A robust SNP-haplotype assay for Bct gene region conferring resistance to beet curly top virus in common bean (Phaseolus vulgaris L.)

Beet curly top virus (BCTV), which is synonymous with curly top virus (CTV), causes significant yield loss in common bean (snap and dry beans) cultivars and several other important crops. Common bean cultivars have been found to be resistant to CTV, but screening for resistance is challenging due to the cyclical nature of epidemics and spotty feeding by the leafhopper that vectors the virus. We used an SNP dataset for the Snap Bean Association Panel (SnAP) agro-inoculated with CTV-Logan (CA/Logan) strain to locate the Bct gene region to a 1.7-Mb interval on chromosome Pv07 using genome-wide association study (GWAS) analysis. Recombinant lines from the SnAP were used to further narrow the Bct region to a 58.0-kb interval. A missense SNP (S07_2970381) in candidate gene Phvul.007G036300 Exonuclease V (EXO5) was identified as the most likely causal mutation, and it was the most significant SNP detected by GWAS in a dry bean population (DBP) naturally infected by the CTV-Worland (Wor) strain. Tm-shift assay markers developed for SNP S07_2970381 and two linked SNPs, S07_2970276 and S07_2966197, were useful for tracking different origins of the Bct EXO5 candidate gene resistance to CTV in common bean. The three SNPs identified four haplotypes, with haplotype 3-1 (Haplo3-1) of Middle American origin associated with the highest levels of CTV resistance. This SNP-haplotype assay will enable breeders to track resistance sources and to develop cultivars with better CTV resistance

C–O–H–S fluids and granitic magma : how S partitions and modifies CO2 concentrations of fluid-saturated felsic melt at 200 MPa

Author Posting. © The Author(s), 2011. This is the author's version of the work. It is posted here by permission of Springer for personal use, not for redistribution. The definitive version was published in Contributions to Mineralogy and Petrology 162 (2011): 849-865, doi:10.1007/s00410-011-0628-1.Hydrothermal volatile-solubility and partitioning experiments were conducted with fluid-saturated haplogranitic melt, H2O, CO2, and S in an internally heated pressure vessel at 900°C and 200 MPa; three additional experiments were conducted with iron-bearing melt. The run-product glasses were analyzed by electron microprobe, FTIR, and SIMS; and they contain ≤ 0.12 wt% S, ≤ 0.097 wt.% CO2, and ≤ 6.4 wt.% H2O. Apparent values of log ƒO2 for the experiments at run conditions were computed from the [(S6+)/(S6++S2-)] ratio of the glasses, and they range from NNO-0.4 to NNO+1.4. The C-O-H-S fluid compositions at run conditions were computed by mass balance, and they contained 22-99 mol% H2O, 0-78 mol% CO2, 0-12 mol% S, and < 3 wt% alkalis. Eight S-free experiments were conducted to determine the H2O and CO2 concentrations of melt and fluid compositions and to compare them with prior experimental results for C-O-H fluid-saturated rhyolite melt, and the agreement is excellent. Sulfur partitions very strongly in favor of fluid in all experiments, and the presence of S modifies the fluid compositions, and hence, the CO2 solubilities in coexisting felsic melt. The square of the mole fraction of H2O in melt increases in a linear fashion, from 0.05-0.25, with the H2O concentration of the fluid. The mole fraction of CO2 in melt increases linearly, from 0.0003-0.0045, with the CO2 concentration of C-O-H-S fluids. Interestingly, the CO2 concentration in melts, involving relatively reduced runs (log ƒO2 ≤ NNO+0.3) that contain 2.5-7 mol% S in the fluid, decreases significantly with increasing S in the system. This response to the changing fluid composition causes the H2O and CO2 solubility curve for C-O-H-S fluid-saturated haplogranitic melts at 200 MPa to shift to values near that modeled for C-O-H fluid-saturated, S-free rhyolite melt at 150 MPa. The concentration of S in haplogranitic melt increases in a linear fashion with increasing S in C-O-H-S fluids, but these data show significant dispersion that likely reflects the strong influence of ƒO2 on S speciation in melt and fluid. Importantly, the partitioning of S between fluid and melt does not vary with the (H2O/H2O+CO2) ratio of the fluid. The fluid-melt partition coefficients for H2O, CO2, and S and the atomic (C/S) ratios of the run-product fluids are virtually identical to thermodynamic constraints on volatile partitioning and the H, S, and C contents of pre-eruptive magmatic fluids and volcanic gases for subduction-related magmatic systems thus confirming our experiments are relevant to natural eruptive systems.This research was supported in part by National Science Foundation awards EAR 0308866 and EAR-0836741 to J.D.W

Investigating magmatic processes in the early Solar System using the Cl isotopic systematics of eucrites

Generally, terrestrial rocks, martian and chondritic meteorites exhibit a relatively narrow range in bulk and apatite Cl isotope compositions, with δ37Cl (per mil deviation from standard mean ocean chloride) values between − 5.6 and + 3.8 ‰. Lunar rocks, however, have more variable bulk and apatite δ37Cl values, ranging from ∼ − 4 to + 40 ‰. As the Howardite-Eucrite-Diogenite (HED) meteorites represent the largest suite of crustal and sub-crustal rocks available from a differentiated basaltic asteroid (4 Vesta), studying them for their volatiles may provide insights into planetary differentiation processes during the earliest Solar System history. Here the abundance and isotopic composition of Cl in apatite were determined for seven eucrites representing a broad range of textural and petrological characteristics. Apatite Cl abundances range from ∼ 25 to 4900 ppm and the δ37Cl values range from − 3.98 to + 39.2 ‰. Samples with lower apatite H2O contents were typically also enriched in 37Cl but no systematic correlation between δ37Cl and δD values was observed across samples. Modelled Rayleigh fractionation and a strong positive correlation between bulk δ66Zn and apatite δ37Cl support the hypothesis that Cl degassed as metal chlorides from eucritic magmas, in a hydrogen-poor environment. In the case of lunar samples, it has been noted that δ37Cl values of apatite positively correlate with bulk La/Yb ratio. Interestingly, most eucrites show a negative correlation with bulk La/Yb ratio. Recently, isotopically light Cl values have been suggested to record the primary solar nebular signature. If this is the case then 4 Vesta, which accreted rapidly and early in Solar System history, could also record this primary nebular signature corresponding to the lightest Cl values measured here. The significant variation in Cl isotope composition observed within the eucrites are likely related to degassing of metal chlorides

Amphibole and apatite insights into the evolution and mass balance of Cl and S in magmas associated with porphyry copper deposits

Chlorine and sulfur are of paramount importance for supporting the transport and deposition of ore metals at magmatic–hydrothermal systems such as the Coroccohuayco Fe–Cu–Au porphyry–skarn deposit, Peru. Here, we used recent partitioning models to determine the Cl and S concentration of the melts from the Coroccohuayco magmatic suite using apatite and amphibole chemical analyses. The pre-mineralization gabbrodiorite complex hosts S-poor apatite, while the syn- and post-ore dacitic porphyries host S-rich apatite. Our apatite data on the Coroccohuayco magmatic suite are consistent with an increasing oxygen fugacity (from the gabbrodiorite complex to the porphyries) causing the dominant sulfur species to shift from S2− to S6+ at upper crustal pressure where the magmas were emplaced. We suggest that this change in sulfur speciation could have favored S degassing, rather than its sequestration in magmatic sulfides. Using available partitioning models for apatite from the porphyries, pre-degassing S melt concentration was 20–200 ppm. Estimates of absolute magmatic Cl concentrations using amphibole and apatite gave highly contrasting results. Cl melt concentrations obtained from apatite (0.60 wt% for the gabbrodiorite complex; 0.2–0.3 wt% for the porphyries) seems much more reasonable than those obtained from amphibole which are very low (0.37 wt% for the gabbrodiorite complex; 0.10 wt% for the porphyries). In turn, relative variations of the Cl melt concentrations obtained from amphibole during magma cooling are compatible with previous petrological constraints on the Coroccohuayco magmatic suite. This confirms that the gabbrodioritic magma was initially fluid undersaturated upon emplacement, and that magmatic fluid exsolution of the gabbrodiorite and the pluton rooting the porphyry stocks and dikes were emplaced and degassed at 100–200 MPa. Finally, mass balance constraints on S, Cu and Cl were used to estimate the minimum volume of magma required to form the Coroccohuayco deposit. These three estimates are remarkably consistent among each other (ca. 100 km3) and suggest that the Cl melt concentration is at least as critical as that of Cu and S to form an economic mineralization

Shergottite Northwest Africa 6963: A Pyroxene‐Cumulate Martian Gabbro

Northwest Africa (NWA) 6963 was found in Guelmim‐Es‐Semara, Morocco, and based on its bulk chemistry and oxygen isotopes, it was classified as a Martian meteorite. On the basis of a preliminary study of the textures and crystal sizes, it was resubclassified as a gabbroic shergottite because of the similarity with terrestrial and lunar gabbros. However, the previous work was not a quantitative investigation of NWA 6963; to supplement the original resubclassification and enable full comparison between this and other Martian samples; here we investigate the mineralogy, petrology, geochemistry, quantitative textural analyses, and spectral properties of gabbroic shergottite NWA 6963 to constrain its petrogenesis, including the depth of emplacement (i.e., base of a flow versus crustal intrusion). NWA 6963 is an enriched shergottite with similar mineralogy to the basaltic shergottites but importantly does not contain any fine‐grained mesostasis. Consistent with the mineralogy, the reflectance (visible/near‐infrared and thermal infrared) spectrum of powdered NWA 6963 is similar to other shergottites because they are all dominated by pyroxene, but its reflectance is distinct in terms of albedo and spectral contrast due to its gabbroic texture. NWA 6963 represents a partial cumulate gabbro that is associated with the basaltic shergottites. Therefore, NWA 6963 could represent a hypabyssal intrusive feeder dike system for the basaltic shergottites that erupted on the surface

Solubilities of O-H-C-S-Cl volatile components in fluids and silicate melts and their control on magmatic processes.

La comunicazione riporta i risultati di esperimenti di solubilità su componenti volatili, quali O, H, C, S, Cl, in melts silicatici e relativi processi magmatici

C-O-H-S-Cl-F volatile solubilities, partitioning, and mixing properties in phonolitic-trachytic melts and aqueous-carbonic vapor ± saline liquid at 200 MPa

Hydrothermal experiments were conducted at 200MPa and 900^10188C to determine the solubilities, fluid(s)^melt partitioning, and mixing properties of H2O, CO2, S, Cl, and F in phonolitic^trachytic melts saturated in vapor, vapor plus saline liquid, or saline liquid.The bulk compositions and S, Cl, and F concentrations of the run-product glasses were determined by electron microprobe and the H2O and CO2 contents by Fourier-transform infrared spectroscopy (FTIR). A new parameterization was developed to calculate molar absorption coefficients for FTIR analysis of carbonate in glasses and applied to the run-product glasses.The concentrations of volatiles in the fluid(s) were determined by mass-balance calculations and checked with chloridometer analysis and gravimetry.The range in oxygen fugacity of these experiments is NNO to NNOþ2 (where NNO is nickel^nickel oxide buffer). The phonolitic trachytic melts dissolved up to 75wt % H2O, 094 wt % Cl, 073 wt % CO2, 075 wt % F, and 016 wt % S, and the integrated bulk fluid(s) contained up to 99 mol % H2O, 34 mol % Cl, 82 mol % CO2, 17 mol % F, and 37 mol % S.The mixing relationships of H2O, CO2, and Cl in melt versus fluid(s) are complex and strongly non-ideal at these pressure^temperature conditions, particularly with two fluid phases stable. The concentrations of H2O and CO2 in melt change with the addition of ClS to the system, and the solubility of Cl in melt varies with S. The reductions in H2O and CO2 solubility in melt exceed those resulting from simple dilution of the coexisting fluid(s) owing to addition of other volatiles.The partitioning of H2O and CO2 between fluid(s) and melt varies as a function of fluid(s) and melt composition. The experimental data are applied to phonolitic and related magmas of Mt. Somma-Vesuvius, Italy, Mt. Erebus, Antarctica, and Cripple Creek, USA, to better interpret processes of fluid(s) exsolution in eruptive and mineralizing systems. Application of the experimental results also provides constraints on eruptive and mineralizing fluid(s) compositions

Petrography, mineral chemistry, and crystallization history of olivine-phyric shergottite NWA 6234: a new melt composition

Knowledge of Martian igneous and mantle compositions is crucial for understanding Mars’ mantle evolution, including early differentiation, mantle convection, and the chemical alteration at the surface. Primitive magmas provide the most direct information about their mantle source regions, but most Martian meteorites either contain cumulate olivine or crystallized from fractionated melts. The new Martian meteorite Northwest Africa (NWA) 6234 is an olivine-phyric shergottite. Its most magnesian olivine cores (Fo78) are in Mg-Fe equilibrium with a magma of the bulk rock composition, suggesting that it represents a melt composition. Thermochemical calculations show that NWA 6234 not only represents a melt composition but is a primitive melt derived from an approximately Fo80 mantle. Thus, NWA 6234 is similar to NWA 5789 and Y 980459 in the sense that all three are olivine-phyric shergottites and represent primitive magma compositions. However, NWA 6234 is of special significance because it represents the first olivine-phyric shergottite from a primitive ferroan magma. On the basis of Al/Ti ratio of pyroxenes in NWA 6234, the minor components in olivine and merrillite, and phosphorus zoning of olivine, we infer that the rock crystallized completely at pressures consistent with conditions in Mars’ upper crust. The textural intergrowths of the two phosphates (merrillite and apatite) indicate that at a very last stage of crystallization, merrillite reacted with an OH-Cl-F-rich melt to form apatite. As this meteorite crystallized completely at depth and never erupted, it is likely that its apatite compositions represent snapshots of the volatile ratios of the source region without being affected by degassing processes, which contain high OH-F content