Euarchontan Opsin Variation Brings New Focus to Primate Origins.

Debate on the adaptive origins of primates has long focused on the functional ecology of the primate visual system. For example, it is hypothesized that variable expression of short- (SWS1) and middle-to-long-wavelength sensitive (M/LWS) opsins, which confer color vision, can be used to infer ancestral activity patterns and therefore selective ecological pressures. A problem with this approach is that opsin gene variation is incompletely known in the grandorder Euarchonta, that is, the orders Scandentia (treeshrews), Dermoptera (colugos), and Primates. The ancestral state of primate color vision is therefore uncertain. Here, we report on the genes (OPN1SW and OPN1LW) that encode SWS1 and M/LWS opsins in seven species of treeshrew, including the sole nocturnal scandentian Ptilocercus lowii. In addition, we examined the opsin genes of the Central American woolly opossum (Caluromys derbianus), an enduring ecological analogue in the debate on primate origins. Our results indicate: 1) retention of ultraviolet (UV) visual sensitivity in C. derbianus and a shift from UV to blue spectral sensitivities at the base of Euarchonta; 2) ancient pseudogenization of OPN1SW in the ancestors of P. lowii, but a signature of purifying selection in those of C. derbianus; and, 3) the absence of OPN1LW polymorphism among diurnal treeshrews. These findings suggest functional variation in the color vision of nocturnal mammals and a distinctive visual ecology of early primates, perhaps one that demanded greater spatial resolution under light levels that could support cone-mediated color discrimination.

A Century of Shope Papillomavirus in Museum Rabbit Specimens.

Sylvilagus floridanus Papillomavirus (SfPV) causes growth of large horn-like tumors on rabbits. SfPV was described in cottontail rabbits (probably Sylvilagus floridanus) from Kansas and Iowa by Richard Shope in 1933, and detected in S. audubonii in 2011. It is known almost exclusively from the US Midwest. We explored the University of Kansas Natural History Museum for historical museum specimens infected with SfPV, using molecular techniques, to assess if additional wild species host SfPV, and whether SfPV occurs throughout the host range, or just in the Midwest. Secondary aims were to detect distinct strains, and evidence for strain spatio-temporal specificity. We found 20 of 1395 rabbits in the KU collection SfPV symptomatic. Three of 17 lagomorph species (S. nuttallii, and the two known hosts) were symptomatic, while Brachylagus, Lepus and eight additional Sylvilagus species were not. 13 symptomatic individuals were positive by molecular testing, including the first S. nuttallii detection. Prevalence of symptomatic individuals was significantly higher in Sylvilagus (1.8%) than Lepus. Half of these specimens came from Kansas, though new molecular detections were obtained from Jalisco-Mexico's first-and Nebraska, Nevada, New Mexico, and Texas, USA. We document the oldest lab-confirmed case (Kansas, 1915), pre-dating Shope's first case. SfPV amplification was possible from 63.2% of symptomatic museum specimens. Using multiple methodologies, rolling circle amplification and, multiple isothermal displacement amplification in addition to PCR, greatly improved detection rates. Short sequences were obtained from six individuals for two genes. L1 gene sequences were identical to all previously detected sequences; E7 gene sequences, were more variable, yielding five distinct SfPV1 strains that differing by less than 2% from strains circulating in the Midwest and Mexico, between 1915 and 2005. Our results do not clarify whether strains are host species specific, though they are consistent with SfPV specificity to genus Sylvilagus.

Perceived damage and areas of needed research for wildlife pests of California agriculture.

Many wildlife species cause extensive damage to a variety of agricultural commodities in California, with estimates of damage in the hundreds of millions annually. Given the limited availability of resources to solve all human-wildlife conflicts, we should focus management efforts on issues that provide the greatest benefit to agricultural commodities in California. This survey provides quantitative data on research needs to better guide future efforts in developing more effective, practical and appropriate methods for managing these species. We found that ground squirrels, pocket gophers, birds, wild pigs, coyotes and voles were the most common agricultural wildlife pest species in California. The damage caused by these species could be quite high, but varied by agricultural commodity. For most species, common forms of damage included loss of crop production and direct death of the plant, although livestock depredation was the greatest concern for coyotes. Control methods used most frequently and those deemed most effective varied by pest species, although greater advancements in control methods were listed as a top research priority for all species. Collectively, the use of toxicants, biocontrol and trapping were the most preferred methods for control, but this varied by species. In general, integrated pest management practices were used to control wildlife pests, with a special preference for those approaches that were efficacious and quick and inexpensive to apply. This information and survey design should be useful in establishing research and management priorities for wildlife pest species in California and other similar regions.

Paleoecological and taphonomic implications of insect-damaged pleistocene vertebrate remains from Rancho La Brea, southern California.

The La Brea Tar Pits, the world's richest and most important Late Pleistocene fossil locality, offers unsurpassed insights into southern California's past environments. Recent studies at Rancho La Brea document that insects serve as sensitive and valuable paleoecological and taphonomic indicators. Of the thousands of fossil bird and mammal bones recovered from the Tar Pits, insect trace damage is thus far almost exclusively confined to the foot bones of large herbivores, especially bison, camel, and horse species. Our laboratory experiments with dermestid and tenebrionid beetles establish that the larvae of both consume bone, producing different characteristic feeding traces and providing the first documentation that tenebrionids consume bone. The presence of carcass-exploiting insects in the Rancho La Brea biota provides insight into the taphonomy of the asphaltic bone masses and the environmental conditions under which they accumulated. The succession of dermestids, tenebrionids, and indeterminate traces on many of the foot elements, combined with the climate restrictions and life cycles of these insects, indicate that carcasses could remain unsubmerged for at least 17-20 weeks, thus providing the most reliable estimate to date. Attribution of these traces also suggests that the asphaltic fossils only accumulated during warmer intervals of the Late Pleistocene. Forensic studies need to reevaluate the role of tenebrionids in carcass decomposition and other additional insects that modify bone.

Do geological or climatic processes drive speciation in dynamic archipelagos? The tempo and mode of diversification in Southeast Asian shrews.

Geological and climatic processes potentially alter speciation rates by generating and modifying barriers to dispersal. In Southeast Asia, two processes have substantially altered the distribution of land. Volcanic uplift produced many new islands during the Miocene-Pliocene and repeated sea level fluctuations during the Pleistocene resulted in intermittent land connections among islands. Each process represents a potential driver of diversification. We use a phylogenetic analysis of a group of Southeast Asian shrews (Crocidura) to examine geographic and temporal processes of diversification. In general, diversification has taken place in allopatry following the colonization of new areas. Sulawesi provides an exception, where we cannot reject within-island speciation for a clade of eight sympatric and syntopic species. We find only weak support for temporally declining diversification rates, implying that neither volcanic uplift nor sea level fluctuations had a strong effect on diversification rates. We suggest that dynamic archipelagos continually offer new opportunities for allopatric diversification, thereby sustaining high speciation rates over long periods of time, or Southeast Asian shrews represent an immature radiation on a density-dependent trajectory that has yet to fill geographic and ecological space.

Swimming ability in three Costa Rican dry forest rodents

We investigated the swimming abilities of three Costa Rican dry forest rodents (Coues' rice rat. Oryzomys couesi, hispid cotton rat, Sigmodon hispidus, and spiny pocket mouse, Liomys salvini) associated with a large marsh, Laguna Palo Verde, using 90 s swim trials in a plastic container. Swimming ability was evaluated by observing the use of limbs and tail in the water, inclination to the surface, and diving and floating behavior. Rice rats could float, swim and dive, suggesting that they can exploit surface and underwater resources. Cotton rats swam at the water's surface, but were less skilled swimmers than rice rats. Spiny pocket mice tired quickly and had difficulty staying at the water's surface. Results suggest that differential swimming ability is related to the distribution of the three sympatric species within the marsh and adjacent forest habitats.

Predation by squirrel monkeys and double-toothed kites on tent-making bats.

Central American squirrel monkeys (Saimiri oerstedi) appear to recognize the modified leaves that phyllostomid bats utilize for diurnal roost sites. The monkeys visually and manually search these bat tents for both bats and insects. Adult males are the most successful at capturing bats. Nonvolant juvenile bats are more vulnerable to monkey predation than are adults. Bats that escape monkey predation frequently are captured by doubletoothed kites (Harpagus bidentatus) that tend foraging troops of monkeys. Predation by squirrel monkeys, coupled with that of double-toothed kites, may be a significant source of mortality for tent-making bats.