Tribolium castaneum Transformer-2 regulates sex determination and development in both males and females

Tribolium castaneum Transformer (TcTra) is essential for female sex determination and maintenance through the regulation of sex-specific splicing of doublesex (dsx) pre-mRNA. In females, TcTra also regulates the sex-specific splicing of its own pre-mRNA to ensure continuous production of functional Tra protein. Transformer protein is absent in males and hence dsx pre-mRNA is spliced in a default mode. The mechanisms by which males inhibit the production of functional Tra protein are not known. Here, we report on functional characterization of transformer-2 (tra-2) gene (an ortholog of Drosophila transformer-2) in T. castaneum. RNA interference-mediated knockdown in the expression of gene coding for tra-2 in female pupae or adults resulted in the production of male-specific isoform of dsx and both female and male isoforms of tra suggesting that Tra-2 is essential for the female-specific splicing of tra and dsx pre-mRNAs. Interestingly, knockdown of tra-2 in males did not affect the splicing of dsx but resulted in the production of both female and male isoforms of tra suggesting that Tra-2 suppresses female-specific splicing of tra pre-mRNA in males. This dual regulation of sex-specific splicing of tra pre-mRNA ensures a tight regulation of sex determination and maintenance. These data suggest a critical role for Tra-2 in suppression of female sex determination cascade in males. In addition, RNAi studies showed that Tra-2 is also required for successful embryonic and larval development in both sexes.     

变压器噪声暴露对SD大鼠听力及应激状态的影响研究

目的:探究短时间内低声级强度低频的变压器噪声暴露对SD大鼠听力及应激状态方面的影响。方法:选取90只SPF级健康无听力障碍的(雌雄各半)SD大鼠作为实验对象,随机分为实验A、B组和对照C组,A、B组分别给予声级上限为65 dB SPL、60 dB SPL(频谱范围:100~800 Hz)的变压器噪声,噪声暴露时程为8周,每日噪声给予时间为22点至次日8点,C组在相同条件下饲养,不给予噪声暴露。噪声暴露结束后,通过DPOAE(畸变耳声发射)、ABR(听性脑干反应)检测、耳蜗铺片及毛细胞计数对SD大鼠听力学状况进行评估;通过血清中促肾上腺皮质激素(ACTH)、血清皮质醇(CORT)对SD大鼠的应激状态进行评估。结果:在变压器噪声暴露的8周内,各组大鼠生长状况良好,体重均呈正常生理性增长,组间无明显差异(P0.05);在变压器噪声暴露8周后,对A、B、C三组大鼠的听力学指标进行两两比较,组间均无明显差异(P0.05),对大鼠血清中促肾上腺皮质激素(ACTH)、血清皮质醇(CORT)的含量进行三组间比较,组间差异均无统计学意义(P0.05)。结论:连续暴露于声压级上限65/60 dB SPL,频谱范围为100~800 Hz的变压器噪声下8周(10小时/天)对SD大鼠听力未产生明显影响,未引发SD大鼠应激状态。     

Transformer‐4 version 2.0.1, a free multi‐platform software to quickly reformat genotype matrices of any marker type,and archive them in the Demiurge information system

Transformer‐4 version 2.0.1 (T4) is a multi‐platform freeware programmed in java that can transform a genotype matrix in Excel or XML format into the input formats of one or several of the most commonly used population genetic software, for any possible combination of the populations that the matrix contains. T4 also allows the users to (i) draw allozyme gel interpretations for any number of diploid individuals, and then generate a genotype matrix ready to be used by T4; and (ii) produce basic reports about the data in the matrices. Furthermore, T4 is the only way to optionally submit ‘genetic diversity digests’ for publication in the Demiurge online information system ( http://www.demiurge-project.org ). Each such digest undergoes peer‐review, and it consists of a geo‐referenced data matrix in the tfm4 format plus any ancillary document or hyperlink that the digest authors see fit to include. The complementarity between T4 and Demiurge facilitates a free, safe, permanent, and standardized data archival and analysis system for researchers, and may also be a convenient resource for scientific journals, public administrations, or higher educators. T4 and its converters are freely available (at, respectively, http://www.demiurge-project.org/download_t4 and http://www.demiurge-project.org/converterstore ) upon registration in the Demiurge information system ( http://demiurge-project.org/register ). Users have to click on the link provided on an account validation email, and accept Demiurge's terms of use (see http://www.demiurge-project.org/termsofuse ). A thorough user's guide is available within T4. A 3‐min promotional video about T4 and Demiurge can be seen at http://vimeo.com/29828406 .     

Regulation of RAGE splicing by hnRNP A1 and Tra2β‐1 and its potential role in AD pathogenesis

The receptor for advanced glycation end products (RAGE) gene expresses two major alternative splicing isoforms, full‐length membrane‐bound RAGE (mRAGE) and secretory RAGE (esRAGE). Both isoforms play important roles in Alzheimer's disease (AD) pathogenesis, either via interaction of mRAGE with β‐amyloid peptide (Aβ) or inhibition of the mRAGE‐activated signaling pathway. In the present study, we showed that heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1) and Transformer2β‐1 (Tra2β‐1) were involved in the alternative splicing of mRAGE and esRAGE. Functionally, two factors had an antagonistic effect on the regulation. Glucose deprivation induced an increased ratio of mRAGE/esRAGE via up‐regulation of hnRNP A1 and down‐regulation of Tra2β‐1. Moreover, the ratios of mRAGE/esRAGE and hnRNP A1/Tra2β‐1 were increased in peripheral blood mononuclear cells from AD patients. The results provide a molecular basis for altered splicing of mRAGE and esRAGE in AD pathogenesis.

     

变压器噪声暴露对豚鼠应激、肝肾及免疫功能的影响

目的:探讨短时间内变压器噪声暴露对豚鼠应激、肝肾及免疫功能的影响。方法:取32只健康成年(5-6月龄)豚鼠随机分为实验组和对照组,每组16只。实验组给予录制的变压器噪声(声压级范围40.8-55 d B SPL,频谱范围150-2000 Hz)连续暴露28天,10小时/天(晚10点到早上8点),对照组在相同条件下饲养,无噪声暴露。噪声暴露结束后,对实验豚鼠的应激、肝肾及免疫功能进行定量评估比较。结果:噪声暴露28天后实验组豚鼠的应激状态指标(ACTH、血清皮质醇)与对照组比较差异无统计学意义(P0.05),主要肝肾功能指标与对照组比较差异无统计学意义(P0.05),免疫相关指标(Ig G、Ig A、Ig E、IL-1、IL-2)比较差异无统计学意义(P0.05)。结论:声压级范围为40.8-55 d B SPL、频谱范围为150~2000 Hz的变压器噪声连续暴露28天(10小时/天)对成年豚鼠应激、肝肾及免疫功能无明显影响。     

The <Emphasis Type="Italic">transformer2</Emphasis> gene in <Emphasis Type="Italic">Musca domestica</Emphasis> is required for selecting and maintaining the female pathway of development

We present the isolation and functional analysis of a transformer2 homologue Mdtra2 in the housefly Musca domestica. Compromising the activity of this gene by injecting dsRNA into embryos causes complete sex reversal of genotypically female individuals into fertile males, revealing an essential function of Mdtra2 in female development of the housefly. Mdtra2 is required for female-specific splicing of Musca doublesex (Mddsx) which structurally and functionally corresponds to Drosophila dsx, the bottom-most regulator in the sex-determining pathway. Since Mdtra2 is expressed in males and females, we propose that Mdtra2 serves as an essential co-factor of F, the key sex-determining switch upstream of Mddsx. We also provide evidence that Mdtra2 acts upstream as a positive regulator of F supporting genetic data which suggest that F relies on an autocatalytic activity to select and maintain the female path of development. We further show that repression of male courtship behavior by F requires Mdtra2. This function of F and Mdtra2 appears not to be mediated by Mddsx, suggesting that bifurcation of the pathway at this level is a conserved feature in the genetic architecture of Musca and Drosophila.Edited by D. Tautz     

Tra2β protein is required for tissue-specific splicing of a smooth muscle myosin phosphatase targeting subunit alternative exon

Alternative splicing of the smooth muscle myosin phosphatase targeting subunit (Mypt1) exon 23 (E23) is tissue-specific and developmentally regulated and, thus, an attractive model for the study of smooth muscle phenotypic specification. We have proposed that Tra2β functions as a tissue-specific activator of Mypt1 E23 splicing on the basis of concordant expression patterns and Tra2β activation of Mypt1 E23 mini-gene splicing in vitro. In this study we examined the relationship between Tra2β and Mypt1 E23 splicing in vivo in the mouse. Tra2β was 2- to 5-fold more abundant in phasic smooth muscle tissues, such as the portal vein, small intestine, and small mesenteric artery, in which Mypt1 E23 is predominately included as compared with the tonic smooth muscle tissues, such as the aorta and inferior vena cava, in which Mypt1 E23 is predominately skipped. Tra2β was up-regulated in the small intestine postnatally, concordant with a switch to Mypt1 E23 splicing. Targeting of Tra2β in smooth muscle cells using SM22α-Cre caused a substantial reduction in Mypt1 E23 inclusion specifically in the intestinal smooth muscle of heterozygotes, indicating sensitivity to Tra2β gene dosage. The switch to the Mypt1 E23 skipped isoform coding for the C-terminal leucine zipper motif caused increased sensitivity of the muscle to the relaxant effects of 8-Br-cyclic guanosine monophosphate (cGMP). We conclude that Tra2β is necessary for the tissue-specific splicing of Mypt1 E23 in the phasic intestinal smooth muscle. Tra2β, by regulating the splicing of Mypt1 E23, sets the sensitivity of smooth muscle to cGMP-mediated relaxation.     

Using machine learning to predict the effects and consequences of mutations in proteins

Machine and deep learning approaches can leverage the increasingly available massive datasets of protein sequences, structures, and mutational effects to predict variants with improved fitness. Many different approaches are being developed, but systematic benchmarking studies indicate that even though the specifics of the machine learning algorithms matter, the more important constraint comes from the data availability and quality utilized during training. In cases where little experimental data are available, unsupervised and self-supervised pre-training with generic protein datasets can still perform well after subsequent refinement via hybrid or transfer learning approaches. Overall, recent progress in this field has been staggering, and machine learning approaches will likely play a major role in future breakthroughs in protein biochemistry and engineering.