A transgene-free method for rapid and efficient generation of precisely edited pigs without monoclonal selection

Gene-edited pigs for agricultural and biomedical applications are typically generated using somatic cell nuclear transfer (SCNT). However, SCNT requires the use of monoclonal cells as donors, and the time-consuming and laborious monoclonal selection process limits the production of large populations of gene-edited animals. Here, we developed a rapid and efficient method named RE-DSRNP (reporter RNA enriched dual-sgRNA/CRISPR-Cas9 ribonucleoproteins) for generating gene-edited donor cells. RE-DSRNP takes advantage of the precise and efficient editing features of dual-sgRNA and the high editing efficiency, low off-target effects, transgene-free nature, and low cytotoxic characteristics of reporter RNA enriched RNPs (CRISPR-Cas9 ribonucleoproteins), thus eliminating the need for the selection of monoclonal cells and thereby greatly reducing the generation time of donor cells from 3–4 weeks to 1 week, while also reducing the extent of apoptosis and chromosomal aneuploidy of donor cells. We applied RE-DSRNP to produce cloned pigs bearing a deletion edit of the wild-type p53-induced phosphatase 1 (WIP1) gene: among 32 weaned cloned pigs, 31 (97%) carried WIP1 edits, and 15 (47%) were homozygous for the designed fragment deletion, and no off-target event was detected. The WIP1 knockout (KO) pigs exhibited male reproductive disorders, illustrating the utility of RE-DSRNP for rapidly generating precisely edited animals for functional genomics and disease research. RE-DSRNP’s strong editing performance in a large animal and its marked reduction in the required time for producing SCNT donor cells support its application prospects for rapidly generating populations of transgene-free cloned animals.

     

Novel scales based on hydrophobicity indices for secondary protein structure

This paper is concerned with a branch of computational biology related to protein prediction and analysis of secondary structure of proteins. Although traditional methods use a simple amino acid composition to predict the secondary structure content, hydrophobicity has been recently found to improve the results in this and several related prediction tasks. To this end, we propose and analyze advantages of two new hydrophobicity index-based scales that incorporate information about long-range interactions along the protein sequence and contrast them with currently used raw hydrophobic index values. We also compare three leading hydrophobicity indices, i.e., Eisenberg's, Fauchere-Pliska's, and Cid's, using the proposed scales. The analysis is performed using fuzzy cognitive maps that quantify the strength of relation between the hydrophobicity scales/indices and the protein content values. A set of empirical tests that involve generation of fuzzy cognitive map models for a set of 200 low homology proteins have been performed. The results show that the secondary structure content along the protein sequence is characterized by about 2.5 times stronger relation with the two proposed hydrophobicity scales when compared with the currently used raw index values. The new scales exhibit stronger relation irrespective of the applied hydrobhobicity indices. Analysis of different scales shows superiority of the Eisenberg's hydrophobicity index, when used with the new scales. In contrast, the Fauchere-Pliska's index is found to perform better when compared with the two other indices when using raw hydrophobic index values that disregard the long-range interactions.     

Liquid chromatography-tandem electrospray mass spectrometry method for determination of serial chiral novel anticholinergic compounds of phencynonate in rat plasma

A sensitive and selective liquid chromatographic-tandem mass spectrometric (LC-MS/MS) method was developed for the determination of serial chiral novel anticholinergic compounds of phencynonate in rat plasma. After a simple protein-precipitation using methanol, the post-treatment samples were separated on a CAPCELL UG120 column with a mobile phase of a mixture of methanol and water (35:65) containing 0.1% formic acid. The serial chiral analytes and internal standard (IS) were all detected by the use of selected reaction monitoring mode (SRM). The method of all serial chiral analytes developed was validated in rat plasma with a daily working range of 0.5-100 ng/ml with correlation coefficient, R(2) > or = 0.99 and a sensitivity of 0.5 ng/ml as lower limit of quantification, respectively. This method was fully validated for the accuracy, precision and stability studies for all serial chiral analytes. The method proved to be accurate and specific, and was applied to the pharmacokinetic study of serial chiral novel anticholinergic compounds of phencynonate in rat plasma.     

Ⅱ型肺泡上皮细胞与特发性肺纤维化的关系研究进展

特发性肺纤维化（IPF）是一种严重影响肺通气与换气功能的下呼吸道慢性疾病,其发病机理目前尚不明确,表现为异常的间质炎症和纤维化,以及肺泡结构的破坏。而Ⅱ型肺泡上皮细胞（ATⅡ）作为维持肺结构和功能的关键细胞,在肺部纤维化的发生和发展中极其重要。在IPF中,各种原因所致的ATⅡ的受损和衰老凋亡,可能是纤维化发生的是始动因素。而在这之后,关于临时基质的形成、成纤维细胞的聚集、激活以及间质-上皮转化的过程,异常的ATⅡ也参与其中,并发挥着重要的作用。     

Modelling diapause in mosquito population growth

Journal of Mathematical Biology - Diapause, a period of arrested development caused by adverse environmental conditions, serves as a key survival mechanism for insects and other invertebrate...     

Length–weight relationships of five fish species from the Beijiang River,China

The length–weight relationships (LWRs) were determined for five fish species from the Beijiang River in China. Fishes were caught by gill nets (mesh sizes: 5, 7, 9 cm), and cage nets (mesh sizes: 0.5 cm) from April to September 2018. Length–weight relationships of four species were unknown to FishBase, and new records of maximum lengths are given for two species, one of which, Ancherythroculter lini, is endemic species of the Pearl River. All length–weight relationships were highly significant on a log scale with the coefficient of determination (r²) values ranged from 0.939 to 0.991. Values of b were within the expected range, varied from 2.935 for A. lini to 3.414 for Parasinilabeo assimilis.     

In vitro and in vivo cancer cell apoptosis triggered by competitive binding of Cinchona alkaloids to the RING domain of TRAF6

TRAF6 is highly expressed in many tumors and plays an important role in the immune system. The aim of this study is to confirm anti-tumor activities of all naturally occurring Cinchona alkaloids that have been screened using computational docking program, and to validate the accuracy and specificity of the RING domain of TRAF6 as a potential anti-tumor target, and to explore their effect on the immune system. Results reported herein would demonstrate that Cinchona alkaloids could induce apoptosis in HeLa cells, inhibit the ubiquitination and phosphorylation of both AKT and TAK1, and up-regulate the ratio of Bax/Bcl-2. In addition, these compounds could induce apoptosis in vivo, and increase the secretion of TNF-α, IFN-γ, and IgG, while not significantly impacting the ratio of CD4⁺T/CD8⁺T. These investigations suggest that the RING domain of TRAF6 could serve as a de novo biological target for therapeutic treatment in cancers.     

Calorimetric Study of Nonspecific Interaction Between Lead Ions and Bovine Serum Albumin

The nonspecific interaction between lead ions and bovine serum albumin (BSA) was studied by the calorimetric technique. According to thermodynamic parameters calculated from titration curves, it can be seen that the increase of intermolecular bond energies and decrease of disorder in the system were accompanied by a binding process. This kind of binding is the reaction “driven by enthalpy.” Furthermore, the denatured BSA has more binding sites and more changes in enthalpy and entropy than the native BSA because the unfolded chain of denatured BSA could adapt itself to the binding reaction with lead ions more easily.     

Structural Insights into ceNAP1 Chaperoning Activity toward ceH2A-H2B

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MAGE genes: Prognostic indicators in AL amyloidosis patients

A high frequency of MAGE‐CT (cancer testis) antigens are expressed in Multiple Myeloma (MM) patients; however, in other plasma cell dyscrasias, their potential function remains unclear. We measured the expression of MAGE‐CT genes (MAGE‐C1/CT7, MAGE‐A3, MAGE‐C2/CT10) in 105 newly diagnosed amyloid light‐chain (AL) amyloidosis patients between June 2013 and January 2018 at Peking University People's Hospital using real‐time quantitative polymerase chain reaction. In the newly diagnosed AL patients, the positive expression rates of patients with MAGE‐C1/CT7, MAGE‐C2/CT10 and MAGE‐A3 were 83.8% (88/105), 56.71% (38/67) and 22.0% (13/59) respectively. There was no significant correlation between organ propensity and MAGE‐CT gene expression. Changes in the MAGE‐C1/CT7 levels were consistent with a therapeutic effect. The expression levels of MAGE‐C1/CT7, MAGE‐C2/CT10 and MAGE‐A3 provide potentially effective clinical indicators for auxiliary diagnoses and monitoring treatment efficacy in AL amyloidosis patients.