Non-specific immunoprecipitation of rotavirus Vp6 protein with Staphylococcus aureus

The specificity of Staphylococcus aureus and protein A-Sepharose (PA-S) were compared in the radioimmunoprecipitation assay for the characterization of monoclonal antibodies (mAbs) against rotavirus proteins. Five mAbs directed against bovine rotavirus Q17 proteins Vp6 and Vp7 and one mAb directed against human rotavirus protein Vp4 were used in this study. mAbs directed against other viruses, NS-1 culture supernatant and ascitic fluid, were used as control reagents. A non-specific immunoprecipitation of the viral protein Vp6 was always found with S. aureus, but not with PA-S. mAb 74 reacted with rotavirus antigens in ELISA and in indirect immunofluorescence assay but did not immunoprecipitate a viral protein with PA-S. This mAb immunoprecipitated the viral protein Vp6 when S. aureus reagent was used. This false positive reaction was always present and could lead to confusing results in the analysis and characterization of mAbs against rotavirus.     

表达轮状病毒SA11株Vp4的抗原表位诱导病毒中和抗体生成

以昆虫病毒Flockhousevirus（FHV）外壳蛋白为载体的外源抗原表位表达系统（FHV-RNA2载体系统）．在重组杆状病毒和重组pET系统中构建和表达了SA11Vp4胰酶切割位点两侧和重叠切割位点3个抗原表位氨基酸序列（抗原表位A,aa223~242;抗原表位B,aa243～262;抗原表位C,aa234～251）,并对其免疫原性进行了研究。结果表明：这3个抗原表位能诱导动物产生抗同源氨基酸序列的抗体和抗同源病毒（SA11）感染性的血清中和抗体。研究结果提示：RVVp4胰酶切割位点区氨基酸序列除了具有胰酶切割增强病毒感染力外,还具有诱导动物机体产生血清中和抗体的能力,是RV重组抗原表位亚单位疫苗研究中重要的抗原表位氨基酸序列。     

Essential role of the Vp2 and Vp3 DNA-binding domain in simian virus 40 morphogenesis.

Both a DNA-binding domain and a Vp1 interactive determinant have been mapped to the carboxy-terminal 40 residues of the simian virus 40 (SV40) minor capsid proteins, Vp2 and Vp3 (Vp2/3), with the last 13 residues being necessary for these activities. The role of this DNA-binding domain in SV40 morphogenesis and the ability to separate these two signals were investigated by mutagenesis and assessment of the activity and viability of the mutants. The carboxy-terminal 40 residues of Vp2/3 were expressed as a polyhistidine fusion protein, and five basic residues at the extreme carboxy terminus (Vp3 residues K226, R227, R228, R230, and R233) were mutagenized. The wild-type fusion protein bound DNA with a Kd of 3 x 10(-8) identical to that of the full-length Vp3. Mutant proteins containing either one to three or four amino acid substitutions bound DNA 4- to 7-fold or 20- to 30-fold less well, respectively, than the wild-type protein did. The most severe point mutants showed residual DNA binding similar to that of a truncated protein which lacks the entire 13 carboxy-terminal residues. All of the point mutants were able to interact with Vp1, indicating that the two signals within this region are mediated by different residues. When the mutations were placed into the context of the viral DNA and introduced into cells, all the structural proteins were expressed and localized correctly. Not all, however, were viable: mutant genomes whose Vp2/3 bound DNA with intermediate affinities formed plaques just as well as wild-type SV40 DNA did, but three mutants showing greatly reduced DNA binding failed to form plaques at all. These results are consistent with the hypothesis that Vp2/3 plays an essential role in SV40 virion assembly in the nucleus.     

猪A组轮状病毒Vp6基因与乳酸菌非抗性表达载体的重组及在大肠杆菌中的表达

以猪A组轮状病毒mRNA为模板,应用反转录聚合酶链式反应(RT-PCR)技术,扩增了1194bp的Vp6基因,通过T-A克隆技术,将PCR产物克隆至克隆载体pGEM-TVector中,构建克隆质粒pGEM-T-Vp6。用SacⅠ和KpnⅠ双酶切pGEM-T-Vp6和以胸苷酸合成酶基因(thymidylate synthase,thyA)为选择压力的非抗生素抗性的穿梭表达载体pW425t,并将纯化的Vp6基因亚克隆至表达载体pW425t中,构建出可以在乳酸菌与大肠杆菌之间穿梭表达的原核表达重组质粒pW425t-Vp6。将pW425t-Vp6转化至thyA基因缺陷型的大肠杆菌感受态E.coliX13中,经生长功能弥补筛选阳性克隆,通过SDS-PAGE分析,可见约44.88kD的融合蛋白。由Western blot分析,表明该蛋白具有与轮状病毒多克隆抗体的反应原性,从而为pW425t-Vp6在乳酸菌受体菌株中表达提供理论基础和实验依据。     

Surface-exposed adeno-associated virus Vp1-NLS capsid fusion protein rescues infectivity of noninfectious wild-type Vp2/Vp3 and Vp3-only capsids but not that of fivefold pore mutant virions

Over the past 2 decades, significant effort has been dedicated to the development of adeno-associated virus (AAV) as a vector for human gene therapy. However, understanding of the virus with respect to the functional domains of the capsid remains incomplete. In this study, the goal was to further examine the role of the unique Vp1 N terminus, the N terminus plus the recently identified nuclear localization signal (NLS) (J. C. Grieger, S. Snowdy, and R. J. Samulski, J. Virol 80:5199-5210, 2006), and the virion pore at the fivefold axis in infection. We generated two Vp1 fusion proteins (Vp1 and Vp1NLS) linked to the 8-kDa chemokine domain of rat fractalkine (FKN) for the purpose of surface exposure upon assembly of the virion, as previously described (K. H. Warrington, Jr., O. S. Gorbatyuk, J. K. Harrison, S. R. Opie, S. Zolotukhin, and N. Muzyczka, J. Virol 78:6595-6609, 2004). The unique Vp1 N termini were found to be exposed on the surfaces of these capsids and maintained their phospholipase A2 (PLA2) activity, as determined by native dot blot Western and PLA2 assays, respectively. Incorporation of the fusions into AAV type 2 capsids lacking a wild-type Vp1, i.e., Vp2/Vp3 and Vp3 capsid only, increased infectivity by 3- to 5-fold (Vp1FKN) and 10- to 100-fold (Vp1NLSFKN), respectively. However, the surface-exposed fusions did not restore infectivity to AAV virions containing mutations at a conserved leucine (Leu336Ala, Leu336Cys, or Leu336Trp) located at the base of the fivefold pore. EM analyses suggest that Leu336 may play a role in global structural changes to the virion directly impacting downstream conformational changes essential for infectivity and not only have local effects within the pore, as previously suggested.     

Relationships between magmatism and lithosphere-asthenosphere structure in the Western Mediterranean and implications for geodynamics

Shear-wave (V _S ) tomography along transects across the Western-Central Mediterranean area reveals heterogeneous lateral and vertical physical characteristics in the lithosphere-asthenosphere system (LAS). A 50 km thick low velocity layer (LVL), with V _S ∼ 4.0–4.2 km/sec, typical of low rigidity fluid-bearing mantle material, is observed at a depth of about 70–120 km from offshore Provence, to Sardinia and the Central Tyrrhenian Sea. This LVL, enclosed between higher velocity mantle rocks, rises to a depth of less than 30 km below the recent and active volcanoes of Central Italy and the Southern Tyrrhenian Sea, where a maximum in the heath flow is observed. The LVL is absent beneath Southeastern France and the northern border of the African foreland. In the Balearic Sea-Sardinia-Central Tyrrhenian section, the depth of LVL corresponds to pressure conditions of minimum temperature of peridotite+CO₂+H₂O solidus, consistent with conditions where fluid loss from the slab and mantle flow over the subducting plate favor significant melt generation above steep, west-dipping subduction zones. It is suggested that LVL in the Balearic-Tyrrhenian domains is the result of mantle contamination and melting left behind by the eastward retreating Adriatic-Ionian subducting plates from Oligo-Miocene to present. This layer also marks a discontinuity between the lithospere and underlying mantle behind the subduction zone, favoring detachment and westward drift of the lithosphere, and consequent opening of backarc basins. These data support the hypothesis that the orogenic Oligocene to Quaternary volcanism in the Western Mediterranean area is the effect of shallow mantle processes, and argue against the presence of deep mantle plumes. A shallow-mantle origin is also suggested for the EM1-type Plio-Quaternary anorogenic magmatism in Sardinia and for the FOZO-DMM-type magmatism on the northern margin of the African foreland.      

Identification of amino acid residues within simian virus 40 capsid proteins Vp1, Vp2, and Vp3 that are required for their interaction and for viral infection

Interaction of simian virus 40 (SV40) major capsid protein Vp1 with the minor capsid proteins Vp2 and Vp3 is an integral aspect of the SV40 architecture. Two Vp3 sequence elements mediate Vp1 pentamer binding in vitro, Vp3 residues 155 to 190, or D1, and Vp3 residues 222 to 234, or D2. Of the two, D1 but not D2 was necessary and sufficient to direct the interaction with Vp1 in vivo. Rational mutagenesis of Vp3 residues (Phe157, Ile158, Pro164, Gly165, Gly166, Leu177, and Leu181) or Vp1 residues (Val243 and Leu245), based on a structural model of the SV40 Vp1 pentamer complexed with Vp3 D1, was carried out to disrupt the interaction between Vp1 and Vp3 and to study the consequences of these mutations for viral viability. Altering these residues to bulky, charged residues blocked the interaction in vitro. When these alterations were introduced into the viral genome, they reduced viral viability. Mutants with alterations in Vp1 Val243, Leu245, or both to glutamate were nearly nonviable, whereas those with Vp3 alterations reduced, but did not eliminate, viability. Our results defined the residues of Vp1 and the minor capsid proteins that are essential for both the interaction of the capsid proteins and viral viability in permissive cells.     

Variable Rate Application of Nematicides on Cotton Fields: A Promising Site-Specific Management Strategy

Field tests were conducted to determine if differences in response to nematicide application (i.e., root-knot nematode (RKN) populations, cotton yield, and profitability) occurred among RKN management zones (MZ). The MZ were delineated using fuzzy clustering of five terrain (TR) and edaphic (ED) field features related to soil texture: apparent soil electrical conductivity shallow (EC_a-shallow) and deep (EC_a-deep), elevation (EL), slope (SL), and changes in bare soil reflectance. Zones with lowest mean values of EC_{a- shallow}, EC_{a- deep}, NDVI, and SL were designated as at greater risk for high RKN levels. Nematicide-treated plots (4 rows wide and 30 m long) were established in a randomized complete block design within each zone, but the number of replications in each zone varied from four to six depending on the size of the zone.The nematicides aldicarb (Temik 15 G) and 1,3-dichloropropene (1,3-D,Telone II) were applied at two rates (0.51 and 1.0 kg a.i./ha for aldicarb, and 33.1 and 66.2 kg a.i./ha for 1,3-D) to RKN MZ in commercial fields between 2007 and 2009. A consolidated analysis over the entire season showed that regardless of the zone, there were not differences between aldicarb rates and 1,3-D rates. The result across zones showed that 1,3-D provided better RKN control than did aldicarb in zones with low EC_a values (high RKN risk zones exhibiting more coarse-textured sandy soils). In contrast, in low risk zones with relatively higher EC_a values (heavier textured soil), the effects of 1,3-D and aldicarb were equal and application of any of the treatments provided sufficient control. In low RKN risk zones, a farmer would often have lost money if a high rate of 1,3-D was applied. This study showed that the effect of nematicide type and rate on RKN control and cotton yield varied across management zones (MZ) with the most expensive treatment likely to provide economic benefit only in zones with coarser soil texture. This study demonstrates the value of site specific application of nematicides based on management zones, although this approach might not be economically beneficial in fields with little variability in soil texture.     

Pairs of Vp1 cysteine residues essential for simian virus 40 infection

Transient disulfide bonding occurs during the intracellular folding and pentamerization of simian virus 40 (SV40) major capsid protein Vp1 (P. P. Li, A. Nakanishi, S. W. Clark, and H. Kasamatsu, Proc. Natl. Acad. Sci. USA 99:1353-1358, 2002). We investigated the requirement for Vp1 cysteine pairs during SV40 infection. Our analysis identified three Vp1 double-cysteine mutant combinations that abolished viability as assayed by plaque formation. Mutating the Cys49-Cys87 pair or the Cys87-Cys254 pair led to ineffective nuclear localization and diminished accumulation of the mutant Vp1s, and the defect extended in a dominant-negative manner to the wild-type minor capsid proteins Vp2/3 and an affinity-tagged recombinant Vp1 expressed in the same cells. Mutating the Cys87-Cys207 pair preserved the nuclear localization and normal accumulation of the capsid proteins but diminished the production of virus-like particles. Our results are consistent with a role for Cys49, Cys87, and Cys254 in the folding and cytoplasmic-nuclear trafficking of Vp1 and with a role for Cys87 and Cys207 in the assembly of infectious particles. These findings suggest that transient disulfide bond formation between certain Vp1 cysteine residues functions at two stages of SV40 infection: during Vp1 folding and oligomerization in the cytoplasm and during virion assembly in the nucleus.     

家蚕蛹表达的重组Vp28疫苗对克氏原螯虾免疫反应的影响

将含有对虾白斑综合征病毒囊膜蛋白Vp28基因的重组杆状病毒HyNPV-Vp28感染家蚕(Bombyx mori)蛹,配制成药饵持续口服免疫克氏原螯虾35天后,螯虾血细胞的吞噬百分比和吞噬指数比对照组显著提高(P＜0．05);血清中的抗菌活力、溶菌活力、酚氧化酶活性、超氧化物歧化酶活性以及血清和肝胰腺组织中的酸性磷酸酶、碱性磷酸酶活性均显著提高(P＜0．05)。免疫35天后进行口服攻毒,20天内rVp28疫苗组的累积存活率达66．67%,与对照组和对照蚕蛹组比差异显著(P＜0．05),PRP分别达64．29%和58．33%。rVp28疫苗组存活虾的胃、肠、鳃、甲壳下上皮和肝胰腺等病毒侵染的靶组织进行组织病理检测均无病毒感染,DIG标记核酸探针斑点杂交和PCR检测也呈阴性反应;而试验濒死虾的组织都呈现典型的病变特征,病毒DNA检测均为阳性反应。本研究表明,口服免疫家蚕蛹表达的囊膜蛋白Vp28具有增强螯虾机体免疫功能的作用,对应用免疫措施预防对虾的病毒性疾病具有重要意义。     

Role of simian virus 40 Vp1 cysteines in virion infectivity

We have developed a new nonoverlapping infectious viral genome (NO-SV40) in order to facilitate structure-based analysis of the simian virus 40 (SV40) life cycle. We first tested the role of cysteine residues in the formation of infectious virions by individually mutating the seven cysteines in the major capsid protein, Vp1. All seven cysteine mutants-C9A, C49A, C87A, C104A, C207S, C254A, and C267L-retained viability. In the crystal structure of SV40, disulfide bridges are formed between certain Cys104 residues on neighboring pentamers. However, our results show that none of these disulfide bonds are required for virion infectivity in culture. We also introduced five different mutations into Cys254, the most strictly conserved cysteine across the polyomavirus family. We found that C254L, C254S, C254G, C254Q, and C254R mutants all showed greatly reduced (around 100,000-fold) plaque-forming ability. These mutants had no apparent defect in viral DNA replication. Mutant Vp1's, as well as wild-type Vp2/3, were mostly localized in the nucleus. Further analysis of the C254L mutant revealed that the mutant Vp1 was able to form pentamers in vitro. DNase I-resistant virion-like particles were present in NO-SV40-C254L-transfected cell lysate, but at about 1/18 the amount in wild-type-transfected lysate. An examination of the three-dimensional structure reveals that Cys254 is buried near the surface of Vp1, so that it cannot form disulfide bonds, and is not involved in intrapentamer interactions, consistent with the normal pentamer formation by the C254L mutant. It is, however, located at a critical junction between three pentamers, on a conserved loop (G2H) that packs against the dual interpentamer Ca(2+)-binding sites and the invading C-terminal helix of an adjacent pentamer. The substitution by the larger side chains is predicted to cause a localized shift in the G2H loop, which may disrupt Ca(2+) ion coordination and the packing of the invading helix, consistent with the defect in virion assembly. Our experimental system thus allows dissection of structure-function relationships during the distinct steps of the SV40 life cycle.     

Expression and Immunoreactivity of a Human Group A Rotavirus Vp4

Rotavirus capsid protein Vp4 plays an important role in the virus adhering and entering the cells. In this study, a Vp4 gene cloned from a rotavirus strain TB-Chen was highly expressed in E.coli BL21 (DE3). The results of the Western blot showed that the protein possesses specific immuno-reactivities and can be specifically recognized by guinea pig antibodies against rotavirus strain SA11 or Wa. Some Vp4 dimers were formed during renaturation. These data obtained from this study provide a strong basis for further study on the structure and function of the Vp4.     

Some Seismic Profiles near the Western End of the Puerto Rico Trench

A cooperative program of seismic refraction profiling was completed in the vicinity of the Puerto Rico Trench by Hudson Laboratories, Woods Hole, Lamont, and Texas A. & M. Profiles completed near the western end of the Trench were analyzed at Hudson Laboratories. Five seismic layers are indicated below the water layer. The thickness/velocity relationships are as follows: 5.1 km of 1.5 km/sec. (water); 1 km of 1.7 km/sec. (sediment); 1.5 km of 3 km/sec. (metamorphics?); 2 km of 5.5 km/sec. (basement); and 2 km of 7.1 km/sec. (high speed basement). Below these, typical Moho velocities of 8.1 km/sec. were measured. Total depth to Moho ranges from 9 to 12 km below sea level, the greatest variation occurring in the basement layers. The least depth was measured 65 miles north of the Puerto Rico Trench.     

Expression and immunoreactivity of a human group a rotavirus Vp4

Rotavirus capsid protein Vp4 plays an important role in the virus adhering and entering the cells. In this study, a Vp4 gene cloned from a rotavirus strain TB-Chen was highly expressed in E. coli BL21 (DE3). The results of the Western blot showed that the protein possesses specific immuno-reactivities and can be specifically recognized by guinea pig antibodies against rotavirus strain SA11 or Wa. Some Vp4 dimers were formed during renaturation. These data obtained from this study provide a strong basis for further study on the structure and function of the Vp4.      

Pore-Scale Modeling of Pore Structure Effects on P-Wave Scattering Attenuation in Dry Rocks

Underground rocks usually have complex pore system with a variety of pore types and a wide range of pore size. The effects of pore structure on elastic wave attenuation cannot be neglected. We investigated the pore structure effects on P-wave scattering attenuation in dry rocks by pore-scale modeling based on the wave theory and the similarity principle. Our modeling results indicate that pore size, pore shape (such as aspect ratio), and pore density are important factors influencing P-wave scattering attenuation in porous rocks, and can explain the variation of scattering attenuation at the same porosity. From the perspective of scattering attenuation, porous rocks can safely suit to the long wavelength assumption when the ratio of wavelength to pore size is larger than 15. Under the long wavelength condition, the scattering attenuation coefficient increases as a power function as the pore density increases, and it increases exponentially with the increase in aspect ratio. For a certain porosity, rocks with smaller aspect ratio and/or larger pore size have stronger scattering attenuation. When the pore aspect ratio is larger than 0.5, the variation of scattering attenuation at the same porosity is dominantly caused by pore size and almost independent of the pore aspect ratio. These results lay a foundation for pore structure inversion from elastic wave responses in porous rocks.     

Interaction of the Vp3 nuclear localization signal with the importin alpha 2/beta heterodimer directs nuclear entry of infecting simian virus 40

For nuclear entry of large nucleoprotein complexes, it is thought that one key nuclear localization signal (NLS) of a protein component becomes exposed to mediate importin recognition. We show that the nuclear entry of simian virus 40 involves a dynamic interplay between two distinct interiorly situated capsid NLSs, the Vp1 NLS and the Vp3 NLS, and the selective exposure and importin recognition of the Vp3 NLS. The Vp3 NLS-null mutants assembled normally into virion-like particles (VLP) in mutant DNA-transfected cells. When used to infect a new host, the null VLP entered the cell normally but was impaired in viral DNA nuclear entry due to a lack of recognition by the importin alpha 2/beta heterodimer, leading to reduced viability. Both Vp3 and Vp1 NLSs directed importin interaction in vitro, but the Vp1 NLS, which overlaps the Vp1 DNA binding domain, did not bind importins in the presence of DNA. The results suggest that certain canonical NLSs within a nucleoprotein complex, such as the Vp1 NLS, can be masked from functioning by binding to the nucleic acid component and that the availability of an NLS that is not masked and can become exposed for importin binding, such as the Vp3 NLS, is a general feature of the nuclear entry of the nucleoprotein complexes, including those of other animal viruses.     

Cysteine Residues in the Major Capsid Protein,Vp1, of the JC Virus Are Important for Protein Stability and Oligomer Formation

The capsid of the human polyomavirus JC virus (JCV) consists of 72 pentameric capsomeres of a major structural protein, Vp1. The cysteine residues of the related Vp1 of SV40 are known to contribute to Vp1 folding, pentamer formation, pentamer-pentamer contacts, and capsid stabilization. In light of the presence of a slight structural difference between JCV Vp1 and SV40 counterpart, the way the former folds could be either different from or similar to the latter. We found a difference: an important contribution of Vp1 cysteines to the formation of infectious virions, unique in JCV and absent in SV40. Having introduced amino acid substitution at each of six cysteines (C42, C80, C97, C200, C247, and C260) in JCV Vp1, we found that, when expressed in HeLa cells, the Vp1 level was decreased in C80A and C247A mutants, and remained normal in the other mutants. Additionally, the C80A and C247A Vp1-expressing cell extracts did not show the hemagglutination activity characteristic of JCV particles. The C80A and C247A mutant Vp1s were found to be less stable than the wild-type Vp1 in HeLa cells. When produced in a reconstituted in vitro protein translation system, these two mutant proteins were stable, suggesting that some cellular factors were responsible for their degradation. As determined by their sucrose gradient sedimentation profiles, in vitro translated C247A Vp1 formed pentamers, but in vitro translated C80A Vp1 was entirely monomeric. When individually incorporated into the JCV genome, the C80A and C247A mutants, but not the other Vp1 cysteine residues mutants, interfered with JCV infectivity. Furthermore, the C80A, but not the C247A, mutation prevented the nuclear localization of Vp1 in JCV genome transfected cells. These findings suggest that C80 of JCV Vp1 is required for Vp1 stability and pentamer formation, and C247 is involved in capsid assembly in the nucleus.     

Integrated steady state rate equations and the determination of individual rate constants.

Integrated steady state rate equations have been used to determine the kinetic constants (Vs, Ks, Vp, and Kp) and rate constants (k1, k2, k3, and k4) of the reversible enzyme mechanism: (see article). The fumarase reaction has been used as a model to illustrate the procedures for determining these constants. In contrast to initial velocity studies, the values of the constants have been obtained by examining the enzyme reaction in only one direction rather than in both forward and reverse directions. To accomplish this, a new procedure is described for fitting data to integrated rate equations which eliminates problems encountered when data are analyzed graphically. The advantages of examining on enzyme reaction in one direction with these new procedures allow this method to be extended to the examination of enzymes with simple mechanisms where initial velocities are difficult to measure because either the substrate or product is not readily available, or because the reaction is not readily reversible.