bluuebunny/crossref_metadata_2025 huggingface dataset:
Improving the viability of large-mammal populations by using habitat and landscape models to focus conservation planning
Authors: Trisurat Yongyut , Pattanavibool Anak , Gale George A. , Reed David H.
Published: November 2010

Context. Assessing the viability of animal populations in the wild is difficult or impossible, primarily because of limited data. However, there is an urgent need to develop methods for estimating population sizes and improving the viability of target species.
Aims. To define suitable habitat for sambar (Cervus unicolor), banteng (Bos javanicus), gaur (Bos gaurus), Asian elephant (Elephas maximus) and tiger (Panthera tigris) in the Western Forest Complex, Thailand, and to assess their current status as well as estimate how the landscape needs to be managed to maintain viable populations.
Methods. The present paper demonstrates a method for combining a rapid ecological assessment, landscape indices, GIS-based wildlife-habitat models, and knowledge of minimum viable population sizes to guide landscape-management decisions and improve conservation outcomes through habitat restoration.
Key results. The current viabilities for gaur and elephant are fair, whereas they are poor for tiger and banteng. However, landscape quality outside the current distributions was relatively intact for all species, ranging from moderate to high levels of connectivity. In addition, the population viability for sambar is very good under the current and desired conditions.
Conclusions. If managers in this complex wish to upgrade the viabilities of gaur, elephant, tiger and banteng within the next 10 years, park rangers and stakeholders should aim to increase the amount of usable habitat by ~2170 km2 or 17% of existing suitable habitats. The key strategies are to reduce human pressures, enhance ungulate habitats and increase connectivity of suitable habitats outside the current distributions.
Implications. The present paper provides a particularly useful method for managers and forest-policy planners for assessing and managing habitat suitability for target wildlife and their population viability in protected-area networks where knowledge of the demographic attributes (e.g. birth and death rates) of wildlife populations are too limited to perform population viability analysis.
Belled collars reduce catch of domestic cats in New Zealand by half
Authors: Gordon J. K. , Matthaei C. , van Heezik Y.
Published: November 2010

Context. As evidence accumulates implicating domestic cats as significant predators of urban wildlife, the need for effective mitigation of potentially negative impacts becomes more pressing. Belled collars are probably one of the cheapest and least intrusive methods, although the opinion of a proportion of members of the public in New Zealand is that they are not effective.
Aims. We aimed to determine whether belled collars reduced prey catch.
Methods. Prey caught and brought back home by cats that were regular hunters during 6 weeks when they wore a belled collar was compared with prey caught during 6 weeks when they did not wear a collar.
Key results. Predation of birds and rodents was reduced by 50% and 61%, respectively. The number of rats, lizards and insects was not significantly reduced; however, these constituted a small proportion of the total catch. Sex and age of cats, as well as time did not affect catch rates, with the exception that older cats were more likely to catch rats (Rattus spp.) than were younger cats. Most of the cats in the study were young, reflecting our selection criteria that cats be regular and frequent hunters.
Conclusions. The degree to which catch of birds and rodents was reduced is similar to that reported in two experimental studies in the UK, and confirms that belled collars are effective in the New Zealand environment.
Implications. In New Zealand, small mammals are introduced pests and hunters of native wildlife; predation by cats may regulate their populations in urban areas and so care should be taken when instituting cat-control measures. It is also possible that a 50% reduction in predation may be insufficient to ensure viability for some urban wildlife populations.
Shifts in macropod home ranges in response to wildlife management interventions
Authors: Wiggins Natasha L. , Williamson Grant J. , McCallum Hamish I. , McMahon Clive R. , Bowman David M. J. S.
Published: November 2010

Context. Understanding how the individual movement patterns and dispersion of a population change following wildlife management interventions is crucial for effective population management.
Aims. We quantified the impacts of two wildlife management strategies, a lethal intervention and a subsequent barrier intervention, on localised populations of the two most common macropod species in Tasmania, the Tasmanian pademelon (Thylogale billardierii) and the red-necked wallaby (Macropus rufogriseus rufogriseus). This manipulation allowed us to examine two competing hypotheses concerning the distribution of individuals in animal populations – the Ideal Free Distribution (IFD) hypothesis and the Rose Petal (RP) hypothesis. We predicted that the RP would be supported if individuals maintained their previous home ranges following intervention, whereas the IFD would be supported if individuals redistributed following the management interventions.
Methods. The movement patterns of T. billardierii and M. r. rufogriseus were tracked using GPS technology before and after the two management interventions.
Key results. Following lethal intervention, pademelons and wallabies (1) maintained their home-range area, (2) increased their utilisation of agricultural habitat and (3) shifted their mean centroid locations compared with the pre-intervention period. Following barrier intervention, pademelons and wallabies (1) maintained their home-range area, (2) decreased their utilisation of agricultural habitat and (3) shifted their mean centroid locations compared with the pre-intervention period.
Conclusions. On the basis of the individual responses of macropods to the management strategies (1) lethal intervention appeared to induce small shifts in home-range distributions of those remaining individuals in the population with home ranges overlapping the areas of lethal intervention and (2) barrier intervention is likely to induce whole-scale population movements of the animals that survive the lethal intervention in their search of an alternative food source. Both species displayed spatial and temporal shifts in their home-range distributions in response to lethal and barrier interventions that appear to conform broadly to predictions of IFD, at least in the timeframe of the present experiment.
Implications. Wildlife management strategies, which are increasingly constrained by ethical, socio-political and financial considerations, should be based on ecological and behavioural data regarding the likely responses of the target population.
Impact of harvest on survival of a heavily hunted game bird population
Authors: Rolland Virginie , Hostetler Jeffrey A. , Hines Tommy C. , Percival H. Franklin , Oli Madan K.
Published: November 2010

Context. Despite their economic importance and intensive management, many game bird species, including the northern bobwhite Colinus virginianus, are in decline. Declines may be explained, at least in part, by low survival due perhaps to poor habitat quality, high predation or excessive hunting pressure.
Aims. This study sought to estimate and model annual/seasonal survival probabilities, to evaluate factors influencing them and to determine the cause-specific mortality rates for northern bobwhites subject to varying levels of harvest on the Babcock–Webb Wildlife Management Area (BW area), south Florida, USA.
Methods. We applied Cox’s proportional hazard models to data collected from 2066 radio-tagged bobwhites during 2002–2008 to test for intrinsic and extrinsic factors affecting survival and the non-parametric cumulative incidence function estimator to estimate cause-specific mortality rates.
Key results. Mean annual survival (0.091 ± 0.006) in the BW area was lower than most estimates reported for other bobwhite populations. Annual survival differed between adults (0.111 ± 0.008) and juveniles (0.052 ± 0.008), and varied among years. Survival in winter (October–March; 0.295 ± 0.014) was similar to that in summer (April–September; 0.307 ± 0.013). Density of food strips (i.e. long and narrow food plots) did not influence survival, but hunting effort (number of hunters per day per km2) had a substantial negative impact on survival. In the lightly hunted field trial zone, winter (October–March) survival was significantly higher (0.414 ± 0.035) than in the other more heavily hunted management zones (0.319 ± 0.016). Cause-specific mortality analyses revealed that bobwhite mortality during summer (April–September) was mainly due to raptor (39.7%) and mammalian predation (35.6%), whereas hunting was the primary cause of mortality during winter (47.1%).
Conclusions. Our results highlight the potential role of harvest as an important cause of the northern bobwhite population declines in south Florida. High mortality during winter may reduce recruitment of juveniles to the reproductive segment of the population, and ultimately the population growth.
Implications. Our results suggest that reduction in hunting pressure may be necessary to reverse the declining population trends in heavily hunted game species in public lands, such as the northern bobwhites in the BW area.
Citizen science: recruiting residents for studies of tagged urban wildlife
Authors: Mulder Raoul A. , Guay Patrick-Jean , Wilson Michelle , Coulson Graeme
Published: November 2010

The human residents of cities represent a largely untapped and potentially vast source of information about urban wildlife. One simple and scientifically valuable contribution involves the reporting of sightings of tagged animals, but even in urban areas, such reports are relatively rare. We draw on two case studies of conspicuously tagged and iconic animals to consider human reactions to wildlife tags, and how these influence the likelihood of unsolicited reports. We evaluate potential strategies for increasing participation from this pool of potential citizen scientists and maximising the reliability of these contributions. In both studies, public reports contributed substantial and largely accurate data. We conclude that such reports are often of unique value, and that common sources of reporting error can be minimised by careful tag design and clear advice to participants. Effective information campaigns can have unexpected effects on reporting rates, but in general, communication is crucial to raising awareness and encouraging public involvement. New interactive web-based tools have the potential to dramatically increase public accessibility to information and encourage involvement by providing instant feedback, access to research updates, and encouraging the formation of clusters of citizen scientists.
Ecologically based management of rodents in lowland irrigated rice fields in Indonesia
Authors: Jacob Jens , Sudarmaji  , Singleton Grant R. , Rahmini  , Herawati Nur A. , Brown Peter R.
Published: November 2010

Context. Overabundant rodents cause considerable crop damage and, in developing countries of South-east Asia, rodents can be an obstacle to attempts at alleviating poverty. Management is often based on the use of chemicals that can harm non-target species. Therefore, an effective and environmentally benign management approach such as ecologically based rodent management (EBRM) is desirable.
Aims. We compared the effectiveness of EBRM to that of conventional management on populations of rice-field rats (Rattus argentiventer).
Methods. The study was conducted as a large-scale replicated field trial in lowland irrigated rice fields in West Java, Indonesia. EBRM actions included habitat manipulations, removal of rats with trap barrier systems, coordinated rat-control campaigns and synchrony of cropping on the village level. We measured abundance, population structure, and breeding of rice-field rats as well as rice production and crop damage caused by rats.
Key results.Although there was no overall effect of the EBRM treatment on rat abundance, we found decreasing rat abundance in rice-field habitats at the late cropping stage in treated villages and a decrease in body size of rats. In addition, we found fewer reproducing females when EBRM was applied than with the application of conventional methods, whereas male reproductive condition did not decrease. Overall, there was a reduction in mean crop damage when EBRM was applied (4.4 ± 0.4% in treatments v. 2.5 ± 0.4% in experimental controls), which translated into 6% higher rice production.
Conclusions. The results demonstrated that EBRM is an appropriate approach to manage overabundant rodents in irrigated lowland rice-based agro-ecosystems and possibly in other agro-ecosystems. This will provide substantial benefits for smallholder farming communities in developing countries and most likely benefits for ecosystem health.
Implications. The EBRM approach should be used routinely in irrigated lowland rice crops that are at risk of damage by rice-field rats.
Impacts of rodent outbreaks on food security in Asia
Authors: Singleton Grant R. , Belmain Steven , Brown Peter R. , Aplin Ken , Htwe Nyo Me
Published: November 2010

Since 2007, a spate of rodent outbreaks has led to severe food shortages in Asia, affecting highly vulnerable and food-insecure families. Little has been documented about wildlife-management issues associated with these outbreaks. The aims of the present study were to synthesise what we know about rodent outbreaks in Asia, and identify important gaps in our knowledge. We compiled information from agencies of the United Nations, non-government organisations and the authors. The authors conducted site visits to areas affected by outbreaks of rodent populations, and convened an international conference in October 2009 to share knowledge. Bamboo masting is clearly implicated as the primary cause of the rodent-population outbreaks that led to severe food shortages in Mizoram (India), Chin State (Myanmar), Chittagong Hill Tracts (Bangladesh) and upland provinces of Lao PDR. In Laos, emergency food assistance was required for 85 000–145 000 people. In 2009, high rodent losses occurred also in lowland irrigated rice-based systems in the Philippines, Myanmar and Indonesia, not related to bamboo masting. Asynchronous or aseasonal growing of rice crops was a common element in these outbreaks. In the Ayeyarwaddy delta, Myanmar, 2.6 million rats were collected in 3 months through community activities; this outbreak appeared to be related to an extreme climatic event, Cyclone Nargis. There are two key features of rodent outbreaks that make the future uncertain. First, climate change and extreme climatic events will increase impacts of rodents on agricultural production. Second, there is food-security pressure in some countries to grow three crops per year. Increased cropping intensity will reduce fallow periods and create ideal conditions for rodents to breed nearly continuously. Implications of the research are as follows: (i) rodent outbreaks are a consequence of enhanced reproduction and natural mortality is of minor importance, particularly with rapidly increasing populations; therefore, we need to focus more on methods for disrupting reproduction; (ii) a stronger understanding of the ecology of pest species and community dynamics will enable ecologically sustainable management; (iii) we need landscape approaches that focus on crop synchrony, and timely coordinated community action to manage pest species and conserve desirable species; and (iv) a simple monitoring system can help implement ecologically based rodent management.
Maxence Nachury: A transporting view of the primary cilium
Authors: Short Ben
Published: November 2010

Nachury studies how defective signaling from the cell's antenna causes human disease.
VASP is a processive actin polymerase that requires monomeric actin for barbed end association
Authors: Hansen Scott D. , Mullins R. Dyche
Published: November 2010

Ena/VASP proteins regulate the actin cytoskeleton during cell migration and morphogenesis and promote assembly of both filopodial and lamellipodial actin networks. To understand the molecular mechanisms underlying their cellular functions we used total internal reflection fluorescence microscopy to visualize VASP tetramers interacting with static and growing actin filaments in vitro. We observed multiple filament binding modes: (1) static side binding, (2) side binding with one-dimensional diffusion, and (3) processive barbed end tracking. Actin monomers antagonize side binding but promote high affinity (Kd = 9 nM) barbed end attachment. In low ionic strength buffers, VASP tetramers are weakly processive (Koff = 0.69 s−1) polymerases that deliver multiple actin monomers per barbed end–binding event and effectively antagonize filament capping. In higher ionic strength buffers, VASP requires profilin for effective polymerase and anti-capping activity. Based on our observations, we propose a mechanism that accounts for all three binding modes and provides a model for how VASP promotes actin filament assembly.
Palmitoylation-dependent association with CD63 targets the Ca2+ sensor synaptotagmin VII to lysosomes
Authors: Flannery Andrew R. , Czibener Cecilia , Andrews Norma W.
Published: November 2010

Syt VII is a Ca2+ sensor that regulates lysosome exocytosis and plasma membrane repair. Because it lacks motifs that mediate lysosomal targeting, it is unclear how Syt VII traffics to these organelles. In this paper, we show that mutations or inhibitors that abolish palmitoylation disrupt Syt VII targeting to lysosomes, causing its retention in the Golgi complex. In macrophages, Syt VII is translocated simultaneously with the lysosomal tetraspanin CD63 from tubular lysosomes to nascent phagosomes in a Ca2+-dependent process that facilitates particle uptake. Mutations in Syt VII palmitoylation sites block trafficking of Syt VII, but not CD63, to lysosomes and phagosomes, whereas tyrosine replacement in the lysosomal targeting motif of CD63 causes both proteins to accumulate on the plasma membrane. Complexes of CD63 and Syt VII are detected only when Syt VII palmitoylation sites are intact. These findings identify palmitoylation-dependent association with the tetraspanin CD63 as the mechanism by which Syt VII is targeted to lysosomes.
Caveolin-1 is ubiquitinated and targeted to intralumenal vesicles in endolysosomes for degradation
Authors: Hayer Arnold , Stoeber Miriam , Ritz Danilo , Engel Sabrina , Meyer Hemmo H. , Helenius Ari
Published: November 2010

Caveolae are long-lived plasma membrane microdomains composed of caveolins, cavins, and a cholesterol-rich membrane. Little is known about how caveolae disassemble and how their coat components are degraded. We studied the degradation of caveolin-1 (CAV1), a major caveolar protein, in CV1 cells. CAV1 was degraded very slowly, but turnover could be accelerated by compromising caveolae assembly. Now, CAV1 became detectable in late endosomes (LE) and lysosomes where it was degraded. Targeting to the degradative pathway required ubiquitination and the endosomal sorting complex required for transport (ESCRT) machinery for inclusion into intralumenal vesicles in endosomes. A dual-tag strategy allowed us to monitor exposure of CAV1 to the acidic lumen of individual, maturing LE in living cells. Importantly, we found that “caveosomes,” previously described by our group as independent organelles distinct from endosomes, actually correspond to late endosomal compartments modified by the accumulation of overexpressed CAV1 awaiting degradation. The findings led us to a revised model for endocytic trafficking of CAV1.
A whole genome RNAi screen of Drosophila S2 cell spreading performed using automated computational image analysis
Authors: D'Ambrosio Michael V. , Vale Ronald D.
Published: November 2010

Recent technological advances in microscopy have enabled cell-based whole genome screens, but the analysis of the vast amount of image data generated by such screens usually proves to be rate limiting. In this study, we performed a whole genome RNA interference (RNAi) screen to uncover genes that affect spreading of Drosophila melanogaster S2 cells using several computational methods for analyzing the image data in an automated manner. Expected genes in the Scar-Arp2/3 actin nucleation pathway were identified as well as casein kinase I, which had a similar morphological RNAi signature. A distinct nonspreading morphological phenotype was identified for genes involved in membrane secretion or synthesis. In this group, we identified a new secretory peptide and investigated the functions of two poorly characterized endoplasmic reticulum proteins that have roles in secretion. Thus, this genome-wide screen succeeded in identifying known and unexpected proteins that are important for cell spreading, and the computational tools developed in this study should prove useful for other types of automated whole genome screens.
The CrebA/Creb3-like transcription factors are major and direct regulators of secretory capacity
Authors: Fox Rebecca M. , Hanlon Caitlin D. , Andrew Deborah J.
Published: November 2010

Secretion occurs in all cells, with relatively low levels in most cells and extremely high levels in specialized secretory cells, such as those of the pancreas, salivary, and mammary glands. How secretory capacity is selectively up-regulated in specialized secretory cells is unknown. Here, we find that the CrebA/Creb3-like family of bZip transcription factors functions to up-regulate expression of both the general protein machinery required in all cells for secretion and of cell type–specific secreted proteins. Drosophila CrebA directly binds the enhancers of secretory pathway genes and is both necessary and sufficient to activate expression of every secretory pathway component gene examined thus far. Microarray profiling reveals that CrebA also up-regulates expression of genes encoding cell type–specific secreted components. Finally, we found that the human CrebA orthologues, Creb3L1 and Creb3L2, have the ability to up-regulate the secretory pathway in nonsecretory cell types.
Ubiquitin accumulation in autophagy-deficient mice is dependent on the Nrf2-mediated stress response pathway: a potential role for protein aggregation in autophagic substrate selection
Authors: Riley Brigit E. , Kaiser Stephen E. , Shaler Thomas A. , Ng Aylwin C.Y. , Hara Taichi , Hipp Mark S. , Lage Kasper , Xavier Ramnik J. , Ryu Kwon-Yul , Taguchi Keiko , Yamamoto Masayuki , Tanaka Keiji , Mizushima Noboru , Komatsu Masaaki , Kopito Ron R.
Published: November 2010

Genetic ablation of autophagy in mice leads to liver and brain degeneration accompanied by the appearance of ubiquitin (Ub) inclusions, which has been considered to support the hypothesis that ubiquitination serves as a cis-acting signal for selective autophagy. We show that tissue-specific disruption of the essential autophagy genes Atg5 and Atg7 leads to the accumulation of all detectable Ub–Ub topologies, arguing against the hypothesis that any particular Ub linkage serves as a specific autophagy signal. The increase in Ub conjugates in Atg7−/− liver and brain is completely suppressed by simultaneous knockout of either p62 or Nrf2. We exploit a novel assay for selective autophagy in cell culture, which shows that inactivation of Atg5 leads to the selective accumulation of aggregation-prone proteins, and this does not correlate with an increase in substrate ubiquitination. We propose that protein oligomerization drives autophagic substrate selection and that the accumulation of poly-Ub chains in autophagy-deficient circumstances is an indirect consequence of activation of Nrf2-dependent stress response pathways.
Constitutive recycling of the store-operated Ca2+ channel Orai1 and its internalization during meiosis
Authors: Yu Fang , Sun Lu , Machaca Khaled
Published: November 2010

The egg’s competency to activate at fertilization and transition to embryogenesis is dependent on its ability to generate a fertilization-specific Ca2+ transient. To endow the egg with this capacity, Ca2+ signals remodel during oocyte maturation, including inactivation of the primary Ca2+ influx pathway store-operated Ca2+ entry (SOCE). SOCE inactivation is coupled to internalization of the SOCE channel, Orai1. In this study, we show that Orai1 internalizes during meiosis through a caveolin (Cav)- and dynamin-dependent endocytic pathway. Cav binds to Orai1, and we map a Cav consensus–binding site in the Orai1 N terminus, which is required for Orai1 internalization. Furthermore, at rest, Orai1 actively recycles between an endosomal compartment and the cell membrane through a Rho-dependent endocytic pathway. A significant percentage of total Orai1 is intracellular at steady state. Store depletion completely shifts endosomal Orai1 to the cell membrane. These results define vesicular trafficking mechanisms in the oocyte that control Orai1 subcellular localization at steady state, during meiosis, and after store depletion.
The spindle position checkpoint is coordinated by the Elm1 kinase
Authors: Moore Jeffrey K. , Chudalayandi Prakash , Heil-Chapdelaine Richard A. , Cooper John A.
Published: November 2010

How dividing cells monitor the effective transmission of genomes during mitosis is poorly understood. Budding yeast use a signaling pathway known as the spindle position checkpoint (SPC) to ensure the arrival of one end of the mitotic spindle in the nascent daughter cell. An important question is how SPC activity is coordinated with mother–daughter polarity. We sought to identify factors at the bud neck, the junction between mother and bud, which contribute to checkpoint signaling. In this paper, we show that the protein kinase Elm1 is an obligate regulator of the SPC, and this function requires localization of Elm1 to the bud neck. Furthermore, we show that Elm1 promotes the activity of the checkpoint kinase Kin4. These findings reveal a novel function for Elm1 in the SPC and suggest how checkpoint activity may be linked to cellular organization.
The Cdc42-selective GAP Rich regulates postsynaptic development and retrograde BMP transsynaptic signaling
Authors: Nahm Minyeop , Long A. Ashleigh , Paik Sang Kyoo , Kim Sungdae , Bae Yong Chul , Broadie Kendal , Lee Seungbok
Published: November 2010

Retrograde bone morphogenetic protein signaling mediated by the Glass bottom boat (Gbb) ligand modulates structural and functional synaptogenesis at the Drosophila melanogaster neuromuscular junction. However, the molecular mechanisms regulating postsynaptic Gbb release are poorly understood. In this study, we show that Drosophila Rich (dRich), a conserved Cdc42-selective guanosine triphosphatase–activating protein (GAP), inhibits the Cdc42–Wsp pathway to stimulate postsynaptic Gbb release. Loss of dRich causes synaptic undergrowth and strongly impairs neurotransmitter release. These presynaptic defects are rescued by targeted postsynaptic expression of wild-type dRich but not a GAP-deficient mutant. dRich inhibits the postsynaptic localization of the Cdc42 effector Wsp (Drosophila orthologue of mammalian Wiskott-Aldrich syndrome protein, WASp), and manifestation of synaptogenesis defects in drich mutants requires Wsp signaling. In addition, dRich regulates postsynaptic organization independently of Cdc42. Importantly, dRich increases Gbb release and elevates presynaptic phosphorylated Mad levels. We propose that dRich coordinates the Gbb-dependent modulation of synaptic growth and function with postsynaptic development.
The cell biology of smell
Authors: DeMaria Shannon , Ngai John
Published: November 2010

The olfactory system detects and discriminates myriad chemical structures across a wide range of concentrations. To meet this task, the system utilizes a large family of G protein–coupled receptors—the odorant receptors—which are the chemical sensors underlying the perception of smell. Interestingly, the odorant receptors are also involved in a number of developmental decisions, including the regulation of their own expression and the patterning of the olfactory sensory neurons' synaptic connections in the brain. This review will focus on the diverse roles of the odorant receptor in the function and development of the olfactory system.
Revisiting caveolin trafficking: the end of the caveosome
Authors: Parton Robert G. , Howes Mark T.
Published: November 2010

In this issue, a study by Hayer et al. (2010. J. Cell Biol. doi: 10.1083/jcb.201003086) provides insights into the trafficking of caveolins, the major membrane proteins of caveolae. As well as providing evidence for ubiquitin-mediated endosomal sorting and degradation of caveolin in multivesicular bodies (MVBs), the new findings question the existence of a unique organelle proposed nine years ago, the caveosome.
Inferring the location and scale of mixing between habitat areas of lesser sandeel through information from the fishery
Authors: Jensen Henrik , Rindorf Anna , Wright Peter J. , Mosegaard Henrik
Published: November 2010

Jensen, H., Rindorf, A., Wright, P. J., and Mosegaard, H. 2011. Inferring the location and scale of mixing between habitat areas of lesser sandeel through information from the fishery. – ICES Journal of Marine Science, 68: 43–51. Sandeels are small pelagic fish that play an important role in the diet of a range of natural predators. Because of their limited capture by traditional survey gear, little is known about their large-scale distribution or the degree of mixing between habitat areas. Detailed information collected directly from the fishery was used to map fishing grounds, which were then assumed to reflect the foraging habitat of the species. Length distributions from individual hauls were used to assess differences in the distributions as a function of distance between samples. Sandeel foraging habitat covered some 5% of the total area of the North Sea. Mixing between neighbouring fishing grounds was too low to eliminate differences in length distributions at distances between grounds down to 5 km. Within fishing grounds, mixing was sufficient to eliminate differences in length distributions at scales <28 km but insufficient at greater distances. The lack of mixing between grounds may result in large differences in sandeel abundance among adjacent fishing grounds. Further, notable abundance at one end of an extensive fishing ground is not necessarily indicative of similar abundance at its other end.
A Yeast STE11 Homologue CoMEKK1 Is Essential for Pathogenesis-Related Morphogenesis in Colletotrichum orbiculare
Authors: Sakaguchi Ayumu , Tsuji Gento , Kubo Yasuyuki
Published: November 2010

Several signal transduction pathways, including mitogen-activated protein kinase (MAPK) pathways, are involved in appressorium development in Colletotrichum orbiculare, the causal agent of cucumber anthracnose disease. In this study, CoMEKK1, a yeast MAPK kinases (MAPKK) kinase STE11 homolog, was identified as a disrupted gene in an Agrobacterium tumefaciens-mediated transformation mutant. The phenotype of comekk1 disruptant was similar to that of cmk1, a Saccharomyces cerevisiae Fus3/Kss1 MAPK homolog mutant. Moreover, comekk1 and cmk1 mutants were sensitive to high osmotic and salinity stresses, indicating that Comekk1p/Cmk1p signal transduction is involved in stress tolerance. The transformants of the wild type and the comekk1 mutant expressing a constitutively active form of the CoMEKK1 showed slower hyphal growth and abnormal appressorium formation, whereas those of the cmk1 disruptant did not. A Cmk1p-green fluorescent protein (GFP) intracellular localization experiment indicated that nuclear localization of the Cmk1p-GFP fusion protein induced by salt stress was diminished in comekk1 mutants. These results indicate that Comekk1p functions upstream of Cmk1p.
The Nod Factor–Independent Symbiotic Signaling Pathway: Development of Agrobacterium rhizogenes–Mediated Transformation for the Legume Aeschynomene indica
Authors: Bonaldi Katia , Gherbi Hassen , Franche Claudine , Bastien Géraldine , Fardoux Joël , Barker David , Giraud Eric , Cartieaux Fabienne
Published: November 2010

The nitrogen-fixing symbiosis between Aeschynomene indica and photosynthetic bradyrhizobia is the only legume-rhizobium association described to date that does not require lipochito-oligosaccharide Nod factors (NF). To assist in deciphering the molecular basis of this NF-independent interaction, we have developed a protocol for Agrobacterium rhizogenes-mediated transformation of A. indica. The cotransformation frequency (79%), the nodulation efficiency of transgenic roots (90%), and the expression pattern of the 35S Cauliflower mosaic virus promoter in transgenic nodules were all comparable to those obtained for model legumes. We have made use of this tool to monitor the heterologous spatio-temporal expression of the pMtENOD11-β-glucuronidase fusion, a widely used molecular reporter for rhizobial infection and nodulation in both legumes and actinorhizal plants. While MtENOD11 promoter activation was not observed in A. indica roots prior to nodulation, strong reporter-gene expression was observed in the invaded cells of young nodules and in the cell layers bordering the central zone of older nodules. We conclude that pMtENOD11 expression can be used as an infection-related marker in A. indica and that Agrobacterium rhizogenes–mediated root transformation of Aeschynomene spp. will be an invaluable tool for determining the molecular basis of the NF-independent symbiosis.
Discrete Change in Volatile Anesthetic Sensitivity in Mice with Inactivated Tandem Pore Potassium Ion Channel TRESK
Authors: Chae Yun Jeong , Zhang Jianan , Au Paul , Sabbadini Marta , Xie Guo-Xi , Yost C. Spencer
Published: November 2010

Background

We investigated the role of tandem pore potassium ion channel (K2P) TRESK in neurobehavioral function and volatile anesthetic sensitivity in genetically modified mice.

Methods

Exon III of the mouse TRESK gene locus was deleted by homologous recombination using a targeting vector. The genotype of bred mice (wild type, knockout, or heterozygote) was determined using polymerase chain reaction. Morphologic and behavioral evaluations of TRESK knockout mice were compared with wild-type littermates. Sensitivity of bred mice to isoflurane, halothane, sevoflurane, and desflurane were studied by determining the minimum alveolar concentration preventing movement to tail clamping in 50% of each genotype.

Results

With the exception of decreased number of inactive periods and increased thermal pain sensitivity (20% decrease in latency with hot plate test), TRESK knockout mice had healthy development and behavior. TRESK knockout mice showed a statistically significant 8% increase in isoflurane minimum alveolar concentration compared with wild-type littermates. Sensitivity to other volatile anesthetics was not significantly different. Spontaneous mortality of TRESK knockout mice after initial anesthesia testing was nearly threefold higher than that of wild-type littermates.

Conclusions

TRESK alone is not critical for baseline central nervous system function but may contribute to the action of volatile anesthetics. The inhomogeneous change in anesthetic sensitivity corroborates findings in other K2P knockout mice and supports the theory that the mechanism of volatile anesthetic action involves multiple targets. Although it was not shown in this study, a compensatory effect by other K2P channels may also contribute to these observations.
Slowing of the Hippocampal θ Rhythm Correlates with Anesthetic-induced Amnesia
Authors: Perouansky Misha , Rau Vinuta , Ford Tim , Oh S. Irene , Perkins Mark , Eger Edmond I , Pearce Robert A.
Published: November 2010

Background

Temporary, antegrade amnesia is one of the core desirable endpoints of general anesthesia. Multiple lines of evidence support a role for the hippocampal θ rhythm, a synchronized rhythmic oscillation of field potentials at 4-12 Hz, in memory formation. Previous studies have revealed a disruption of the θ rhythm at surgical levels of anesthesia. We hypothesized that θ-rhythm modulation would also occur at subhypnotic but amnestic concentrations. Therefore, we examined the effect of three inhaled agents on properties of the θ rhythm considered critical for the formation of hippocampus-dependent memories.

Methods

We studied the effects of halothane and nitrous oxide, two agents known to modulate different molecular targets (GABAergic [γ-aminobutyric acid] vs. non-GABAergic, respectively) and isoflurane (GABAergic and non-GABAergic targets) on fear-conditioned learning and θ oscillations in freely behaving rats.

Results

All three anesthetics slowed θ peak frequency in proportion to their inhibition of fear conditioning (by 1, 0.7, and 0.5 Hz for 0.32% isoflurane, 60% N2O, and 0.24% halothane, respectively). Anesthetics inconsistently affected other characteristics of θ oscillations.

Conclusions

At subhypnotic amnestic concentrations, θ-oscillation frequency was the parameter most consistently affected by these three anesthetics. These results are consistent with the hypothesis that modulation of the θ rhythm contributes to anesthetic-induced amnesia.
Bose–Einstein condensation and superfluidity of trapped polaritons in graphene and quantum wells embedded in a microcavity
Authors: Berman Oleg L. , Kezerashvili Roman Ya. , Lozovik Yurii E. , Snoke David W.
Published: November 2010

The theory for spontaneous coherence of short-lived quasiparticles in two-dimensional excitonic systems is reviewed, in particular, quantum wells (QWs) and graphene layers (GLs) embedded in microcavities. Experiments with polaritons in an optical microcavity have already shown evidence of Bose–Einstein condensation (BEC) in the lowest quantum state in a harmonic trap. The theory of BEC and superfluidity of the microcavity excitonic polaritons in a harmonic potential trap is presented. Along the way, we determine a general method for defining the superfluid fraction in a two-dimensional trap, within the angular momentum representation. We discuss BEC of magnetoexcitonic polaritons (magnetopolaritons) in a QW and GL embedded in an optical microcavity in high magnetic field. It is shown that Rabi splitting in graphene is tunable by the external magnetic field
B
, while in a QW the Rabi splitting does not depend on the magnetic field in the strong
B
 limit.
Electronic and optical properties of monolayer and bilayer graphene
Authors: Ho Y. H. , Wu J. Y. , Chiu Y. H. , Wang J. , Lin M. F.
Published: November 2010

The electronic and optical properties of monolayer and bilayer graphene are investigated to verify the effects of interlayer interactions and external magnetic field. Monolayer graphene exhibits linear bands in the low-energy region. Then the interlayer interactions in bilayers change these bands into two pairs of parabolic bands, where the lower pair is slightly overlapped and the occupied states are asymmetric with respect to the unoccupied ones. The characteristics of zero-field electronic structures are directly reflected in the Landau levels. In monolayer and bilayer graphene, these levels can be classified into one and two groups, respectively. With respect to the optical transitions between the Landau levels, bilayer graphene possesses much richer spectral features in comparison with monolayers, such as four kinds of absorption channels and double-peaked absorption lines. The explicit wave functions can further elucidate the frequency-dependent absorption rates and the complex optical selection rules. These numerical calculations would be useful in identifying the optical measurements on graphene layers.
Nanophysics in graphene: neutrino physics in quantum rings and superlattices
Authors: Fertig H. A. , Brey Luis
Published: November 2010

Electrons in graphene at low energy obey a two-dimensional Dirac equation, closely analogous to that of neutrinos. As a result, quantum mechanical effects when the system is confined or subjected to potentials at the nanoscale may be quite different from what happens in conventional electronic systems. In this article, we review recent progress on two systems where this is indeed the case: quantum rings and graphene electrons in a superlattice potential. In the former case, we demonstrate that the spectrum reveals signatures of ‘effective time-reversal symmetry breaking’, in which the spectra are most naturally interpreted in terms of effective magnetic flux contained in the ring, even when no real flux is present. A one-dimensional superlattice potential is shown to induce strong band-structure changes, allowing the number of Dirac points at zero energy to be manipulated by the strength and/or period of the potential. The emergence of new Dirac points is shown to be accompanied by strong signatures in the conduction properties of the system.
Band structure and gaps of triangular graphene superlattices
Authors: Guinea F. , Low Tony
Published: November 2010

The general properties of long wavelength triangular graphene superlattices are studied. It is shown that Dirac points with and without gaps can arise at a number of high-symmetry points of the Brillouin zone. The existence of gaps can lead to insulating behaviour at commensurate fillings. Strain and magnetic superlattices are also discussed.
Nanoanalysis of graphene layers using scanning probe techniques
Authors: Connolly M. R. , Smith C. G.
Published: November 2010

Graphene is an almost ideal two-dimensional system. Unlike other two-dimensional electron gas systems realized in silicon or gallium arsenide, the electron wave functions are very close to the surrounding environment. While this causes problems in trying to passivate the surface without reducing the mobility, it does allow direct electrical access to the two-dimensional surface states using scanning probe techniques. In this review, we look at recent advances in the nanoanalytics of the surface and edges of graphene using scanning probe techniques.
Aspects of the theory of graphene
Authors: Horing Norman J. Morgenstern
Published: November 2010

Following a brief review of the device-friendly features of graphene, recent work on its Green’s functions with and without a normal magnetic field are discussed, for an infinite graphene sheet and also for a quantum dot, with analyses of the Landau-quantized energy spectra of the sheet and dot. The random phase approximation dielectric response of graphene is reviewed and discussed in connection with the van der Waals interactions of a graphene sheet with atoms/molecules and with a second graphene sheet in a double layer. Energy-loss spectroscopy for a graphene sheet subject to both parallel and perpendicular particle probes of its dynamic, non-local response properties are also treated. Furthermore, we discuss recent work on the coupling of a graphene plasmon and a surface plasmon, yielding a collective plasma mode that is linear in wavenumber. Finally, we discuss the unusual aspects of graphene conduction and recent work on diffusive charge transport in graphene, in both the DC and AC regimes.
Simulating trait evolution for cross-cultural comparison
Authors: Nunn Charles L. , Arnold Christian , Matthews Luke , Mulder Monique Borgerhoff
Published: November 2010

Cross-cultural anthropologists have increasingly used phylogenetic methods to study cultural variation. Because cultural behaviours can be transmitted horizontally among socially defined groups, however, it is important to assess whether phylogeny-based methods—which were developed to study vertically transmitted traits among biological taxa—are appropriate for studying group-level cultural variation. Here, we describe a spatially explicit simulation model that can be used to generate data with known degrees of horizontal donation. We review previous results from this model showing that horizontal transmission increases the type I error rate of phylogenetically independent contrasts in studies of correlated evolution. These conclusions apply to cases in which two traits are transmitted as a pair, but horizontal transmission may be less problematic when traits are unlinked. We also use the simulation model to investigate whether measures of homology (the consistency index and the retention index) can detect horizontal transmission of cultural traits. Higher rates of evolutionary change have a stronger depressive impact on measures of homology than higher rates of horizontal transmission; thus, low consistency or retention indices are not necessarily indicative of ‘ethnogenesis’. Collectively, these studies demonstrate the importance of using simulations to assess the validity of methods in cross-cultural research.
Cultural traits as units of analysis
Authors: O'Brien Michael J. , Lyman R. Lee , Mesoudi Alex , VanPool Todd L.
Published: November 2010

Cultural traits have long been used in anthropology as units of transmission that ostensibly reflect behavioural characteristics of the individuals or groups exhibiting the traits. After they are transmitted, cultural traits serve as units of replication in that they can be modified as part of an individual's cultural repertoire through processes such as recombination, loss or partial alteration within an individual's mind. Cultural traits are analogous to genes in that organisms replicate them, but they are also replicators in their own right. No one has ever seen a unit of transmission, either behavioural or genetic, although we can observe the effects of transmission. Fortunately, such units are manifest in artefacts, features and other components of the archaeological record, and they serve as proxies for studying the transmission (and modification) of cultural traits, provided there is analytical clarity over how to define and measure the units that underlie this inheritance process.
Is horizontal transmission really a problem for phylogenetic comparative methods? A simulation study using continuous cultural traits
Authors: Currie Thomas E. , Greenhill Simon J. , Mace Ruth
Published: November 2010

Phylogenetic comparative methods (PCMs) provide a potentially powerful toolkit for testing hypotheses about cultural evolution. Here, we build on previous simulation work to assess the effect horizontal transmission between cultures has on the ability of both phylogenetic and non-phylogenetic methods to make inferences about trait evolution. We found that the mode of horizontal transmission of traits has important consequences for both methods. Where traits were horizontally transmittedseparately, PCMs accurately reported when trait evolution was not correlated even at the highest levels of horizontal transmission. By contrast, linear regression analyses often incorrectly concluded that traits were correlated. Where simulated trait evolution was not correlated and traits were horizontally transmittedas a pair, both methods inferred increased levels of positive correlation with increasing horizontal transmission. Where simulated trait evolution was correlated, increasing rates ofseparatehorizontal transmission led to decreasing levels of inferred correlation for both methods, but increasing rates ofpairedhorizontal transmission did not. Furthermore, the PCM was also able to make accurate inferences about the ancestral state of traits. These results suggest that under certain conditions, PCMs can be robust to the effects of horizontal transmission. We discuss ways that future work can investigate the mode and tempo of horizontal transmission of cultural traits.