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PubMed2004

Variation of the prion gene in chimpanzees and its implication for prion diseases.

In humans, familial prion diseases are linked to mutations in the PRNP gene. We have sequenced part of this gene in a large sample of common chimpanzee, Pan troglodytes (n=130 chromosomes). No variation in codons 129 and 219 has been observed: all chimpanzees were homozygous for the Met allele, which in humans increases susceptibility to Creutzfeldt-Jakob disease. We found two sequence variants: one is a synonymous polymorphism unique to the chimpanzee at codon 226, TAC to TAT (Y), with a TAC allele frequency of 80.6%; the other is a non-synonymous change at codon 148 (R148H) that falls in the target epitope for some common commercial antibodies used for prion diagnostics, and is highly conserved across species. The pathogenicity of this mutation is still unknown.

Amino Acid Sequence↗
PubMed1999

MR imaging of intrarenal macrophage infiltration in an experimental model of nephrotic syndrome.

The objective of this study was to use MR imaging to detect macrophage infiltration of the kidney after injection of ultrasmall superparamagnetic iron oxide (USPIO) particles in a rat model of experimental nephropathy. Ninety micromol of USPIO were injected intravenously in 10 rats with nephropathy secondary to intravenous injection of 5 mg of puromycin aminonucleoside (PAN), and in 10 control rats. The signal intensity was measured in each kidney compartment before and 24 h after injection of the contrast agent. FLASH sequences were performed on a spectrometer operating at 4.7 T. MR findings were compared with histological data. Twenty-four hours after injection of USPIO, a significant decrease (P < 0.0001) was observed in signal intensity in each kidney compartment in the PAN group. There was no variation in the control group. In the diseased kidneys, histological data revealed the presence of macrophages with iron oxide particles within their cytoplasm and lysosomes. Using USPIO, MR imaging can evidence infiltration of the rat kidney by macrophages.

Animals↗
PubMed2005

Subtle behavioral variation in wild chimpanzees, with special reference to Imanishi's concept of kaluchua.

Here we consider the concept of kaluchua (a word adopted from the English "culture") in group-living animals developed by Imanishi in the 1950s. He distinguished it from bunka (the Japanese equivalent to the English "culture") because he thought that bunka had strong connotations of noble and intellectual human-like activities. Although he did not rigidly define kaluchua, his original concept of kaluchua was much broader than bunka and represented non-hereditary, acquired behavior that was acknowledged socially. However, instead of social life, complex feeding skills have often formed the central topic in the current studies of animal culture. In order to provide evidence that more subtle behavioral variations exist among wild chimpanzee (Pan troglodytes) populations, we directly compared the behaviors of two well-habituated chimpanzee groups, at Bossou and Mahale. During a 2-month stay at Bossou, M.N. (the first author) saw several behavioral patterns that were absent or rare at Mahale. Two of them, "mutual genital touch" and "heel tap" were probably customary for mature females and for mature males, respectively. "Index to palm" and "sputter" are still open to question. These subtle patterns occurred more often than tool use during the study period, suggesting that rarity is not the main reason for their being ignored. Unlike tool use, some cultural behavioral patterns do not seem to require complex skills or intellectual processes, and sometimes it is hard to explain the existence of such behaviors only in terms of function.

Animals↗
PubMed2004

European survey of surgical strategies for the management of severe acute pancreatitis.

OBJECTIVES: This study is the first pan-European survey of surgical strategies for the management of severe acute pancreatitis. METHODS: A questionnaire survey was undertaken of the 866 members of the European chapter of the International Hepato-Pancreato-Biliary Association (IHPBA). There were 329 replies from practicing clinicians giving a response rate of 38%. RESULTS: The modal case volume was 11-20 patients per year. Severity stratification was used by 324 (99%) respondents with the Ranson score being the most popular. Antibiotic prophylaxis was utilized by 239 (73%) with the median duration being 7 days (range 1-28; 95% CI: 8-9). Fine needle aspiration of necrosis was undertaken by 174 (53%) and 131 would operate on a patient with a positive result. There was no consensus on optimum timing of surgery. CONCLUSIONS: The results of this first pan-European questionnaire demonstrate wide variations in care. Overall, the findings provide a unique insight into the current management of severe acute pancreatitis in Europe.

Acute Disease↗
PubMed2004

Rivers influence the population genetic structure of bonobos (Pan paniscus).

Bonobos are large, highly mobile primates living in the relatively undisturbed, contiguous forest south of the Congo River. Accordingly, gene flow among populations is assumed to be extensive, but may be impeded by large, impassable rivers. We examined mitochondrial DNA control region sequence variation in individuals from five distinct localities separated by rivers in order to estimate relative levels of genetic diversity and assess the extent and pattern of population genetic structure in the bonobo. Diversity estimates for the bonobo exceed those for humans, but are less than those found for the chimpanzee. All regions sampled are significantly differentiated from one another, according to genetic distances estimated as pairwise FSTs, with the greatest differentiation existing between region East and each of the two Northern populations (N and NE) and the least differentiation between regions Central and South. The distribution of nucleotide diversity shows a clear signal of population structure, with some 30% of the variance occurring among geographical regions. However, a geographical patterning of the population structure is not obvious. Namely, mitochondrial haplotypes were shared among all regions excepting the most eastern locality and the phylogenetic analysis revealed a tree in which haplotypes were intermixed with little regard to geographical origin, with the notable exception of the close relationships among the haplotypes found in the east. Nonetheless, genetic distances correlated with geographical distances when the intervening distances were measured around rivers presenting effective current-day barriers, but not when straight-line distances were used, suggesting that rivers are indeed a hindrance to gene flow in this species.

Africa↗
PubMed1994

Periodic alternating nystagmus in humans with albinism.

PURPOSE: To quantify the spatial and temporal nature of congenital periodic alternating nystagmus (PAN) and to test the hypothesis that PAN results from a temporal shift in the null zone. METHODS: Twenty-five subjects with oculocutaneous albinism (16 tyrosinase negative and 9 tyrosinase positive) and 7 with ocular albinism (5 x-linked and 2 autosomal recessive) participated in the study. Using infrared oculography, five features of the nystagmus were examined: amplitude, frequency, waveform, beat direction, and temporal nature of the cycle. RESULTS: Twelve subjects (37.5%) exhibited a PAN. The nystagmus waveforms encountered during the PAN active phases were either jerk-with-extended-foveation or pseudocycloid, whereas a variety of oscillations (including triangular and bidirectional) were evident during the quiet phases. For most of the 12 subjects, there was an asymmetric variation in nystagmus intensity during each PAN cycle. None of the 12 demonstrated a convergence null or an abnormal head posture. CONCLUSIONS: PAN is not an uncommon oscillation among humans with albinism. Changes in gaze position markedly influenced the periodicity of the ongoing nystagmus, thus supporting the hypothesis that PAN is the result of a temporal shift in the null zone.

Adolescent↗
PubMed1987

Evolution of P3 morphology in Australopithecus afarensis.

The Australopithecus afarensis dental sample exhibits a wide range of variation, which is most notable in the morphology of the lower third premolar (P3). P3 morphology in the A. afarensis sample ranges from the primitive sectorial extreme in AL 128-23 to the derived, bicuspid (molarized) extreme in AL 333w-1. In this paper, the degree and patterning of variation of the 20 known A. afarensis P3s are examined and the evolutionary implications are discussed. Initially, a series of dental and mandibular metric criteria are evaluated to determine whether this sample may be analyzed as a single species. From the metrics, it is clear that the single species hypothesis cannot be rejected. Next, a series of morphological criteria is devised to measure P3 molarization. Taken as a whole, the A. afarensis P3 sample displays more variation than a sample of modern hominoids (Pan troglodytes) and shows a slight trend toward increased molarization through time. When separated by sex, the A. afarensis sample still displays greater variation than the chimpanzee sample; however, only the male A. afarensis specimens show a trend toward increased molarization. Additionally, the male A. afarensis P3s are more molarized than the female, a pattern that is seen as well (though less markedly) in the chimpanzee sample. The trend toward increased molarization over time indicates selection for grinding in A. afarensis. The sexual differences parallel those seen in the postcrania (cf. Stern and Susman: Am. J. Phys. Anthropol. 60:279-318, 1983), as the females tend to retain the primitive condition, while the males display the derived morphology. Consequently, a model of sexual differences in niche exploitation, with the females exploiting a more arboreal environment, would seem to be supported by both the dental and postcranial evidence.

Africa↗
PubMed2000

ENVIRONMENTAL AUDITING: Arthropod Monitoring for Fine-Scale Habitat Analysis: A Case Study of the El Segundo Sand Dunes.

/ Arthropod communities from several habitats on and adjacent to the El Segundo dunes (Los Angeles County, CA) were sampled using pitfall and yellow pan traps to evaluate their possible use as indicators of restoration success. Communities were ordinated and clustered using correspondence analysis, detrended correspondence analysis, two-way indicator species analysis, and Ward's method of agglomerative clustering. The results showed high repeatability among replicates within any sampling arena that permits discrimination of (1) degraded and relatively undisturbed habitat, (2) different dune habitat types, and (3) annual change. Canonical correspondence analysis showed a significant effect of disturbance history on community composition that explained 5-20% of the variation. Replicates of pitfall and yellow pan traps on single sites clustered together reliably when species abundance was considered, whereas clusters using only species incidence did not group replicates as consistently. The broad taxonomic approach seems appropriate for habitat evaluation and monitoring of restoration projects as an alternative to assessments geared to single species or even single families.

Journal Article↗
PubMed2004

The effect of adsorption, filter material and point of dilution on antibiotic elimination by haemofiltration an in vitro study of levofloxacin.

We studied an in vitro model of continuous venous-venous haemofiltration (CVVH), into which levofloxacin 100 mg was infused, to determine levofloxacin adsorption and to determine the effect of filter material and point of dilution (pre- or post-filter) on sieving coefficient. Mean (standard deviation; S.D.) adsorption was 18.7 (5.3) mg for the polyamide filter and 40.2 (2.0) mg for the polyacrylonitrile (PAN) filter (P < 0.001). Post-dilution resulted in a minor, but statistically significant, decrease in sieving coefficient (pre-dilution 0.96 (S.D. 0.10), post-dilution 0.88 (S.D. 0.11) with the PAN filter. These data indicate that the variability in published values for levofloxacin sieving coefficient are not due to variation in point of dilution or membrane type (PAN or polyamide). Significant adsorption of levofloxacin onto PAN filters occurs.

Hemodiafiltration↗
PubMed2004

Divergence population genetics of chimpanzees.

The divergence of two subspecies of common chimpanzees (Pan troglodytes troglodytes and P. t. verus) and the bonobo (P. paniscus) was studied using a recently developed method for analyzing population divergence. Under the isolation with migration model, the posterior probability distributions of divergence time, migration rates, and effective population sizes were estimated for large multilocus DNA sequence data sets drawn from the literature. The bonobo and the common chimpanzee are estimated to have diverged approximately 0.86 to 0.89 MYA, and the divergence of the two common chimpanzee subspecies is estimated to have occurred 0.42 MYA. P. t. troglodytes appears to have had a larger effective population size (22,400 to 27,900) compared with P. paniscus, P. t. verus, and the ancestral populations of these species. No evidence of gene flow was found in the comparisons involving P. paniscus; however a clear signal of unidirectional gene flow was found from P. t. verus to P. t. troglodytes (2Nm = 0.51).

Animals↗
PubMed2006

Duplication and divergence in humans and chimpanzees.

It has become a truism that we humans are genetically about 99% identical to chimpanzees. The origins of this assertion are clear: among early studies of DNA sequences, nucleotide identity between humans and chimpanzees was found to average around 98.9%.(1) However, this figure is correct only with respect to regions of the genome that are shared between humans and chimpanzees. Often ignored are the many parts of their genomes that are not shared. Genomic rearrangements, including insertions, deletions, translocations and duplications, have long been recognized as potentially important sources of novel genomic material(2,3) and are known to account for major genomic differences between humans and chimpanzees.(4) Further, such changes have been implicated in a number of genetic disorders, such as DiGeorge, Angelman/Prader-Willi and Charcot-Marie-Tooth syndromes.(5)

Animals↗
PubMed1988

The degree of genetic variability among adenovirus type 4 strains isolated from man and chimpanzee.

A total of 8 different genome types of adenovirus type 4 (Ad 4), Ad 4p, Ad 4p 1-3, Ad 4a, Ad 4a 1, Ad 4b, and Ad 4ch were identified among 50 selected human adenovirus isolates and 2 chimpanzee adenovirus strains using 16 restriction endonucleases Bam HI, Bcl I, Bgl I, Bgl II, Bst EII, Dra I, Eco RI, Eco RV, Hind III, Hpa I, Sal I, Sma I, Ssp I, Pst I, Xba I, and Xho I. They could be divided into three genomic clusters. Cluster 1 contained Ad 4p and Ad 4p 1-3; cluster 2 contained Ad 4a, ad 4a 1 and Ad 4b; whereas the chimpanzee Ad 4 genome type was the unique member of cluster 3. The degree of genetic variability within each cluster was minor. The genome types within one cluster display 95-99% pairwise comigrating restriction fragments (PCRF). However, the genetic space between the three clusters was large. The genome types between different clusters share only 25-46% PCRF. A comparative PCRF analysis performed with restriction endonucleases Apa I, Nar I, Nae I, Sac II, and Sma I recognizing exclusively G and C sequences and Dra I, Ssp I recognizing exclusively A and T containing sequences revealed that G and C rich regions were significantly more conserved than A and T rich regions.

Adenoviridae↗
PubMed1985

Evolution of Alu family repeats since the divergence of human and chimpanzee.

The DNA sequences of three members of the Alu family of repeated sequences located 5' to the chimpanzee alpha 2 gene have been determined. The base sequences of the three corresponding human Alu family repeats have been previously determined, permitting the comparison of identical Alu family members in human and chimpanzee. Here we compare the sequences of seven pairs of chimpanzee and human Alu repeats. In each case, with the exception of minor sequence differences, the identical Alu repeat is located at identical sites in the human and chimpanzee genomes. The Alu repeats diverge at the rate expected for nonselected sequences. Sequence conversion has not replaced any of these 14 Alu family members since the divergence between chimpanzee and human.

Animals↗
PubMed1984

Immunochemical data suggesting a pattern for the evolution of human placental alkaline phosphatase.

Hyperimmune absorbed rabbit antisera which were reactive with epitopes specific for individual variants of human placental alkaline phosphatase were tested for their reactivity with primate placental alkaline phosphatases. Using the three epitope-specific reactivities defined previously, we found that: epitope I is present in the S-, D- and I-variants of human placental phosphatase, and in the chimpanzee and pygmy chimpanzee placentae; epitope II is present in the F- and 17-variants, and in the Nagao isoenzyme of human placental alkaline phosphatase, and in some orangutan placentae and all spider monkey placentae tested; epitope III is present in the F- and 17-variants, and the Nagao isoenzyme of human placental alkaline phosphatase, and in all the spider monkey placentae and the single squirrel monkey placenta examined. The binding assay was complemented by a competitive radioimmunoassay, which confirmed that the spider monkey placental samples were binding to the same antibody population which bound the human enzymes. The presence of epitopes characteristic of rare human placental phosphatase variants in these remote primate relatives suggests that the rare variants in the current human population have been present during the entire course of evolution. The presence of both epitopes characteristic of the Nagao isoenzyme in spider monkeys suggests that this variant isoenzyme is closely related to the enzyme present in the primate placenta at the time of species divergence (humans and New World monkeys). A hypothetical scheme for this divergence is proposed.

Alkaline Phosphatase↗
PubMed2006

Recent advances in assessing gene flow between diverging populations and species.

The evolutionary process of divergence, which ultimately leads to the generation of new species, is thought to occur usually without any gene exchange between the diverging populations. However, until the recent growth of multi-locus datasets, and the development of new population genetic methods, it has been very difficult to assess whether or not closely related species have, or have not, exchanged genes during their divergence. Several recent studies have found significant signals of gene flow during species formation, calling into question the conventional wisdom that gene flow is absent during speciation.

Animals↗
PubMed2005

Moving primate genomics beyond the chimpanzee genome.

The comparative DNA sequence data that already exist on individual genomic loci depict the phylogenetic relationships of nearly all extant primate genera. Such a phylogenetic representation of the primates, validated by many sequenced primate genomes, and encompassing the full adaptive diversity of the order, is a prerequisite for identifying the genetic basis of humankind, and for testing the proposed human uniqueness of these traits. Some of these traits have been discovered recently, particularly in genes encoding proteins that are important for brain function.

Animals↗