Disentangling the role of hybridization in the evolution of the endangered Arizona cliffrose (<Emphasis Type="Italic">Purshia subintegra</Emphasis>; Rosaceae): a molecular and morphological analysis

Hybridization may threaten the conservation status of rare species through genetic assimilation and may confound the ability to distinguish among taxa. We studied these issues in an endangered shrub, Purshia subintegra (Rosaceae), known from four populations growing on limestone outcrops in central Arizona (USA). Using amplified fragment length polymorphisms (AFLP) and the Bayesian clustering algorithm implemented in STRUCTURE, we identified three distinct genetic lineages among Arizona Purshia subintegra and P. stansburiana. An initial split divided San Carlos Basin P. subintegra (considered P. pinkavae by Schaack) from northern P. stansburiana populations (F_ST = 0.394). A subsequent split separated northern P. stansburiana from two P. subintegra populations at Horseshoe Lake and Burro Creek (F_ST = 0.207), which comprised a nearly perfect admixture of the two lineages identified in the initial analysis. In the Verde River Valley P. subintegra is sympatric with P. stansburiana and exhibited an average 27% P. stansburiana genes for 5 of 6 stands analyzed, indicating ongoing hybridization and backcrossing with P. subintegra. Individuals carrying >90% P. subintegra markers are identifiable 68% of the time based on morphology, with leaf lobing, leaf size, and leaf length acting as the most reliable indicators of taxonomic status. However, the genetic and morphological distance correlation among individuals was low (r = 0.17, P = 0.0002), indicating that morphology cannot always accurately predict genetic admixture or taxonomy. Overall, our study confirmed the genetic distinctiveness of the San Carlos Basin population, an ancient natural hybrid origin of P. subintegra, and the presence of a hybrid swarm in the Verde Valley, whose conservation value may lie in its heightened genetic diversity.     

Genotypic and phenotypic consequences of reintroduction history in the black-footed ferret (<Emphasis Type="Italic">Mustela nigripes</Emphasis>)

Population augmentation with translocated individuals has been shown to alleviate the effects of bottlenecks and drift. The first step to determine whether restoration for genetic considerations is warranted is to genetically monitor reintroduced populations and compare results to those from the source. To assess the need for genetic restoration, we evaluated genetic diversity and structure of reintroduced (n = 3) and captive populations of the endangered black-footed ferret (Mustela nigripes). We measured genotypic changes among populations using seven microsatellite markers and compared phenotypic changes with eight morphometric characters. Results indicated that for the population which rapidly grew post-reintroduction, genetic diversity was equivalent to the captive, source population. When growth languished, only the population that was augmented yearly maintained diversity. Without augmentation, allelic diversity declined precipitously and phenotypic changes were apparent. Ferrets from the genetically depaupertate population had smaller limbs and smaller overall body size than ferrets from the two populations with greater diversity. Population divergence (F _ST = 0.10 ± 0.01) was surprisingly high given the common source of populations. Thus, it appears that 5–10 years of isolation resulted in both genotypic divergence and phenotypic changes to populations. We recommend translocation of 30–40 captive individuals per annum to reintroduction sites which have not become established quickly. This approach will maximize the retention of genetic diversity, yet maintain the beneficial effects of local adaptation without being swamped by immigration.     

Joint tests for quantitative trait loci in experimental crosses

Selective genotyping is common because it can increase the expected correlation between QTL genotype and phenotype and thus increase the statistical power of linkage tests (i.e., regression-based tests). Linkage can also be tested by assessing whether the marginal genotypic distribution conforms to its expectation, a marginal-based test. We developed a class of joint tests that, by constraining intercepts in regression-based analyses, capitalize on the information available in both regression-based and marginal-based tests. We simulated data corresponding to the null hypothesis of no QTL effect and the alternative of some QTL effect at the locus for a backcross and an F2 intercross between inbred strains. Regression-based and marginal-based tests were compared to corresponding joint tests. We studied the effects of random sampling, selective sampling from a single tail of the phenotypic distribution, and selective sampling from both tails of the phenotypic distribution. Joint tests were nearly as powerful as all competing alternatives for random sampling and two-tailed selection under both backcross and F2 intercross situations. Joint tests were generally more powerful for one-tailed selection under both backcross and F2 intercross situations. However, joint tests cannot be recommended for one-tailed selective genotyping if segregation distortion is suspected.     

The ING4 tumor suppressor attenuates NF-kappaB activity at the promoters of target genes

The NF-κB family mediates immune and inflammatory responses. In many cancers, NF-κB is constitutively activated and induces the expression of genes that facilitate tumorigenesis. ING4 is a tumor suppressor that is absent or mutated in several cancers. Herein, we demonstrate that in human gliomas, NF-κB is constitutively activated, ING4 expression is negligible, and NF-κB-regulated gene expression is elevated. We demonstrate that an ING4 and NF-κB interaction exists but does not prevent NF-κB activation, nuclear translocation, or DNA binding. Instead, ING4 and NF-κB bind simultaneously at NF-κB-regulated promoters, and this binding correlates with reductions in p65 phosphorylation, p300, and the levels of acetylated histones and H3-Me3K4, while enhancing the levels of HDAC-1 at these promoters. Using a knockdown approach, we correlate reductions in ING4 protein levels with increased basal and inducible NF-κB target gene expression. Collectively, these data suggest that ING4 may specifically regulate the activity of NF-κB molecules that are bound to target gene promoters.     

Expression and Localization of Caveolin-1, and the Presence of Membrane Rafts, in Mouse and Guinea Pig Spermatozoa

In somatic cells, caveolin-1 plays several roles in membrane dynamics, including organization of detergent-insoluble lipid rafts, trafficking of cholesterol, and anchoring of signaling molecules. Events in sperm capacitation and fertilization require similar cellular functions, suggesting a possible role for caveolin-1 in spermatozoa. Immunoblot analysis demonstrated that caveolin-1 was indeed present in developing mouse male germ cells and both mouse and guinea pig spermatozoa. In mature spermatozoa, caveolin-1 was enriched in a Triton X-100-insoluble membrane fraction, as well as in membrane subdomains separable by means of their light buoyant densities through sucrose density gradient centrifugation. These data indicated the presence of membrane rafts enriched in caveolin-1 in spermatozoa. Indirect immunofluorescence analysis revealed caveolin-1 in the regions of the acrosome and flagellum in sperm of both species. Confocal immunofluorescence analysis of developing mouse male germ cells demonstrated partial co-localization with a marker for the acrosome. Furthermore, syntaxin-2, a protein involved in acrosomal exocytosis, was present in both raft and nonraft fractions in mature sperm. Together, these data indicated that sperm membranes possess distinct raft subdomains, and that caveolin-1 localized to regions appropriate for involvement with acrosomal biogenesis and exocytosis, as well as signaling pathways regulating such processes as capacitation and flagellar motility.     

Degradation of Host Heme Proteins by Lysine- and Arginine-Specific Cysteine Proteinases (Gingipains) of Porphyromonas gingivalis

Porphyromonas gingivalis can use hemoglobin bound to haptoglobin and heme complexed to hemopexin as heme sources; however, the mechanism by which hemin is released from these proteins has not been defined. In the present study, using a variety of analytical methods, we demonstrate that lysine-specific cysteine proteinase of P. gingivalis (gingipain K, Kgp) can efficiently cleave hemoglobin, hemopexin, haptoglobin, and transferrin. Degradation of hemopexin and transferrin in human serum by Kgp was also detected; however, we did not observe extensive degradation of hemoglobin in serum by Kgp. Likewise the beta-chain of haptoglobin was partially protected from degradation by Kgp in a haptoglobin-hemoglobin complex. Arginine-specific gingipains (gingipains R) were also found to degrade hemopexin and transferrin in serum; however, this was observed only at relatively high concentrations of these enzymes. Growth of P. gingivalis strain A7436 in a minimal media with normal human serum as a source of heme correlated not only with the ability of the organism to degrade hemoglobin, haptoglobin, hemopexin, and transferrin but also with an increase in gingipain K and gingipain R activity. The ability of gingipain K to cleave hemoglobin, haptoglobin, and hemopexin may provide P. gingivalis with a usable source of heme for growth and may contribute to the proliferation of P. gingivalis within periodontal pockets in which erythrocytes are abundant.     

Flexibility and the use of indicator taxa in the selection of sites for nature reserves

'Minimum' sets of complementary areas represent all species in a region a given number of times. In recent years, conservation assessments have centred around the evaluation of these 'minimum' sets. Previous research shows little overlap between 'minimum' sets and existing nature reserves and between 'minimum' sets for different taxonomic groups. The latter has been used as an argument to discount the use of indicator taxa in the selection of sites for nature reserves. However, these 'minimum' set analyses have only considered a single set for each taxonomic group when there are, in fact, a large number of equally valid 'minimum' sets. We present new methods for evaluating all of these alternative 'minimum' sets. We demonstrate that if all of the sets are evaluated, significantly higher levels of overlap are found between 'minimum' sets and nature reserves, and pairs of 'minimum' sets for different taxonomic groups. Furthermore, significantly higher proportions of species from non-target taxonomic groups are recorded in the 'minimum' sets of target groups. Our results suggest that previous conservation assessments using 'minimum' sets may have been unduly pessimistic.     

Cross‐species amplification among peromyscines of new microsatellite DNA loci from the oldfield mouse (Peromyscus polionotus subgriseus)

We describe polymerase chain reaction (PCR) primers and conditions to amplify 11 microsatellite DNA loci isolated from the oldfield mouse (Peromyscus polionotus subgriseus). These were tested for amplification using nine species and subspecies maintained at the Peromyscus Genetic Stock Center, with an average success rate of 65% and two loci amplifying in all species. Polymorphism was tested within the P. polionotus subgriseus and the recently obtained P. maniculatus sonorensis colonies. P. p. subgriseus had modest numbers of alleles per locus (1–4), whereas P. m. sonorensis had many alleles per locus (5–10) and high expected heterozygosities (0.625–0.878).     

SOME PROBLEMS IN ESTIMATING THE INTENSITY OF SELECTION THROUGH FERTILITY DIFFERENCES IN NATURAL AND EXPERIMENTAL POPULATIONS

We used empirical data from a laboratory population of Heterandria formosa (Pisces, Poeciliidae) and simulations based on those data to examine methods of estimating the intensity of phenotypic selection through fertility differences when generations overlap. The correct intensity was known because we knew the history of every female, as well as the rate at which the population was growing. The net reproductive rate, which is an appropriate measure of fitness when generations do not overlap, underestimated the true intensity of selection. This measure of fitness did not provide a rank order of individuals that agreed significantly with the correct rank order. Simulated schemes of vertical sampling of females, using number of offspring produced during the sampling window as a measure of fitness, provided no consistently useful information about the direction or intensity of selection. Weighting the number of offspring by female age, to give more value to offspring of younger females, produced only a slight improvement in accuracy. Other data indicated that fertility differentials are closely tied to particular environmental conditions. When generations overlap, estimates of fertility differentials will have to be based on horizontal studies of lifetime performance of a cohort coupled with demographic information on the entire population.     

Dual Y chromosome painting and in situ cell-specific immunofluorescence staining in lung tissue: an improved method of identifying donor marrow cells in lung following bone marrow transplantation

Several recent studies have demonstrated localization of donor bone marrow-derived cells in recipient lungs following transplantation from male to female mice or patients. Donor cells are identified by detection of the Y chromosome by fluorescence in situ hybridization (FISH). However, protein digestion pretreatments usually required for tissue FISH significantly limit the ability to detect cell type-specific markers by immunohistochemistry. We have used an alternative protein digest approach that entails heating the slides in 10 mM sodium citrate rather than utilizing a protease digestion. This approach preserves cell proteins following FISH, and allows lung tissue to remain intact for subsequent detection of cell-specific markers by immunohistochemistry. We have examined this technique in mouse lungs using a Y chromosome paint and three cell-specific markers, a pan-cytokeratin for epithelial cells, PECAM-1 for endothelial cells, and CD45 for leukocytes. Excellent visualization of both the Y chromosome and cell-specific surface protein markers was obtained on a single slide. This approach will significantly enhance the ability to detect and identify donor bone marrow cells in recipient mouse lungs following male to female transplantation.