Cross ratios between Dalitz plot amplitudes in three-body D0D^0 decays

A recent study of $D^0 \to \pi^0 K^+ K^-$ and $D^0 \to K_S \pi^+\pi^-$ describes a flavor-symmetric approach to calculate relative amplitudes and phases, for characteristic interferences between $D$ decays to a light pseudoscalar $P$ and a light vector $V$, on Dalitz plots for $D \to PPP$ decays. The flavor-symmetric approach used an earlier fit to $D \to P V$ decay rates and was found to agree fairly well with experiments for $D^0 \to \pi^0 \pi^+ \pi^-$ but not as well for $D^0 \to \pi^0 K^+ K^-$ and $D^0 \to K_S \pi^+\pi^-$. The present work extends this investigation to include $D^0 \to K^- \pi^+ \pi^0$. We use an SU(3) flavor symmetry relationship between ratios of Cabibbo-favored (CF) $D \to P V$ amplitudes in $D^0 \to K^- \pi^+ \pi^0$ and ratios of singly- Cabibbo-suppressed (SCS) $D \to P V$ amplitudes in $D^0 \to \pi^0 K^+ K^-$ and $D^0 \to \pi^0 \pi^+ \pi^-$. We observe that experimental values for Dalitz plot cross ratios obey this relationship up to discrepancies noted previously. The need for an updated Dalitz plot analysis of $D^0 \to K^- \pi^+ \pi^0$ is emphasized.Comment: 9 pages, one figure. Submitted to Phys. Rev. D (Brief Reports). Additional comparisons with previous result

Analysis of Croatian wild and cultivated grapevine diversity by genotyping by sequencing

Minor varieties represent a significant part of the grapevine germplasm (Vitis vinifera L. subsp. vinifera) in Croatia. During the long history of grape cultivation in insular, coastal and continental Croatia, numerous local varieties were cultivated, many of which are still used today. There are also several populations of wild grapevine (Vitis vinifera subsp. sylvestris Hegi Gmel) that have survived until the present in natural sites. Here, we developed a single primer enrichment technology (SPET) panel consisting of 61,308 probes for targeted sequencing of the V. vinifera gene space. In doing so, we examined a total of 28,092 gene models, 88.2% of all predicted genes, interrogating an average of 19 Mb nucleotides per individual genome, which corresponds to 4% of the haploid genome length. This is the first time that SPET-based sequencing has been applied to Croatian grapevine germplasm to generate multilocus genotype data of 126 cultivated accessions and 50 wild specimens. We identified 531,900 variants sites, 208,802 of which reside in coding sequences, 140,836 in introns, 118,416 in UTRs, and 63,424 in the nearby intergenic space that revealed the presence of 33 clonally propagated specimens representing both synonymies and clones within local varieties (22) as well as synonymies between local and international varieties (11), mostly from neighbouring countries. To investigate possible contribution of wild grapevine (Vitis vinifera subsp. sylvestris Hegi Gmel) to the development of present cultivars, four wild grapevine populations were included. None of the cultivated varieties showed close kinship with local wild specimens. This study opens new possibilities for studying the genetic diversity of Croatian grapevine germplasm and provides additional information with respect to SSR genotyping and phenotyping

A Study in Depth of f0(1370)

Claims have been made that f0(1370) does not exist. The five primary sets of data requiring its existence are refitted. Major dispersive effects due to the opening of the 4pi threshold are included for the first time; the sigma -> 4pi amplitude plays a strong role. Crystal Barrel data on pbar-p -> 3pizero at rest require f0(1370) signals of at least 32 and 33 standard deviations in 1S0 and 3P1 annihilation respectively. Furthermore, they agree within 5 MeV for mass and width. Data on pbar-p -> eta-eta-pizero agree and require at least a 19 standard deviation contribution. This alone is sufficient to demonstrate the existence of f0(1370). BES II data for J/Psi -> phi-pi-pi contain a visible f0(1370) signal > 8 standard devations. In all cases, a resonant phase variation is required. The possibility of a second pole in the sigma amplitude due to the opening of the 4pi channel is excluded. Cern-Munich data for pi-pi elastic scattering are fitted well with the inclusion of some mixing between sigma, f0(1370) and f0(1500). The pi-pi widths for f2(1565), rho3(1690), rho3(1990) and f4(2040) are determined.Comment: 25 pages, 22 figures. Typos corrected in Eqs 2 and 7. Introduction rewritten. Conclusions unchange

Two-omics data revealed commonalities and differences between Rpv12- and Rpv3-mediated resistance in grapevine

Plasmopara viticola is the causal agent of grapevine downy mildew (DM). DM resistant varieties deploy effector-triggered immunity (ETI) to inhibit pathogen growth, which is activated by major resistance loci, the most common of which are Rpv3 and Rpv12. We previously showed that a quick metabolome response lies behind the ETI conferred by Rpv3 TIR-NB-LRR genes. Here we used a grape variety operating Rpv12-mediated ETI, which is conferred by an independent locus containing CC-NB-LRR genes, to investigate the defence response using GC/MS, UPLC, UHPLC and RNA-Seq analyses. Eighty-eight metabolites showed significantly different concentration and 432 genes showed differential expression between inoculated resistant leaves and controls. Most metabolite changes in sugars, fatty acids and phenols were similar in timing and direction to those observed in Rpv3-mediated ETI but some of them were stronger or more persistent. Activators, elicitors and signal transducers for the formation of reactive oxygen species were early observed in samples undergoing Rpv12-mediated ETI and were paralleled and followed by the upregulation of genes belonging to ontology categories associated with salicylic acid signalling, signal transduction, WRKY transcription factors and synthesis of PR-1, PR-2, PR-5 pathogenesis-related proteins

Towards an Open Grapevine Information System

Viticulture, like other fields of agriculture, is currently facing important challenges that will be addressed only through sustained, dedicated and coordinated research. Although the methods used in biology have evolved tremendously in recent years and now involve the routine production of large data sets of varied nature, in many domains of study, including grapevine research, there is a need to improve the findability, accessibility, interoperability and reusability (FAIR-ness) of these data. Considering the heterogeneous nature of the data produced, the transnational nature of the scientific community and the experience gained elsewhere, we have formed an open working group, in the framework of the International Grapevine Genome Program (www.vitaceae.org), to construct a coordinated federation of information systems holding grapevine data distributed around the world, providing an integrated set of interfaces supporting advanced data modeling, rich semantic integration and the next generation of data mining tools. To achieve this goal, it will be critical to develop, implement and adopt appropriate standards for data annotation and formatting. The development of this system, the GrapeIS, linking genotypes to phenotypes, and scientific research to agronomical and oeneological data, should provide new insights into grape biology, and allow the development of new varieties to meet the challenges of biotic and abiotic stress, environmental change, and consumer demand

A chromosome-scale assembly reveals chromosomal aberrations and exchanges generating genetic diversity in Coffea arabica germplasm

In order to better understand the mechanisms generating genetic diversity in the recent allotetraploid species Coffea arabica, here we present a chromosome-level assembly obtained with long read technology. Two genomic compartments with different structural and functional properties are identified in the two homoeologous genomes. The resequencing data from a large set of accessions reveals low intraspecific diversity in the center of origin of the species. Across a limited number of genomic regions, diversity increases in some cultivated genotypes to levels similar to those observed within one of the progenitor species, Coffea canephora, presumably as a consequence of introgressions deriving from the so-called Timor hybrid. It also reveals that, in addition to few, early-occurring exchanges between homoeologous chromosomes, there are numerous recent chromosomal aberrations including aneuploidies, deletions, duplications and exchanges. These events are still polymorphic in the germplasm and could represent a fundamental source of genetic variation in such a lowly variable species

Genetic Mapping of the Incompatibility Locus in Olive and Development of a Linked Sequence-Tagged Site Marker

The genetic control of self-incompatibility (SI) has been recently disclosed in olive. Inter-varietal crossing confirmed the presence of only two incompatibility groups (G1 and G2), suggesting a simple Mendelian inheritance of the trait. A double digest restriction associated DNA (ddRAD) sequencing of a biparental population segregating for incompatibility groups has been performed and high-density linkage maps were constructed in order to map the SI locus and identify gene candidates and linked markers. The progeny consisted of a full-sib family of 229 individuals derived from the cross \u2018Leccino\u2019 (G1) 7 \u2018Dolce Agogia\u2019 (G2) varieties, segregating 1:1 (G1:G2), in accordance with a diallelic self-incompatibility (DSI) model. A total of 16,743 single nucleotide polymorphisms was identified, 7,006 in the female parent \u2018Leccino\u2019 and 9,737 in the male parent \u2018Dolce Agogia.\u2019 Each parental map consisted of 23 linkage groups and showed an unusual large size (5,680 cM in \u2018Leccino\u2019 and 3,538 cM in \u2018Dolce Agogia\u2019). Recombination was decreased across all linkage groups in pollen mother cells of \u2018Dolce Agogia,\u2019 the parent with higher heterozygosity, compared to megaspore mother cells of \u2018Leccino,\u2019 in a context of a species that showed exceptionally high recombination rates. A subset of 109 adult plants was assigned to either incompatibility group by a stigma test and the diallelic self-incompatibility (DSI) locus was mapped to an interval of 5.4 cM on linkage group 18. This region spanned a size of approximately 300 Kb in the olive genome assembly. We developed a sequence-tagged site marker in the DSI locus and identified five haplotypes in 57 cultivars with known incompatibility group assignment. A combination of two single-nucleotide polymorphisms (SNPs) was sufficient to predict G1 or G2 phenotypes in olive cultivars, enabling early marker-assisted selection of compatible genotypes and allowing for a rapid screening of inter-compatibility among cultivars in order to guarantee effective fertilization and increase olive production. The construction of high-density linkage maps has led to the development of the first functional marker in olive and provided positional candidate genes in the SI locus

First Observation of the Doubly Charmed Baryon Xi_cc^+

We observe a signal for the doubly charmed baryon Xi_cc^+ in the charged decay mode Xi_cc^+ --> Lambda_c^+ K- pi+ in data from SELEX, the charm hadro-production experiment at Fermilab. We observe an excess of 15.9 events over an expected background of 6.1 +/- 0.5 events, a statistical significance of 6.3sigma. The observed mass of this state is (3519 +/- 1) MeV/c^2. The Gaussian mass width of this state is 3MeV/c^2, consistent with resolution; its lifetime is less than 33fsec at 90% confidence.Comment: 5 pages, 3 figures, accepted for publication in Physical Review Letter

First observation of a narrow charm-strange meson DsJ(2632) -> Ds eta and D0 K+

We report the first observation of a charm-strange meson DsJ(2632) at a mass of 2632.6+/-1.6 MeV/c^2 in data from SELEX, the charm hadro-production experiment E781 at Fermilab. This state is seen in two decay modes, Ds eta and D0 K+. In the Ds eta decay mode we observe an excess of 49.3 events with a significance of 7.2sigma at a mass of 2635.9+/-2.9 MeV/c^2. There is a corresponding peak of 14 events with a significance of 5.3sigma at 2631.5+/-1.9 MeV/c^2 in the decay mode D0 K+. The decay width of this state is <17 MeV/c^2 at 90% confidence level. The relative branching ratio Gamma(D0K+)/Gamma(Dseta) is 0.16+/-0.06. The mechanism which keeps this state narrow is unclear. Its decay pattern is also unusual, being dominated by the Ds eta decay mode.Comment: 5 pages, 3 included eps figures. v2 as accepted for publication by PR