the NTH1 gene disruption, showed increased trehalose accumulation as compared to the parent strain and other mutants. Moreover, compared with the parent strain BY-6, the NTH1 disruption mutants possessed higher cell survival ratios and greater relative leavening abilities. The results indicated that NTH1 gene is important for trehalose degradation under conditions of freeze stress, thus closely correlated with freeze tolerance of baker’s yeast. | |||
TO cite this article:Xiao Dongguang ,Zhang Cuiying ,Lv Ye . Relationship between trehalose accumulation and freeze tolerance of baker’s yeast[OL].[30 October 2009] http://en.paper.edu.cn/en_releasepaper/content/36281 |
8. A selenium-dependent glutathione peroxidase (Se-GPx) and two glutathione S-transferases (GSTs) from Fenneropenaeus chinensis, Chinese shrimp | |||
Qian Ren,Sun Rongrong,Zhao Xiaofan,Jin-Xing Wang | |||
Biology 15 January 2009 | |||
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Abstract:Glutathione S-transferases (GSTs) and glutathione peroxidases (GPx) are essential components of cellular detoxification systems that defend cells against reactive oxygen species (ROS). Two GST genes have recently been cloned from Fenneropenaeus chinensis and BLAST P analysis shows that one GST, designated FcMuGST, is similar to members of MuGST while the other has similarities to ThetaGST (FcThetaGST). A selenium-dependent glutathione peroxidase (Se-GPx) has also been cloned from F. chinensis. The alignment of the deduced GST and GPx amino acid sequences with those from other species showed that the residues essential for enzymatic function of these three proteins are highly conserved. Tissue distribution and response to pathogens for the three genes was investigated by RT-PCR analysis, which showed that the transcript of FcMuGST and FcGPx increased in response to Vibrio anguillarum infection, while FcThetaGST showed little change at the transcript level. GPx activity in gill tissues quickly increased at 6 h after V. anguillarum challenge and maintained at a relatively high level from 6 h to 24 h. Total GST activity in hepatopancreas and intestines of the bacterial challenged shrimp was increased at 6 h, and gradually recovered from 12 and 24 h to the normal level. These three genes were all predicted to play an important role in detoxification defense reactions. FcMuGST primarily scavenges excess ROS produced after bacterial infection, while clearance of endogenous hydrophobic electrophile molecules was mainly dependent on activities of FcThetaGST. | |||
TO cite this article:Qian Ren,Sun Rongrong,Zhao Xiaofan, et al. A selenium-dependent glutathione peroxidase (Se-GPx) and two glutathione S-transferases (GSTs) from Fenneropenaeus chinensis, Chinese shrimp[OL].[15 January 2009] http://en.paper.edu.cn/en_releasepaper/content/27849 |
9. Isolation and expression of a new high molecular weight glutenin subunit gene at the Glu-D-1-2 locus from Aegilops tauschii | |||
Yanzhen Zhang,An Xueli,Li Xiaohui,Chen Shaoming,Wang Ke,Wang Ke,Wang Shunli ,Yueming Yan | |||
Biology 14 January 2009 | |||
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Abstract:Two new y-type HMW-GSs in Ae. tauschii, 1Dy12.1*t and 1Dy12.2t with the mobility order of 1Dy12.2t>1Dy12.1*t>1Dy12.1t>1Dy12, were identified by both SDS-PAGE and MALDI-TOF-MS. Molecular cloning and sequencing showed that the genes encoding subunits 1Dy12.1*t and 1Dy12.2t had identical nucleotide acid sequences with 1,947bp encoding a mature protein of 627 residues. Their deduced molecular weights were 67,347.6Da, satisfactorily corresponding to that of 1Dy12.2t subunit determined by MALDI-TOF-MS (67,015.7Da), but was significantly smaller than that of the the 1Dy12.1*t subunit (68,577.1Da). Both subunits showed high similarities to 1Dy10, suggesting that they could have a positive effect on bread-making quality. Interestingly, the expressed protein of the cloned ORF from accessions TD87 and TD130 in E. coli co-migrated with subunit 1Dy12.2t, but moved slightly faster than 1Dy12.1*t on SDS-PAGE. The expressed protein in transgenic tobacco seeds, however, had the same mobility as the 1Dy12.1*t subunit, as confirmed by both SDS-PAGE and Western blotting. Although direct evidence of phosphoprotein or glycoprotein could not be obtained by specific staining methods, certain types of post-translational modifications (PTMs) of the 1Dy12.1*t subunit could not be excluded. We believe PTMs might be responsible for the molecular weight difference between the subunits 1Dy12.1*t and 1Dy12.2t. | |||
TO cite this article:Yanzhen Zhang,An Xueli,Li Xiaohui, et al. Isolation and expression of a new high molecular weight glutenin subunit gene at the Glu-D-1-2 locus from Aegilops tauschii[OL].[14 January 2009] http://en.paper.edu.cn/en_releasepaper/content/27797 |
10. Observation of Diploid Selection Phenomena In Vitro Culture of the Cytochimeral Explants of Pelargonium zonale | |||
Li Mingyin | |||
Biology 21 April 2008 | |||
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Abstract:Different explants from the cytochimeral clone `Weißer Liebling` with diploid-haploid -haploid and clone `Kleiner Liebling` 5/74/2 with polyploid-haploid-haploid of Pelargonium zonale were used first time to investigate regenerated ability of different ploidy cells In vitro on the same medium in the same conditions. Regenerated plants contained diploids, tetraploids and mixoploidy. 44.5% from clone `Weißer Liebling` and 68.0% of regenerates from explants of clone `Kleiner Liebling` 5/74/2 were plants with diploid chromosome number. The results showed that diploids had an advantage by competition between the different ploidy cells during shoot development, i.e. diploid Selection Phenomena. Diploid shoots were possibly produced not only from the double of the haploid origin, but also from the somatic reduction of the polyploid origin | |||
TO cite this article:Li Mingyin. Observation of Diploid Selection Phenomena In Vitro Culture of the Cytochimeral Explants of Pelargonium zonale[OL].[21 April 2008] http://en.paper.edu.cn/en_releasepaper/content/20724 |
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