Antibodies and immunohistochemistry in extracellular matrix research

Immunohistochemistry is a powerful investigative tool that can provide researchers with important supplemental information to the routine morphological assessment of musculo-skeletal connective tissues in health and disease and also during tissue repair and regeneration. A wide variety of antibodies (both monoclonal and polyclonal) are now available from commercial and non-commercial sources that recognise the major structural and soluble components of cellular and extracellular matrix compartments. These include antibodies towards the major collagen and proteoglycan species and their metabolites, glycosaminoglycans, glycoproteins, enzymes, enzyme generated neo-epitopes, growth factors, cytokines and related signalling molecules. In addition, cell surface markers, cytoskeletal components and many other cytoplasmic and nuclear proteins, too numerous to mention, can also be detected. When allied with high resolution imaging modalities (e.g. confocal laser scanning microscopy) immunohistochemistry thus has the potential to reveal a wealth of macromolecular information about the complex three-dimensional composition and organisation of cellular and extracellular matrix compartments in many different connective tissue types. These technologies can also be used to quantify signal intensities and thereby facilitate numerical computation of image data.     

Collagen organization in the chicken cornea and structural alterations in the retinopathy, globe enlarged (rge) phenotype--an X-ray diffraction study

An investigation into the collagenous structure of the mature avian cornea is presented. Wide-angle X-ray diffraction is employed to assess collagen organization in 9-month-old chicken corneas. The central 2-4mm corneal region features a preponderance of fibrils directed along the superior-inferior and nasal-temporal orthogonal meridians. More peripherally the orientation of fibrils alters in favor of a predominantly tangential arrangement. The chicken cornea appears to be circumscribed by an annulus of fibrils that extends into the limbus. The natural arrangement of collagen in the chicken cornea is discussed in relation to corneal shape and the mechanical requirements of avian corneal accommodation. Equivalent data are also presented from age-matched blind chickens affected with the retinopathy, globe enlarged (rge) mutation, characterized by an abnormally thick and flat cornea. The data indicate considerable realignment and redistribution of collagen lamellae in the peripheral rge cornea. In contrast to normal chickens, no obvious tangential collagen alignment was evident in the periphery of rge corneas. In mammals, the presence of a limbal fibril annulus is believed to be important in corneal shape preservation. We postulate that corneal flattening in rge chickens may be related to biomechanical changes brought about by an alteration in collagen arrangement at the corneal periphery.     

Identification, cloning and tissue localization of a rainbow trout (Oncorhynchus mykiss) intelectin-like protein that binds bacteria and chitin

Intelectins are a recently identified group of animal lectins involved in innate immune surveillance. This paper describes the primary structure, expression and immunohistochemical localization of a rainbow trout plasma intelectin (RTInt). RTInt exhibited calcium-dependent binding to N-acetylglucosamine (GlcNAc) and mannose conjugated Toyopearl Amino 650 M matrices. When GlcNAc eluates from chromatography matrices were analyzed by reducing 1D PAGE and Western blots, the lectin appeared as approximately 37 kDa and approximately 72 kDa bands. Similar analysis of plasma revealed a single 72 kDa band under reducing conditions. MALDI-TOF MS demonstrated five, approximately 37 kDa isoforms (pI 5.3-6.1) separated by 2D-PAGE. A 975 bp cDNA sequence obtained by RT-PCR from liver and spleen tissue encoded a 325 amino acid secretory protein with homology to human and murine intelectins, which bind bacterial components and are induced during parasitic infections. Gene expression and immunohistochemistry detected RTInt in gill, spleen, hepatic sinusoid, renal interstitium, intestine, skin, swim bladder and within leukocytes. Direct binding assays demonstrated the ability of RTInt to bind relevant bacterial and chitinous targets. These findings suggest that RTInt plays a role in innate immune defense against bacterial and chitinous microbial organisms.     

Phylogeography of the bark beetle Dendroctonus mexicanus Hopkins (Coleoptera: Curculionidae: Scolytinae)

Dendroctonus mexicanus is polyphagous within the Pinus genus and has a wide geographical distribution in Mexico and Guatemala. We examined the pattern of genetic variation across the range of this species to explore its demographic history and its phylogeographic pattern. Analysis of the mtDNA sequences of 173 individuals from 25 Mexican populations allowed to us identify 53 geographically structured haplotypes. High haplotype and low nucleotide diversities and Tajima’s D indicate that D. mexicanus experienced rapid population expansion during its dispersal across mountain systems within its current range. The nested clade phylogeographic analysis indicates that the phylogeographic pattern of D. mexicanus is explained by continuous dispersion among lineages from the Sierra Madre Occidental, the Sierra Madre Oriental and the Trans-Mexican Volcanic Belt. However, we also observed isolation events among haplotypes from the Cofre de Perote/Trans-Mexican Volcanic Belt/Sierra Madre Oriental and the Trans-Mexican Volcanic Belt/Sierra Madre del Sur, which is consistent with the present conformation of mountain systems in Mexico and the emergence of geographical barriers during the Pleistocene.     

Patterns of island occupancy in bats: influences of area and isolation on insular incidence of volant mammals

Aim  The influence of landscape structure on the distribution patterns of bats remains poorly understood for many species. This study investigates the relationship between area and isolation of islands and the probability of occurrence of six bat species to determine whether persistence and immigration abilities vary among bat species and foraging guilds.
Location  Thirty-two islands in the Gulf of California near the Baja California peninsula in north-west Mexico.
Methods  Using logistic regression and Akaike information criterion (AIC) model selection, we compared five a priori models for each of six bat species to explain patterns of island occupancy, including random patterns, minimum area effects, maximum isolation effects, additive area and isolation effects and compensatory area and isolation effects.
Results  Five species of insectivorous bats ( Pipistrellus hesperus , Myotis californicus , Macrotus californicus , Antrozous pallidus and Mormoops megalophylla ) displayed minimum area thresholds on incidence. The probability of occurrence tended to decrease at moderate distances of isolation ( c . 10–15 km) for these species (excepting A. pallidus ). The distributions of two non-insectivorous species ( Leptonycteris curasoae and Myotis vivesi ) were not influenced by island size and isolation.
Main conclusions  Minimum area thresholds on incidence suggest that island occupancy by insectivorous bats may be limited by resource requirements. Islands smaller than 100 ha typically did not support occupancy or use by insectivorous bats, except at minimal isolation distances. Insectivorous bat species may also be more sensitive to moderate levels of habitat isolation in some landscape contexts than previously expected. Our results suggest that differences in foraging habits may have important implications for understanding the distribution patterns of bats.     

RNA interference (RNAi)-induced suppression of nicotine demethylase activity reduces levels of a key carcinogen in cured tobacco leaves

Technologies for reducing the levels of tobacco product constituents that may contribute to unwanted health effects are desired. Target compounds include tobacco-specific nitrosamines (TSNAs), a class of compounds generated through the nitrosation of pyridine alkaloids during the curing and processing of tobacco. Studies have reported the TSNA N '-nitrosonornicotine (NNN) to be carcinogenic in laboratory animals. NNN is formed via the nitrosation of nornicotine, a secondary alkaloid produced through enzymatic N -demethylation of nicotine. Strategies to lower nornicotine levels in tobacco ( Nicotiana tabacum L.) could lead to a corresponding decrease in NNN accumulation in cured leaves. The major nicotine demethylase gene of tobacco has recently been isolated. In this study, a large-scale field trial was conducted to evaluate transgenic lines of burley tobacco carrying an RNA interference (RNAi) construct designed to inhibit the expression of this gene. Selected transgenic lines exhibited a six-fold decrease in nornicotine content relative to untransformed controls. Analysis of cured leaves revealed a commensurate decrease in NNN and total TSNAs. The inhibition of nicotine demethylase activity is an effective means of decreasing significantly the level of a key defined animal carcinogen present in tobacco products.     

Wetland Restoration in the New Millennium: Do Research Efforts Match Opportunities?

Of 311 papers on wetland restoration, only 15 concerned large‐scale experimentation in restoration sites. Most papers described what happened, reported on small field experiments, or discussed restoration targets. While these are important topics, our opinion is that we lose significant opportunities to learn how to recover populations, community structure, and ecosystem processes, and we limit our ability to document variability and whole‐system responses, when we do not experiment at large scales. We suggest that, wherever possible, large projects facilitate field tests of alternative restoration approaches. Furthermore, we encourage researchers to take advantage of major restoration efforts by conducting large field experiments, assessing multiple responses, and offering restoration guidance in an adaptive framework.     

Reintroduction of Nassella pulchra to California coastal grasslands: Effects of topsoil removal,plant neighbour removal and grazing

Question: What is the most appropriate combination of treatments to reintroduce Nassella pulchra, a perennial bunchgrass, into degraded mediterranean coastal grasslands? Location: Central coast of California, USA. Methods: N. pulchra was sown from seeds and transplanted into a degraded grassland in a multi‐factorial experiment testing the effects of (1) two grazing intensities (lightly grazed by native mammal species or ungrazed); (2) topsoil removal and (3) reduction of plant neighbours. The experiment was carried out on two types of surrounding vegetation (exotic annual grasses and exotic forbs). Results: Topsoil removal greatly enhanced establishment from seeds and transplant survival, mainly because it reduced the exotic vegetation and thus reduced competition. While removing neighbours was essential when topsoil was left intact, it had a negative effect on N. pulchra when surrounding species included exotic forbs (Brassica spec, and Asteraceae) at low density (after topsoil removal). Moderate grazing by native mammals (deer, rabbits and gophers) did not affect N. pulchra. Conclusion: Our results suggest that seeding after topsoil has been removed is a promising method to reintroduce N. pulchra to highly degraded sites where there is little to no native seed bank.     

Magnitude and complexity of rectal mucosa HIV-1-specific CD8+ T-cell responses during chronic infection reflect clinical status

Background

The intestinal mucosa displays robust virus replication and pronounced CD4+ T-cell loss during acute human immunodeficiency virus type 1 (HIV-1) infection. The ability of HIV-specific CD8+ T-cells to modulate disease course has prompted intensive study, yet the significance of virus-specific CD8+ T-cells in mucosal sites remains unclear.

Methods and Findings

We evaluated five distinct effector functions of HIVgag-specific CD8+ T-cells in rectal mucosa and blood, individually and in combination, in relationship to clinical status and antiretroviral therapy (ART). In subjects not on ART, the percentage of rectal Gag-specific CD8+ T-cells capable of 3, 4 or 5 simultaneous effector functions was significantly related to blood CD4 count and inversely related to plasma viral load (PVL) (p<0.05). Polyfunctional rectal CD8+ T-cells expressed higher levels of MIP-1β and CD107a on a per cell basis than mono- or bifunctional cells. The production of TNFα, IFN-γ, and CD107a by Gag-specific rectal CD8+ T-cells each correlated inversely (p<0.05) with PVL, and MIP-1β expression revealed a similar trend. CD107a and IFN-γ production were positively related to blood CD4 count (p<0.05), with MIP-1β showing a similar trend. IL-2 production by rectal CD8+ T-cells was highly variable and generally low, and showed no relationship to viral load or blood CD4 count.

Conclusions

The polyfunctionality of rectal Gag-specific CD8+ T-cells appears to be related to blood CD4 count and inversely related to PVL. The extent to which these associations reflect causality remains to be determined; nevertheless, our data suggest a potentially important role for mucosal T-cells in limiting virus replication during chronic infection.     

A Survey of Honey Bee Colony Losses in the U.S., Fall 2007 to Spring 2008

Background

Honey bees are an essential component of modern agriculture. A recently recognized ailment, Colony Collapse Disorder (CCD), devastates colonies, leaving hives with a complete lack of bees, dead or alive. Up to now, estimates of honey bee population decline have not included losses occurring during the wintering period, thus underestimating actual colony mortality. Our survey quantifies the extent of colony losses in the United States over the winter of 2007–2008.

Methodology/Principal Findings

Surveys were conducted to quantify and identify management factors (e.g. operation size, hive migration) that contribute to high colony losses in general and CCD symptoms in particular. Over 19% of the country''s estimated 2.44 million colonies were surveyed. A total loss of 35.8% of colonies was recorded; an increase of 11.4% compared to last year. Operations that pollinated almonds lost, on average, the same number of colonies as those that did not. The 37.9% of operations that reported having at least some of their colonies die with a complete lack of bees had a total loss of 40.8% of colonies compared to the 17.1% loss reported by beekeepers without this symptom. Large operations were more likely to have this symptom suggesting that a contagious condition may be a causal factor. Sixty percent of all colonies that were reported dead in this survey died without dead bees, and thus possibly suffered from CCD. In PA, losses varied with region, indicating that ambient temperature over winter may be an important factor.

Conclusions/Significance

Of utmost importance to understanding the recent losses and CCD is keeping track of losses over time and on a large geographic scale. Given that our surveys are representative of the losses across all beekeeping operations, between 0.75 and 1.00 million honey bee colonies are estimated to have died in the United States over the winter of 2007–2008. This article is an extensive survey of U.S. beekeepers across the continent, serving as a reference for comparison with future losses as well as providing guidance to future hypothesis-driven research on the causes of colony mortality.