Production of live offspring with predicted genotypes using PCR-RFLP analysis of polar bodies from mouse oocytes

Accurate identification of genotypes in gametes and early embryos could facilitate the efficient production of offspring with desirable traits. This study demonstrates the feasibility of producing offspring with predictable genotypes from micromanipulated mouse oocytes. The Polymerase Chain Reaction (PCR) was used to amplify genes in the IA subregion of the major histocompatibility complex of the mouse. The validity of the approach was demonstrated in experiment 1 with IA haplo-types of unfertilized mouse ova amplified via PCR and distinguished by restriction fragment length polymorphism (RFLP) analysis. In experiment 2, fertilized oocytes were micromanipulated to remove the first and second polar bodies, which were then genotyped by validated PCR-RFLP procedures. Primary oocytes of heterozygous females contain two copies of each of the different alleles. Following meiosis I and II, the genotype of the ovum was predicted by subtracting the alleles observed in micromanipulated polar body samples. Sixty-two fertilized ova were micromanipulated and transferred to recipient females resulting in 27 live offspring (44%). The correct maternal contribution to the embryonic genotype was predicted in 19 of 27 (71%) offspring as confirmed by PCR-RFLP analysis of DNA from pup tails. Predicted genotypes of two pups were not confirmed (7%), whereas no prediction could be made in six cases (22%). © 1995 Wiley-Liss, Inc.     

棉蚜种群动态预报模型

对1980-1989年河南棉区棉蚜种群动态分析表明,棉蚜为害可分为苗蚜和伏蚜两个时期,根据环境因子(气温、相对湿度、降雨量)和不同危害期,建立了2个模糊预报模型,并取得了较满意的预测效果。     

Predicting ultimate methane yields of Jatropha curcus and Morus indica from their chemical composition

In this study, all the components of Jatropha curcus and Morus indica were chemically characterized and their biochemical methane potentials (BMP) were determined. From the variables that showed strong influence on the ultimate methane yield (B_o) of J. curcus, a multiple regression Jatropha model was developed. This model comprised of total carbohydrates, protein, lipid, acid-detergent fiber (ADF), cellulose and ash in ADF as independent variables, with r² value of 0.943. The Jatropha model was validated on 7 samples of M. indica parts and wastes from silkworm rearing trays of this study and 13 samples of heterogeneous organic wastes of earlier studies, to judge the prediction quality. It was found that most of the predicted values differed by less than 15% of their experimental B_o.     

Tackling aquatic invasions: risks and opportunities for the aquarium fish industry

The aquarium trade is an important and rapidly growing vector for introduced species in the United States. We examined this vector by surveying pet stores in the San Francisco Bay–Delta region to compile a list of aquarium fish species commonly stocked. We identified which of these species might be able to survive in the Bay–Delta, and investigated store representatives’ knowledge and attitudes about biological invasions. A restrictive analysis using conservative estimates of fish temperature tolerances and environmental conditions found that the local aquarium trade includes 5 fish species that can survive in a temperate system such as the Bay–Delta. Under more inclusive parameters, up to 27 fish species met the criteria for survival in the Bay–Delta. We further explored these results by comparing potential invader incidence between different types of stores. In the more restrictive analysis, three national retail chains stocked significantly more potentially invasive species than independent aquarium stores, but there was no difference in the more inclusive analysis. A significantly higher percentage of fish taxa were easily identifiable and well-labeled in chain stores than in independent stores. Most aquarium store representatives indicated willingness to take action to reduce the threat of trade-related introductions, although chain store employees were more willing to assign responsibility for reducing this threat to the aquarium industry than were independent store employees. Management efforts for this vector should focus on (a) improving labeling and identification of fish species in stores, (b) expanding the often spotty data on fish physiological tolerances, especially for saltwater species, (c) educating customers and store employees about the risks posed by pet release, and (d) providing better options for responsible disposal of unwanted fish. Electronic Supplementary Material   The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Dinucleotides docking to scorpion polypeptide toxins: a molecular modeling method for protein functional site recognition

To understand the principles underlying protein folding, many molecular modeling methods are being developed for predicting functional positions. In this work, fully flexible dinucleotides d(pApA), d(pApC), d(pApG), d(pApT), d(pCpA), d(pCpC), d(pCpG), d(pCpT), d(pGpA), d(pGpC), d(pGpG), d(pGpT), d(pTpA), d(pTpC), d(pTpG), and d(pTpT) were first docked onto the surface of scorpion polypeptide toxins (LqhIT2, PDB ID:2I61) and homology modeled ANEPIII. Automated docking was able to identify sites on scorpion polypeptide toxins where favorable nucleotide interactions can occur, and those sites were in agreement with the mutation data of this protein published recently [I. Karbat, R. Kahn, L. Cohen, N. Ilan, N. Gilles, G. Corzo, O. Froy, M. Gur, G. Albrecht, S.H. Heinemann, D. Gordon, M. Gurevitz, The unique pharmacology of the scorpion alpha-like toxin Lqh3 is associated with its flexible C-tail, Febs J 274 (2007) 1918-1931]. Simulation results suggested that dinucleotides docking is a suitable molecular modeling method that could be developed for protein functional site recognition.     

Predicting spike timing of neocortical pyramidal neurons by simple threshold models

Neurons generate spikes reliably with millisecond precision if driven by a fluctuating current—is it then possible to predict the spike timing knowing the input? We determined parameters of an adapting threshold model using data recorded in vitro from 24 layer 5 pyramidal neurons from rat somatosensory cortex, stimulated intracellularly by a fluctuating current simulating synaptic bombardment in vivo. The model generates output spikes whenever the membrane voltage (a filtered version of the input current) reaches a dynamic threshold. We find that for input currents with large fluctuation amplitude, up to 75% of the spike times can be predicted with a precision of ±2 ms. Some of the intrinsic neuronal unreliability can be accounted for by a noisy threshold mechanism. Our results suggest that, under random current injection into the soma, (i) neuronal behavior in the subthreshold regime can be well approximated by a simple linear filter; and (ii) most of the nonlinearities are captured by a simple threshold process.     

Predicting interacting and interfacial residues using continuous sequence segments

Development of sequence-based methods for predicting putative interfacial residues is an extremely important task in modeling 3D structures of protein–protein complexes. In the present paper we used non-gapped sequence segments to predict both interacting and interfacial residues. We demonstrated that continuous sequence segments do occur at the protein–protein interfaces and showed that continuous interacting interfacial segments (CIIS) of length nine are presented on average, in 37% of the complexes in our dataset. Our results indicate that CIIS consist mostly of interacting strands and/or loops, while the CIIS involving the helixes are scarce. We performed scoring of CIIS using four different scoring mechanisms and found that scores of CIIS differ significantly from the scores calculated for random stretches of residues. We argue that such statistical difference inferred thought the corresponding Z-scores could be used for detecting putative interfacial residue segments without using any structural information. This hypothesis was tested on our dataset and benchmarking resulted to 10–60% prediction accuracy depending on type of benchmarking and scoring scheme used in calculations. Such predictions that do not depend on the availability of the 3D structures of monomers can be quite valuable in modeling 3D structures of obligatory complexes, for which structures of separated monomers do not exist.     

预报微生物学在食品安全风险评估中的作用

随着中国食品工业的发展,食品安全问题日益凸显, 建立一种准确及时的食品安全风险评估是产品市场对食品安全体系提出的挑战。预报微生物学是食品安全风险评估的核心预警技术, 依据建立的预报微生物学模型, 可快速地对食品中的致病菌和腐败菌生长情况进行判断, 对食品中病原微生物和腐败微生物的控制有重要的意义。本文概述了预报微生物学模型的建立和研究现状, 探讨预报微生物学在食品安全风险评估中的应用现状, 概述了预报微生物学模型在食品安全风险评估应用中的发展前景。     

Invasibility of mature and 15-year-old deciduous forests by exotic plants

High species richness, resource availability and disturbance are community characteristics associated with forest invasibility. We categorized commonly measured community variables, including species composition, topography, and landscape features, within both mature and 15-year-old clearcuts in West Virginia, USA. We evaluated the importance of each variable for predicting the degree of forest invasion by early-establishing exotic invasive plants. Biotic variables, including overall richness (excluding exotic invasive species) and mutually exclusive native and exotic non-invasive species richness, were the strongest indicators of invasibility. Sites that were located on northeast-facing slopes, more mesic conditions, or in clearcuts were more likely to be invaded by exotic invasive plants. Invasion of clearcut sites was more dependent on available microsites (e.g., lower solar radiation, northeast-facing slopes, and lower elevations) within each site than on the condition of the surrounding landscape, whereas invasion into the mature forests was dependent more on the surrounding landscape (e.g., proximity to paved roads). Our results indicate that exotic invasive plant species in our study area respond similarly as other plant species to resource availability and that competitive interactions are relatively unimportant. Current invasion into this landscape is more likely to be a passive reaction to site conditions instead of a driver of change.