Crystal Shape-Dependent Magnetic Susceptibility and Curie Law Crossover in the Spin Ices Dy2Ti2O7 and Ho2Ti2O7

We present an experimental determination of the isothermal magnetic susceptibility of the spin ice materials Dy2Ti2O7 and Ho2Ti2O7 in the temperature range 1.8-300 K. The use of spherical crystals has allowed the accurate correction for demagnetizing fields and allowed the true bulk isothermal susceptibility X_T(T) to be estimated. This has been compared to a theoretical expression based on a Husimi tree approximation to the spin ice model. Agreement between experiment and theory is excellent at T > 10 K, but systematic deviations occur below that temperature. Our results largely resolve an apparent disagreement between neutron scattering and bulk measurements that has been previously noted. They also show that the use of non-spherical crystals in magnetization studies of spin ice may introduce very significant systematic errors, although we note some interesting - and possibly new - systematics concerning the demagnetizing factor in cuboidal samples. Finally, our results show how experimental susceptibility measurements on spin ices may be used to extract the characteristic energy scale of the system and the corresponding chemical potential for emergent magnetic monopoles.Comment: 11 pages, 3 figures 1 table. Manuscript submitte

Brownian Motion and Quantum Dynamics of Magnetic Monopoles in Spin Ice

Spin ice illustrates many unusual magnetic properties, including zero point entropy, emergent monopoles and a quasi liquid-gas transition. To reveal the quantum spin dynamics that underpin these phenomena is an experimental challenge. Here we show how crucial information is contained in the frequency dependence of the magnetic susceptibility and in its high frequency or adiabatic limit. These measures indicate that monopole diffusion is strictly Brownian but is underpinned by spin tunnelling and is influenced by collective monopole interactions. We also find evidence of driven monopole plasma oscillations in weak applied field, and unconventional critical behaviour in strong applied field. Our results resolve contradictions in the present understanding of spin ice, reveal unexpected physics and establish adiabatic susceptibility as a revealing characteristic of exotic spin systems.Comment: Main : 12 pages, 6 figures. Supplementary Information : 10 pages, 7 figures. Manuscript submitte

Efficient two-step procedure for parameter identification and uncertainty assessment in model updating problems

The model updating procedures employed in vibration-based health monitoring need to be reliable and computationally efficient. The computational time is a fundamental task if the results are used to evaluate, in quasi-real-time, the safe or the unsafe state of strategic and relevant structures. The paper presents an efficient two-step procedure for the identification of the mechanical parameters and for the assessment of the corresponding uncertainty in model updating problems. The first step solves a least squares problem, providing a first estimate of the unknown parameters. The second (iterative) step produces a refinement of the solution. Moreover, by exploiting the error propagation theory, this article presents a direct (non-iterative) procedure to assess the uncertainty affecting the unknown parameters starting from the experimental data covariance matrix. To test the reliability of the procedure as well as to prove its applicability to structural problems, the methodology has been applied to two test-bed case studies. Finally, the procedure has been used for the damage assessment in an existing building. The results provided in this article indicate that the procedure can accurately identify the unknown parameters and properly localize and quantify the damage

Investigation of ABO Gene Variants across More Than 60 Pig Breeds and Populations and Other Suidae Species Using Whole-Genome Sequencing Datasets

Polymorphisms in the human ABO gene determine the major blood classification system based on the three well-known forms: A; B; and O. In pigs that carry only two main alleles in this gene (A and O), we still need to obtain a more comprehensive distribution of variants, which could also impact its function. In this study, we mined more than 500 whole-genome sequencing datasets to obtain information on the ABO gene in different Suidae species, pig breeds, and populations and provide (i) a comprehensive distribution of the A and O alleles, (ii) evolutionary relationships of ABO gene sequences across Suidae species, and (iii) an exploratory evaluation of the effect of the different ABO gene variants on production traits and blood-related parameters in Italian Large White pigs. We confirmed that allele O is likely under balancing selection, present in all Sus species investigated, without being fixed in any of them. We reported a novel structural variant in perfect linkage disequilibrium with allele O that made it possible to estimate the evolutionary time window of occurrence of this functional allele. We also identified two single nucleotide polymorphisms that were suggestively associated with plasma magnesium levels in pigs. Other studies can also be constructed over our results to further evaluate the effect of this gene on economically relevant traits and basic biological functions

Mining livestock genome datasets for an unconventional characterization of animal DNA viromes

Whole genome sequencing (WGS) datasets, usually generated for the investigation of the individual animal genome, can be used for additional mining of the fraction of sequencing reads that remains unmapped to the respective reference genome. A significant proportion of these reads contains viral DNA derived from viruses that infected the sequenced animals. In this study, we mined more than 480 billion sequencing reads derived from 1471 WGS datasets produced from cattle, pigs, chickens and rabbits. We identified 367 different viruses among which 14, 11, 12 and 1 might specifically infect the cattle, pig, chicken and rabbit, respectively. Some of them are ubiquitous, avirulent, highly or potentially damaging for both livestock and humans. Retrieved viral DNA information provided a first unconventional and opportunistic landscape of the livestock viromes that could be useful to understand the distribution of some viruses with potential deleterious impacts on the animal food production systems

Shotgun sequencing of honey DNA can describe honey bee derived environmental signatures and the honey bee hologenome complexity

Honey bees are large-scale monitoring tools due to their extensive environmental exploration. In their activities and from the hive ecosystem complex, they get in close contact with many organisms whose traces can be transferred into the honey, which can represent an interesting reservoir of environmental DNA (eDNA) signatures and information useful to analyse the honey bee hologenome complexity. In this study, we tested a deep shotgun sequencing approach of honey DNA coupled with a specifically adapted bioinformatic pipeline. This methodology was applied to a few honey samples pointing out DNA sequences from 191 organisms spanning different kingdoms or phyla (viruses, bacteria, plants, fungi, protozoans, arthropods, mammals). Bacteria included the largest number of species. These multi-kingdom signatures listed common hive and honey bee gut microorganisms, honey bee pathogens, parasites and pests, which resembled a complex interplay that might provide a general picture of the honey bee pathosphere. Based on the Apis mellifera filamentous virus genome diversity (the most abundant detected DNA source) we obtained information that could define the origin of the honey at the apiary level. Mining Apis mellifera sequences made it possible to identify the honey bee subspecies both at the mitochondrial and nuclear genome levels

Whole genome sequencing identifies candidate genes and mutations that can explain diluted and other colour varieties of domestic canaries (Serinus canaria)

The domestic canary (Serinus canaria) is one of the most common pet birds and has been extensively selected and bred over the last few centuries to constitute many different varieties. Plumage pigmentation is one of the main phenotypic traits that distinguish canary breeds and lines. Feather colours in these birds, similarly to other avian species, are mainly depended on the presence of two major types of pigments: carotenoids and melanins. In this study, we exploited whole genome sequencing (WGS) datasets produced from five canary lines or populations (Black Frosted Yellow, Opal, Onyx, Opal × Onyx and Mogno, some of which carrying different putative dilute alleles), complemented with other WGS datasets retrieved from previous studies, to identify candidate genes that might explain pigmentation variability across canary breeds and varieties. Sequencing data were obtained using a DNA pool-seq approach and genomic data were compared using window-based FST analyses. We identified signatures of selection in genomic regions harbouring genes involved in carotenoid-derived pigmentation variants (CYP2J19, EDC, BCO2 and SCARB1), confirming the results reported by previous works, and identified several other signatures of selection in the correspondence of melanogenesis-related genes (AGRP, ASIP, DCT, EDNRB, KITLG, MITF, MLPH, SLC45A2, TYRP1 and ZEB2). Two putative causative mutations were identified in the MLPH gene that may explain the Opal and Onyx dilute mutant alleles. Other signatures of selection were also identified that might explain additional phenotypic differences between the investigated canary populations