Evolution of eutherian cytochrome c oxidase subunit II: heterogeneous rates of protein evolution and altered interaction with cytochrome c

Cytochrome c oxidase subunit II (COII), encoded by the mitochondrial genome, exhibits one of the most heterogeneous rates of amino acid replacement among placental mammals. Moreover, it has been demonstrated that cytochrome c oxidase has undergone a structural change in higher primates which has altered its physical interaction with cytochrome c. We collected a large data set of COII sequences from several orders of mammals with emphasis on primates, rodents, and artiodactyls. Using phylogenetic hypotheses based on data independent of the COII gene, we demonstrated that an increased number of amino acid replacements are concentrated among higher primates. Incorporating approximate divergence dates derived from the fossil record, we find that most of the change occurred independently along the New World monkey lineage and in a rapid burst before apes and Old World monkeys diverged. There is some evidence that Old World monkeys have undergone a faster rate of nonsynonymous substitution than have apes. Rates of substitution at four-fold degenerate sites in primates are relatively homogeneous, indicating that the rate heterogeneity is restricted to nondegenerate sites. Excluding the rate acceleration mentioned above, primates, rodents, and artiodactyls have remarkably similar nonsynonymous replacement rates. A different pattern is observed for transversions at four-fold degenerate sites, for which rodents exhibit a higher rate of replacement than do primates and artiodactyls. Finally, we hypothesize specific amino acid replacements which may account for much of the structural difference in cytochrome c oxidase between higher primates and other mammals.      

Relationships among msx gene structure and function in zebrafish and other vertebrates

The zebrafish genome contains at least five msx homeobox genes, msxA, msxB, msxC, msxD, and the newly isolated msxE. Although these genes share structural features common to all Msx genes, phylogenetic analyses of protein sequences indicate that the msx genes from zebrafish are not orthologous to the Msx1 and Msx2 genes of mammals, birds, and amphibians. The zebrafish msxB and msxC are more closely related to each other and to the mouse Msx3. Similarly, although the combinatorial expression of the zebrafish msx genes in the embryonic dorsal neuroectoderm, visceral arches, fins, and sensory organs suggests functional similarities with the Msx genes of other vertebrates, differences in the expression patterns preclude precise assignment of orthological relationships. Distinct duplication events may have given rise to the msx genes of modern fish and other vertebrate lineages whereas many aspects of msx gene functions during embryonic development have been preserved.      

Surface structure changes of rat adipocytes during lypolysis stimulated by various lypolysis stimulated by various lypolytic agents

A qualitative and quantitative electron microscopic study was performed on rat adipocytes during stimulation of lipolysis by various agents. Scanning electron microscopy of control cells revealed a spherical cell with a textured glycocalyx surface exhibiting small irregular projections. Globular surface evaginations or protrusions measuring 8-18 μM in diameter were seen on cell hemispheres, and there was an average of one protrusion for every two hemispheres examined. Distribution analysis showed that 60 percent of the hemispheres had no protrusions, and 25, 10, and 5 percent of the hemispheres had one, two or three protrusions, respectively. Thin-section and freeze- fracture electron microscopy of the protrusions showed a small triglyceride droplet surrounded by a thin cytoplasmic rim that was continuous with the main cytoplasmic matrix. The glycocalyx coating and plasma membrane extended from the cell surface onto, and over, the protrusion. Scanning microscopy of cells stimulated by lipolytic agents, including epinephrine, adrenocorticotropic hormone, theophylline, and dibutyryl cyclic AMP, revealed a dose-dependent increase in the number of protrusions per cell hemisphere. Maximal concentrations of lipolytic hormones cuase an average 2.5-fold increase in the number of protrusions per hemisphere without changing the average size of the protrusions. Only 40 percent of the stimulated cell hemispheres exhibited no protrusions; over 15 percent of the cells contained three or more; and a number of the protrusions were multilobulate. Insulin prevented the increase in the number of protrusions and the change in distribution caused by the lipolytic hormones but did not prevent the increase caused by theophylline and dibutryl cyclic AMP. The data suggest that the protrusions are a structural feature of the cell and may be related to the lypolytic pathway. These observations may help explain some of the discrepant biochemical data relating to hormonal stimulation of lipolysis.     

Home ranges and survival of Nahan’s Francolin Francolinus nahani in Budongo Forest,Uganda

We studied home ranges, habitat use and survival of radio‐tagged Nahan’s Francolin in Budongo Forest Reserve, Uganda during July 1998–December 1999. We studied Nahan’s Francolin in an unlogged nature reserve, in a compartment logged in 1947–1952 and in a compartment logged twice, in 1963–1964 and 1996–1997. Mean home range was 14.22 ± 1.35 ha (n = 17). The home range was significantly larger in the nature reserve than in the recently logged compartment. Birds spent more time during the day in areas with high understorey vegetation density but preferred to roost and nest between buttresses of large trees. Understorey vegetation density and canopy openness were significantly greater in the logged forest than in the nature reserve. Annual survival of adult Nahan’s Francolins was 20.09 ± 7.33% (n = 23). Our results suggest that the maintenance of large trees and areas with high understorey vegetation density are both important for Nahan’s Francolin.     

Sampling tiger ungulate prey by the distance method: lessons learned in Bardia National Park, Nepal

Because tiger Panthera tigris numbers are regulated by their prey base, prey abundance needs to monitored and estimated reliably. Recently, distance sampling has been adopted as the most appropriate method and is now becoming the standard monitoring protocol in all tiger range countries in south Asia. However, the accuracy of the density estimates generated by this method has not been assessed. From total counts within habitat blocks, we obtained accurate density estimates of ungulates within three main habitats in Bardia National Park, Nepal. We then applied the distance sampling method in the same habitats and compared the results. Distance sampling on foot in dense habitats (riverine forest and tallgrass floodplain) violated method assumptions, and sampling from vehicle along roads gave biased estimates. Sampling from elephant back worked well in all habitat types, but owing to their behaviour, the density of barking deer Muntiacus muntjak was underestimated. The accuracy of the estimates varied with sampling effort; for the very abundant chital deer Axis axis , estimates varied markedly at <200 animal observations, but converged at larger sample sizes to a similar point estimate as intensive block counts when approaching 300 observations. For the less abundant species, with <20 observations along >100 km of transect lines, the confidence intervals were quite high, and, hence, of limited value for detecting short-term populations trends. It is therefore difficult to obtain accurate density estimates of rare species by the distance method. In areas consisting of dense habitats, we recommend that the food base of tiger be estimated by distance sampling from elephant back, not on foot, directed at the main and most abundant prey species. For rare species, encounter rates obtained simultaneously may then serve as indices of relative abundances.     

Do tigers displace leopards? If so, why?

We investigated predictions concerning the competitive relationships between tigers Panthera tigris and leopards Panthera pardus in Bardia National Park, Nepal, based on spatial distributions of scats and territorial markings (sign), analyses of scat content and census of wild ungulate prey. Medium-sized ungulates, in particular chital Axis axis, was the main food of both predators, but leopards consumed significantly larger proportions of domestic animals, small mammals, and birds than tigers. Tiger sign were never found outside the park, while leopard sign occurred both inside and outside, and were significantly closer to the park border than tiger sign. Significantly higher prey densities at locations of tiger sign than that of leopards were mainly due to a preference of the latter species for the park border areas. Our results imply that interference competition––and not competition for food––was a limiting factor for the leopard population, whose distribution was restricted to the margins of the tiger territories. We suggest that the composition of the prey base is a key factor in understanding the different results and interpretations reported in studies on tiger/leopard coexistence. There are two potential mechanisms that link interference competition and prey: (1) low abundance of large ungulate prey decreases foraging efficiency of tigers, leading to increased energetic stress and aggression towards leopards; and (2) increased diet overlap due to scarcity of large prey leads to increased encounter rates and increased levels of interference competition.     

Breeding requirements of Nahan’s Francolin,Francolinus nahan,in Budongo forest reserve,Uganda

The Nahan’s Francolin Francolinus nahani is a globally threatened species associated with remnant forests of the eastern equatorial lowlands of the Democratic Republic of the Congo and Uganda. We studied the species in the Budongo Forest Reserve during March 1998 to January 2000 in an attempt to document some aspects of breeding requirements. We located nests by physically searching the forest and through following radio‐tagged adults. We measured demographical and habitat parameters associated with each nest. Our data suggest that trees of large diameter at breast height with appropriate buttress formation are important for long‐time survival of Nahan’s Francolins.