Influence of Tertiary paleoenvironmental changes on the diversification of South American mammals: a relaxed molecular clock study within xenarthrans

Background  

Comparative genomic data among organisms allow the reconstruction of their phylogenies and evolutionary time scales. Molecular timings have been recently used to suggest that environmental global change have shaped the evolutionary history of diverse terrestrial organisms. Living xenarthrans (armadillos, anteaters and sloths) constitute an ideal model for studying the influence of past environmental changes on species diversification. Indeed, extant xenarthran species are relicts from an evolutionary radiation enhanced by their isolation in South America during the Tertiary era, a period for which major climate variations and tectonic events are relatively well documented.     

Proliferative activity in the cerebellar external granular layer evaluated by bromodeoxyuridine labeling

We have optimised an indirect immunoperoxidase technique demonstrating bromodeoxyuridine (BrdU) incorporation into dividing cells for cerebellar tissue sections of four-day-old rats injected with this marker. This permits confident identification of granule-cell precursors engaged in DNA synthesis in the external granular layer of the developing cerebellum. Preservation of BrdU immunoreactivity is attained using methanol/acetic acid fixation and different pretreatments before immunostaining, while unlabeled nuclei can be recognized clearly after Feulgen or hematoxylin counterstaining. We established conditions to ensure satisfactory BrdU uptake without affecting cell-cycle progression during the postlabeling time period. The dose of BrdU employed provides saturation S-phase labeling from at least 1 h after BrdU delivery. Various kinetic parameters and phase durations have been determined in experiments involving a single injection or cumulative labeling sequences, and the cycle time was calculated based on two models of generative behavior: steady-state and exponential growth. The working hypothesis of steadystate kinetics can be adopted successfully if the existence of neuroblasts with different proliferation rates is taken into account.     

A new AluI satellite DNA in the root-knot nematode Meloidogyne fallax: relationships with satellites from the sympatric species M. hapla and M. chitwoodi

A highly abundant satellite DNA comprising 20% of the Meloidogyne fallax (Nematoda, Tylenchida) genome was cloned and sequenced. The satellite monomer is 173 bp long and has a high A + T content of 72.3%, with frequent runs of A's and T's. The sequence variability of the monomers is 2.7%, mainly due to random distribution of single-point mutations. A search for evidence of internal repeated subunits in the monomer sequence revealed a 6-bp motif (AAATTT) for which five degenerated repeats, differing by just a single base pair, could be identified. Pairwise comparison of the M. fallax satellite with those from the sympatric species Meloidogyne chitwoodi and Meloidogyne hapla revealed a high sequence similarity (68.39%) with one satellite DNA subfamily in M. chitwoodi, which indicated an unexpected close relationship between them. Given the high copy number and the extreme sequence homogeneity among monomeric units, it may be assumed that the satellite DNA of M. fallax could have evolved through some recent and extensive amplification burst in the nematode genome. In this case, its relatively short life would not yet have allowed the accumulation of random mutations in independent amplified repeats. Considering the morphological resemblance between the two species and their ability to produce interspecific fertile hybrids under controlled conditions, these results indicate that M. fallax may share a common ancestor with M. chitwoodi, from which it could have diverged recently. All these data suggest that M. fallax could be the result of a recent speciation process and show that Meloidogyne satellite DNAs may be of interest to resolve phylogenetic relationships among closely related species from this genus.      

Production and dormancy of wild oat (Avena fatua) seed from plants grown under soil waterstress

In 1974 wild oat plants grown from very dormant seed types fA, fB, fC originating from a single field, and in 1976 plants of type fB derived from another location were waterstressed from the time when the spikelets were just beginning to emerge until the seed was fully ripe. The seed production and dormancy of the seed were determined. Waterstress reduced the number of viable seeds per plant by 42% in 1974 and 49% in 1976. The number of viable seed produced on the tillers of the plants were reduced to a greater extent by waterstress than the number produced on their main stems. Some of the differences between the number of viable seeds produced by the three wild oat types were significant. In 1974, 78% of seed from stressed plants was dormant as compared with 90% of that from unstressed plants. Under a given soil moisture, the dormancy of the three types differed little, although seed dormancy was less in tiller seed than in main stem seed. In 1976 seed from stressed plants was 80% dormant, immediately after collection, whereas that from unstressed plants was totally dormant. Storage for 6 months at 25°C decreased these percentages to 17% and 90% and at 5°C to 72% and 98% respectively. Buried in soil immediately after collection, 66% of viable seed from stressed plants gave seedlings in the first autumn after burial as compared with 4% of seed from unstressed plants. Most of the seed from waterstressed plants gave rise to seedlings in the first autumn, and seed from non-stressed plants in the second spring. The α-amylase content was four times greater in seeds from stressed compared with non-stressed plants.     

Do simultaneous hermaphrodites choose their mates? Effects of body size in a planarian flatworm

1. We tested whether or not the simultaneous hermaphrodite Dugesia polychroa mates randomly with respect to partner size, a strong indicator of female fecundity.
2. The number and duration of copulations were recorded in forty-eight pairs over 5 days. To minimize effects of individual differences in copulatory activity, all animals were each tested twice: once with an equally large partner ( n = 24 equal-sized pairs) and once with a partner of different size (smaller or larger, respectively, ratio 1 : 1.5,
n = 24 unequal-sized pairs).
3. The animals copulated frequently. No significant differences were observed between treatments in the number of pairs that copulated. Mating behaviour of equal-sized and unequal-sized pairs was compared in a pair-wise analysis. Latency to the first copulation and the average number of copulations did not differ when mating with an equal- or unequal-sized partner. Average copulation duration increased with increasing size in equal-sized pairs, but not in unequal-sized pairs.
4. In an additional experiment, where three large and three small animals were combined (three replicates) and observed for 1–3 days, the mating pattern did not differ from random mating by size.
5. Our data indicate that in D. polychroa the decision to mate is essentially random with respect to size. We argue that this is not caused by, for example, high costs of mate searching, but that simultaneous hermaphrodites with reciprocal insemination mate indiscriminately when (i) matings are easy to obtain and (ii) the cost of mating is low or compensated for by sperm digestion.     

Evidence of Functional Microenvironments in Lymphatic Tissue Response to Antigen

Experiments with young and aged mice support the concept that the reticular stroma of the spleen, possibly interacting with other humoral factors, is essential for the expression of immunocompetent precursors directed towards the production of 7S antibody.     

Can Zipf's law be adapted to normalize microarrays?

Background  

Normalization is the process of removing non-biological sources of variation between array experiments. Recent investigations of data in gene expression databases for varying organisms and tissues have shown that the majority of expressed genes exhibit a power-law distribution with an exponent close to -1 (i.e. obey Zipf's law). Based on the observation that our single channel and two channel microarray data sets also followed a power-law distribution, we were motivated to develop a normalization method based on this law, and examine how it compares with existing published techniques. A computationally simple and intuitively appealing technique based on this observation is presented.