New facets of larger Nest motifs in proteins

The Nest is a concave-shaped structural motif in proteins formed by consecutive enantiomeric left-handed (L) and right-handed (R) helical conformation of the backbone. This important motif subsumes many turn and helix capping structures and binds electron-rich ligands. Simple Nests are either RL or LR. Larger Nests (>2 residues long) may be RLR, LRL, RLRL, and so forth, being considered as composed of overlapping simple Nests. The larger Nests remain under-explored despite their widely known contributions to protein function. In our study, we address whether the recurrence of enantiomeric geometry in the larger Nests constrains the peptide backbone such that distinct compositional and conformational preferences are seen compared to simple Nests. Our analysis reveals the critical role of the L helical torsion angle in the formation of larger Nests. This can be observed through the higher propensity of residue or secondary structure combinations in LR and LRL backbone conformation in comparison to RL or RLR, although LR/LRL is considerably lower by occurrence. We also find that the most abundant doublets and triplets in Nests have a propensity for particular secondary structures, suggesting a strong sequence-structure relationship in the larger Nest. Overall, our analysis corroborates distinct features of simple and the larger Nests. Such insights would be helpful towards in-vitro design of peptides and peptidomimetic studies.     

Nest site selection and efficacy of artificial nests for breeding success of Scarlet Macaws Ara macao macao in lowland Peru

Psittacidae (parrots) have the most threatened species of any bird family in the world. Most parrots are obligate secondary cavity nesters, and can be limited in their breeding success by the availability and quality of nest hollows. However, nesting opportunities for parrots can be increased by provision of artificial nest boxes. The Tambopata Macaw Project has been studying the breeding ecology and natural history of the Scarlet Macaw Ara macao macao in the south-eastern Peruvian Amazon for over 20 years by monitoring natural nest hollows and two types of artificial nest (wooden and PVC). We present data for breeding success in natural and artificial nests over 12 consecutive breeding seasons. The aims of this study were to: (a) determine the nesting requirements and reproductive success of breeding macaws; and, (b) compare the efficacy of the two types of artificial nests and natural nest cavities. Our data showed a high rate of reoccupation of successful nests in consecutive years and that nests in artificial and natural nests had very similar reproductive parameters. Our results indicate that artificial nest types can be used by conservation managers seeking to assist A. macao populations where nest hollows are in short supply, and that artificial nests can contribute important data to natural history studies of species where access to natural nests is limited.     

Adjustment of incubation according to the threat posed: a further signal of enemy recognition in the Blackcap Sylvia atricapilla?

Nest predation and brood parasitism are costly for nest owners, and natural selection should therefore favour the evolution of parental counterdefences. We addressed the question of whether Blackcaps Sylvia atricapilla change their incubation behaviour in response to various nest intruders and whether this adjustment matches the intensity of mobbing exhibited towards these intruders. Near focal nests, we successively exposed a dummy of a brood parasite, nest predator and an innocuous species. After the parents had responded, we removed the dummy and filmed their incubation. The most aggressive response towards the Common Cuckoo Cuculus canorus and high nest attendance after its disappearance indicated recognition of the brood parasite. Low-intensity response to the Jay Garrulus glandarius, together with reduced subsequent parental care, suggested that Blackcaps perceived it either as less deleterious at the egg stage than the Cuckoo or as a danger to themselves. Almost no aggression towards the Turtle Dove Streptopelia turtur, along with the resumption of incubation after its removal, implied that Blackcaps recognised it as harmless. In addition, we found that the level of aggression positively correlated with nest attendance, suggesting a link between the intensity of mobbing and subsequent parental care. Altogether, our results demonstrate that the issue of enemy recognition may be viewed as a complex of both aggressive and post-presentation behaviours.     

Handling of uncertain nest fates and variation in nest survival estimates

Researchers are moving their attention away from the Mayfield method of estimating nest success to advanced nest survival models that can be implemented within statistical software packages. In spite of this, little attention has been paid to developing formal rules for handling of ambiguous nesting data within these software-based methods. I compared the variation caused by differential handling of data between the hand-calculated Mayfield estimates and those obtained using the constant survival logistic-exposure method. Four variants of each of the two methods were applied to sets of nest records (n = 5,476) of nine open-nesting passerines. Of all nest fates, 57% (unweighted mean across species) were categorized as failed, 29% as successful and 14% as uncertain, according to either age criterion or combination of all fate evidence criteria. Different methods yielded survival estimates that differed as much as 6% over a 25-day nesting cycle. Variation in logistic-exposure survival estimates caused by the four variants of interval coding was higher (range = 4.4%) than variation in the Mayfield estimates (range = 2.7%) caused by the four variants of exposure termination. Researchers are urged to consider different handling of ambiguous nesting data as one of the many possible sources of bias when implementing any method of nest survival analysis.     

红尾伯劳的巢址选择与营巢行为

2003年4-9月通过焦点动物取样法(focalanimal sampling)和完全记录法(all-occurrence recording)对红尾伯劳的营巢行为进行了研究。结果表明：凌晨选巢,巢多位于7—15m的高大乔木冠部分叉处。对19个巢址主成分分析表明：前6个主成分特征值均大于1,累积贡献率达83．74％,基本包含了16个参数的总信息量。营巢活动自5月下旬至7月中旬,两性参与筑巢,营巢期间有求偶交配行为,营巢期6～8d。衔材主由雄鸟担任,达72．16％,衔材高峰出现于营巢第2d和第4d,每日高峰在7～8时和15-17时。理巢基本全由雄鸟承担。护巢性强。     

Effects of Edge Habitat and Nest Characteristics on Depredation of Artificial Nests in Fragmented Australian Tropical Rainforest

Variation in nest predation levels associated with rainforest fragmentation (edge effects) was assessed in Australia's Wet Tropics bioregion. Artificial nests were placed in the forest understorey at seven edge sites where continuous forest adjoined pasture, seven interiors (about 1 km from the edge), and six linear riparian forest remnants (50–100 m wide) that were connected to continuous forest. Four nest types were also compared, representing different combinations of two factors; height (ground, shrub) and shape (open, domed). At each site, four nests of each type, containing one quail egg and two model plasticine eggs, were interspersed about 15 m apart within a 160 m transect during September–October 2001. Predators were identified from marks on the plasticine eggs. The overall depredation rate was 66.5% of 320 nests' contents damaged over a three-day period. Large rodents, especially the rat Uromys caudimaculatus, and birds, especially the spotted catbird Ailuroedus melanotis, were the main predators. Mammals comprised 56.5% and birds 31.0% of predators, with 12.5% of unknown identity. The depredation rate did not vary among site-types, or between open and domed nests, and there were no statistically significant interactions. Nest height strongly affected depredation rates by particular types of predator; depredation rates by mammals were highest at ground nests, whereas attacks by birds were most frequent at shrub nests. These effects counterbalanced so that overall there was little net effect of nest height. Mammals accounted for 78.4% of depredated ground nests and birds for at least 47.4% of shrub nests (and possibly up to 70.1%). The main predators were species characteristic of rainforest, rather than habitat generalists, open-country or edge specialists. For birds that nest in the tropical rainforest understorey of the study region, it is unlikely that edges and linear remnants presently function as ecological population sinks due to mortality associated with increased nest predation.     

Influence of researcher experience and fieldwork intensity on the probability of brood losses in sensitive species: The case of the Red-backed Shrike Lanius collurio

Minimizing disturbance to animals when studying them should be a major consideration in ecological research design, especially when species are known to be sensitive to disturbances. A basic method in the study of bird reproductive ecology involves nest visits, but these can adversely affect birds’ breeding success. Appropriate fieldwork procedures are therefore highly important, especially in the case of timid and sensitive species. This study aimed to assess the impact of the method of searching for nests of Red-backed Shrike Lanius collurio on the probability of these birds abandoning their broods. Our study revealed that observer experience and nest searching intensity did influence the likelihood of brood desertion by this species. Less field experience and a greater nest searching intensity caused the shrikes to abandon their nests more often. We recommend paying scrupulous attention to the behaviour of the birds when searching for nests and when looking for nests after incubation has started.     

Selection of sites for egg deposition and spawning dynamics in the waccamaw darter

Synopsis We provided 93 experimental spawning covers for the waccamaw darter. We grouped the covers (3 sizes of slate and one of concave tile) in three arrangements at six Lake Waccamaw locations to separate the variables of water depth, distance from shore, cover density and cover type. Tag returns of marked males suggest low fidelity for nest sites. Egg production under the 3 different sizes of slate was not significantly different. Egg production under the tile was significantly less than that under the slates. Egg production was significantly higher off the undeveloped southeastern shore in 2 m of water and lowest at the shallowest location with the highest experimental cover density. The number of eggs in nest is positively correlated with male size. We conclude that medium size slate covers placed in a linear arrangement in 2 m of water on a mixed sand bottom result in the highest egg production for the waccamaw darter.     

Blue tits (Cyanistes caeruleus) respond to an experimental change in the aromatic plant odour composition of their nest

Although the use of olfaction by birds is now widely recognised, the olfactory abilities of passerine birds remain poorly explored, for historical reasons. Several studies however suggest that passerines can perceive volatile compounds in several biologically relevant contexts. In Corsica, recent findings suggest that cavity-nesting blue tits may use volatile compounds in the context of nest building and maintenance. Although they build their nests mainly from moss, female blue tits also frequently incorporate fragments of several species of aromatic plants in the nest cup. In field experiments, breeding female blue tits altered their nest maintenance behaviour in response to experimental addition of aromatic plants in their nest. In aviary experiments, captive male blue tits could be trained to detect lavender odour from a distance. Here I report results from a field study aimed to test whether adult blue tits altered their chick-feeding behaviour after an experimental change in nest odour composition. I experimentally added fragments of aromatic plant species that differed from those brought in the nests before the start of the experiment in a set of experimental nests and added moss, the basic nest material, in a set of control nests. Both male and female blue tits hesitated significantly longer entering the nest cavity after addition of new aromatic plant fragments, as compared to moss addition. This response was especially observed during the first visit following the experimental change in nest plant composition. Nest composition treatment had no effect on the time spent in the nest. This study demonstrates that free-ranging blue tits detect changes in nest odour from outside the nest cavity.     

Experimentally-elevated testosterone, female parental care, and reproductive success in a songbird, the Dark-eyed Junco (Junco hyemalis)

In male dark-eyed juncos (Junco hyemalis), experimentally elevated testosterone (T) decreases male parental care and offspring survival, but results in higher overall fitness through greater mating success. To help address the ensuing question of what prevents selection from favoring higher levels of T in male juncos, we manipulated T in female juncos. A previous study demonstrated no effect of experimentally elevated T on female incubation behavior, suggesting that female parental behavior might be insensitive to T. In this study we asked whether experimentally elevated T mediates other female parental behaviors and whether variation in T-mediated parental behavior might influence reproductive success. We videotaped free-living control- and T-females during nesting to quantify brooding behavior when young were 3 days old and provisioning behavior when young were 6 days old. Nest defense was measured by quantifying responses to a mounted predator placed near the nest. Reproductive success was assessed via fecundity, nestling quality, and nest survival. T-females spent less time than control females brooding but did not differ in provisioning rate. T-females performed fewer dives at the predator mount and, unlike controls, failed to increase defense as nesting progressed. T-females also had lower daily nest survival and lower nest success (odds of producing at least one fledgling). We conclude that some aspects of female parental behavior are sensitive to experimentally elevated T while others are not and consider the implications for the evolution of T-mediated characters in both sexes.     

Predation of Lapwing Vanellus vanellus nests on lowland wet grassland in England and Wales: effects of nest density, habitat and predator abundance

There is concern that predation of Lapwing Vanellus vanellus nests may create additional pressure on declining populations of this species in Europe. At seven sites in England and Wales, daily nest predation rates on 1,390 nests were related to variables using Generalised Linear Mixed Models. The strongest predictor was Lapwing nest density (number of nests within 100 m): predation rates declined as nest density increased. Since nocturnal species, probably mammals, have been identified as the major predators of Lapwing nests at these sites, these results suggest that Lapwings are able to deter mammalian predators or may settle to nest at high densities in areas with low predation pressure. At the site level, there was no relationship between Lapwing nesting density and fox density, and a positive relationship with Carrion Crow Corvus corone nesting density. There was a weaker effect of distance to field boundary: nests closer to boundaries were more likely to be predated. Weak interactive effects between crow density and both nest visibility and distance to vantage point were identified in models using a reduced subset of nests. These were counter-intuitive, did not persist in the larger data set, and do not have obvious explanations. If Lapwings nesting at high density are able to deter predators, there are implications for land management. Smaller areas could be managed within potential breeding habitat to encourage Lapwings to nest in dense colonies. Selection of larger fields for such management, where nests could be located far from the field boundary should improve the value of such measures.     

Incubation ability of the functional envelope in paper wasp nests (Hymenopteta, Vespidae, Polistes): I. Field measurements of nest temperature using paper models

Temperature characteristics in paper models of Polistes wasp nests with various numbers (N = 7, 19, 37, or 61 cells) and lengths (L = 10–50 mm) of cells were measured in the field. Temperature distribution in a N61L50 model showed that the central cell provided the best thermal conditions in terms of gained temperature and its fluctuation. The mean temperature excess (difference between cell and ambient temperatures) observed in the diel trial 1 (L50 models with different cell numbers) was 1.5°C in N7 model and 2.3°C in N61, whereas in trial 2 (N37 models with different cell lengths) it was 0.6°C in the L10 model (with 10-mm-long cells) and 2.4°C in L50. In these trials, models with larger numbers of cells or longer cells attained a higher temperature. It seemed that length was more effective in gaining higher maximum temperature than the number of cells. By their heat insulation effect, peripheral cell rings ameliorated the temperature fluctuation in cells at the central part of the comb. Models with more and longer cells maintained temperature slightly higher than the ambient level even during the nighttime. Received: March 10, 2000 / Accepted: December 18, 2000     

Interactive effects of time and vegetation on reproduction of redshanks (Tringa totanus) breeding in Wadden Sea salt marshes

As shown for various species, nesting waders are non-randomly distributed on wetlands and preferentially select riparian nest-sites adjacent to limnic or marine waterbodies. Studying the redshank Tringa totanus, we tested the hypotheses that, in a coastal wader species which conceals its clutch in vegetation, predation and hatching success are affected by vegetation zonation, and that breeding in lower salt marsh areas has negative consequences for reproduction. We further predicted effects of timing of breeding and breeding experience/age of adults potentially reflected by egg biometrics both on nest-site selection and reproduction. Effects of vegetation, space, time and individual quality on hatching success of redshanks were studied in the German part of the Wadden Sea. Dominant plant species, vertical vegetation structure and nest concealment varied significantly between nests. Variation in nest concealment was relatively low: about 90% of clutches were classified as being well concealed. This variation was explainable by vegetation structure but not by vegetation composition at the nest-site, distance to shoreline, and time of clutch initiation. Vertical vegetation structure varied by dominant plant species but not by distance to shoreline and time of clutch initiation. Hatching success of clutches was low (10.6%) due to high predation (daily predation rate: 7.4%). Hatching success and duration of clutch survival were negatively and predation positively related to the date of clutch initiation. Furthermore, negative relationships were found between egg size and predation and duration of survival, respectively. We assume that concealed nests, early breeding and breeding experience diminish predation in salt marsh breeding redshanks. Thus, redshank reproduction appears to be affected by interactive effects of timing of breeding and vegetation facilitating early breeding. In contrast to open-nesting species, breeding in riparian habitats next to waterbodies may be disadvantageous for species breeding concealed in vegetation if these are covered by less structured vegetation.     

Nest loss in capercaillie and black grouse in relation to the small rodent cycle in southeast Norway

Summary The relationship between nest loss in boreal forest grouse and the fluctuations in small rodents was studied at Varaldskogen in southeast Norway during 1979–1986, covering two complete rodent cycles. Nest loss in capercaillie (N=174) and black grouse (N=81) was calculated according to Mayfield (1975) based on nests from radio-equipped hens (N=77) and nests found by other methods (N=178). Small rodent density was measured by snap trapping during spring and autumn. Losses varied as predicted by the classical alternative prey hypothesis (Hagen 1952 and Lack 1954, as elaborated by Angelstam et al. 1984): high losses during rodent crash years (85.5% capercaillie, 51% black grouse), and smaller losses during peak years (54.5% capercaillie, 32.5% black grouse). Losses were inversely related to autumn abundance of rodents in capercaillie (P<0.05), but the correlation was not significant for black grouse (0.10<P<0.20). In capercaillie, the only species with an adequate sample for analysis, no relationship was detected between spring density of rodents and nest loss. Losses during the prepeak years were nearly as high as during crash years, a result inconsistent with the model. We conclude that the numerical response of predators to their cyclic main prey (i.e. small rodents) probably play a main role during the low phase and prepeak year, whereas the dietary shift is most important during the peak and crash year of the cycle.     

Colony development and social structure in a subtropical paper wasp,Ropalidia fasciata (F.) (Hymenoptera: Vespidae)

More than 50% of nests of Ropalidia fasciata were founded by association of foundresses (multifemale nests). The multifemale nests were generally initiated earlier and grew faster than the single-female nests. The survival rate of the multifemale nests was significantly higher than that of single-female nests, and the productivity as measured by the number of cells produced per foundress had a peak at a foundress-group size from 6 to 10. The number of marked foundresses which were seen on their original nest decreased as the colony cycle proceeded, but some of them continued to coexist on the original nests after emergency of many female progeny. Except in the case where a large number of foundresses attended a young nest so that some foundresses could not sit on the nest, the dominance interactions among cofoundresses were mild. More than twothirds (71.4%) of nests (including those at the post-emergence stage) had multiple egg-layers. The foundress association in this species is considered to be beneficial for every foundress because it raises ability to avoid predation or to reconstruct their nests when the nests are destroyed by typhoons.     

Dispersion distance of queens from natal sites in the two haplometrotic paper waspsPolistes riparius andP. snelleni (Hymenoptera: Vespidae)

Dispersion capabilities of new queens were studied in the two haplometrotic paper wasps Polistes riparius and P. snelleni. New queens were marked on the nests in the late summer and located in the next spring. Dispersion distances greatly varied among queens: although a large part of recovered queens nested in close proximity to their natal sites, some did disperse over 100–300 m. This suggests that queens' emigration from and immigration into the censused areas occurred to a substantial extent. On the whole, these species exhibited a weaker “philopatric” tendency than those so far studied for dispersion distance, and seem to have the potential for a long-distance dispersion.     

Predation on artificial,solitary and aggregated wader nests on farmland

Predation rates on artificial wader nests, solitary curlew (Numenius arquata) and lapwing (Vanellus vanellus) nests and lapwing nests in colonies were studied on a farmland site in central Sweden. Predation rates were highest on artificial wader nests, intermediate on solitary curlew and lapwing nests and lowest on lapwing nests in colonies, probably because of active defence of adults at real nests and/or because of selection of nest sites with lower predation risk by breeding birds. A comparison of nests close to (50 m) and far away from (200 m) forest edges revealed no increased predation risk close to edges for any of the studied nest types. Predation risk changed during the season for artificial nests (highest in the middle of May), while predation rates on lapwing and curlew nests were more stable. Artificial nests seem to be inappropriate for measuring actual predation rates and temporal differences in predation rates on real nests, but they might be suitable for use as an index of spatial differences.     

Ecological studies ofRoparidia fasciata in Okinawa island I. Distribution of single- and multiple-foundress colonies

To compare between a single-foundress colony and a multiple-foundress colony at the pre-emergence state of a social wasp, R. fasciata, nest distributions and colony terminations were investigated in 8 sites with different environmental conditions. Marking experiments were also conducted in two sites at high wasp density.

1. Foundress populations were composed of single-foundress colonies in sites C, D and E, new environments where have recently suited for inhaviting, at low wasp density. In sites like A and B which were used year after year, at high wasp density, coexistence of multiple-and single-foundress colonies was observed.
2. From the marking experiment, nests initiated by a single foundress were more distant away from the nest where the original foundress emerged the fall before, compared to multiple-foundress nests which were initiated by multiple foundress.
3. Greater percentage of colony termination was observed in single-foundress nests than in multiple-foundress nests, and the colony termination in single-foundress colonies increased with the nest density.
4. Ant predation was the key factor causing the variation of the percentage of colony termination.

     

Age and clutch size variation in Dusky Flycatcher nest survival

Examination of spatial and temporal factors that influence nest survival can provide insight into habitat selection, reproductive decisions (e.g., clutch size), population dynamics, and conservation requirements for species. We used nest survival data for the Dusky Flycatcher Empidonax oberholseri to examine several factors that may influence nesting success. Our prediction was that the number of nest initiations would be positively associated with period nest survival. We used a model selection framework and found that nesting success was a function of clutch size and a cubic effect of age. Clutches with one, two, three, and four eggs had period survival rates of 0, 0.05, 0.33, and 0.49, respectively. Daily survival rates decreased from the onset of egg-laying and increased during the later stages of incubation before remaining relatively constant through the later portions of the nestling stage. Model-selection criterion provided support for a date effect on daily survival (i.e., daily nest survival declined across the nesting season) although the 95% confidence interval for the estimate included zero. We found that the majority of nest initiations occurred early in the nest season and declined across the season as period nest survival declined. Our prediction concerning nest survival was partially supported. In addition, we found substantial positive associations between clutch size and nest survival. While low daily survival rates for clutches with one or two eggs suggested that individuals may have reduced reproductive effort in response to nest predation risk, we did not find strong evidence that individuals reduced their clutch sizes in subsequent nest attempts. Alternative predictions, including the preferential settlement of higher quality individuals (e.g., those with the ability to lay full clutches to replace depredated nests) into high-quality habitat and differences in behavior patterns (e.g., number of visits to provision nestlings), may provide more consistent explanations for these patterns.     

Comparison of life tables between the solitary eumenid waspAnterhynchium flavomarginatum and the subsocial eumenid waspOrancistrocerus drewseni to evaluate the adaptive significance of maternal care

I compared life tables between the solitary eumenid wasp Anterhynchium flavomarginatumSmith and the subsocial eumenid wasp Orancistrocerus drewseniSaussure in Kyoto, Japan, during 1980–1983. The subsocial eumenid is parthenogenetic in this study area. There were 9 identified mortality factors in the solitary eumenid and 7 in the subsocial eumenid, 6 of which were common to the two eumenids. The important differences of mortality between the two eumenids were seen in the egg, larval, and prepupal stages. In the egg stage, mortality by the phorid fly Megaselia sp. was much lower in the subsocial eumenid (1.4%) than in the solitary eumenid (15.0%) likely because of the matenal care of the subsocial eumenid (progressive provisioning and other related behavior), which reduced predation pressure. In the larval stage, mortality by the miltogrammine fly Amobia distorta was also lower in the subsocial eumenid (8.1%) than in the solitary eumenid (23.8%) also probably because of the maternal care of the subsocial eumenid. A comparison of mortality in the two eumenids between the stable, long continuing natural nest sites and the additional temporal ones showed that the phorid fly remained near its birth place and parasitized stable nest sites. The miltogrammine fly followed returning eumenid wasps and parasitized those nest sites that have a high host density. In the prepupal stage, mortality by endogenous death was higher in the subsocial eumenid than in the solitary eumenid. Mortality due to the rhipiphorid beetle was also higher in the subsocial eumenid probably due to more frequent flower-visits by the subsocial eumenid. The defense mechanism of the subsocial eumenid was discussed in relation to the evolution of subsociality.