Vertebrate Predation and Food-Sharing in Cebus and Pan

Capuchins and chimpanzees are the only nonhuman primates apart from baboons known to prey systematically upon relatively large vertebrates. Vertebrate predation is common and well documented in Pan troglodytes, rare in Pan paniscus, and commonly reported but infrequently studied in Cebus. Food-sharing is common in both Pan species but rarely reported for wild capuchins. I present data on vertebrate predation and food-sharing by white-faced capuchins (Cebus capucinus) from ongoing field studies at Santa Rosa National Park, Costa Rica. We have observed 106 successful predation events resulting in the capture of 156 prey items during 2929 observation hr (5.35 prey per 100 hr). Squirrels and nestling coatis comprised half of the prey taken; the remainder were mainly nestling birds and eggs. Adult males took 52% of all prey and 67% of squirrels. Squirrels are actively hunted and about 65% of them are adults. I estimated that the average capuchin group kills 43–50 squirrels annually, mostly during the dry season. Capuchins hunt squirrels in groups 81% of the time, and 17% of hunts are successful. There is no evidence for cooperative hunting, but occasional collaboration is suggested. Rates of food-sharing were low (1.7 per 100 hr), and meat was the only food shared between adults. I compare predation and food-sharing in C. capucinus with published data for Pan troglodytes, primarily in Gombe and Taï National Parks. I discuss sex differences, hunting strategies, the relationship between hunting and food-sharing, and various ecological and social factors that may promote vertebrate predation in Pan and Cebus.     

Alignment of the genetic and physical maps in the dpy-5 bli-4 (I) region of C. elegans by the serial cosmid rescue of lethal mutations

Lethal mutations in the 0.5 map unit region between dpy-5 and bli-4 on chromosome I in Caenorhabditis elegans were serially rescued using cosmid-containing transgenic strains. All the lethal mutations analyzed came from a set of 495 EMS-induced, sDp2-rescued lethals described previously. Germline transformation with cosmid DNA was used to create 25 transgenic strains bearing heritable extrachromosomal arrays. These arrays were used as small duplications for the fine-scale mapping of essential genes, via the rescue of lethal mutations. Lethal mutations in 13 essential genes have been phenotypically rescued, allowing the alignment of the genetic and physical maps in this region. Extrachromosomal arrays were found to be transmitted 2- to 7-fold less frequently in oocytes than in hermaphrodite sperm for 12 of the 16 arrays that were examined. Three of these strains showed a subsequent 4- to 13-fold increase in array stability in oocytes. This phenomenon may be influenced by cosmid sequences. Early mitotic loss of the arrays was observed in all 17 transgenic strains examined, suggesting that loss of the array can occur at any time during development when cell divisions are occurring. As a result of this work, 13 of the essential loci positioned between dpy-5 and bli-4 are anchored to the physical map, thereby providing links between the physical and genetic maps on average every 85 kb.     

Use of polymorphic short and clustered coding-region microsatellites to distinguish strains of Candida albicans

Abstract We describe the identification of polymorphic microsatellite loci in the pathogenic yeast, Candida albicans . A search for all coding-region microsatellites with more than four repeats that can be found in Candida sequences in GenBank was conducted. Nine such microsatellite sequences consisting of trinucleotide motifs were found. Three of these were perfect microsatellites while the remaining six sequences were found in one imperfect microsatellite and two compound microsatellites. Because of the close proximity of some of these repeats, all could be assayed with six PCR primer pairs. All of these microsatellite sequences were found in five nuclear genes, ZNF1, CCN1, CPH1, EFG1 , and MNT2 . Except for a single (CTT)₅ serine tract, all coded for polyglutamine tracts. Another locus with seven alleles, a region of the ERK1 protein kinase gene, was also examined, and may be a representative of a new class of highly polymorphic ‘clustered’ microsatellites. Such loci, in which several non-contiguous but closely linked microsatellites are clustered together, may be a useful source of DNA polymorphisms in microorganisms in which long microsatellite sequences are unavailable. All seven regions amplified were polymorphic, having between two and seven variable length alleles in the 11 strains of Candida albicans examined. The results of this and similar searches will facilitate epidemiological and evolutionary studies of Candida and other microorganisms.     

Molecular evolution of cytochrome c oxidase: rate variation among subunit VIa isoforms

Cytochrome c oxidase (COX) consists of 13 subunits, 3 encoded in the mitochondrial genome and 10 in the nucleus. Little is known of the role of the nuclear-encoded subunits, some of which exhibit tissue-specific isoforms. Subunit VIa is unique in having tissue-specific isoforms in all mammalian species examined. We examined relative evolutionary rates for the COX6A heart (H) and liver (L) isoform genes along the length of the molecule, specifically in relation to the tissue-specific function(s) of the two isoforms. Nonsynonymous (amino acid replacement) substitutions in the COX6AH gene occurred more frequently than in the ubiquitously expressed COX6AL gene. Maximum-parsimony analysis and sequence divergences from reconstructed ancestral sequences revealed that after the ancestral COX6A gene duplicated to yield the genes for the H and L isoforms, the sequences encoding the mitochondrial matrix region of the COX VIa protein experienced an elevated rate of nonsynonymous substitutions relative to synonymous substitutions. This is expected for relaxed selective constraints after gene duplication followed by purifying selection to preserve the replacements with tissue-specific functions.      

The statistical analysis of spatially clustered genes under the maximum gap criterion.

Statistical validation of gene clusters is imperative for many important applications in comparative genomics which depend on the identification of genomic regions that are historically and/or functionally related. We develop the first rigorous statistical treatment of max-gap clusters, a cluster definition frequently used in empirical studies. We present exact expressions for the probability of observing an individual cluster of a set of marked genes in one genome, as well as upper and lower bounds on the probability of observing a cluster of h homologs in a pairwise whole-genome comparison. We demonstrate the utility of our approach by applying it to a whole-genome comparison of E. coli and B. subtilis. Code for statistical tests is available at.     

Off‐road vehicles affect nesting behaviour and reproductive success of American Oystercatchers Haematopus palliatus

As human populations and associated development increase, interactions between humans and wildlife are occurring with greater frequency. The effects of these interactions, particularly on species whose populations are declining, are of great interest to ecologists, conservationists, land managers and natural resource policy‐makers. The American Oystercatcher Haematopus palliatus, a species of conservation concern in the USA, nests on coastal beaches subject to various forms of anthropogenic disturbance, including aircraft overflights, off‐road vehicles and pedestrians. This study assessed the effects of these human disturbances on the incubation behaviour and reproductive success of nesting American Oystercatchers at Cape Lookout National Seashore, on the Atlantic coast of the USA. We expanded on‐going monitoring of Oystercatchers at Cape Lookout National Seashore by supplementing periodic visual observations with continuous 24‐h video and audio recording at nests. Aircraft overflights were not associated with changes in Oystercatcher incubation behaviour, and we found no evidence that aircraft overflights influenced Oystercatcher reproductive success. However, Oystercatchers were on their nests significantly less often during off‐road vehicle and pedestrian events than they were during control periods before the events, and an increase in the number of off‐road vehicles passing a nest during incubation was consistently associated with significant reductions in daily nest survival (6% decrease in daily nest survival for a one‐vehicle increase in the average number of vehicles passing a nest each day; odds ratio = 0.94; 95% confidence interval (CI) 0.90, 0.98) and hatching success (12% decrease in hatching success for a one‐vehicle increase in the average number of vehicles passing a nest each day; odds ratio = 0.88; 95% CI 0.76, 0.97). Management of vehicles and pedestrians in areas of Oystercatcher breeding is important for the conservation of American Oystercatchers.     

Scope for genetic rescue of an endangered subspecies though re‐establishing natural gene flow with another subspecies

Genetic diversity is positively linked to the viability and evolutionary potential of species but is often compromised in threatened taxa. Genetic rescue by gene flow from a more diverse or differentiated source population of the same species can be an effective strategy for alleviating inbreeding depression and boosting evolutionary potential. The helmeted honeyeater Lichenostomus melanops cassidix is a critically endangered subspecies of the common yellow‐tufted honeyeater. Cassidix has declined to a single wild population of ~130 birds, despite being subject to intensive population management over recent decades. We assessed changes in microsatellite diversity in cassidix over the last four decades and used population viability analysis to explore whether genetic rescue through hybridization with the neighbouring Lichenostomus melanops gippslandicus subspecies constitutes a viable conservation strategy. The contemporary cassidix population is characterized by low genetic diversity and effective population size (N_e < 50), suggesting it is vulnerable to inbreeding depression and will have limited capacity to evolve to changing environments. We find that gene flow from gippslandicus to cassidix has declined substantially relative to pre‐1990 levels and argue that natural levels of gene flow between the two subspecies should be restored. Allowing gene flow (~4 migrants per generation) from gippslandicus into cassidix (i.e. genetic rescue), in combination with continued annual release of captive‐bred cassidix (i.e. demographic rescue), should lead to positive demographic and genetic outcomes. Although we consider the risk of outbreeding depression to be low, we recommend that genetic rescue be managed within the context of the captive breeding programme, with monitoring of outcomes.     

Restoring habitat and cultural practice in Australia’s oldest and largest traditional aquaculture system

Lake Condah (Tae Rak) in south-western Victoria, Australia, is one of the world’s most ancient examples of traditional aquaculture, consisting of complex systems of traps and ponds used by Gunditjmara (Indigenous people) over millennia to collect short-finned eel (Anguilla australis) for consumption and trade. Artificial draining of the lake during the nineteenth century reduced surface water retention in the landscape and rendered most of the eel traps inoperable. In this paper, we describe the traditional eel fishery at Lake Condah and its historical and cultural significance to the Gunditjmara people. We document the impacts of European settlement on the traditional eel fishery, and describe the processes and events leading to eventual restoration of the lake and subsequent reactivation of major parts of the traditional aquaculture system. In addition to restoring an important ecological asset to the region, the restoration project provided significant benefits to the Gunditjmara people, including enhanced connection to country and culture, opportunities for economic development and employment, and increased capacity for traditional owners to progress and negotiate outcomes within regulatory and administrative frameworks. Aspects identified as critical to the ultimate success of the Lake Condah restoration project include: open and transparent lines of communication with stakeholders; building of trust and confidence with key individuals over sustained periods; use of strategic and business planning documents to guide activities; commissioning of high quality technical information to support and justify activities; representative leadership structures, and effective use of ‘two-way learning’ across western scientific and indigenous knowledge systems.