Membrane Binding and Homodimerization of Atg16 Via Two Distinct Protein Regions is Essential for Autophagy in Yeast

Macroautophagy is a bulk degradation mechanism in eukaryotic cells. Efficiency of an essential step of this process in yeast, Atg8 lipidation, relies on the presence of Atg16, a subunit of the Atg12–Atg5-Atg16 complex acting as the E3-like enzyme in the ubiquitination-like reaction. A current view on the functional structure of Atg16 in the yeast S. cerevisiae comes from the two crystal structures that reveal the Atg5-interacting α-helix linked via a flexible linker to another α-helix of Atg16, which then assembles into a homodimer. This view does not explain the results of previous in vitro studies revealing Atg16-dependent deformations of membranes and liposome-binding of the Atg12–Atg5 conjugate upon addition of Atg16. Here we show that Atg16 acts as both a homodimerizing and peripheral membrane-binding polypeptide. These two characteristics are imposed by the two distinct regions that are disordered in the nascent protein. Atg16 binds to membranes in vivo via the amphipathic α-helix (amino acid residues 113–131) that has a coiled-coil-like propensity and a strong hydrophobic face for insertion into the membrane. The other protein region (residues 64–99) possesses a coiled-coil propensity, but not amphipathicity, and is dispensable for membrane anchoring of Atg16. This region acts as a Leu-zipper essential for formation of the Atg16 homodimer. Mutagenic disruption in either of these two distinct domains renders Atg16 proteins that, in contrast to wild type, completely fail to rescue the autophagy-defective phenotype of atg16Δ cells. Together, the results of this study yield a model for the molecular mechanism of Atg16 function in macroautophagy.     

Intrinsic Bent DNA Sites in the Developmentally Amplified C3-22 Gene Promoter of Rhynchosciara americana (Diptera: Sciaridae)

The Rhynchosciara americana C3-22 gene is located in an amplified domain and is developmentally expressed. The aim of the present work was to identify intrinsically bent DNA sites in a segment containing the gene promoter and downstream sequence. The results indicated that this gene is flanked by intrinsically bent DNA sites. Three bent DNA sites (b^?3, b^?2, and b^?1) were localized in the promoter, and one was localized downstream of the gene (b⁺¹). These sites had helical parameters that confirmed the curved structure, as well as segments with left-handed superhelical writhe. In silico analysis of the promoters of four other insect genes, which encode secreted polypeptides, showed that they all had curved structures and similar helical parameters. Correlation with other results indicates that the detected intrinsically bent DNA sites that flank the C3-22 gene might be a consensus feature of the gene structure in the amplified domains.     

Physicochemical characterization of alpha-crystallins from bovine lenses: hydrodynamic and conformational properties

A detailed investigation of hydrodynamic and conformational behavior has been made of the HM-crystallin and -crystallins of bovine lens. Results from this study indicated that HM (high-molecular-weight -crystallin) and (low-molecular-weight -crystallin) possess considerable size and charge heterogeneities in their native structures and subunit polypeptides, respectively. Sedimentation velocity showed a heterogeneous polydisperse system of HM with an average sedimentation coefficient of about 50 S and a more homogeneous system of -crystallin of 20 S. Viscosity and circular dichroism studies pointed to a compact and globular shape of dominant -sheet conformation for -crystallin, yet a highly asymmetrical and aggregated form for HM. The conformational stability of -crystallin was investigated in the presence of various denaturants. The evidence presented shows that hydrogen bonding is the main force in maintaining the quaternary structure of compact native -crystallin. Conformational flexibility of -crystallin demonstrated in the equilibrium unfolding study indicated a multistep transition that made the extraction of thermodynamic data from the heat denaturation study difficult. Temperature perturbation on -crystallin suggested the possible involvement of hydrophobic interaction in the aggregation process, leading to the formation of HM from -crystallin. The comparison of conformational properties between HM and -crystallin strongly indicated that HM is a denatured form of -crystallin.     

Digitalis receptor sugar binding site characteristics: A model based upon studies of Na+, K+-ATPase preparations with differing digitalis sensitivities

The structure-activity relationships of the genin moieties of digitalis glycosides are commonly elucidated by determining the inhibitory potency of a variety of genins toward the plasma membrane Na⁺, K⁺-ATPase; qualitatively these relationships appear to be fairly independent of the specific Na⁺, K⁺-ATPase preparation utilized for the analysis. To determine whether this is the case with regard to the sugar moieties of glycosides, the inhibitory effects of 12 monoglycosides of digitoxigenin toward four Na⁺, K⁺-ATPase preparations of different origin were measured. It was found that while recognition of the major structural determinants of sugar activity appeared to be independent of enzyme source, recognition of the minor structural determinants of activity showed some source dependence. It was also observed that the intrinsic sensitivity to sugar potentiation may be source dependent and unrelated to intrinsic sensitivity to inhibition by digitoxigenin. These observations are compatible with a model of the Na⁺, K⁺-ATPase sugar binding site(s) in which intrinsic sensitivity to sugar attachment as well as recognition characteristics (for sugar structural features) both determine the extent to which a sugar moiety may contribute to the activity of monoglycosides. Further, in these studies one of the Na⁺, K⁺-ATPase preparations employed was obtained from rat brain, a tissue known to contain a mixture of ouabain sensitive and insensitive isoforms. We have observed that the rigorous purification techniques employed appear to have selectively removed from or denatured the less ouabain sensitive al isoform found in this enzyme preparation.     

Cellular localization of intrinsic factor in pancreas and stomach of the dog

Summary A cobalamin (vitamin B₁₂)-binding protein has recently been identified in canine pancreatic juice which is biochemically, immunochemically and functionally similar to canine gastric intrinsic factor. However, the cellular sources of both this pancreatic intrinsic factor and gastric intrinsic factor in the dog are not known. Antisera raised against canine gastric intrinsic factor have been used to examine the distribution of intrinsic factors in the canine pancreas and stomach. Immunoreactivity was demonstrated in duct cells but not acinar or endocrine cells in the pancreas, and in fundic peptic and pyloric gastric pit cells in stomach. All immunostaining was abolished by preabsorption of the antisera with purified canine gastric and pancreatic intrinsic factors. A cellular source of pancreatic intrinsic factor has not been previously described, and the demonstration of intrinsic factor-like immunoreactivity in two cell types in the canine stomach contrasts with its localization in a single cell type in the gastric mucosa of other mammalian species. Furthermore, immunoreactivity in pancreatic duct cells was detected at much higher dilutions of antisera than those required for staining of peptic and gastric pit cells. This suggests a higher concentration of antigen, and supports previous evidence that the pancreas is a major source of intrinsic factor in the dog.     

Native root-nodule bacteria of traditional soybean-growing areas of northern Thailand

Over 1500 root-nodule bacteria were isolated from a range of uninoculated soybeans, and one cowpea, trap-hosts, sown in 1985 into traditional soybean-growing areas of soybean-growing areas of northern Thailand. Most isolates were slow-growing Bradyrhizobium japonicum. Using a modified bottle-jar technique, 586 of the isolates were tested with a range of soybean hosts and one cowpea host. The results indicated:

Aspects of the numerical and functional respones of the aphid parasite, Aphidius sonchi, in the laboratory

The fecundity, reproductive rates, and adult survival of Aphidius sonchi Marshall (Hymenoptera: Aphidiidae) parasitizing second and third instar nymphs of the sowthistle aphid, Hyperomyzus lactucae (L.) (Homoptera: Aphididae) were measured at six different host densities under constant laboratory conditions. At host densities of less than 50 aphids per flowering shoot per female per day, oviposition constraints resulting from the lack of hosts reduced the number of eggs laid, enhanced the extent of superparasitization and, as a result, effectively lowered the fecundity and reproductive rates of the parasites. Above this host density the parasites laid on average 220–230 eggs, but the effective fecundity and reproductive rates continued to increase with the host density. By contrast, the survivorship of the parasites seemed unaffected by host density, with an average adult life span of 4–5 days at all densities. Analysis of the data showed that the intrinsic rate of increase (r_m) of the parasite varied with the host density and could reach values higher than that of the host under identical conditions. The response of r_m to changes in host density and parasite sex ratio is illustrated.Overall, A. sonchi showed a typical convex functional response, to host density. However, the response showed obvious changes through the parasite's adult life and, furthermore, the rates of changes were not consistent at all host densities. The frequency distributions of parasite eggs were generally indistinguishable from random, and the number of hosts parasitized were predicted satisfactorily by the random oviposition equation.

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Résumé L'étude a porté sure l'influence de 6 densités différentes d'Hyperomyzus lactucae (L.) (Homoptera: Aphididae), en conditions constantes de laboratoire, sur la fécondité, le taux de reproduction et la survie des adultes d'Aphidius sonchi Marshall (Hym. Aphidiidae, parasite des larves de 2e et 3e stades. A des densités inférieures à 50 pucerons par tige fleurie de Sonchus oleraceus L, par femelle et par jour, la limitation de la ponte due à l'absence d'hôtes a réduit le nombre d'oeufs émis, élevé le taux de superparasitisme et, en conséquence, diminué la fécondité et le taux de reproduction des parasites. Aux densités d'hôtes supérieures, les parasites ont pondu, en moyenne, 220 à 230 oeufs, mais la fécondité réelle et les taux de reproduction ont continué à augmenter avec la densité des pucerons. Par contre, la longévité des parasites n'a pas été affectée par la densité des hôtes, avec une durée moyenne de vie de 4 à 6 jours. L'analyse des données a montré que le taux d'accroissement intrinsèque (r_m) du parasite a changé avec la densité des hôtes, et pourrait atteindre des valeurs supérieures à celles de l'ôte sous des conditions identiques. Les réponses de r_m aux changements de densité des hôtes et au taux sexuel du parasite sont expliquées.Globalement, A. sonchi a présenté une réponse fonctionnelle convexe typique à la densité des hôtes. Cependant, cette réponse a changé au cours de la vie des images et, de plus, les taux de changement ne sont pas logiques à toutes les densités d'hôtes La fréquence de distribution des oeufs n'est généralement pas séparable d'une distribution au hasard, et le nombre d'hôtes parasites peut être prédit d'une façon satisfaisante en utilisant une équation de ponte au hasard.

     

Intrinsic competition between the gregarious parasite,Cotesia glomeratus and the solitary parasite.Cotesia rubecula [Hymenoptera: Braconidae] for their host.Artogeia rapae [Lepidoptera: Pieridae]

The solitary endoparasite,Cotesia rubecula, was superior to the gregarious endoparasite,Cotesia glomeratus, in tests of intrinsic competition for their hostArtogeia rapae. When an egg ofC. rubecula was oviposited in the host prior to those ofC. glomeratus, C. rubecula always won the ensuing competition. When an egg ofC. rubecula was laid in the same host within 48 h after oviposition byC. glomeratus, C. rubecula was successful in more than 90% of the interactions. Even when the egg ofC. rubecula was oviposited in the same host 72 to 96 h after oviposition byC. glomeratus, C. rubecula won the competition approximately 33% of the time. The implications of intrinsic competition are discussed in relation to the establishment ofC. rubecula in an ecosystem containingA. rapae andC. glomeratus.      

Growth and fecundity of Daphnia after diapause and their impact on the development of a population

Laboratory and field investigations revealed that the life history traits of exephippial and parthenogenetic generations of Daphnia differ substantially. Daphniids hatching from resting eggs grow faster and their definitive body sizes are bigger than of hatchlings from subitaneous eggs. Size at maturity for exephippial animals is significantly larger. In spite of this, they mature a few days earlier than parthenogenetic females. In this study, the difference was 3–4 days for the laboratory experiments and 1–3 days for the field. Fecundity of the exephippial generation is markedly higher. Here, the clutch size for this generation was up to 3.5–4.0 times as large as for the parthenogenetic generation. Moreover, obtained results suggest that the relationship between clutch size and body length for both generations differ significantly.Estimates of the intrinsic rate of increase for field Daphnia populations demonstrated that life history traits of exephippial animals lead to a two or threefold higher rate of increase in the conditions of invertebrate predation pressure. Under moderate fish pressure, obtained r values for the daphniids hatching from resting eggs were larger than those from subitaneous. High growth rate of exephippial females is disadvantageous only under the conditions of severe pressure by fish. Obtained results suggest that hatchlings from diapausing eggs an acceleration of population increase by several times during the beginning of the development of a population with periodical re-establishment from resting eggs.     

Effect of temperature on development rate and intrinsic rate of increase ofAphis gossypii reared on greenhouse cucumbers

Thermal requirements for development and life table statistics ofAphis gossypii Glover (Homoptera, Aphididae) were determined over a range of constant temperatures from 10 to 30°C. The lower development threshold and the sum of effective temperatures were 6.9°C and 90.1°C, respectively, for preimaginal development, and 5.8°C and 113.6°C from birth to the onset of reproduction. Mean total fecundity ranged from 36 larvae per female at 10°C to 76 larvae at 30°C. On a time scale of days, net reproductive rate (R _o ) increased with increasing temperature while generation time (T) decreased causing the intrinsic rate of increase (r _m ) to increase linearly from 0.115 to 0.465. On a day-degree scaler _m only varied from 0.019 to 0.028 because the growth ofR _o was compensated by an increase inT with increase in temperature. The nearly constantr _m in terms of day-degrees, over a wide range of temperatures, greatly simplifies the prediction of future population numbers ofA. gossypii.