Phosphorylation of TGB1 by protein kinase CK2 promotes barley stripe mosaic virus movement in monocots and dicots.

The barley stripe mosaic virus (BSMV) triple gene block 1 (TGB1) protein is required for virus cell-to-cell movement. However, little information is available about how these activities are regulated by post-translational modifications. In this study, we showed that the BSMV Xinjiang strain TGB1 (XJTGB1) is phosphorylated in vivo and in vitro by protein kinase CK2 from barley and Nicotiana benthamiana. Liquid chromatography tandem mass spectrometry analysis and in vitro phosphorylation assays demonstrated that Thr-401 is the major phosphorylation site of the XJTGB1 protein, and suggested that a Thr-395 kinase docking site supports Thr-401 phosphorylation. Substitution of Thr-395 with alanine (T395A) only moderately impaired virus cell-to-cell movement and systemic infection. In contrast, the Thr-401 alanine (T401A) virus mutant was unable to systemically infect N. benthamiana but had only minor effects in monocot hosts. Substitution of Thr-395 or Thr-401 with aspartic acid interfered with monocot and dicot cell-to-cell movement and the plants failed to develop systemic infections. However, virus derivatives with single glutamic acid substitutions at Thr-395 and Thr-401 developed nearly normal systemic infections in the monocot hosts but were unable to infect N. benthamiana systemically, and none of the double mutants was able to infect dicot and monocot hosts. The mutant XJTGB1T395A/T401A weakened in vitro interactions between XJTGB1 and XJTGB3 proteins but had little effect on XJTGB1 RNA-binding ability. Taken together, our results support a critical role of CK2 phosphorylation in the movement of BSMV in monocots and dicots, and provide new insights into the roles of phosphorylation in TGB protein functions

Transcriptome Analysis and Ultrastructure Observation Reveal that Hawthorn Fruit Softening Is due to Cellulose/Hemicellulose Degradation

Softening, a common phenomenon in many fruits, is a well coordinated and genetically determined process. However, the process of flesh softening during ripening has rarely been described in hawthorn. In this study, we found that ‘Ruanrou Shanlihong 3 Hao’ fruits became softer during ripening, whereas ‘Qiu JinXing’ fruits remained hard. At late developmental stages, the firmness of ‘Ruanrou Shanlihong 3 Hao’ fruits rapidly declined, and that of ‘Qiu JinXing’ fruits remained essentially unchanged. According to transmission electron microscopy (TEM), the middle lamella of ‘Qiu JinXing’ and ‘Ruanrou Shanlihong 3 Hao’ fruit flesh was largely degraded as the fruits matured. Microfilaments in ‘Qiu JinXing’ flesh were arranged close together and were deep in color, whereas those in ‘Ruanrou Shanlihong 3 Hao’ fruit flesh were arranged loosely, partially degraded and light in color. RNA-Seq analysis yielded approximately 46.72 Gb of clean data and 72,837 unigenes. Galactose metabolism and pentose and glucuronate interconversions are involved in cell wall metabolism, play an important role in hawthorn texture. We identified 85 unigenes related to the cell wall between hard- and soft-fleshed hawthorn fruits. Based on data analysis and real-time PCR, we suggest that β-GAL and PE4 have important functions in early fruit softening. The genes Ffase, Gns, α-GAL, PE63, XTH and CWP, which are involved in cell wall degradation, are responsible for the different textures of hawthorn fruits. Thus, we hypothesize that the different textures of ‘Qiu JinXing’ and ‘Ruanrou Shanlihong 3 Hao’ fruits at maturity mainly result from cellulose/hemicelluloses degradation rather than from lamella degradation. Overall, we propose that different types of hydrolytic enzymes in cells interact to degrade the cell wall, resulting in ultramicroscopic Structure changes in the cell wall and, consequently, fruit softening. These results provide fundamental insight regarding the mechanisms by which hawthorn fruits acquire different textures and also lay a solid foundation for further research

Structural analysis of a trimeric assembly of the mitochondrial dynamin-like GTPase Mgm1.

The fusion of inner mitochondrial membranes requires dynamin-like GTPases, Mgm1 in yeast and OPA1 in mammals, but how they mediate membrane fusion is poorly understood. Here, we determined the crystal structure of Saccharomyces cerevisiae short Mgm1 (s-Mgm1) in complex with GDP. It revealed an N-terminal GTPase (G) domain followed by two helix bundles (HB1 and HB2) and a unique C-terminal lipid-interacting stalk (LIS). Dimers can form through antiparallel HB interactions. Head-to-tail trimers are built by intermolecular interactions between the G domain and HB2-LIS. Biochemical and in vivo analyses support the idea that the assembly interfaces observed here are native and critical for Mgm1 function. We also found that s-Mgm1 interacts with negatively charged lipids via both the G domain and LIS. Based on these observations, we propose that membrane targeting via the G domain and LIS facilitates the in cis assembly of Mgm1, potentially generating a highly curved membrane tip to allow inner membrane fusion

Ghost field realizations of the spinor W2,sW_{2,s} strings based on the linear W(1,2,s) algebras

It has been shown that certain W algebras can be linearized by the inclusion of a spin-1 current. This Provides a way of obtaining new realizations of the W algebras. In this paper, we investigate the new ghost field realizations of the W(2,s)(s=3,4) algebras, making use of the fact that these two algebras can be linearized. We then construct the nilpotent BRST charges of the spinor non-critical W(2,s) strings with these new realizations.Comment: 10 pages, no figure

Measuring Star-formation Rate and Far-Infrared Color in High-redshift Galaxies Using the CO (7-6) and [NII] 205 micron Lines

To better characterize the global star formation (SF) activity in a galaxy, one needs to know not only the star formation rate (SFR) but also the rest-frame, far-infrared (FIR) color (e.g., the 60-to-100 $\mu$m color, $C(60/100)$] of the dust emission. The latter probes the average intensity of the dust heating radiation field and scales statistically with the effective SFR surface density in star-forming galaxies including (ultra-)luminous infrared galaxies [(U)LIRGs]. To this end, we exploit here a new spectroscopic approach involving only two emission lines: CO\,(7$-$6) at 372 $\mu$m and [NII] at 205 $\mu$m. For local (U)LIRGs, the ratios of the CO (7$-$6) luminosity ($L_{\rm CO\,(7-6)}$) to the total infrared luminosity ($L_{\rm IR}$; 8$-$1000 $\mu$m) are fairly tightly distributed (to within $\sim$0.12 dex) and show little dependence on $C(60/100)$. This makes $L_{\rm CO\,(7-6)}$ a good SFR tracer, which is less contaminated by active galactic nuclei (AGN) than $L_{\rm IR}$ and may also be much less sensitive to metallicity than $L_{\rm CO\,(1-0)}$. Furthermore, the logarithmic [NII] 205 $\mu$m to CO (7$-$6) luminosity ratio is fairly steeply (at a slope of $\sim$$-1.4$) correlated with $C(60/100)$, with a modest scatter ($\sim$0.23 dex). This makes it a useful estimator on $C(60/100)$ with an implied uncertainty of $\sim$0.15 [or $\lesssim$4 K in the dust temperature ($T_{\rm dust}$) in the case of a graybody emission with $T_{\rm dust} \gtrsim 30$ K and a dust emissivity index $\beta \ge 1$]. Our locally calibrated SFR and $C(60/100)$ estimators are shown to be consistent with the published data of (U)LIRGs of $z$ up to $\sim$6.5.Comment: 6 pages, 3 figures, 1 table; accepted for publication in the ApJ Lette

ROME: Memorization Insights from Text, Logits and Representation

Previous works have evaluated memorization by comparing model outputs with training corpora, examining how factors such as data duplication, model size, and prompt length influence memorization. However, analyzing these extensive training corpora is highly time-consuming. To address this challenge, this paper proposes an innovative approach named ROME that bypasses direct processing of the training data. Specifically, we select datasets categorized into three distinct types -- context-independent, conventional, and factual -- and redefine memorization as the ability to produce correct answers under these conditions. Our analysis then focuses on disparities between memorized and non-memorized samples by examining the logits and representations of generated texts. Experimental findings reveal that longer words are less likely to be memorized, higher confidence correlates with greater memorization, and representations of the same concepts are more similar across different contexts. Our code and data will be publicly available when the paper is accepted.Comment: Submitted to EMNLP, 202