Structural correlates of shape change in the primate crystalline lens

Cytological changes associated with accommodation in macaques and man were investigated using light and scanning electron microscopy to examine lenticular fibre modification and the role of the lens capsule. Accommodation was simulated monocularly in one animal with local administration of 1/4% phospholine iodide and by dislocation in another followed by fixation by perfusion. Three types of junctional structures were observed: angle processes were found at all depths, ball and sockets in outer lens zones, and tongue and grooves in the deeper lens. Interfaces lacking junctional structures were not present and the concept of sliding between fibre layers to permit curvature changes was rejected. The hypothesis of intracellular redistribution of cytoplasm within lens fibres was tested, by comparing fibre cross sectional area throughout the posterior half of accommodated and unaccommodated lenses. In one animal evidence for cytoplasmic flow was found throughout the lens but was greatest in the nucleus. In the other, showing less curvature difference, evidence was restricted the nucleu and superficial cortex. The thin superficial cortex is probably of little significance in effecting shape change. Consequently the results support the notion of greater nuclear than cortical action in accommodative shape changes. The fibres of the intermediate and deep cortex are remarkably thin and indented and are arguably less conducive to cytoplasmic flow. Lens capsule thickness was measured in 23 monkey and 11 human lenses in situ and detached, giving similar results. Profiles were recorded of unfixed monkey lenses with and without capsules. An annular zone of flattening, nearly coincident with maximum capsular thickness, giving the classical 'lenticonus" form, reduced on decapsulation. The young human and monkey capsule thickness variation was consistent with classical rather than more recent data thinnest at the posterior pole and thickest near, not at the equator. The results demonstrate a role for capsular shaping of the accommodated lens (with or without local moulding), effected by cytoplasmic flow most marked in the nucleus

Ecological indicators to capture the effects of fishing on biodiversityand conservation status of marine ecosystems

IndiSeas (“Indicators for the Seas”) is a collaborative international working group that was established in2005 to evaluate the status of exploited marine ecosystems using a suite of indicators in a comparative framework. An initial shortlist of seven ecological indicators was selected to quantify the effects of fishing on the broader ecosystem using several criteria (i.e., ecological meaning, sensitivity to fishing, data avail-ability, management objectives and public awareness). The suite comprised: (i) the inverse coefficient of variation of total biomass of surveyed species, (ii) mean fish length in the surveyed community, (iii)mean maximum life span of surveyed fish species, (iv) proportion of predatory fish in the surveyed community, (v) proportion of under and moderately exploited stocks, (vi) total biomass of surveyed species,and (vii) mean trophic level of the landed catch. In line with the Nagoya Strategic Plan of the Convention on Biological Diversity (2011–2020), we extended this suite to emphasize the broader biodiversity and conservation risks in exploited marine ecosystems. We selected a subset of indicators from a list of empirically based candidate biodiversity indicators initially established based on ecological significance to complement the original IndiSeas indicators. The additional selected indicators were: (viii) mean intrinsic vulnerability index of the fish landed catch, (ix) proportion of non-declining exploited species in the surveyed community, (x) catch-based marine trophic index, and (xi) mean trophic level of the surveyed community. Despite the lack of data in some ecosystems, we also selected (xii) mean trophic level of the modelled community, and (xiii) proportion of discards in the fishery as extra indicators. These additional indicators were examined, along with the initial set of IndiSeas ecological indicators, to evaluate whether adding new biodiversity indicators provided useful additional information to refine our under-standing of the status evaluation of 29 exploited marine ecosystems. We used state and trend analyses,and we performed correlation, redundancy and multivariate tests. Existing developments in ecosystem-based fisheries management have largely focused on exploited species. Our study, using mostly fisheries independent survey-based indicators, highlights that biodiversity and conservation-based indicators are complementary to ecological indicators of fishing pressure. Thus, they should be used to provide additional information to evaluate the overall impact of fishing on exploited marine ecosystems

Ecological indicators to capture the effects of fishing on biodiversityand conservation status of marine ecosystems

IndiSeas (“Indicators for the Seas”) is a collaborative international working group that was established in2005 to evaluate the status of exploited marine ecosystems using a suite of indicators in a comparative framework. An initial shortlist of seven ecological indicators was selected to quantify the effects of fishing on the broader ecosystem using several criteria (i.e., ecological meaning, sensitivity to fishing, data avail-ability, management objectives and public awareness). The suite comprised: (i) the inverse coefficient of variation of total biomass of surveyed species, (ii) mean fish length in the surveyed community, (iii)mean maximum life span of surveyed fish species, (iv) proportion of predatory fish in the surveyed community, (v) proportion of under and moderately exploited stocks, (vi) total biomass of surveyed species,and (vii) mean trophic level of the landed catch. In line with the Nagoya Strategic Plan of the Convention on Biological Diversity (2011–2020), we extended this suite to emphasize the broader biodiversity and conservation risks in exploited marine ecosystems. We selected a subset of indicators from a list of empirically based candidate biodiversity indicators initially established based on ecological significance to complement the original IndiSeas indicators. The additional selected indicators were: (viii) mean intrinsic vulnerability index of the fish landed catch, (ix) proportion of non-declining exploited species in the surveyed community, (x) catch-based marine trophic index, and (xi) mean trophic level of the surveyed community. Despite the lack of data in some ecosystems, we also selected (xii) mean trophic level of the modelled community, and (xiii) proportion of discards in the fishery as extra indicators. These additional indicators were examined, along with the initial set of IndiSeas ecological indicators, to evaluate whether adding new biodiversity indicators provided useful additional information to refine our under-standing of the status evaluation of 29 exploited marine ecosystems. We used state and trend analyses,and we performed correlation, redundancy and multivariate tests. Existing developments in ecosystem-based fisheries management have largely focused on exploited species. Our study, using mostly fisheries independent survey-based indicators, highlights that biodiversity and conservation-based indicators are complementary to ecological indicators of fishing pressure. Thus, they should be used to provide additional information to evaluate the overall impact of fishing on exploited marine ecosystems

Do Femtonewton Forces Affect Genetic Function? A Review

Protein-Mediated DNA looping is intricately related to gene expression. Therefore any mechanical constraint that disrupts loop formation can play a significant role in gene regulation. Polymer physics models predict that less than a piconewton of force may be sufficient to prevent the formation of DNA loops. Thus, it appears that tension can act as a molecular switch that controls the much larger forces associated with the processive motion of RNA polymerase. Since RNAP can exert forces over 20 pN before it stalls, a ‘substrate tension switch’ could offer a force advantage of two orders of magnitude. Evidence for such a mechanism is seen in recent in vitro micromanipulation experiments. In this article we provide new perspective on existing theory and experimental data on DNA looping in vitro and in vivo . We elaborate on the connection between tension and a variety of other intracellular mechanical constraints including sequence specific curvature and supercoiling. In the process, we emphasize that the richness and versatility of DNA mechanics opens up a whole new paradigm of gene regulation to explore.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/41816/1/10867_2005_Article_9002.pd

Relationships between latitude and environmental conditions and the species richness, abundance and composition of tropical fish assemblages over soft substrata

Large-scale studies are required to elucidate the environmental factors that structure faunal communities. The relationships between the characteristics of the coastal ichthyofaunas over the soft substrata of tropical north-western Australia and both latitude and environmental factors were thus explored by analysing trawl data obtained for deep and shallow inshore waters at 7 regularly spaced locations along this 1500 km coast during both the dry and wet seasons. In the dry season, species richness and density were greater in the Kimberley and Pilbara bioregions than in the intervening Canning bioregion, where, in contrast to particularly the Kimberley, rivers and mangroves are largely absent. Species richness and density were greatest in the most northern bioregion (Kimberley) during the wet season, when nutrient input from rivers and water temperatures were highest. The high species richness and density at 1 Canning location during the wet season was presumably related to increased productivity brought about by local cyclonic events. Ichthyofaunal compositions in the Kimberley differed markedly from those in the Canning and Pilbara, where tidal range was less and water clarity greater due, in particular, to far greater densities of leiognathids and terapontids. Compositions at all locations in the dry season differed from those in the wet, when chlorophyll a concentrations and/or water temperatures were greatest and large numbers of certain species were recruited. Ichthyofaunal composition at each location almost invariably differed markedly between water depths, reflecting, inter alia, the tendency for some species to use nearshore waters as nursery areas and for others to occupy particular habitats

Factors influencing the characteristics of fish assemblages in a large subtropical marine embayment

Mean number of species and density of fishes in nearshore shallow waters of Shark Bay, a large subtropical embayment, were c. seven and 19.5 times greater in seagrass than over bare sand, where protection from predators and the abundance of potential invertebrate prey were less. The number of fish species and density of fishes over bare sand were lower in nearshore than offshore waters, where there was a greater amount of organic material and thus presumably a greater density of benthic macroinvertebrate prey. Species composition in vegetated and unvegetated habitats differed markedly, with species such as Monacanthus chinensis, Apogon rueppellii and Pelates quadrilineatus being largely confined to seagrass, whereas others such as Pseudorhombus jenynsii, Torquigener whitleyi and Engyprosopon grandisquama were found predominantly or exclusively over bare sand. The ichthyofauna in beds of Posidonia australis, in which the canopy is uniformly dense, differed in composition and comprised a greater number of species and density of fishes than that in Amphibolis antarctica, in which an open space is present beneath the terminal clusters of relatively short leaves. Species composition in the beds of both of these seagrass species underwent well defined cyclical changes, caused by out-of-phase sequential changes in the densities of certain species. Such changes were less common over bare sand, where the ichthyofaunal composition was more variable. The number of species and density of fishes over bare sand were greater at night than during the day, reflecting, in part, a tendency for species such as A. rueppellii to move into unvegetated areas to feed at night, when the likelihood of predation by visual predators would be reduced. Within Shark Bay, ichthyofaunal composition is influenced most by habitat type (vegetated v. unvegetated), followed in general by water depth and then region in the bay and time of year

Influence of latitude, water depth, day v. night and wet v. dry periods on the species composition of reef fish communities in tropical Western Australia

Trap sampling over reefs in deep (mean = 20 m) and shallow (mean = 10 m) waters along c. 1500 km of coastline in tropical north-western Australia during both day and night and in wet and dry periods yielded 23 377 fishes, representing 32 families, 58 genera and 119 species. Individuals of the Serranidae, Lutjanidae, Lethrinidae and Carangidae contributed 88.9% to the total catch. The ichthyofaunal compositions of the Kimberley, Canning and Pilbara bioregions were relatively discrete. Species composition was influenced far more by location (latitude) than by water depth, period and time of day, and underwent a gradational change southwards. The latter change reflected differences in the trends exhibited by the relative abundances of certain species with increasing latitude and the confinement of other species largely to particular regions. The three most abundant species, i.e. Lethrinus sp. 3, Lutjanus carponotatus and Lethrinus laticaudis contributed 34.8, 20.8 and 11.6% to the total catch, respectively. The first species was rarely recorded in the two most northern locations and was abundant in the four most southern locations, whereas the last two species were relatively more abundant in northern than in southern locations. Lutjanus bitaeniatus and Lutjanus johnii were found exclusively at the two locations in the Kimberley region, whereas Abalistes stellatus, Pentapodus emeryii and Lethrinus nebulosus were not caught in this region but were found in both locations of the Canning and Pilbara regions. The species composition in deep and shallow waters at each location almost invariably differed significantly between day and night and between dry and wet periods, with species such as L. bitaeniatus, L. johnii, Lutjanus sebae and A. stellatus being more abundant over deep reefs, whereas L. carponotatus, L. laticaudis, Siganus fuscescens and Lethrinus lentjan were more numerous over shallow reefs. Species such as L. johnii and Lethrinus atkinsoni were relatively more important in night-time than daytime catches, whereas the reverse applied to Lethrinus lentjan, L. laticaudis and Choerodon cyanodus. Lethrinus sp. 3 and L. laticaudis were relatively more important in catches during the dry than wet period