Rho GTPase Recognition by C3 Exoenzyme Based on C3-RhoA Complex Structure

C3 exoenzyme is a mono-ADP-ribosyltransferase (ART) that catalyzes transfer of an ADP-ribose moiety from NAD⁺ to Rho GTPases. C3 has long been used to study the diverse regulatory functions of Rho GTPases. How C3 recognizes its substrate and how ADP-ribosylation proceeds are still poorly understood. Crystal structures of C3-RhoA complex reveal that C3 recognizes RhoA via the switch I, switch II, and interswitch regions. In C3-RhoA(GTP) and C3-RhoA(GDP), switch I and II adopt the GDP and GTP conformations, respectively, which explains why C3 can ADP-ribosylate both nucleotide forms. Based on structural information, we successfully changed Cdc42 to an active substrate with combined mutations in the C3-Rho GTPase interface. Moreover, the structure reflects the close relationship among Gln-183 in the QXE motif (C3), a modified Asn-41 residue (RhoA) and NC1 of NAD(H), which suggests that C3 is the prototype ART. These structures show directly for the first time that the ARTT loop is the key to target protein recognition, and they also serve to bridge the gaps among independent studies of Rho GTPases and C3.     

The structure of MgtE in the absence of magnesium provides new insights into channel gating

MgtE is a Mg²⁺ channel conserved in organisms ranging from prokaryotes to eukaryotes, including humans, and plays an important role in Mg²⁺ homeostasis. The previously determined MgtE structures in the Mg²⁺-bound, closed-state, and structure-based functional analyses of MgtE revealed that the binding of Mg²⁺ ions to the MgtE cytoplasmic domain induces channel inactivation to maintain Mg²⁺ homeostasis. There are no structures of the transmembrane (TM) domain for MgtE in Mg²⁺-free conditions, and the pore-opening mechanism has thus remained unclear.Here, we determined the cryo-electron microscopy (cryo-EM) structure of the MgtE-Fab complex in the absence of Mg²⁺ ions. The Mg²⁺-free MgtE TM domain structure and its comparison with the Mg²⁺-bound, closed-state structure, together with functional analyses, showed the Mg²⁺-dependent pore opening of MgtE on the cytoplasmic side and revealed the kink motions of the TM2 and TM5 helices at the glycine residues, which are important for channel activity. Overall, our work provides structure-based mechanistic insights into the channel gating of MgtE.

MgtE is a magnesium-selective ion channel whose gating is regulated by cytoplasmic magnesium concentration; this cryo-EM study reveals how MgtE undergoes magnesium-dependent structural changes to open the pore on the cytoplasmic side.     

Cryptic diversity of Melanochlamys sea slugs (Gastropoda,Aglajidae) in the North Pacific

North Pacific specimens of Melanochlamys sea slugs were examined morphologically (including the male reproductive morphology, shell and external coloration) and were sequenced for three genes (mitochondrial COI and 16S and nuclear H3). Phylogenetic and species delimitation analyses were used to determine the evolutionary relationships and species diversity among the specimens examined. Both molecular and morphological data revealed an unexpected high level of cryptic diversity. At least four distinct species occur on the Northwestern Pacific. Melanochlamys ezoensis occurs in Russia and temperate and cold areas in Japan. Three additional undescribed species occur in Japan and/or South Korea. One of the undescribed species occurs both in South Korea and in Japan, but only in Tokyo Bay, suggesting that it could be non‐native in Japan. Two distinct species occur on the Northeastern Pacific coast; Melanochlamys diomedea is widespread from Southern California to Alaska, whereas M. ezoensis was found only in San Francisco Bay, suggesting a human‐mediated introduction. This is further supported by the absence of records of M. ezoensis in San Francisco prior to 2001. The species diversity of Melanochlamys in the Northwestern Pacific is much greater than in the Northeastern Pacific; it is hypothesized that differences in geographic and ocean current system complexity might account for different responses to glacial extinction and postglacial expansion.     

Macromolecular Structure and Morphology of Native Glycogen Particles Isolated from Candida albicans

A polysaccharide-rich particulate fraction was isolated from cytoplasmic extracts of Candida albicans by a procedure using differential centrifugation. The polysaccharide particles obtained after purification with deoxycholate treatment were essentially free of nitrogen and were identified chemically as polyglucosan, in which the glucosidic links were of alpha type. Both the response to amylolytic enzymes and the spectral characteristics of the iodine complexes of the polysaccharide particles were similar to those of rabbit liver glycogen. They also precipitated with concanavalin A, the glycogen value being assessed at 1.04. These data strongly indicated that the polysaccharide particles have the macromolecular structure characteristic of glycogen. The sedimentation analysis revealed that they were polydisperse, with a weight average sedimentation coefficient of 340S. In negatively stained specimens, the glycogen particles were seen to form rosette-like structures consisting of a complex unit 40 to 150 nm in diameter. Such complex particles were composed of smaller globules that were fairly uniform in size with an average diameter of 32 nm.     

Group feeding as a strategy for exploiting food resources in the burnet moth Pryeria sinica

Summary Pryeria sinica (Zygaenidae) larvae feed on young and growing leaves of Euonymus japonicus in groups. The larvae often defoliate their host plant. Hence, the larvae are occasionally subject to serious shortage in food resources. We hypothesize that larval aggregation is an adaptation for the economical utilization of limited food resources. To test this hypothesis, the patterns of resource utilization were studied on larvae settled on shoots of host plant in various group sizes. The amount of food resources in a shoot was affected by the following three factors; (1) shoot growth, (2) food consumption of larvae, and (3) inhibition of growth or degeneration of shoot by larval activity on it. These factors were measured and the efficiency in resource utilization was compared among groups of varied sizes. The loss in resources caused by the third factor was found to be decreased with group size, i.e., the larger the group size, the larvae utilized the food resources more economically. The advantages of group feeding in survival and reproduction of this species were discussed using a simple graphical model.     

p97 and p47 function in membrane tethering in cooperation with FTCD during mitotic Golgi reassembly

p97ATPase‐mediated membrane fusion is required for the biogenesis of the Golgi complex. p97 and its cofactor p47 function in soluble N‐ethylmaleimide‐sensitive factor (NSF) attachment protein receptor (SNARE) priming, but the tethering complex for p97/p47‐mediated membrane fusion remains unknown. In this study, we identified formiminotransferase cyclodeaminase (FTCD) as a novel p47‐binding protein. FTCD mainly localizes to the Golgi complex and binds to either p47 or p97 via its association with their polyglutamate motifs. FTCD functions in p97/p47‐mediated Golgi reassembly at mitosis in vivo and in vitro via its binding to p47 and to p97. We also showed that FTCD, p47, and p97 form a big FTCD‐p97/p47‐FTCD tethering complex. In vivo tethering assay revealed that FTCD that was designed to localize to mitochondria caused mitochondria aggregation at mitosis by forming a complex with endogenous p97 and p47, which support a role for FTCD in tethering biological membranes in cooperation with the p97/p47 complex. Therefore, FTCD is thought to act as a tethering factor by forming the FTCD‐p97/p47‐FTCD complex in p97/p47‐mediated Golgi membrane fusion.     

Neighborhood aggregation effect and its effective scale on reproductive success in Shorea laxa (Dipterocarpaceae)

This study investigated whether reproductive success is affected by the intensity of neighborhood aggregation of adults in the tropical tree Shorea laxa. We focused on three processes in the early reproductive stages: seed maturation; seed survival (categorizing sound seed, predation by insects and predation by vertebrates) in pre-seed dispersal; and seedling survival in the post-seed dispersal stage. We used a model selection procedure to examine the aggregation effect on reproductive success. The intensity of neighborhood aggregation was represented by the neighborhood aggregation index, which contains the adult number within a specific radius and the distances to neighboring adults (weight of proximity). Then, we evaluated the models exhaustively with the aggregation index having different scales (radius and weight of proximity) to assess the scale on which aggregation had significant effects. In particular, the best effective neighborhood scale, which is defined as the scale of the index in the model with minimum Akaike information criterion, was examined to compare those scales among processes. We found that the probability of seed maturation, seed survival and seedling survival decreased with the aggregation index at specific scales. This suggests that aggregation influenced reproductive success negatively in both the pre- and post-seed dispersal stages. However, the selected radii differed among processes: >200 and 130 m in pre- and post-seed dispersal stages, respectively. The selected weight of proximity also seemed to have a weak effect on all processes and was not different among processes.