Potential coupling between SARS-CoV-2 replicative fitness and interactions of its nucleoprotein with human 14-3-3 proteins

The SARS-CoV-2 nucleocapsid protein (N) is responsible for viral genome packaging and virion assembly. Being highly abundant in the host cell, N interacts with numerous human proteins and undergoes multisite phosphorylation in vivo. When phosphorylated within its Ser/Arg-rich region, a tract highly prone to mutations as exemplified in the Omicron and Delta variants, N recruits human 14-3-3 proteins, potentially hijacking their functions. Here, we show that in addition to phosphorylated Ser197, an alternative, less conserved phosphosite at Thr205 not found in SARS-CoV N binds 14-3-3 with micromolar affinity and is in fact preferred over pS197. Fluorescence anisotropy reveals a distinctive pT205/pS197 binding selectivity towards the seven human 14-3-3 isoforms. Crystal structures explain the structural basis for the discovered selectivity towards SARS-CoV-2 N phosphopeptides, and also enable prediction for how N variants interact with 14-3-3, suggesting a link between the strength of this interaction and replicative fitness of emerging coronavirus variants.

Study of Protein Targeting and Mislocalization in Rod Photoreceptors

The photoreceptor outer segment (OS) is a highly specialized organelle for light absorption. Precise localization of OS resident proteins is important for photoreceptor function. Molecular mechanisms underlying OS targeting of proteins and their mislocalization, which frequently causes inherited retinal degeneration, have been intensely investigated. Rhodopsin, a major protein of the rod OS, is often mislocalized to the inner segment (IS) plasma membrane of rod photoreceptors in retinal degeneration patients. In the Xenopus laevis model of retinitis pigmentosa, we previously found that Na+/K+-ATPase (NKA), a major IS protein, was downregulated. The Imanishi lab recently created a novel retinitis pigmentosa mouse model carrying the Q344ter rhodopsin gene mutation, which causes rhodopsin mislocalization to the rod IS plasma membrane. In this summer program, we examined whether this mouse model also displays reduced NKA expression in the rod IS’s by immunohistochemistry at postnatal day 30. Although NKA was properly localized to the IS plasma membrane, expression of NKA was reduced in mutant photoreceptors compared to wildtype cells. In the rod OS, activation of rhodopsin eventually leads to the closure of the cyclic nucleotide gated (CNG) channel, which consists of a and b subunits. This channel localizes to the OS plasma membrane, and the N-terminal proline-rich region (R) of the b subunit (CNGb1) may be important for its interaction with peripherin (PRPH2), another OS resident protein. Currently, it is not well understood whether this interaction is necessary for the proper localization of CNGb1 to the OS plasma membrane. Using Xenopus as a model, we studied the role of the N-terminal proline-rich region in properly localizing CNGb1 to the OS plasma membrane by generating transgenic CNGb1(DR) tadpoles that expressed CNGb1(DR) in rods under the control of a rhodopsin promoter. We found that CNGb1(DR) properly localized to the OS plasma membrane.

SWR1C catalyzes H2A.Z deposition by coupling ATPase activity to the nucleosome acidic patch

The SWR1C chromatin remodeling enzyme catalyzes the ATP-dependent exchange of nucleosomal histone H2A for the histone variant H2A.Z, a key variant involved in a multitude of nuclear functions. How the 14-subunit SWR1C engages the nucleosomal substrate remains largely unknown. Numerous studies on the ISWI, CHD1, and SWI/SNF families of chromatin remodeling enzymes have demonstrated an essential role for the nucleosomal acidic patch for remodeling activity, however a role for this nucleosomal epitope in nucleosome editing by SWR1C has not been tested. Here, we employ a variety of biochemical assays to demonstrate an essential role for the nucleosomal acidic patch in the H2A.Z exchange reaction. Nucleosomes lacking acidic patch residues retain the ability to stimulate the ATPase activity of SWR1C, implicating a role in coupling the energy of ATP hydrolysis to H2A/H2B dimer eviction. A conserved arginine-rich region within the Swc5 subunit is identified that interacts with the acidic patch and is found to be essential for dimer exchange activity. Together these findings provide new insights into how SWR1C engages its nucleosomal substrate to promote efficient H2A.Z deposition.

Is probabilistic cuing of visual search an inflexible attentional habit? A meta-analytic review

AbstractIn studies on probabilistic cuing of visual search, participants search for a target among several distractors and report some feature of the target. In a biased stage the target appears more frequently in one specific area of the search display. Eventually, participants become faster at finding the target in that rich region compared to the sparse region. In some experiments, this stage is followed by an unbiased stage, where the target is evenly located across all regions of the display. Despite this change in the spatial distribution of targets, search speed usually remains faster when the target is located in the previously rich region. The persistence of the bias even when it is no longer advantageous has been taken as evidence that this phenomenon is an attentional habit. The aim of this meta-analysis was to test whether the magnitude of probabilistic cuing decreases from the biased to the unbiased stage. A meta-analysis of 42 studies confirmed that probabilistic cuing during the unbiased stage was roughly half the size of cuing during the biased stage, and this decrease persisted even after correcting for publication bias. Thus, the evidence supporting the claim that probabilistic cuing is an attentional habit might not be as compelling as previously thought.

Complete Mitochondrial Genomes of Metcalfa pruinosa and Salurnis marginella (Hemiptera: Flatidae): Genomic Comparison and Phylogenetic Inference in Fulgoroidea

The complete mitochondrial genomes (mitogenomes) of two DNA barcode-defined haplotypes of Metcalfa pruinosa and one of Salurnis marginella (Hemiptera: Flatidae) were sequenced and compared to those of other Fulgoroidea species. Furthermore, the mitogenome sequences were used to reconstruct phylogenetic relationships among fulgoroid families. The three mitogenomes, including that of the available species of Flatidae, commonly possessed distinctive structures in the 1702–1836 bp A+T-rich region, such as two repeat regions at each end and a large centered nonrepeat region. All members of the superfamily Fulgoroidea, including the Flatidae, consistently possessed a motiflike sequence (TAGTA) at the ND1 and trnS2 junction. The phylogenetic analyses consistently recovered the familial relationships of (((((Ricaniidae + Issidae) + Flatidae) + Fulgoridae) + Achilidae) + Derbidae) in the amino acid-based analysis, with the placement of Cixiidae and Delphacidae as the earliest-derived lineages of fulgoroid families, whereas the monophyly of Delphacidae was not congruent between tree-constructing algorithms.