On conditional and intrinsic autoregressions

Gaussian conditional autoregressions have been widely used inspatial statistics and Bayesian image analysis, where they areintended to describe interactions between random variables atfixed sites in Euclidean space. The main appeal of these distributionsis in the Markovian interpretation of their full conditionals.Intrinsic autoregressions are limiting forms that retain theMarkov property. Despite being improper, they can have advantagesover the standard autoregressions, both conceptually and inpractice. For example, they often avoid difficulties in parameterestimation, without apparent loss, or exhibit appealing invariances,as in texture analysis. However, on small arrays and in nonlatticeapplications, both forms of autoregression can lead to undesirablesecond-order characteristics, either in the variables themselvesor in contrasts among them. This paper discusses standard andintrinsic autoregressions and describes how the problems thatarise can be alleviated using Dempster's (1972) algorithm oran appropriate modification. The approach represents a partialsynthesis of standard geostatistical and Gaussian Markov randomfield formulations. Some nonspatial applications are also mentioned.     

EPITHELIAL CELL MIGRATION IN THE INTESTINE

Despite significant advances in our understanding of the roles of the cytoskeleton and matrix receptors in cell locomotion, derived largely fromin vitrostudies on the movement of epithelial cell sheets and isolated cells, the mechanism of epithelial cell migration in the adult intestine remains an enigma. The primary function of the epithelial cell cytoskeleton seems to be in the maintenance of the apical region of the epithelium facing the gut lumen. There we find the brush border, with its associated enzymes, and the intercellular adhesion complexes that give the epithelium its cohesiveness and its barrier function. Curiously, there is little in the way of an organized cytoskeleton in the basal region of the epithelium adjacent to the basement membrane on which the epithelium is presumed to migrate. In this short review, I focus on what is known about epithelial migration from our understanding of the structure of the epithelium and from studies on wound healing, and indicate some avenues for future study.     

DNA probes for species identification of mosquitoes in the Anopheles gambiae complex

Abstract. Identification of species within the Anopheles gambiae Giles species complex is essential for the correct evaluation of malaria vector ecology studies and control programmes. The development of DNA probes to distinguish species of the An.gambiae complex is described. Genomic libraries were prepared for four members of the An.gambiae complex. These were screened using radiolabeled DNA from different species of An. gambiae sensu lato and a number of clones selected on the basis of their species specificity. These clones could be divided into two groups, each containing homologous sequences. Sequences homologous to group 1 inserts are highly reiterated in the genomes of Anopheles arabiensis Patton and Anopheles merus Dönitz, present in low copy number in Anopheles melas Theobald, but were not detected in Anopheles gambiae sensu stricto. Studies on the organization of this sequence in the genome of An.arabiensis show that homologous sequences are male specific and interspersed within the chromatin. Sequences homologous to group 2 inserts are highly repeated in the genomes of An.merus and An.melas, but present in low copy number in An.gambiae s.s. and An.arabiensis. Group 2 homologous sequences are not sex-specific in the species tested and appear to be tandemly repeated. When used as hybridization probes, these sequences provide a sensitive means for the identification of species within the Anopheles gambiae complex.     

Detrimental effects of recent ocean surface warming on growth condition of Atlantic salmon

Ocean climate impacts on survivorship and growth of Atlantic salmon are complex, but still poorly understood. Stock abundances have declined over the past three decades and 1992–2006 has seen widespread sea surface temperature (SST) warming of the NE Atlantic, including the foraging areas exploited by salmon of southern European origin. Salmon cease feeding on return migration, and here we express the final growth condition of year‐classes of one‐sea winter adults at, or just before, freshwater re‐entry as the predicted weight at standard length. Two independent 14‐year time series for a single river stock and for mixed, multiple stocks revealed almost identical temporal patterns in growth condition variation, and an overall trend decrease of 11–14% over the past decade. Growth condition has fallen as SST anomaly has risen, and for each year‐class the midwinter (January) SST anomalies they experienced at sea correlated negatively with their final condition on migratory return during the subsequent summer months. Stored lipids are crucial for survival and for the prespawning provisioning of eggs in freshwater, and we show that under‐weight individuals have disproportionately low reserves. The poorest condition fish (～30% under‐weight) returned with lipid stores reduced by ～80%. This study concurs with previous analyses of other North Atlantic top consumers (e.g. somatic condition of tuna, reproductive failure of seabirds) showing evidence of major, recent climate‐driven changes in the eastern North Atlantic pelagic ecosystem, and the likely importance of bottom‐up control processes. Because salmon abundances presently remain at historical lows, fecundity of recent year‐classes will have been increasingly compromised. Measures of year‐class growth condition should therefore be incorporated in the analysis and setting of numerical spawning escapements for threatened stocks, and conservation limits should be revised upwards conservatively during periods of excessive ocean climate warming.     

Multiple Mechanisms Provide Tolerance to Environmental Sulfide in Urechis caupo

SYNOPSIS. During tidal exposure the echiuran worm Urechis caupoencounters toxic sulnde in its burrow microhabitat on the marinemudflat. Although sulnde freely penetrates the two respiratoryepithelia (the body wall and hindgut) and tissue cytochromeoxidases are extremely sulnde sensitive, the worm toleratessulnde concentrations which exceed environmental exposures.Sulnde tolerance results from a suite of sulnde detoxificationmechanisms that extend from the coelomic fluid to the epithelialsurfaces. The coelomic fluid is rich in hemoglobin and hematin,both of which bind sulfide and catalyze the oxidation of sulfideto thiosulfate in vitro. Peripheral defense mechanisms responsiblefor protection of aerobic epithelia from sulfide poisoning mayinclude mucus secretion, sulfide oxidation by symbiotic bacteriaand/or specialized organelles termed SOBs, and sloughing ofsulfide damaged cells. Thiosulfate, the principal detoxificationendproduct produced in vivo, is eliminated primarily by diffusionacross the hindgut, and sulfur metabolites may be sequesteredand eliminated by the anal sacs. Based on a hypothetical model,we conclude that sulfide tolerance in U. caupo is due primarilyto the sulfide oxidation activity of the coelomic fluid andthat the specialized integument and hindgut protect the metabolicallyactive, sulfide-exposed epithelial cells. These sulfide detoxificationmechanisms may allow populations of this filter-feeding wormto exploit nutrient-rich, sulfidic environments.     

Microsatellite DNA markers for American shad (Alosa sapidissima) and cross‐species amplification within the family Clupeidae

Sixteen microsatellite loci were identified and characterized for American shad (Alosa sapidissima). The number of alleles per locus observed ranged from eight to 32 and averaged 15.4 alleles. Average observed heterozygosity was 81.1%. The markers were screened using four other species from the family Clupeidae. Amplification success among Alosa species was 79.2% with 81.6% polymorphism among those markers that amplified successfully. Amplification success was poor in Dorosoma (31.3%). Due to allelic diversity and estimates of heterozygosity, these markers can be useful in A. sapidissima for population level analyses, parentage assignment and broodstock management.     

Intraspecific vicariant history and the evolution of adaptive morphological diversity in a fish species (Osmerus mordax)

Vicariant geographic isolation and resource partitioning have long been independently identified as processes contributing to the morphological divergence of closely-related species. However, little is known about the extent to which vicariant history influences the adaptive ecological divergence associated with resource partitioning and trophic specialization within species. The present study thus quantified the contribution of vicariant historical genetic divergence to the adaptive contemporary morphological divergence of intraspecific feeding specialists in the Rainbow smelt (Pisces: Osmerus mordax ). This species is characterized by the polyphyletic origin of two lacustrine feeding specialists originating in two intraspecific lineages associated with independent glacial refuges. The historical genetic segregation was initiated approximately 350 000 years ago, whereas the lacustrine trophic segregation arose within the past 10 000 years. Wild caught lacustrine smelt populations were grouped a priori based on known historical genetic identities (Acadian and Atlantic mitochondrial DNA clades) and contemporary feeding specializations (microphageous and macrophageous morphotypes). The present study demonstrated that independent suites of correlated morphological traits are associated with either vicariant history or contemporary feeding specializations. Second, functionally-similar feeding specialists exhibit distinct morphologies resulting largely from vicariant historical processes. Although, the evolutionary processes producing historical phenotypes remains unknown, the results obtained demonstrate how adaptive radiation associated with ecological resource partitioning and feeding specializations can be strongly influenced by intraspecific phenotypic diversification resulting from relatively recent vicariant histories.  © 2009 The Linnean Society of London, Biological Journal of the Linnean Society , 2009, 97 , 140–151.