bluuebunny/crossref_metadata_2025_split huggingface dataset:
Epigenetic Regulation of Gene Programs by EMF1 and EMF2 in Arabidopsis
Authors: Kim Sang Yeol , Zhu T. , Sung Z. Renee 
Published: September 2009

Abstract
The EMBRYONIC FLOWER (EMF) genes are required to maintain vegetative development in Arabidopsis (Arabidopsis thaliana). Loss-of-function emf mutants skip the vegetative phase, flower upon germination, and display pleiotropic phenotypes. EMF1 encodes a putative transcriptional regulator, while EMF2 encodes a Polycomb group (PcG) protein. PcG proteins form protein complexes that maintain gene silencing via histone modification. They are known to function as master regulators repressing multiple gene programs. Both EMF1 and EMF2 participate in PcG-mediated silencing of the flower homeotic genes AGAMOUS, PISTILLATA, and APETALA3. Full-genome expression pattern analysis of emf mutants showed that both EMF proteins regulate additional gene programs, including photosynthesis, seed development, hormone, stress, and cold signaling. Chromatin immunoprecipitation was carried out to investigate whether EMF regulates these genes directly. It was determined that EMF1 and EMF2 interact with genes encoding the transcription factors ABSCISIC ACID INSENSITIVE3, LONG VEGETATIVE PHASE1, and FLOWERING LOCUS C, which control seed development, stress and cold signaling, and flowering, respectively. Our results suggest that the two EMFs repress the regulatory genes of individual gene programs to effectively silence the genetic pathways necessary for vegetative development and stress response. A model of the regulatory network mediated by EMF is proposed.
MAP KINASE PHOSPHATASE1 and PROTEIN TYROSINE PHOSPHATASE1 Are Repressors of Salicylic Acid Synthesis and SNC1-Mediated Responses inArabidopsis
Authors: Bartels Sebastian , Anderson Jeffrey C. , González Besteiro Marina A. , Carreri Alessandro , Hirt Heribert , Buchala Antony , Métraux Jean-Pierre , Peck Scott C. , Ulm Roman 
Published: September 2009

AbstractMitogen-activated protein (MAP) kinase phosphatases are important negative regulators of the levels and kinetics of MAP kinase activation that modulate cellular responses. The dual-specificity phosphatase MAP KINASE PHOSPHATASE1 (MKP1) was previously shown to regulate MAP KINASE6 (MPK6) activation levels and abiotic stress responses in Arabidopsis thaliana. Here, we report that the mkp1 null mutation in the Columbia (Col) accession results in growth defects and constitutive biotic defense responses, including elevated levels of salicylic acid, camalexin, PR gene expression, and resistance to the bacterial pathogen Pseudomonas syringae. PROTEIN TYROSINE PHOSPHATASE1 (PTP1) also interacts with MPK6, but the ptp1 null mutant shows no aberrant growth phenotype. However, the pronounced constitutive defense response of the mkp1 ptp1 double mutant reveals that MKP1 and PTP1 repress defense responses in a coordinated fashion. Moreover, mutations in MPK3 and MPK6 distinctly suppress mkp1 and mkp1 ptp1 phenotypes, indicating that MKP1 and PTP1 act as repressors of inappropriate MPK3/MPK6-dependent stress signaling. Finally, we provide evidence that the natural modifier of mkp1 in Col is largely the disease resistance gene homolog SUPPRESSOR OF npr1-1, CONSTITUTIVE 1 (SNC1) that is absent in the Wassilewskija accession. Our data thus indicate a major role of MKP1 and PTP1 in repressing salicylic acid biosynthesis in the autoimmune-like response caused by SNC1.
Evolutionarily Conserved Regulatory Motifs in the Promoter of the Arabidopsis Clock Gene LATE ELONGATED HYPOCOTYL
Authors: Spensley Mark , Kim Jae-Yean , Picot Emma , Reid John , Ott Sascha , Helliwell Chris , Carré Isabelle A. 
Published: September 2009

Abstract
The transcriptional regulation of the LATE ELONGATED HYPOCOTYL (LHY) gene is key to the structure of the circadian oscillator, integrating information from multiple regulatory pathways. We identified a minimal region of the LHY promoter that was sufficient for rhythmic expression. Another upstream sequence was also required for appropriate waveform of transcription and for maximum amplitude of oscillations under both diurnal and free-running conditions. We showed that two classes of protein complexes interact with a G-box and with novel 5A motifs; mutation of these sites reduced the amplitude of oscillation and broadened the peak of expression. A genome-wide bioinformatic analysis showed that these sites were enriched in phase-specific clusters of rhythmically expressed genes. Comparative genomic analyses showed that these motifs were conserved in orthologous promoters from several species. A position-specific scoring matrix for the 5A sites suggested similarity to CArG boxes, which are recognized by MADS box transcription factors. In support of this, the FLOWERING LOCUS C (FLC) protein was shown to interact with the LHY promoter in planta. This suggests a mechanism by which FLC might affect circadian period.
Duiker demography and dispersal under hunting in Northern Congo
Authors: Mockrin Miranda H. 
Published: September 2009

AbstractDuikers are the most heavily hunted species across forested Central and West Africa. Although these species form a vital food resource for people, little is known about their ecology and demography. The information available to date was collected from populations protected from hunting. However, hunting can profoundly alter demography and behaviour, such as dispersal, which in turn determine the sustainability of harvest. To address this research gap, I used radiotelemetry to examine duiker demography under hunting in Congo‐Brazzaville. Among blue duikers (Philantoba monticola, n = 17) I found annual survival rates (0.94), immature dispersal rates (0.25), and average home ranges (5.5 ha) that largely coincided with previous research from unhunted regions. Neighbouring animals all showed some home range overlap, in contrast to previous studies which found blue duikers to be strictly territorial. Although limited by sample size, immature animals’ dispersal distances were relatively high (1.5 km, n = 2). Animals’ dispersal rates do not appear to be greatly increased by hunting pressure, although source‐sink theory depends upon high rates of dispersal to maintain the elevated and localized hunting offtakes observed around settlements. Building a fuller understanding of duiker demography under hunting, including dispersal, will be essential for conservation and management efforts.
The ranging patterns of elephants in Marsabit protected area, Kenya: the use of satellite‐linked GPS collars
Authors: Ngene Shadrack M. , Van Gils Hein , Van Wieren Sipke E. , Rasmussen Henrik , Skidmore Andrew K. , Prins Herbert H. T. , Toxopeus Albertus G. , Omondi Patrick , Douglas‐Hamilton Iain 
Published: September 2009

AbstractWe investigated the ranging patterns of elephants in the Marsabit protected area, north eastern Kenya, to ascertain the range of bachelor and female family herds in different seasons, and to identify corridor and noncorridor areas. Data were acquired for five bachelor and four female family herds equipped with satellite‐linked geographical positioning system collars, and monitored from December 2005 to December 2007. Distinct dry (about 260 km2) and wet seasons (about 910 km2) ranges were observed, with connecting corridors (north‐eastern corridor: about 90 km long, about 2‐7 km wide; southern corridors: about 10‐20 km long, about 2‐3 km wide). The dry season range corresponded with Marsabit evergreen forest, while the wet season range matched with dry deciduous lowland shrubs. The ranging elephants moved at speed of about 0.2‐20 kmh−1. Bachelor herds moved faster than female family herds. Elephants moved fast during the intermediate and wet seasons than during the dry season. The speed of ranging elephants was over 1 kmh−1in the corridor areas and about 0.2 to less than 1 kmh−1in the non‐corridor areas. Expansion of settlements towards corridor areas needs to be controlled to avoid future blocking of connectivity between wet and dry season elephant ranges.
Spiders as potential indicators of elephant‐induced habitat changes in endemic sand forest, Maputaland, South Africa
Authors: Haddad Charles R. , Honiball Allet S. , Dippenaar‐Schoeman Anna S. , Slotow Rob , Van Rensburg Berndt J. 
Published: September 2009

AbstractElephant impacts on spider assemblages, and the potential use of spiders as indicators of habitat changes was assessed in central Maputaland, South Africa. Three habitats, namely undisturbed sand forest, elephant disturbed sand forest and mixed woodland, were sampled. To ensure a thorough representation of all spider guilds, spiders were collected by tree beating, sweep netting, active searching, leaf litter sifting and pitfall traps. In total, 2808 individual spiders, representing 36 families, 144 determined genera and 251 species were collected. Spider abundance was highest in the undisturbed sand forest (n = 1129, S = 179), followed by elephant disturbed sand forest (n = 1006, S = 165) and mixed woodland (n = 673, S = 171). Assemblages of the two sand forests were more similar than to the mixed woodland assemblage. Active hunting species were indicators of the more open vegetation of elephant disturbed sand forest (six active hunters, no web‐builders) and mixed woodland (ten active hunters, one web‐builder), whereas web‐builders are indicators of the dense, complex vegetation structure of undisturbed sand forest (six web‐builders, three active hunters). Elephant‐induced changes to the vegetation structure in this high diversity, high endemism region result in changes in the composition of spider assemblages, and may need to be mitigated by management intervention.
Impacts of traditional land uses on biodiversity outside conservation areas: effects on dung beetle communities of Vaalbos National Park
Authors: Simelane Thokozani S. 
Published: September 2009

AbstractGrazing is one of the key processes in terrestrial ecosystems and this can be provided by both indigenous and domestic ungulates. However, a question remains whether or not traditional forms of land use such as the grazing of domestic animals support the maintenance of biodiversity. If it does not, then the second question becomes to what extent does grazing of domestic animals alter the systems and processes that support biodiversity? This study demonstrates that in attempting to answer this question, small organisms like dung beetles are ideal indicators that can be used to express significant differences between conserved (indigenous) and non‐conserved (domestic) land. As a general trend, studies that investigated these differences displayed differences through analysis of the diversity indices. This method has in most cases demonstrated a lack of contrast between conserved and non‐conserved land. In the existence of such uncertainty this study has demonstrated that in such cases, where the analysis of biodiversity indices fail to demonstrate significant differences a closer examination of actual species such as guilds and functional groups could confirm significant differences between conserved and non‐conserved land. These apparently conflicting findings reflect the need to consider the actual elements of biodiversity (e.g. species) when assessing conservation issues rather than just the statistical measures of biodiversity.
Reproductive life history of Thornicroft’s giraffe in Zambia
Authors: Bercovitch Fred B. , Berry Philip S. M. 
Published: September 2009

AbstractKnowledge of the reproductive life history of giraffe in the wild is sparse. Giraffe have two fairly unusual reproductive patterns among large mammals: they can become pregnant while lactating, and calf mortality is extremely high. Longitudinal records are largely absent, so tracking reproductive parameters tends to combine information from captive and field studies. In this study, we examine longitudinal data obtained over a 33‐year period in one population of Thornicroft’s giraffe in order to chart their reproductive careers. We found that age at first parturition was 6.4 years, or slightly later than in captivity. Giraffe bred throughout the year, with cows producing offspring on average every 677.7 days. About half of the calves died before one year of age, but death of a calf did not reduce interbirth interval. We conclude that the lifetime reproductive success of giraffe is more dependent on longevity and calf survivorship than on reproductive rate.
Conservation planning and viability: problems associated with identifying priority sites in Swaziland using species list data
Authors: Smith Robert J. , Monadjem Ara , Magagula Cebisile N. , Mahlaba Themba A.M. 
Published: September 2009

AbstractConservation planning assessments based on species atlas data are known to select planning units containing ecotones because these areas are relatively species‐rich. However, this richness is often dependent on the presence of adjoining core habitat, so populations within these ecotones might not be viable. This suggests that atlas data may also fail to distinguish between planning units that are highly transformed by agriculture or urbanization with those from neighbouring untransformed units. These highly transformed units could also be identified as priority sites, based solely on the presence of species that require adjoining habitat patches to persist. This potential problem was investigated using bird and mammal atlas data from Swaziland and a landcover map and found that: (i) there was no correlation between planning unit species richness and proportion of natural landcover for both taxa; (ii) the priority areas that were identified for both birds and mammals were no less transformed than if the units had been chosen at random and (iii) an approach that aimed to meet conservation targets and minimize transformation levels failed to identify more viable priority areas. This third result probably arose because 4.8% of the bird species and 22% of the mammal species were recorded in only one planning unit, reducing the opportunity to choose between units when aiming to represent each species. Therefore, it is suggested that using species lists to design protected area networks at a fine spatial scale may not conserve species effectively unless population viability data are explicitly included in the analysis.
16α-Bromoepiandrosterone (HE2000) limits non-productive inflammation and stimulates immunity in lungs
Authors: Nicoletti F , Conrad D , Wang A , Pieters R , Mangano K , Van Heeckeren A , White S K , Frincke J , Reading C L , Auci D L , Stickney D 
Published: September 2009

Summary
16α-Bromoepiandrosterone (HE2000) is a synthetic steroid that limits non-productive inflammation, enhances protective immunity and improves survival in clinical studies of patients with human immunodeficiency virus (HIV), malaria and tuberculosis infections. We now show that HE2000 decreased nitric oxide production by lipopolysaccharide (LPS)-stimulated RAW264·7 cells. Treatment with HE2000 also reduced non-productive inflammation associated with carrageenan-induced pleurisy and LPS-induced lung injury in mice. In the hapten-carrier reporter antigen popliteal lymph node assay, HE2000 increased absolute numbers of lymphocytes, antigen-presenting cells, hapten-specific immunoglobulin (Ig)M antibody-forming cells and shifted the interferon (IFN)-γ/interleukin (IL)-4 balance towards IFN-γ production. In the cystic fibrosis transmembrane conductance regulator (CFTR−/−) mouse model of acute Pseudomonas aeruginosa infection, treatment with HE2000 consistently reduced bacterial burden in lungs. All HE2000 effects were dose-dependent. In H1N1 infection in mice, HE2000 was safe but not effective as a monotherapy, as treatment did not effect survival. HE2000 reduced mortality related to excessive inflammation and opportunistic lung infections in animals and patients, and this might extend to those with H1N1 influenza infection.
A long‐standing Pleistocene refugium in southern Africa and a mosaic of refugia in East Africa: insights from mtDNA and the common eland antelope
Authors: Lorenzen Eline D. , Masembe Charles , Arctander Peter , Siegismund Hans R. 
Published: September 2009

AbstractAim Previous genetic studies of African savanna ungulates have indicated Pleistocene refugial areas in East and southern Africa, and recent palynological, palaeovegetation and fossil studies have suggested the presence of a long‐standing refugium in the south and a mosaic of refugia in the east. Phylogeographic analysis of the common eland antelope,Taurotragus oryx(Bovidae), was used to assess these hypotheses and the existence of genetic signatures of Pleistocene climate change.Location The sub‐Saharan savanna biome of East and southern Africa.Methods Mitochondrial DNA control‐region fragments (414 bp) from 122 individuals of common eland were analysed to elucidate the phylogeography, genetic diversity, spatial population structuring, historical migration and demographic history of the species. The phylogeographic split among major genetic lineages was dated using Bayesian coalescent‐based methods and a calibrated fossil root of 1.6 Ma for the split between the common eland and the giant eland,Taurotragus derbianus.Results Two major phylogeographic lineages comprising East and southern African localities, respectively, were separated by a net nucleotide distance of 4.7%. A third intermediate lineage comprised only three haplotypes, from Zimbabwe in southern Africa. The estimated mutation rate of 0.097 Myr−1revealed a more recent common ancestor for the eastern lineage (0.21 Ma; 0.07–0.37) than for the southern lineage (0.35 Ma; 0.10–0.62). Compared with the latter, the eastern lineage showed pronounced geographic structuring, lower overall nucleotide diversity, higher population differentiation, and isolation‐by‐distance among populations.Main conclusions The data support the hypothesis of Pleistocene refugia occurring in East and southern Africa. In agreement with palynological, palaeovegetation and fossil studies, our data strongly support the presence of a longer‐standing population in the south and a mosaic of Pleistocene refugia in the east, verifying the efficacy of genetic tools in addressing such questions. The more recent origin of the common eland inhabiting East Africa could result from colonization following extinction from the region. Only two other dated African ungulate phylogenies have been published, applying different methods, and the similarity of dates obtained from the three distinct approaches indicates a significant eventc. 200 ka, which left a strong genetic signature across a range of ungulate taxa.
Biogeography of the Australian monsoon tropics
Authors: Bowman D. M. J. S. , Brown G. K. , Braby M. F. , Brown J. R. , Cook L. G. , Crisp M. D. , Ford F. , Haberle S. , Hughes J. , Isagi Y. , Joseph L. , McBride J. , Nelson G. , Ladiges P. Y. 
Published: September 2009

AbstractAim  This paper reviews the biogeography of the Australian monsoon tropical biome to highlight general patterns in the distribution of a range of organisms and their environmental correlates and evolutionary history, as well as to identify knowledge gaps.Location  Northern Australia, Australian Monsoon Tropics (AMT). The AMT is defined by areas that receive more than 85% of rainfall between November and April.Methods  Literature is summarized, including the origin of the monsoon climate, present‐day environment, biota and habitat types, and phylogenetic and geographical relationships of selected organisms.Results  Some species are widespread throughout the AMT while others are narrow‐range endemics. Such contrasting distributions correspond to present‐day climates, hydrologies (particularly floodplains), geological features (such as sandstone plateaux), fire regimes, and vegetation types (ranging from rain forest to savanna). Biogeographical and phylogenetic studies of terrestrial plants (e.g. eucalypts) and animals (vertebrates and invertebrates) suggest that distinct bioregions within the AMT reflect the aggregated effects of landscape and environmental history, although more research is required to determine and refine the boundaries of biogeographical zones within the AMT. Phylogenetic analyses of aquatic organisms (fishes and prawns) suggest histories of associations with drainage systems, dispersal barriers, links to New Guinea, and the existence of Lake Carpentaria, now submerged by the Gulf of Carpentaria. Complex adaptations to the landscape and climate in the AMT are illustrated by a number of species.Main conclusions  The Australian monsoon is a component of a single global climate system, characterized by a dominant equator‐spanning Hadley cell. Evidence of hot, seasonally moist climates dates back to the Late Eocene, implying that certain endemic elements of the AMT biota have a long history. Vicariant differentiation is inferred to have separated the Kimberley and Arnhem Land bioregions from Cape York Peninsula/northern Queensland. Such older patterns are overlaid by younger events, including dispersal from Southeast Asia, and range expansions and contractions. Future palaeoecological and phylogenetic investigations will illuminate the evolution of the AMT biome. Understanding the biogeography of the AMT is essential to provide a framework for ecological studies and the sustainable development of the region.
Breeding systems and phylogenetic diversity of seed plants along a large‐scale elevational gradient
Authors: Vamosi Steven M. , Queenborough Simon A. 
Published: September 2009

AbstractAim  The factors affecting the distribution of dioecious species have received surprisingly little attention and, as a consequence, are poorly understood. For example, there is a well‐documented negative association between dioecy and latitude, for which we have no candidate mechanisms. Conversely, it has been suggested that the relative proportion of dioecious species should be positively correlated with changes in elevation.Location  Costa Rica, Central America.Methods  We made use of data on the distribution of 175 seed plant species from a series of plots along a transect in Costa Rica that ranged from 30 to 2600 m a.s.l. to test the prediction that dioecy is correlated with elevation. Specifically, we examined relationships between the proportion of dioecy, at the species and individual levels, and the elevation, species richness, number of individuals, and phylogenetic diversity (PD) of plots. For comparison, we repeated all analyses with monoecious species, which also have unisexual flowers but do not suffer from reduced mate assurance and the seed shadow effect that may be the outcomes of having spatially separated sexes.Results  The relative proportions of dioecious species and individuals displayed a unimodal relationship with elevation, both peaking at 750 m a.s.l. In contrast, the relative proportions of monoecious species and individuals displayed negative associations with elevation. In addition, the proportion of dioecious species was significantly positively associated with species richness and with the PD of plots. The proportion of monoecious species was not associated with species richness and was weakly positively associated with the PD of plots.Main conclusions  Our results suggest that the selection pressure of elevation on the pollinators and life‐history strategy of dioecious species is much less than expected, and is overshadowed by the as‐yet unexplained correlation of dioecy with species richness. Additional studies of the ecology of cosexual and unisexual (i.e. dioecious and monoecious) species along large environmental gradients are needed.