Codon Usage in Tetrahymena and Other Ciliates

Codon usage in ciliates was examined by analyzing the coding regions of 22 ciliate genes corresponding to a total of 26, 142 nucleotides (8, 714 codons). It was found that Tetrahymena, Paramecium and the hypotrichs ( Oxytricha and Stylonychia ) differed in which synonymous codons were used most frequently by their genes. In fact, the codon choices in highly expressed Tetrahymena genes were more similar to those of yeast genes than those of Paramecium genes. The ciliates do not appear to have unusually strong biases in codon usage frequency when compared to other protists such as yeast. The analysis of the Tetrahymena genes indicated that genes which are highly expressed during normal cell growth have a stronger bias towards using the "preferred" codons than those expressed at lower levels during growth or for brief periods during processes such as conjugation. This conforms to what is found in other protists.     

Do cyclones and forest fragmentation have synergistic effects? A before–after study of rainforest vegetation structure at multiple sites

Abstract Ecological degradation within areas of remnant forest may be amplified if the effects of fragmentation interact with the effects of other environmental disturbances such as wind storms. We used before–after comparisons to assess the effects of Tropical Cyclone Larry on remnant and continuous rainforest in the Wet Tropics uplands of north‐eastern Australia. Vegetation structure was measured 3 years before the cyclone and 6 months afterwards, at eight continuous forest sites and eight remnants (6–37 ha), within 20 km of the cyclone's track. The cyclone caused extensive defoliation, felling and breakage of stems and branches (greatest among the trees >100 cm diameter which had around 50% stem loss), and increased litter and woody debris. Cyclone effects were strongly influenced by a site's spatial position (P = 0.005, 0.001 in multivariate analyses of overall damage). Maximum damage occurred 10–15 km south of the cyclone track, perhaps because of the additive effects of the west‐moving air at the southern eyewall combined with the cyclone's own rapid westward movement. Most fragments were south of the cyclone track, as a consequence of spatially selective deforestation practices, and therefore, showed greatest damage. However, once the effects of spatial position were considered, the independent differences in cyclone effects between fragments and continuous forest were lost (P = 0.23, 0.41 when north‐south distance was included as a covariate in analyses). The expected protection afforded by a continuous forest canopy seems to have disappeared in the face of extremely strong cyclonic winds and down‐draughts. Nevertheless, an interaction between fragmentation and disturbance may yet occur, during the period of post‐cyclone recovery, owing to the effects of landscape context on plant recruitment. For example, there was a higher diversity of exotic seedling germination in fragments, independent of the extent of cyclone damage.     

Influence of Summer and Autumn Nutrition on Body Condition and Reproduction in Lactating Mule Deer

ABSTRACT Recent work suggests that availability and quality of forage in late summer and early autumn, a time when female ungulates face multiple energetic demands, is critical to reproduction in wild ungulates. Therefore, we examined direct links between nutritional quality of diets, body condition, and reproduction of lactating mule deer. Using captive mule deer, we tested the hypothesis that females consuming diets with lower digestible energy (DE; kJ/g) would have lower DE intake rates (DEI; MJ/day), have less body fat and muscle, have later estrus cycles, and have lower pregnancy and twinning rates. Deer fed lower DE diets had lower DEI during summer and autumn. In turn, deer with lower DEI, regardless of diet DE, had lower body mass, body fat, and muscle thickness. When nutritional quality of diets began to decline earlier in the summer, relationships between food quality, DEI, and body condition were stronger. Although DEI did not influence estrus date for deer that became pregnant before 21 December, deer with lower DEI had a lower probability of becoming pregnant and had a lower probability of producing twins. Measures of body condition in October (i.e., body mass, body fat, and muscle depth) predicted pregnancy and twinning rates in mule deer. Serum concentration of hormones leptin and Insulin Growth Factor 1 were not good predictors of body condition or reproduction. These findings suggest that managers concerned with productivity of mule deer populations should consider focusing on assessing and improving quality of forage available in summer and autumn.     

Modeling Distribution of Dispersal Distances in Male White-Tailed Deer

Abstract: Dispersal distances and their distribution pattern are important to understanding such phenomena as disease spread and gene flow, but oftentimes dispersal characteristics are modeled as a fixed trait for a given species. We found that dispersal distributions differ for spring and autumn dispersals of yearling male white-tailed deer (Odocoileus virginianus) but that combined data can be adequately modeled based on a log-normal distribution. We modeled distribution of dispersal distances from 3 distinct populations in Pennsylvania and Maryland, USA, based on the relationship between percent forest cover and mean dispersal distance and the relationship between mean and variance of dispersal distances. Our results suggest distributions of distances for dispersing yearling male white-tailed deer can be modeled by simply measuring a readily obtained landscape metric, percent forest cover, which could be used to create generalized spatially explicit disease or gene flow models.     

Molecular evidence of cycad seed predation by immature Aulacoscelidinae (Coleoptera: Orsodacnidae)

Adult beetles in the small subfamily Aulacoscelidinae (superfamily Chrysomeloidea) are known to feed on the foliage and juices of New World cycads (Order Cycadales; family Zamiaceae), but the habits of larvae have long remained a mystery. We provide the first direct evidence that Aulacoscelidinae larvae feed on and develop within the megagametophyte of the Mesoamerican cycad, Dioon merolae (Zamiaceae). Phylogenetic analyses based on partial DNA sequences from 3 genes recover a cycad seed‐feeding larva proposed to belong to Aulacoscelidinae. These observations reveal a more intimate feeding relationship between Aulacoscelidinae and their New World cycad host plants than was previously recognized. Further, adult Aulacoscelidinae have long been noted to resemble Jurassic fossil chrysomeloids in the extinct subfamily Protoscelidinae. The molecular, morphological, ecological and fossil data reported herein are broadly compatible with an early association between Aulacoscelidinae and their gymnosperm hosts.