Phylogeography of the pelagic fish Seriola lalandi at different scales: confirmation of inter-ocean population structure and evaluation of southern African genetic diversity

The study investigated the global and regional phylogeography of the yellowtail kingfish Seriola lalandi by examining genetic diversity and population genetic structure of this species at inter-and intra-ocean level and on a regional scale. DNA fragments of two mitochondrial genes, cytochrome b (Cytb) and cytochrome c oxidase subunit I (COI) and one nuclear gene, recombination activating gene 1 (RAG1), were sequenced to investigate the global-scale phylogeography of this species. The population genetic structure within the South Pacific, as well as along the South African coastline, was examined further using six microsatellite markers. Three distinct clades were identified for S. lalandi, which correspond with previously described subspecies of the North-East Pacific, North-West Pacific and the Southern Hemisphere. Within the latter, additional divergence was observed between the South Pacific and the South-East Atlantic regions. Divergence estimates were indicative of a Pacific origin for S. lalandi populations, because of Pleistocene vicariant events. Microsatellite analyses revealed overall significant genetic differentiation between South African and South Pacific samples. This corroborates recent findings on the global phylogeography of the species. No population differentiation was observed within South Africa, indicating high levels of gene flow.     

Using helicopter electromagnetic data to predict groundwater quality in fractured crystalline bedrock in a semi-arid region, Northeast Brazil

Geostatistical modeling, using airborne and borehole electromagnetic data, was used to estimate electrical conductivity in groundwater within fractured paragneisses and migmatites in a semi-arid climate in northeastern Brazil. Despite the geologic heterogeneity of crystalline aquifers, the use of high resolution helicopter electromagnetic (HEM) data enabled the characterization of groundwater electrical conductivity where data from drilled wells were insufficient. The tacit assumption is that HEM measurements can be used to relate rock electrical conductivity to groundwater electrical conductivity. In this study, the HEM data were used as an external drift variable in non-stationary estimation and stochastic simulation to identify the variability of groundwater electrical conductivity. Validation tests, comparing predicted values for groundwater conductivity with measurements in new wells, confirmed the success of these models in locating fresh groundwater sources in crystalline bedrock.     

Genomic resources for the spotted ragged-tooth shark Carcharias taurus

Genomic data can be a useful tool in the management and conservation of biodiversity. Here, we report the development of genomic resources for the spotted ragged-tooth shark Carcharias taurus using genome-wide DNA data from Illumina next-generation sequencing. We explored two commonly used genetic marker types: microsatellites and mitochondrial DNA. A total of 4 394 putative microsatellites were identified, of which 10 were tested on 24 individuals and found to have ideal properties for population genetic analyses. Additionally, we reconstructed the first complete mitochondrial genome of a South African spotted ragged-tooth shark, and highlight the most informative gene regions to facilitate future primer design. The data reported here may serve as a resource for future studies and can ultimately be applied in the sustainable conservation and fisheries management of this apex predator.     

Airborne gamma-ray and magnetic anomaly signatures of serpentinite in relation to soil geochemistry, northern California

Serpentinized ultramafic rocks and associated soils in northern California are characterized by high concentrations of Cr and Ni, low levels of radioelements (K, Th, and U) and high amounts of ferrimagnetic minerals (primarily magnetite). Geophysical attributes over ultramafic rocks, which include airborne gamma-ray and magnetic anomaly data, are quantified and provide indirect measurements on the relative abundance of radioelements and magnetic minerals, respectively. Attributes are defined through a statistical modeling approach and the results are portrayed as probabilities in chart and map form. Two predictive models are presented, including one derived from the aeromagnetic anomaly data and one from a combination of the airborne K, Th and U gamma-ray data. Both models distinguish preferential values within the aerogeophysical data that coincide with mapped and potentially unmapped ultramafic rocks. The magnetic predictive model shows positive probabilities associated with magnetic anomaly highs and, to a lesser degree, anomaly lows, which accurately locate many known ultramafic outcrops, but more interestingly, locate potentially unmapped ultramafic rocks, possible extensions of ultramafic bodies that dip into the shallow subsurface, as well as prospective buried ultramafic rocks. The airborne radiometric model shows positive probabilities in association with anomalously low gamma radiation measurements over ultramafic rock, which is similar to that produced by gabbro, metavolcanic rock, and water bodies. All of these features share the characteristic of being depleted in K, Th and U. Gabbro is the only rock type in the study area that shares similar magnetic properties with the ultramafic rock. The aerogeophysical model results are compared to the distribution of ultramafic outcrops and to Cr, Ni, K, Th and U concentrations and magnetic susceptibility measurements from soil samples. Analysis of the soil data indicates high positive correlation between magnetic susceptibilities and concentration of Cr and Ni. Although the study focused on characterizing the geophysical properties of ultramafic rocks and associated soils, it has also yielded information on other rock types in addition to ultramafic rocks, which can also locally host naturally-occurring asbestos; specifically, gabbro and metavolcanic rocks.     

Molecular research on the systematically challenging smoothhound shark genus Mustelus: a synthesis of the past 30 years

The species-rich genus Mustelus (smoothhounds) of the shark family Triakidae is one of the most bio-economically important groups of elasmobranchs in the world’s oceans. Despite the commercial value of Mustelus, the systematics of the group remains largely unresolved and there is no global review or synthesis of knowledge about the conservation status and conservation genetics of smoothhounds across all oceanic regions. Here, we analysed published studies as well as grey literature to gain insight into the biogeographic, ecological and behavioural factors that shape genetic diversity in smoothhounds, and we identify critical knowledge gaps. From a series of molecular phylogenetic studies it can be inferred that the genus Mustelus is paraphyletic and that the aplacental species evolved secondarily from the placental species of the genus. The increasing availability of genetic data aids in disentangling systematic issues, such that more meaningful morphological characters can be chosen for use in practical field-identification keys for co-occurring smoothhounds. An integrative taxonomic approach to the genus Mustelus may offer the best chance of recording and protecting the biodiversity of these sharks. Furthermore, it is evident that different smoothhound species exhibit unique gene-flow patterns, suggesting varying rates within species and hence that species-level conservation approaches would be most appropriate. Molecular studies have advanced our understanding of smoothhound biology (including reproductive traits), ecology and evolution. While many knowledge gaps remain, a crucial lesson from this review is that, when doing assessments on a molecular level, it is important to place genetic results in a broader context, by assimilating biological and ecological data, if definitive conclusions are to be drawn.     

KML在OneGeology和Google Earth之间的桥接作用浅析

为了促进全球范围内的地质图数据网络共享,国际地球科学联合会发起了OneGeology项目。目前该项目已经得到超过100个国家和地区和大量国际组织的参与,且已有40多个国家和地区在OneGeology项目的网站上登记了共享的地质图数据。由于这些数据源的服务器由各参与国的地质调查机构自己负责,OneGeology网站本身只通过一个数据接口OneGeology Portal提供对这些分布式数据源的浏览窗1：2。同时,另外一个重要的功能就是通过OneGeology Portal把选择的数据导出为KML文件,通过在Google Earth中打开该KML文件,可以把对应的数字地质图和和其他数据叠加浏览和分析,这也扩大了地质图数据的使用方式和服务目的。本文对KML文件在OneGeology和Google Earth之间的这种桥接作用做了分析并介绍了具体的操作过程。     

USE OF REPLICATION AND SIGNAL-TO-NOISE RATIOS IN THE IDENTIFICATION AND ESTIMATION OF THE COMPOSITION OF LUBRICANT BASESTOCK MIXTURES USING ~(13)C NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY AND PROJECTION INTO PRINCIPAL COMPONENT/CANONICAL VARIATES SPACE

The theory of experimental error in analysis of mixture experiments by abstract factor analysis or targettransformation factor analysis is considered. The theoretical implications of using signal-to-noise ratios(as weights) or canonical variates analysis to reduce the level of imbedded error in the factor model areexamined. The approach is illustrated by application to ~(13)C NMR spectra of lubricant basestockmixtures.