小鼠基因组中的微卫星重复序列的数量、分布和密度

作者分析了老鼠基因组中各染色体及其内含子、外显子和基因间区上各种类型的微卫星(1-6个碱基的重复序列)的数量及其密度。SSR约占老鼠基因组的2.85%,其中46.2%存在于基因间区,4.75%存在于外显子,49.05%在内含子区域,即非编码区富含微卫星。微卫星的数量与染色体或基因区域的大小有关,但密度与染色体或基因区域的大小的关系并不十分密切。第4染色体的外显子区域中6种类型的SSR含量都比其它区域少。A,T,AC,AG,AT,AAC,AAG,AGG,AAAC,AAAG,AAAT,AACC,AAAAC,AAAAG,AAAAT,AAACC,AAAGG,AAGAG,AAAAAC,AAAAAG,AAAAAT,AAAGAG,ACACAT,ACAGAG,ACAGGC,ACATAT是老鼠基因组中主要的SSR类型,而一些5碱基重复单元的SSR在老鼠基因组的某一条甚至某几条染色体都不存在     

Bottom-up and cascading top-down control of macroalgae along a depth gradient

On marine rocky shores, macroalgal herbivory is often intense, such that the cascading effects of fish predation may contribute to the control of algal communities. To estimate the magnitudes of top-down and bottom-up control on a macroalgal community, we manipulated the access of carnivorous fish to macroalgal colonization substrates, as well as nutrient availability, at two sub-littoral depths. There were three levels of fish manipulation: natural fish community, no fish and the enclosure of one common species, the perch, Perca fluviatilis. We found a clear cascade effect of fish predation on both the total density and several individual species of macroalgae, which was more pronounced in deep than shallow water. The density of the dominant grazers, i.e. snails, increased in nutrient-enriched conditions; perch were inefficient in controlling herbivores, and had therefore no cascading effect on algal densities under such conditions. Although nutrients enhanced the growth of opportunistic algae, herbivores, in the absence of fish, inhibited this response. While algal diversity was higher in shallow than in deep water, the enrichment effect was opposite at the two depths with lowered diversity in the shallows and increased at depth. Our results indicate that fish predation is an efficient regulator of meso-herbivores and that its effect thereby cascades onto the producer trophic level such that both perennial and opportunistic algae benefit from the presence of fish. This cascade effect is probably stronger at depth where predation efficiency is less disturbed by wave motion.     

The effect of sterilizing diseases on host abundance and distribution along environmental gradients

This study analyses the effect of host-specific pathogens on range restriction of their hosts across environmental gradients at population margins. Sterilizing diseases can limit host range by causing large reductions in population size in what would otherwise be the central area of a species range. Diseases showing frequency-dependent transmission can also pull back a population from its disease-free margin. A wide range of disease prevalence versus abundance patterns emerge which often differ from the classical expectation of increasing prevalence with increasing abundance. Surprisingly, very few empirical studies have investigated the dynamics of disease across environmental gradients or at range limits.     

Factors affecting distribution and abundance of jellyfish medusae in a temperate estuary: a multi-decadal study

Three hydrozoan species, reputedly from the Black Sea (Maeotias marginata, Blackfordia virginica, Moerisia lyonsi), are now found throughout the San Francisco Estuary, California, but long-term and seasonal patterns of distribution and abundance have been poorly documented. We evaluated trends from 35 years of monthly otter trawl data and from a 2-year macrozooplankton survey in Suisun Marsh, a brackish region with extensive tidal sloughs and channels that is part of the San Francisco Estuary. Medusae of all three hydrozoans occurred primarily during the dry season (summer–fall). Abundance of M. marginata medusae significantly increased since the 1980s. Moerisia lyonsi was the most abundant hydrozoan in the macrozooplankton medusa survey followed by M. marginata and B. virginica. Salinity and temperature were strongly positively associated with medusa abundance. Maeotias marginata occurred in the lowest salinity range (2.3–9.1 ppt), while M. lyonsi (2.8–9.9 ppt) and B. virginica (5.6–10.3 ppt) occupied slightly higher salinities. Overall, abundance and distribution of medusae of these three hydrozoans in Suisun Marsh depended on seasonal stability of environmental conditions that favored blooms. While harmful effects have yet to be demonstrated, they could become more of a problem as both sea level and water temperatures rise, especially given the combined range of environmental conditions at which the three species occur.     

Disease and the abundance and distribution of bird populations: a summary

Over the past few years, I have written several reviews about the effects of infectious diseases upon the distribution and abundance of their host populations. One general review and synthesis is in the fmd chapter of a book whose earlier chapters focus mainly on human diseases (Anderson & May 1991). A bird-specific discussion, with particular reference to conservation issues, is given by Dobson and May (1991). Broadly related questions about the invasion, persistence and spread of infectious diseases within animal communities are explored by Anderson and May (1986) and with emphasis on bird populations by Dobson and May (1986). Also relevant are a set of papers from the Society for Conservation Biology's first-ever symposium on Conservation and Disease (for an overview, see May 1988, Scott 1988).
Rather than burdening the literature with a recapitulation of these existing reviews, this paper gives a sign-posted guide for those who are not familiar with this particular literature. I first sketch reasons for believing that infectious diseases play an important part in the life history of birds. Next I point towards an analytic framework for understanding the dynamics of host-pathogen associations. Finally I list some of the implications for the conservation biology of bird populations.     

The distribution of endocrine cells along the mouse intestine: a quantitative immunocytochemical study

The topographical distribution of endocrine cells in the crypt and villus epithelium along the length of the mouse intestine was studied. Argyrophil reactivity using the Grimelius stain was used to estimate the total endocrine population of the intestine. Comparisons were then made with the fraction of endocrine cells containing glucagon like material, stained immunocytochemically using rabbit anti-glucagon antisera. A highly significant reduction in the incidence of endocrine cells (argyrophil reactive) from the proximal to distal end of the intestine was noted. However, only 10-30% of these cells contained glucagon like material in the crypts of the duodenum, jejunum and ileum, compared to 30-60% in the crypts of the colon and rectum. The distribution of endocrine cells (argyrophil reactive) was maximal in the lower regions of the proliferative zone of the crypts but showed no significant variation along the length of the villi. Cells containing glucagon like material were also most frequent in the lower regions of the proliferative zone of the crypts, but were not generally found above the bottom third of the villi. Each crypt in the small intestine contains between 3 and 5 endocrine cells one of which contained glucagon like immunoreactive material. In the colon and rectum each crypt contains about 6-8 endocrine cells, of which 3-4 contained glucagon like immunoreactive material. These results indicate that a sub-set of cells containing glucagon like material, differentiate early in the lineage of endocrine cells within the proliferative zone of the intestinal crypts.     

Spatiotemporal variance of environmental conditions in Australian artesian springs affects the distribution and abundance of six endemic snail species

Artesian springs in arid Australia house endemic species with very small geographic distributions (most <50 km²). These species have limited dispersal capabilities, but little is known about environmental variance within and across these springs and how it, too, may limit their distribution and abundance. At the Pelican Creek springs complex, the full diversity of endemic gastropod fauna is found only in springs with deep pools, an area thought to provide greater environmental stability. This implies that the distributions of most snail species at this site may be restricted by their narrow environmental requirements and limits. This study monitored spatiotemporal environmental variance in a subset of the Pelican Creek springs (within Edgbaston Reserve) across one year to assess whether pool areas differ from tail areas, and how patterns of abundance of six snail species from three different families correspond to this variance. Springs fluctuated considerably in size, depth, water chemistry and temperature at daily and seasonal scales. Patterns of environmental variance differed across areas; pools were spatiotemporally stable, and tails were ephemeral and environmentally variable. The snail species occupied these areas in different ways. Species restricted to deep springs generally had significantly higher abundance in pool areas, and most had narrow environmental limits. In contrast, species found in a greater number of springs, including those with no pool, occupied pool and tail areas and generally had broader environmental limits. Environmental variance within and across springs affects the distribution of snails in a species-specific fashion. This has important implications for how we study springs and reveals that whilst the vast majority of species are restricted to areas of environmental stability, some can persist in the most environmentally variable areas.     

Moisture conditions and the presence of bryophytes determine fescue species abundance in a dry calcareous grassland

Festuca ovina is the abundant matrix-forming species and F. rubra a subordinate species in shallow-soil calcareous grasslands. F. pratensis is a transient species, occurring sparsely in this community. We hypothesised that the different abundances of these three species are primarily due to the differential effect of moisture conditions on their germination and early establishment, and that the effect of the pattern of rainfall intensity depends on the presence or absence of a bryophyte layer. We studied the dependence of the germination and establishment of the three fescue species on the moisture conditions both in the laboratory and in the patches of intact grassland community (microcosms). In a laboratory germination experiment, F. pratensis showed the highest, F. rubra , the intermediate and F. ovina, the lowest drought tolerance. In microcosms, the establishment of F. ovina was the highest. At the same time, the annual mortality of seedlings of F. ovina was the lowest. All three species responded positively to an increasing irrigation level. Differently from F. ovina, F. rubra showed a positive response only in plots from which the bryophyte layer had been removed, while F. pratensis responded positively to both irrigation and bryophyte removal. We conclude that moisture conditions have a differential effect on the three fescue species mainly in the seedling establishment, not in the germination phase. For the successful establishment of F. rubra and F. pratensis, the coincidence of high rainfall and local disturbance, removing bryophytes, is required. The presence or absence of bryophytes had no effect on establishment in dry years, while in rainy years the removal of bryophytes has a clear positive effect.     

Role of habitat degradation in determining fish distribution and abundance along the lowland Warta River, Poland

The distribution and abundance of fish collected in 1996–1998 are compared in three river sections X, Y and Z in the 808‐km‐long Warta River, Poland. The upper section, X, was least human‐modified, the middle section, Y, was the most polluted by industry and regulated, and the downstream section, Z, was moderately disturbed. The differences between X and Y in concentrations of dissolved oxygen, volatile phenols and nitrite nitrogen, and in the index of availability of hiding places, were highly significant because these parameters were several times worse in the Y section; in the Z section they assumed intermediate values. Although the abundance of certain fish species was changing along the downstream river gradient (i.e. differed the most between X and Z), both the Kohonen artificial neural network (SOM) and assemblage indices showed the biggest differences between X and Y, thus confirming the crucial role of the degradation of aquatic environment in shaping fish assemblages. The latter result ensued from the reaction of the rheophilic burbot, stone loach, gudgeon, chub and dace, which were most abundant in X, almost absent in Y and reoccurring in Z (although less numerous when compared with X). The opposite was recorded for mud loach, tench, ide and silver bream, which were most abundant in the degraded section Y, probably because of weak competition with the almost‐absent rheophils. The abundance of two generalists, roach and pike, was similar in all three sections, i.e. changed neither along the downstream nor in the degradation gradient.     

Predation and the distribution and abundance of a pulmonate pond snail

Summary The abundances of a freshwater pulmonate snail, Lymnaea elodes were studied in a temporary pond and a permanent, more productive pond in northeastern Indiana, USA. When snails from both populations were reared in each of the ponds in containers excluding predators, snails grew to be 1.3 to 2 times as large in the more productive pond, and laid 9 times as many eggs. However, field sampling data showed adults to be more abundant in the temporary pond. The only obvious difference between the two ponds was the presence of the molluscivorous central mudminnow (Umbra limi) in the permanent pond. These fish fed upon L. elodes when eggs and juvenile snails were abundant. In an experiment in the temporary pond, addition of mudminnows lowered egg and juvenile snail survival in pens where snail abundances had been increased. We suggest that vertebrate predators like the mudminnow can be significant sources of mortality for thin shelled species like L. elodes, possibly excluding them from habitats like lakes and rivers.Address for offprint requests     

Effect of the distribution and density of benthic target organisms on manta tow estimates of their abundance

The perception biases associated with manta tow estimates of the abundance of benthic organisms were investigated using artificial targets, the density, distribution and availability of which could be controlled. The proportion of targets which are counted by a mantatowed observer (sightability) and the precision of the resultant estimates of their abundance decreased as the targets were distributed more widely over a reef slope. The sightability of targets was enhanced when they were arranged at a high density or in relatively large groups of 9–11, or when they were located directly under the manta towed observer rather than at the edges of his visual field. Limiting the search width of a manta towed observer to about 9 m should improve manta tow estimates of target organisms. However, in practice this would be difficult for reef organisms such as Acanthaster planci because of the extreme three dimensionality of the reef surface relative to the depth of the water.     

Intertidal distribution of infauna in a central California lagoon: the role of seasonal blooms of macroalgae

This study examined the roles of seasonal blooms of green algae, Ulva expansa (Setchell) Setchell et Gardner, and biotic disturbance by burrowing ghost shrimp, Callianassa gigas Dana, and foraging rays, on the intertidal distributions of a phoronid, Phoronopsis viridis Hilton, and a tellinid bivalve, Macoma nasuta (Conrad). Algal removal experiments in 1984 and 1986 demonstrated that heavy seasonal algal cover in the lower zone significantly reduced the abundances of both Phoronopsis and Macoma. Growth of Macoma transplanted into the algal zone was significantly lower in plots with algal cover than in plots regularly cleared of algae. Algal cover did not significantly affect early recruitment of either Phoronopsis or Macoma. Neither ghost shrimp nor rays appeared to reduce the abundances of phoronids or clams, although ray disturbance did result in a significant increase in the proportion of phoronids regenerating dorsal body parts. These results indicate that seasonal algal blooms are capable of producing discrete patterns of infaunal distribution in intertidal sedimentary habitats.     

Spatial synchrony of prairie ducks: roles of wetland abundance, distance, and agricultural cover

Populations exhibit spatial synchrony when their numbers rise and fall in concert at several sites over their distribution. I examined the relationship between synchrony, abundance of wetlands (ponds), distance, and agricultural cover using count data of ten duck species counted in 23 aerial survey strata on the mid-continental prairies of North America. Expansion of agriculture may have resulted in increased synchrony of duck populations through increased foraging efficiency of nomadic predators and/or if the homogenization of nesting habitat has removed habitat features that allow differential local responses to large-scale population drivers such as precipitation. As a measure of synchrony, I calculated all pair-wise cross-correlation coefficients based on population growth rates (r _t ) at each survey stratum, and then regressed these correlation coefficients against measures of cross-correlation of pond (wetland) counts, distance between strata, and mean percent area of strata seeded to row crops. Synchrony for most species was most strongly related to synchrony of wetland availability among sites, and decreased with distance between sites. Synchrony of ducks that nest over water showed little effect of agricultural cover, whereas the effect of agricultural cover on synchrony of upland nesting ducks differed by species. Mobile large-bodied species showed evidence of increased synchrony due to agricultural cover, whereas smaller-bodied, more philopatric species showed evidence of decreased synchrony due to agricultural cover.     

Early phase of the invasion of Balanus glandula along the coast of Eastern Hokkaido: changes in abundance,distribution, and recruitment

To understand the patterns and processes associated with the population dynamics of Balanus glandula during the early phase of invasion along the Pacific coast of eastern Hokkaido, population surveys were conducted from 2002 to 2011 at five shores, each consisting of five paired plots (scraped recruitment plot and unscraped establishment plot), along 49 km of coastline located 144 km east of the eastern front of the invasion of this species in 2000. Larval recruitment was first detected in 2004, but the establishment of a population was not observed until 2 years later at the westernmost shore of the study area. Occurrence increased from non-native barnacle present in 4 % of plots in 2006 to 100 % in 2011, but mean coverage remained low (<5 %) in 2011. Most local population coverage fluctuated without indicating clear temporal trends, but coverage in one plot showed a consistent pattern of rapid increase. Local extinctions occurred, but rates of local extinction decreased with time as larval recruitment increased. Lag times between recruitment and establishment occurred for 64 % of the paired plots and ranged from 1 to 4 years. Lag times decreased after 5 years, when larval recruitment increased. These findings suggest that the intensity of larval recruitment determined invasion dynamics during this early phase of the invasion, and the monitoring of recruitment is therefore essential for early detection of invasions by sessile marine organisms and prediction of their range expansion.     

Control of neural synchrony using channelrhodopsin-2: a computational study

In this paper, we present an optical stimulation based approach to induce 1:1 in-phase synchrony in a network of coupled interneurons wherein each interneuron expresses the light sensitive protein channelrhodopsin-2 (ChR2). We begin with a transition rate model for the channel kinetics of ChR2 in response to light stimulation. We then define "functional optical time response curve (fOTRC)" as a measure of the response of a periodically firing interneuron (transfected with ChR2 ion channel) to a periodic light pulse stimulation. We specifically consider the case of unidirectionally coupled (UCI) network and propose an open loop control architecture that uses light as an actuation signal to induce 1:1 in-phase synchrony in the UCI network. Using general properties of the spike time response curves (STRCs) for Type-1 neuron model (Ermentrout, Neural Comput 8:979-1001, 1996) and fOTRC, we estimate the (open loop) optimal actuation signal parameters required to induce 1:1 in-phase synchrony. We then propose a closed loop controller architecture and a controller algorithm to robustly sustain stable 1:1 in-phase synchrony in the presence of unknown deviations in the network parameters. Finally, we test the performance of this closed-loop controller in a network of mutually coupled (MCI) interneurons.     

Interdecadal changes in at‐sea distribution and abundance of subantarctic seabirds along a latitudinal gradient in the Southern Indian Ocean

Long‐term demographic studies have recently shown that global climate change together with increasing direct impacts of human activities, such as fisheries, are affecting the population dynamics of marine top predators. However, the effects of these factors on species distribution and abundance at sea are still poorly understood, particularly in marine ecosystems of the southern hemisphere. Using a unique long‐term data set of at‐sea observations, we tested for interdecadal (1980s vs. 2000s) changes in summer abundance and distribution of 12 species of Albatrosses and Petrels along a 30° latitudinal gradient between tropical and Antarctic waters of the southern Indian Ocean. There were contrasting effects of climate change on subantarctic seabird distribution and abundance at sea. While subtropical waters showed the highest rate of warming, the species that visited this water mass showed the greatest changes in distribution and abundance. The abundance of Wandering Albatrosses (Diomedea exulans), White‐chinned Petrels (Procellaria aequinoctialis) and Giant Petrels (Macronectes sp.) declined markedly, whereas the other species showed contrasting trends or did not change. With the exception of the White‐chinned Petrel, these decreases were at least partly related to regional increase in sea surface temperature. The southward shift of Wandering Albatross and Prions (Pachyptila spp.) distributions could be ascribed to species redistribution or decrease in abundance due to warming of the subtropical waters. Surprisingly, White‐chinned Petrel distribution shifted northward, suggesting more complex mechanisms. This study is the first to document a shift in species range in the Southern Ocean related to climate change and contrasting abundance changes. It suggests that some species might experience more severe impacts from climate change depending on the water masses they visit. As climate changes are predicted to continue in the next decades, understanding species responses to climate change is crucial for conservation management, especially when their conservation status is critical or unknown.     

Selective solution of macroinvertebrate calcareous hard parts: a laboratory study

Ten suites of 16 common types of invertebrate hard parts were placed in acid baths for 24 hours to determine relative rates and common styles of dissolution. Skeletal mineralogies included aragonite and both high-magnesium and low-magnesium calcite. Hard parts included barnacle cxoskelctons, cchinoid tests, gastropod opercula and gastropod and bivalve shells. Calcitic barnacle plates dissolved most rapidly, aragonitic and high magnesium calcitic hard parts showed intermediate rates, and the calcitic shells of the oyster dissolved at the lowest rate. The surface area to weight ratio of the hard parts correlated ( r =0.650) significantly with the hard part's rate of dissolution. Skeletal remains with a high surface area to weight ratio dissolved faster than those with a low surface area to weight ratio. Skeletal porosity and mineralogy appeared to be responsible for additional variation in the rate of dissolution. The effect of the surface area to weight ratio is sufficient to overcome the effect of mineralogy. Dense, compact aragonitic hard parts can persist longer than porous, thin calcitic remains. Typical features associated with skeletal degradation include development of chalky textures, thinning of distal margins, surface etching and formation of holes in bivalve muscle scars. Such features may aid in the recognition of partial dissolution of skeletal remains in the rock record. □ Taphonomy, paleoecology, fossil-diagenesis.