Gene duplication in salmonid fishes: Evidence for duplicated but catalytically equivalent A4 lactate dehydrogenases

Skeletal muscle tissues from many species of salmonid fish are known to exhibit a set of three to five isozymes for A₄-type lactate dehydrogenase (l-lactate: NAD oxidoreductase, E.C. 1.1.1.27), but the genetic basis for this isozyme system has not previously been assessed. This isozyme system was purified to homogeneity from salmon (Oncorhynchus tshawytscha) and shown to be composed of two polypeptides, A and A, in binomial tetrameric combinations. Amino acid analysis revealed that A and A are closely related but genetically distinct proteins, and thus are coded for by recently duplicated structural loci. Catalytic studies on the purified intact salmon isozyme system and on the isozymically pure A₄ and A₄ homotetramers from brown trout (Salmo trutta) revealed no significant differences in catalytic properties among these enzymes, suggesting equivalent catalytic function of A and A. These results, in combination with studies on polypeptide and isozyme ratios, suggest that one of the duplicated loci in salmon may be drifting toward a nonfunctional state by accumulation of mutations in regulatory DNA rather than in the structural gene itself.This work was supported in part by research grants from the University Grants Committee, the University of Otago Research Committee, and the Medical Research Council of New Zealand. Part of this work was performed while one of us (S. T. L.) was supported by predoctoral fellowships from the Medical Research Council of New Zealand and from the Lee Foundation.     

Ecomorphological correlates of craniodental variation in bears and paleobiological implications for extinct taxa: an approach based on geometric morphometrics

Relative warp analyses of landmarks describing cranial and mandibular shape are used for investigating patterns of morphological variation among extant bears (Mammalia, Carnivora, Ursidae) indicative of diet and feeding behavior. These patterns are used for deriving inferences about the autecology of two extinct species previously assumed to have had different dietary preferences, the North American giant, short-faced bear Arctodus simus and the Eurasian cave bear Ursus spelaeus . Results reveal a set of shared craniodental traits among the herbivorous bears, including short and vaulted skulls with well-developed zygomatic arches, lateralized orbits and small canines, concave jaws with a highly positioned condyle, large moment arms for the temporalis and masseter muscles, and long cheek teeth. In contrast, those bears that consume animal resources have long skulls with small zygomatic arches, frontalized orbits and well-developed canines, and long jaws with a deep mandibular symphysis, low muscle leverages, a condyle situated at the level of the tooth row and reduced cheek teeth. The craniodental morphology of omnivorous bears is intermediate between those of faunivores and herbivores. This is also the case of the short-faced bear and the cave bear, which suggests that previous reconstructions of the feeding ecology of these extinct species (highly carnivorous for A. simus and herbivorous for U. spelaeus ) should be revised.     

Getting into Shape: An Empirical Comparison of Traditional Truss-Based Morphometric Methods with a Newer Geometric Method Applied to New World Cichlids

Body shape is a difficult, but important, trait to quantify. Researchers have traditionally used multivariate analysis of several linear measures ('trusses') across the body form to quantify shape. Newer geometric morphometric methods claim to better estimate shape because they analyze the geometry among the locations of all landmarks simultaneously rather than the linear distances between pairs of landmarks. We tested this claim by comparing the results of several traditional morphometric analyses against a newer geometric analysis involving thin-plate splines (TPS), all applied to a common data set of morphologically variable new world cichlids Amphilophus citrinellus and A. zaliosus. The TPS method yielded slightly stronger evidence of morphological differences among forms, although traditional methods also distinguished the two species. Perhaps our most important result was the idiosyncratic interpretation of shape variation among the traditional truss-based methods, whereas the generation of deformation grids using the TPS approach yielded clear and visually interpretable figures. Our results indicate that geometric morphometrics can be a more effective way to analyze and interpret body form, but also that traditional methods can be relied upon to provide statistical evidence of shape differences, although not necessarily accurate information about the nature of variation in shape.     

A Comparative Study of Eubothrium Salvelini and E. crassum (Cestoda: Pseudophyllidea) Parasites of Arctic Charr and Brown Trout in Alpine Lakes

We compared the morphology, morphometry, and some aspects of the biology and ecology of Eubothrium crassum and E. salvelini, two pseudophyllidean tapeworms in brown trout, Salmo trutta m. lacustris, and Arctic charr, Salvelinus alpinus, in lakes of the western part of the Alps. The taxonomic importance of the apical disc for the discrimination of both taxa was confirmed. The apical disc of E. crassum is rectangular, possessing two deep grooves above the bothriae and 2–16 additional indentations. In E. salvelini, the apical disc is bilobed and bilaterally symmetric. We found new and significant interspecific differences in the length and width of the scolex, the diameter of the apical disc, and the width of the neck, with all measurements being larger in E. crassum. The two species differ in the number and size of the testes (fewer and larger in E. salvelini), the length of the cirrus sac (longer in E. crassum), and the size of vitelline follicles (larger in E. salvelini). Vitelline follicles of E. crassum are always cortical and sometimes enter into the outermost muscle fibres, whereas follicles of E. salvelini are situated largely medullary with few follicles entering between the innermost bundles of muscles. The eggs and the oncospheres of E. salvelini are larger. The embryonic hooks of E. crassum measure 14–18 m whilst those of E. salvelini are 18–26 m. For both taxa, the intraspecific variability in morphometric characters was fairly low. The prevalence and intensity of infection of E. crassum and E. salvelini in their respective fish hosts were very high (prevalence 90–94% mean intensity 36.3 and 6.6, maximums of 172 and 63 tapeworms per fish, respectively). E. salvelini eggs were spontaneously released throughout the year except for winter months; E. crassum laid eggs only in summer (June–August). Natural infection of copepods with Eubothrium procercoids was very low (prevalence 0.002%). The morphogenesis of Eubothrium procercoids was studied in an intermediate host, the copepod Cyclops prealpinus, that had been simultaneously infected with both species.     

Homo floresiensis Contextualized: A Geometric Morphometric Comparative Analysis of Fossil and Pathological Human Samples

The origin of hominins found on the remote Indonesian island of Flores remains highly contentious. These specimens may represent a new hominin species, Homo floresiensis, descended from a local population of Homo erectus or from an earlier (pre-H. erectus) migration of a small-bodied and small-brained hominin out of Africa. Alternatively, some workers suggest that some or all of the specimens recovered from Liang Bua are pathological members of a small-bodied modern human population. Pathological conditions proposed to explain their documented anatomical features include microcephaly, myxoedematous endemic hypothyroidism (“cretinism”) and Laron syndrome (primary growth hormone insensitivity). This study evaluates evolutionary and pathological hypotheses through comparative analysis of cranial morphology. Geometric morphometric analyses of landmark data show that the sole Flores cranium (LB1) is clearly distinct from healthy modern humans and from those exhibiting hypothyroidism and Laron syndrome. Modern human microcephalic specimens converge, to some extent, on crania of extinct species of Homo. However in the features that distinguish these two groups, LB1 consistently groups with fossil hominins and is most similar to H. erectus. Our study provides further support for recognizing the Flores hominins as a distinct species, H. floresiensis, whose affinities lie with archaic Homo.     

Ontogenetic behavior of Siberian sturgeon, Acipenser baerii: A synthesis between laboratory tests and field data

We have reviewed field data and studies on the behavior and development of Siberian sturgeon at early-life intervals and related them to different ecologically relevant environmental factors that may play a role in the distribution, recruitment, and survival of young fish. Four behavioral phases (swimming-up, rheotactism, shoaling, and foraging) are observed from hatching to the juvenile phase. Each behavior is associated with an early-life interval and might allow fish to occupy different river habitats, directly influencing their distribution, survival, and recruitment. River current intensity, substrate typology, food resources, and predation pressure seem to be the most important factors affecting the distribution of Siberian sturgeon free embryos and larvae, while juveniles and adult fish disperse and migrate according to food abundance and reproduction. Mechanisms involved in regulating downstream migration during Siberian sturgeon early life stages are different than those observed in anadromous sturgeon species. In all large Siberian rivers, with the exception of the Lake Baikal, the Siberian sturgeon is represented by population continuums, and in many cases the foraging range also includes the spawning areas. Ontogenetic changes in Siberian sturgeon behavior could be interpreted as a species-specific mechanism to maintain the population continuums described in this species without significant mixture of local populations within the river.     

A Rapid and Simple PCR-based Method for Analysis of Transgenic Fish using a Restricted Amount of Fin Tissue

The protocol described in this paper offers a simple and rapid method for PCR analysis of transgenes using a restricted amount of fin tissue from small-sized transgenic fish. A simple preparation of fin lysate using a buffer containing a low concentration of an ionic detergent, SDS (0.01%), followed by neutralization with a second buffer containing higher concentrations of non-ionic detergents NP40 (2%) and Tween 20 (2%) consistently provides a reliable quantity of high-quality DNA template for PCR amplification of transgenes. Based on this protocol, transgenic fish can be clearly distinguished from non-transgenic fish using PCR in a rapid and reproducible manner. Tedious DNA purifications are avoided while fidelity of amplification and efficient identification of transgenic fish are maintained.     

Dispersal Behavior, Boldness, and the Link to Invasiveness: A Comparison of Four Gambusia Species

Dispersal is a key element of a species' invasiveness. Although considerable work has addressed how dispersal influences the pattern of spatial spread of invading organisms, few studies investigate whether invasive species are in fact better dispersers than either the species they displace or less successful invaders. Recent work suggests that variation in dispersal may be due to variation in an underlying behavioral trait, boldness. Our study examined the link between dispersal, boldness, and invasiveness by comparing the dispersal characteristics and refuge use of two invasive Gambusia species to two congeners in experimental streams. The streams consisted of a series of pools (no flow) connected to a flowing channel. For each species, small groups of females were released at the middle pool, and their movement and activity were recorded over a 1-h period. We found invasive Gambusia to be more likely to disperse out of the introductory pool, to disperse sooner, to travel a greater distance in the artificial streams, and thus to exhibit greater dispersal tendencies than their close relatives. Among the invasives, Gambusia affinis had a greater dispersal tendency than G. holbrooki. We suspect this result indicates variation in the contribution of dispersal to the relative invasiveness of these species. Certain dispersal measures were correlated to time spent out of refuge, although invasive Gambusia and their relatives did not differ in the predicted manner. These results argue for the greater incorporation of experimental approaches and analyses of behavioral mechanisms in the study of invasive species.     

Shifting the balance between foraging and predator avoidance: the importance of food distribution for a schooling pelagic forager

It is widely held that when predator avoidance conflicts with other activities, such as feeding, avoidance of predators often takes precedence. In this study, we examine how predation risk and food distribution interact to influence the schooling behavior and swimming speed of foraging juvenile walleye pollock, Theragra chalcogramma. Fish were acclimated to either spatially and temporally clumped, or spatially and temporally dispersed food for 3 weeks. Fish were then monitored while feeding in the absence and presence of predatory sablefish, Anoplopoma fimbria. Fish foraging for clumped food swam rapidly in a loose school when predators were absent, but swam more slowly and adopted more cohesive schooling in the presence of predators, trading-off foraging opportunity for decreased vulnerability to predators. Fish foraging for dispersed food swam about slowly and did not engage in cohesive schooling in either the absence or presence of predators. These fish accepted greater predation risk in order to continue foraging, suggesting that the cost of schooling, in terms of decreased foraging opportunity, was greater when food was dispersed than when it was clumped. This lower responsiveness to predators among fish receiving dispersed food demonstrates that predator avoidance does not always take precedence over other activities, but rather, that a balance is maintained between predator avoidance and feeding, which shifts as food distribution changes.     

A cladistic phylogeny of the genus Littorina (Gastropoda): implications for evolution of reproductive strategies and for classification

Gross anatomical characters of all 18 species of Littorina are used to construct a phylogenetic hypothesis for the genus, by the method of cladistic analysis. The resulting cladogram suggests that of the four subgenera of Littorina, one (Littorina) is paraphyletic. It is uncertain whether the genus Mainwaringia should be included in Littorina. It is shown that the non-planktotrophic Littorina species in the northern Atlantic comprise a monophyletic group, with the sister-species L. kurila and/or L. subrotundata in the northern Pacific. Invasion of the Atlantic by a minimum of two Pacific species, across the Arctic migration route established during the late Cenozoic, is sufficient to account for the modern distribution of the subgenera Littorina and Neritrema. The importance of the cladogram as a basis for hypotheses of adaptation is illustrated by a discussion of spawn and development in Littorina.     

Pararosaniline Or Acriflavine-Schiff Staining of Epoxy Embedded Tissue After Periodic Acid Oxidation in Ethanol: A Method Suitable for Morphometric and Fluorometric Analysis of Glycogen

A method for preparing tissue sections for automatic image analysis of glyco-gen is described. Large semithin seaions of epoxy embedded tissue fixed in glutaraldehyde osmium were stained with Schiff reagent and acriflavine (fluorescent staining) after resin removal and periodic acid oxidation in ethanol. We found it essential to avoid tissue rehydra-tion before final staining. The Schiff stain permits an assessment of the cellular volume of glycogen, and the acriflavine allows a fluorometric evaluation of glycogen density.     

Evolution of Hox Clusters in Salmonidae: A Comparative Analysis Between Atlantic Salmon (Salmo salar) and Rainbow Trout (Oncorhynchus mykiss)

We studied the genomic organization of Hox genes in Atlantic salmon (Salmo salar) and made comparisons to that in rainbow trout (Oncorhynchus mykiss), another member of the family Salmonidae. We used these two species to test the hypothesis that the Hox genes would provide evidence for a fourth round of duplication (4R) of this gene family given the recent polyploid ancestry of the salmonid fish. Thirteen putative Hox clusters were identified and 10 of these complexes were localized to the current Atlantic salmon genetic map. Syntenic regions with the rainbow trout linkage map were detected and further homologies and homeologies are suggested. We propose that the common ancestor of Atlantic salmon and rainbow trout possessed at least 14 clusters of Hox genes, and additional clusters cannot be ruled out. Salmonid Hox cluster complements seem to be more similar to those of zebrafish (Danio rerio) than medaka (Oryzias latipes) or pufferfish (Sphoeroides nephelus and Takifugu rubripes), as both Atlantic salmon and rainbow trout have retained HoxCb ortholog, which has been lost in medaka and pufferfish but not in zebrafish. However, our data suggest that phylogenetically, the homologous genes within each cluster express mosaic relationships among the teleosts tested and, thus, leave unresolved the interfamilial relationships among these taxa. Sequence data from this article have been deposited within the EMBL/GenBank Data Libraries under the following accession numbers: AY677341, AY677342, AY677343, AY677344, AY677345, AY677346, AY677347, AY677348, AY677349, AY677350, AY677351, AY677352, AY677353, AY677354, AY677355, AY677356, AY677357, AY677358, AY677359, AY677360, AY677361, AY677362, AY677363, AY677364 and AY677365. [Reviewing Editor: Dr. Axel Meyer]     

Differentiation of Cancellous Bone and Medullary Bone in Laying Hens: a Novel Technique for Image Analysis

A selective staining technique for the identification and differentiation of cancellous bone from medullary bone of the laying hen by image analysis is described. Undecalcified Polymaster resin sections were oxidized in acidified potassium permanganate and oxalic acid before being immersed in an ammoniacal silver solution. The sections were reduced in formalin, fixed in sodium thiosulfate and counterstained in naphthalene black 10B which was dissolved in picric and acetic acids. Intensely stained cancellous bone was prominent with this technique compared with a paler medullary bone component which permitted the former to be easily recognized and measured by image analysis.     

A simple graphical technique for displaying individual fertility data and cohort survival: case study of 1000 Mediterranean Fruit Fly females

1. A graphic technique is presented in which data on age-specific reproduction of individuals are portrayed using: (i) a horizontal life line, the length of which is proportional to individual longevity; (ii) colour-coded segments depicting the level of reproduction at each age; and (iii) a cohort survival schedule created by rank-ordering individual life lines from shortest- to longest-lived.
2. The resulting graphic, referred to as an event history diagram, portrays data at the individual level and thus allows visual comparisons of detailed life-history patterns such as age of first reproduction, longevity, ages of high, medium, low and zero reproduction, and post-reproductive period.
3. Example graphs are shown for reproductive and longevity data gathered on 1000 medfly females. The average female lived 35·6 days and laid 759·3 eggs and therefore the graphs display information for 35 600 fly days and the age-distribution of laying for 759 300 eggs.
4. Because the graphics provide a means for visualizing large amounts of data precisely and efficiently, they reveal details and nuances in the data that are not apparent from conventional graphic methods.
5. The advantages of longitudinal data gathered on individuals and reasons why visualizing individual-level data is important are discussed.     

Quartz crystal microbalance biosensor study of endothelial cells and their extracellular matrix following cell removal: Evidence for transient cellular stress and viscoelastic changes during detachment and the elastic behavior of the pure matrix

A quartz crystal microbalance (QCM) cell biosensor utilizing living endothelial cells (ECs) or human breast cancer cells (MCF-7) adhering to the gold QCM surface was used to study the relative contributions of the cells and their underlying extracellular matrix (ECM) to the measured QCM Deltaf and DeltaR shifts. The ECM represents a natural biomaterial that is synthesized by the cells to enable their attachment to surfaces. We followed the detachment of the ECs or MCF-7 cells from their ECM using a nonproteolytic method and were able to apportion the total frequency, Deltaf, decrease of the biosensor into contributions from cell attachment and from the intact underlying ECM. We also demonstrated that the Deltaf shift remaining after EC removal corresponds to ECM as determined by light microscopic visualization of the stained protein. During the process of cell detachment, we observed a novel transient increase in viscoelastic behavior expressed as a transient increase in the motional resistance, DeltaR, parameter. Then we showed via a simulation experiment using ECs stained with fluorescent rhodamine-labeled phalloidin, an actin stain, that the transient viscoelastic increase correlated with cellular stress exhibited by the cells during removal with ethylene glycol bis(2-aminoethyl ether)-N,N,N',N'- tetraacetic acid. Prior to cells lifting from their ECM, the attached ECs rearrange their actin microfilaments first into peripheral stress fibers and second into internal aggregates, to maintain cell-cell connectivity, retain their spread morphology, and attempt to adhere more tightly to their underlying ECM. The decrease in DeltaR following its transient rise corresponds to cells finally losing their attachment focal points and lifting from the ECM. We also characterized the normalized f shifts, -Delta(Deltaf)(ECM)/attached cell and -Delta(Deltaf)(cells)/attached cell, as a function of varying the number of adherent cells. Finally, we demonstrate that the underlying native ECM biomaterial, from which all cells have been removed, does not exhibit any significant level of energy dissipation, in contrast to the cells when they are attached to the ECM.     

Translational Activity of mRNA Coding for Cytoskeletal Brain Proteins in Newborn and Adult Mice: A Comparative Study

Translational activity of mRNA coding for cytoskeletal brain proteins was used to determine the relative abundance of the mRNA in the brains of newborn and adult mice. mRNA was translated in a cell-free system containing rabbit reticulocyte factors. The products of translation were analyzed by two-dimensional gel electrophoresis and characterized by peptide map analysis. Comparison of the products of translation from newborn and from adult brain mRNA shows a 50% decrease in actin and tubulin from newborn to the adult stage. In contrast, the 70 kd neurofilament protein and glial fibrillary acidic protein show a twofold increase in the adult stage. The heat-shock protein HSP70 increases slightly (30%) whereas the brain isozyme of creatine kinase and the heat-shock protein HSP90 are three times as high in adult subjects as in newborns.