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At least 775 records · Page 43Linked to original sources

Evolutionary stability of mutualism: interspecific population regulation as an evolutionarily stable strategy

Interspecific mutualisms are often vulnerable to instability because low benefit : cost ratios can rapidly lead to extinction or to the conversion of mutualism to parasite–host or predator–prey interactions. We hypothesize that the evolutionary stability of mutualism can depend on how benefits and costs to one mutualist vary with the population density of its partner, and that stability can be maintained if a mutualist can influence demographic rates and regulate the population density of its partner. We test this hypothesis in a model of mutualism with key features of senita cactus ( Pachycereus schottii ) – senita moth ( Upiga virescens ) interactions, in which benefits of pollination and costs of larval seed consumption to plant fitness depend on pollinator density. We show that plants can maximize their fitness by allocating resources to the production of excess flowers at the expense of fruit. Fruit abortion resulting from excess flower production reduces pre–adult survival of the pollinating seed–consumer, and maintains its density beneath a threshold that would destabilize the mutualism. Such a strategy of excess flower production and fruit abortion is convergent and evolutionarily stable against invasion by cheater plants that produce few flowers and abort few to no fruit. This novel mechanism of achieving evolutionarily stable mutualism, namely interspecific population regulation, is qualitatively different from other mechanisms invoking partner choice or selective rewards, and may be a general process that helps to preserve mutualistic interactions in nature.

Proceedings of the Royal Society B↗

Yersinia ruckeri sp. nov., the redmouth (RM) bacterium

Cultures of the redmouth (RM) bacterium, one of the etiological agents of redmouth disease in rainbow trout ( Salmo gairdneri ) and certain other fishes, were characterized by means of their biochemical reactions, by deoxyribonucleic acid (DNA) hybridization, and by determination of guanine-plus-cytosine (G+C) ratios in DNA. The DNA relatedness studies confirmed the fact that the RM bacteria are members of the family Enterobacteriaceae and that they comprise a single species that is not closely related to any other species of Enterobacteriaceae. They are about 30% related to species of both Serratia and Yersinia. A comparison of the biochemical reactions of RM bacteria and serratiae indicated that there are many differences between these organisms and that biochemically the RM bacteria are most closely related to yersiniae. The G+C ratios of RM bacteria were approximated to be between 47.5 and 48.5%. These values are similar to those of yersiniae but markedly different from those of serratiae. On the basis of their biochemical reactions and their G+C ratios, the RM bacteria are considered to be a new species of Yersinia , for which the name Yersinia ruckeri is proposed. Strain 2396-61 (= ATCC 29473) is designated the type strain of the species.

International Journal of Systematic Bacteriology↗

Methanolobus taylorii sp nov, a new methylotropic, estuarine methanogen

Previously published phylogenetic studies of 16S rRNA showed that methylotrophic, slightly halophilic, methanogenic strain GS-16 T (T = type strain) represents a new species of bacterium. We propose the name Methanolobus taylorii for this species; strain GS-16 is the type strain.

International Journal of Systematic Bacteriology↗

Mycoplasma agassizii sp., nov., isolated from the upper respiratory tract of the desert tortoise (Gopherus agassizii) and the gopher tortoise (Gopherus polyphemus).

Biochemical, serological and molecular genetic studies were performed on seven mycoplasma isolates that were recovered from the upper respiratory tract of clinically ill desert tortoises. The isolates were serologically related to each other but serologically distinct from previously described species. Unique mycoplasma species-specific 16S rRNA nucleotide sequences were found in the proposed type strain. The name Mycoplasma agassizii is proposed for these isolates. The type strain is PS6 T (=ATCC 700616 T ) which caused upper respiratory tract disease (URTD) in experimentally infected tortoises.

Nevada↗

Geobacter bemidjiensis sp. nov. and Geobacter psychrophilus sp. nov., two novel Fe(III)-reducing subsurface isolates

Fe(III)-reducing isolates were recovered from two aquifers in which Fe(III) reduction is known to be important. Strain Bem T was enriched from subsurface sediments collected in Bemidji, MN, USA, near a site where Fe(III) reduction is important in aromatic hydrocarbon degradation. Strains P11, P35 T and P39 were isolated from the groundwater of an aquifer in Plymouth, MA, USA, in which Fe(III) reduction is important because of long-term inputs of acetate as a highway de-icing agent to the subsurface. All four isolates were Gram-negative, slightly curved rods that grew best in freshwater media. Strains P11, P35 T and P39 exhibited motility via means of monotrichous flagella. Analysis of the 16S rRNA and nifD genes indicated that all four strains are δ -proteobacteria and members of the Geobacter cluster of the Geobacteraceae . Differences in phenotypic and phylogenetic characteristics indicated that the four isolates represent two novel species within the genus Geobacter . All of the isolates coupled the oxidation of acetate to the reduction of Fe(III) [iron(III) citrate, amorphous iron(III) oxide, iron(III) pyrophosphate and iron(III) nitrilotriacetate]. All four strains utilized ethanol, lactate, malate, pyruvate and succinate as electron donors and malate and fumarate as electron acceptors. Strain Bem T grew fastest at 30 °C, whereas strains P11, P35 T and P39 grew equally well at 17, 22 and 30 °C. In addition, strains P11, P35 T and P39 were capable of growth at 4 °C. The names Geobacter bemidjiensis sp. nov. (type strain Bem T =ATCC BAA-1014 T =DSM 16622 T =JCM 12645 T ) and Geobacter psychrophilus sp. nov. (strains P11, P35 T and P39; type strain P35 T =ATCC BAA-1013 T =DSM 16674 T =JCM 12644 T ) are proposed.

International Journal of Systematic and Evolutiona↗

Aminobacter ciceronei sp. nov. and Aminobacter lissarensis sp. nov., isolated from various terrestrial environments

The bacterial strains IMB-1 T and CC495 T , which are capable of growth on methyl chloride (CH 3 Cl, chloromethane) and methyl bromide (CH 3 Br, bromomethane), were isolated from agricultural soil in California fumigated with CH 3 Br, and woodland soil in Northern Ireland, respectively. Two pesticide-/herbicide-degrading bacteria, strains ER2 and C147, were isolated from agricultural soil in Canada. Strain ER2 degrades N -methyl carbamate insecticides, and strain C147 degrades triazine herbicides widely used in agriculture. On the basis of their morphological, physiological and genotypic characteristics, these four strains are considered to represent two novel species of the genus Aminobacter , for which the names Aminobacter ciceronei sp. nov. (type strain IMB-1 T =ATCC 202197 T =CIP 108660 T =CCUG 50580 T ; strains ER2 and C147) and Aminobacter lissarensis sp. nov. (type strain CC495 T =NCIMB 13798 T =CIP 108661 T =CCUG 50579 T ) are proposed.

International Journal of Systematic and Evolutiona↗

Alkalilimnicola ehrlichii sp. nov., a novel, arsenite-oxidizing haloalkaliphilic gammaproteobacterium capable of chemoautotrophic or heterotrophic growth with nitrate or oxygen as the electron acceptor

A facultative chemoautotrophic bacterium, strain MLHE-1 T , was isolated from Mono Lake, an alkaline hypersaline soda lake in California, USA. Cells of strain MLHE-1 T were Gram-negative, short motile rods that grew with inorganic electron donors (arsenite, hydrogen, sulfide or thiosulfate) coupled with the reduction of nitrate to nitrite. No aerobic growth was attained with arsenite or sulfide, but hydrogen sustained both aerobic and anaerobic growth. No growth occurred when nitrite or nitrous oxide was substituted for nitrate. Heterotrophic growth was observed under aerobic and anaerobic (nitrate) conditions. Cells of strain MLHE-1 T could oxidize but not grow on CO, while CH 4 neither supported growth nor was it oxidized. When grown chemoautotrophically, strain MLHE-1 T assimilated inorganic carbon via the Calvin–Benson–Bassham reductive pentose phosphate pathway, with the activity of ribulose 1,5-bisphosphate carboxylase (RuBisCO) functioning optimally at 0.1 M NaCl and at pH 7.3. Strain MLHE-1 T grew over broad ranges of pH (7.3–10.0; optimum, 9.3), salinity (15–190 g l −1 ; optimum 30 g l −1 ) and temperature (13–40 °C; optimum, 30 °C). Phylogenetic analysis of 16S rRNA gene sequences placed strain MLHE-1 T in the class Gammaproteobacteria (family Ectothiorhodospiraceae ) and most closely related to Alkalispirillum mobile (98.5 %) and Alkalilimnicola halodurans (98.6 %), although none of these three haloalkaliphilic micro-organisms were capable of photoautotrophic growth and only strain MLHE-1 T was able to oxidize As(III). On the basis of physiological characteristics and DNA–DNA hybridization data, it is suggested that strain MLHE-1 T represents a novel species within the genus Alkalilimnicola for which the name Alkalilimnicola ehrlichii is proposed. The type strain is MLHE-1 T (=DSM 17681 T =ATCC BAA-1101 T ). Aspects of the annotated full genome of Alkalilimnicola ehrlichii are discussed in the light of its physiology.

California↗

Deferrisoma paleochoriense sp. nov., a thermophilic, iron(III)-reducing bacterium from a shallow-water hydrothermal vent in the Mediterranean Sea

A novel thermophilic, anaerobic, mixotrophic bacterium, designated strain MAG-PB1 T , was isolated from a shallow-water hydrothermal vent system in Palaeochori Bay off the coast of the island of Milos, Greece. The cells were Gram-negative, rugose, short rods, approximately 1.0 μm long and 0.5 μm wide. Strain MAG-PB1 T grew at 30–70 °C (optimum 60 °C), 0–50 g NaCl l − 1 (optimum 15–20 g l − 1 ) and pH 5.5–8.0 (optimum pH 6.0). Generation time under optimal conditions was 2.5 h. Optimal growth occurred under chemolithoautotrophic conditions with H 2 as the energy source and CO 2 as the carbon source. Fe(III), Mn(IV), arsenate and selenate were used as electron acceptors. Peptone, tryptone, Casamino acids, sucrose, yeast extract, d -fructose, α- d -glucose and ( − )- d -arabinose also served as electron donors. No growth occurred in the presence of lactate or formate. The G+C content of the genomic DNA was 66.7 mol%. Phylogenetic analysis of the 16S rRNA gene sequence indicated that this organism is closely related to Deferrisoma camini , the first species of a recently described genus in the Deltaproteobacteria . Based on the 16S rRNA gene phylogenetic analysis and on physiological, biochemical and structural characteristics, the strain was found to represent a novel species, for which the name Deferrisoma palaeochoriense sp. nov. is proposed. The type strain is MAG-PB1 T ( = JCM 30394 T  = DSM 29363 T ).

Mediterranean Sea, Milos Island, Paleochori Bay↗

Neisseria arctica sp. nov. isolated from nonviable eggs of greater white-fronted geese (Anser albifrons) in Arctic Alaska

During the summers of 2013 and 2014, isolates of a novel Gram-negative coccus in the Neisseria genus were obtained from the contents of nonviable greater white-fronted goose (Anser albifrons) eggs on the Arctic Coastal Plain of Alaska. We used a polyphasic approach to determine whether these isolates represent a novel species. 16S rRNA gene sequences, 23S rRNA gene sequences, and chaperonin 60 gene sequences suggested that these Alaskan isolates are members of a distinct species that is most closely related to Neisseria canis, N. animaloris, and N. shayeganii. Analysis of the rplF gene additionally showed that our isolates are unique and most closely related to N. weaveri. Average nucleotide identity of the whole genome sequence of our type strain was between 71.5% and 74.6% compared to close relatives, further supporting designation as a novel species. Fatty acid methyl ester analysis showed a predominance of C14:0, C16:0, and C16:1ω7c fatty acids. Finally, biochemical characteristics distinguished our isolates from other Neisseria species. The name Neisseria arctica (type strain KH1503T = ATCC TSD-57T = DSM 103136T) is proposed.

International Journal of Systematic and Evolutiona↗

Complete velocity distribution in river cross-sections measured by acoustic instruments

To fully understand the hydraulic properties of natural rivers, velocity distribution in the river cross-section should be studied in detail. The measurement task is not straightforward because there is not an instrument that can measure the velocity distribution covering the entire cross-section. Particularly, the velocities in regions near the free surface and in the bottom boundary layer are difficult to measure, and yet the velocity properties in these regions play the most significant role in characterizing the hydraulic properties. To further characterize river hydraulics, two acoustic instruments, namely, an acoustic Doppler current profiler (ADCP), and a "BoogieDopp" (BD) were used on fixed platforms to measure the detailed velocity profiles across the river. Typically, 20 to 25 stations were used to represent a river cross-section. At each station, water velocity profiles were measured independently and/or concurrently by an ADCP and a BD. The measured velocity properties were compared and used in computation of river discharge. In a tow-tank evaluation of a BD, it has been confirmed that BD is capable of measuring water velocity at about 11 cm below the free-surface. Therefore, the surface velocity distribution across the river was extracted from the BD velocity measurements and used to compute the river discharge. These detailed velocity profiles and the composite velocity distribution were used to assess the validity of the classic theories of velocity distributions, conventional river discharge measurement methods, and for estimates of channel bottom roughness.

Conference Paper↗

Methods of InSAR atmosphere correction for volcano activity monitoring

When a Synthetic Aperture Radar (SAR) signal propagates through the atmosphere on its path to and from the sensor, it is inevitably affected by atmospheric effects. In particular, the applicability and accuracy of Interferometric SAR (InSAR) techniques for volcano monitoring is limited by atmospheric path delays. Therefore, atmospheric correction of interferograms is required to improve the performance of InSAR for detecting volcanic activity, especially in order to advance its ability to detect subtle pre-eruptive changes in deformation dynamics. In this paper, we focus on InSAR tropospheric mitigation methods and their performance in volcano deformation monitoring. Our study areas include Okmok volcano and Unimak Island located in the eastern Aleutians, AK. We explore two methods to mitigate atmospheric artifacts, namely the numerical weather model simulation and the atmospheric filtering using Persistent Scatterer processing. We investigate the capability of the proposed methods, and investigate their limitations and advantages when applied to determine volcanic processes. ?? 2011 IEEE.

Conference Paper↗

Estimation of forest fuel load from radar remote sensing

Understanding fire behavior characteristics and planning for fire management require maps showing the distribution of wildfire fuel loads at medium to fine spatial resolution across large landscapes. Radar sensors from airborne or spaceborne platforms have the potential of providing quantitative information about the forest structure and biomass components that can be readily translated to meaningful fuel load estimates for fire management. In this paper, we used multifrequency polarimetric synthetic aperture radar (SAR) imagery acquired over a large area of the Yellowstone National Park by the Airborne SAR sensor to estimate the distribution of forest biomass and canopy fuel loads. Semiempirical algorithms were developed to estimate crown and stem biomass and three major fuel load parameters, namely: 1) canopy fuel weight; 2) canopy bulk density; and 3) foliage moisture content. These estimates, when compared directly to measurements made at plot and stand levels, provided more than 70% accuracy and, when partitioned into fuel load classes, provided more than 85% accuracy. Specifically, the radar-generated fuel parameters were in good agreement with the field-based fuel measurements, resulting in coefficients of determination of R2 = 85 for the canopy fuel weight, R 2 = 0.84 for canopy bulk density, and R2 =0.78 for the foliage biomass. ?? 2007 IEEE.

IEEE Transactions on Geoscience and Remote Sensing↗

Assessment of spectral band impact on intercalibration over desert sites using simulation based on EO-1 Hyperion data

Since the beginning of the 1990s, stable desert sites have been used for the calibration monitoring of many different sensors. Many attempts at sensor intercalibration have been also conducted using these stable desert sites. As a result, site characterization techniques and the quality of intercalibration techniques have gradually improved over the years. More recently, the Committee on Earth Observation Satellites has recommended a list of reference pseudo-invariant calibration sites for frequent image acquisition by multiple agencies. In general, intercalibration should use well-known or spectrally flat reference. The reflectance profile of desert sites, however, might not be flat or well characterized (from a fine spectral point of view). The aim of this paper is to assess the expected accuracy that can be reached when using desert sites for intercalibration. In order to have a well-mastered estimation of different errors or error sources, this study is performed with simulated data from a hyperspectral sensor. Earth Observing-1 Hyperion images are chosen to provide the simulation input data. Two different cases of intercalibration are considered, namely, Landsat 7 Enhanced Thematic Mapper Plus with Terra Moderate Resolution Imaging Spectroradiometer (MODIS) and Environmental Satellite MEdium Resolution Imaging Spectrometer (MERIS) with Aqua MODIS. The simulation results have confirmed that intercalibration accuracy of 1% to 2% can be achieved between sensors, provided there are a sufficient number of available measurements. The simulated intercalibrations allow explaining results obtained during real intercalibration exercises and to establish some recommendations for the use of desert sites for intercalibration.

IEEE Transactions on Geoscience and Remote Sensing↗

Kriging and local polynomial methods for blending satellite-derived and gauge precipitation estimates to support hydrologic early warning systems

Robust estimates of precipitation in space and time are important for efficient natural resource management and for mitigating natural hazards. This is particularly true in regions with developing infrastructure and regions that are frequently exposed to extreme events. Gauge observations of rainfall are sparse but capture the precipitation process with high fidelity. Due to its high resolution and complete spatial coverage, satellite-derived rainfall data are an attractive alternative in data-sparse regions and are often used to support hydrometeorological early warning systems. Satellite-derived precipitation data, however, tend to underrepresent extreme precipitation events. Thus, it is often desirable to blend spatially extensive satellite-derived rainfall estimates with high-fidelity rain gauge observations to obtain more accurate precipitation estimates. In this research, we use two different methods, namely, ordinary kriging and κ-nearest neighbor local polynomials, to blend rain gauge observations with the Climate Hazards Group Infrared Precipitation satellite-derived precipitation estimates in data-sparse Central America and Colombia. The utility of these methods in producing blended precipitation estimates at pentadal (five-day) and monthly time scales is demonstrated. We find that these blending methods significantly improve the satellite-derived estimates and are competitive in their ability to capture extreme precipitation.

IEEE Transactions on Geoscience and Remote Sensing↗

Location-only and use-availability data: analysis methods converge

This Special Feature arose from a session on a topic of the same name that took place during The Wildlife Society meeting in Kona, Hawaii, from 5 to 10 November, 2011. The purpose of that session and this Special Feature is to compare methods for predictive modelling of species geographical distributions and the modelling of habitat (resource) selection by animals. The predictive modelling of species geographical distributions and the modelling of habitat selection based on the environmental conditions at sites where animals are known to occur are essentially the same problem. Presence-only and used-available data both consist of a sample of locations with known presence of a species or an individual. A separate sample of locations from a study area, with unknown presence (pseudo-absence), is also assumed to exist. The probability or relative probability of presence of a species or individual is modelled and estimated across a certain time implicitly defined by the sampling mechanism, for example, by the time period during which museum specimens or radiotelemetry data were collected. A number of modelling methods have appeared in the literature over the last couple of decades. Many of these methods were made feasible by the availability of geographical information systems (GIS), global positioning system (GPS) radiotelemetry and public online data access initiatives (e.g. global biodiversity information facility). The papers in this Special Feature are intended to present the state of the methodological art in their subject area, with particular attention paid to contrasting the advantages and disadvantages of alternative methods of analysis for data.

Journal of Animal Ecology↗

Integrating presence-only and detection/non-detection data to estimate distributions and expected abundance of difficult-to-monitor species on a landscape-scale

Estimating species distribution and abundance is foundational to effective management and conservation. Using an integrated species distribution model that combines presence-only data from various sources with detection/non-detection data from structured surveys, we estimated the distribution and expected abundance of three difficult-to-monitor mammals of management concern across New York State, namely, coyotes ( Canis latrans ), bobcats ( Lynx rufus ) and black bears ( Ursus americanus ). Three distinct landscape-scale camera trap surveys provided detection/non-detection data over 9 years between 2013 and 2021, and we augmented those data with incidental records of our focal species from public repositories. We used an inhomogeneous Poisson point process to construct an integrated model that fit both data types simultaneously. We demonstrate a simple application of spatial point density of all species records in the accessed public databases to inform the thinning process to account for unknown spatial sampling in the presence-only data, often referred to as the ‘magic covariate’. Using this approach, we examine habitat associations and provide spatially explicit estimates in expected abundance across the entirety of New York State for all three focal species. As expected, coyotes were the most widely distributed and abundant species, with a strong positive association with agricultural land uses. Bobcats exhibited low expected abundance throughout the state and showed positive associations with deciduous forest and forest edge, and a negative association with road density. Finally, we observed considerable spatial variation in abundance of black bears with expected abundance increasing in association with various forest cover and composition covariates and decreasing with crop cover. We present insights into habitat associations and spatial variation in abundance, and provide management implications for each of the species of interest. Synthesis and applications . Our integrated modelling method allows for managers to use citizen sightings combined with detection/non-detection surveys to estimate robust indices of abundance for both high- and low-density, and wide-spread versus patchily distributed species. Through comparison with previous studies, we highlight how broad-scale programmes, such as the statewide efforts to estimate species distributions undertaken here, can benefit substantively from integrated models that leverage additional data (here, incidental records) from a larger region of space, and thus capture more landscape heterogeneity than is plausible within formalized surveys alone.

New York↗

Evaluating water-quality trends in agricultural watersheds prioritized for management-practice implementation

Many agricultural watersheds rely on the voluntary use of management practices (MPs) to reduce nonpoint source nutrient and sediment loads; however, the water-quality effects of MPs are uncertain. We interpreted water-quality responses from as early as 1985 through 2020 in three agricultural Chesapeake Bay watersheds that were prioritized for MP implementation, namely, the Smith Creek (Virginia), Upper Chester River (Maryland), and Conewago Creek (Pennsylvania) watersheds. We synthesized patterns in MPs, climate, land use, and nutrient inputs to better understand factors affecting nutrient and sediment loads. Relations between MPs and expected water-quality improvements were not consistently identifiable. The number of MPs increased in all watersheds since the early 2010s, but most monitored nutrient and sediment loads did not decrease. Nutrient and sediment loads increased or remained stable in Smith Creek and the Upper Chester River. Sediment loads and some nutrient loads decreased in Conewago Creek. In Smith Creek, a 36-year time-series model suggests that changes in manure affected flow-normalized total nitrogen loads. We hypothesize that increases in nutrient applications may overshadow some expected MP effects. MPs might have stemmed further water-quality degradation, but improvements in nutrient loads may rely on reducing manure and fertilizer applications. Our results highlight the importance of assessing MP performance with long-term monitoring-based studies.

Journal of the American Water Resources Assocation↗

Integration of Indigenous Research Methodologies, Traditional Ecological Knowledge and molecular scatology in an assessment of mesocarnivore presence, diet and habitat use on Yurok Ancestral Lands.

Partnerships between Tribes and researchers in wildlife monitoring and application of Traditional Ecological Knowledge (TEK) have taken a variety of forms, and some scholars have noted a need for culturally sensitive approaches. Guided by Indigenous Research Methodologies, this research is coupled with Yurok TEK, or hlkelonah 'ue-megetohl ('to take care of the earth'), enabling an applied, culturally sensitive approach in partnership with the Yurok Tribe. We present results from a molecular scatology study of wildlife within the ancestral territory of the Yurok Tribe. Scats were collected opportunistically on road transects. All samples ( N = 132) were analysed via DNA barcoding and results matched to documented 'Oohl 'we-toh (Yurok language) names to determine the depositor species ( N = 8). Though there were four focal mesocarnivore species in our study, only bobcat ( Chmuuek; Lynx rufus ) and gray fox ( Wergers; Urocyon cinereoargenteus ) were detected as depositor species. Post hoc analyses were conducted to explore distribution, habitat use and selection in a use-availability context, and food habits of these two species. We found almost complete separation of bobcat and gray fox use of transects, as well as indication of partitioning of vegetation cover types and food. We demonstrate an integrated framework of Western and Indigenous sciences that allows the Indigenous researcher to transcend structured academic disciplinary boundaries. Our approach can be modified for partnerships between Tribes, agencies, academics and students for wildlife monitoring in broader geographic regions in various research applications.

California↗