Natural genetic diversity of nutritive value traits in the genus Cynodon

The Cynodon spp. collection maintained by United States Department of Agriculture National Plant Germplasm System (USDA-NPGS) has limited information on nutritive value (NV) traits. In this study, crude protein (CP), phosphorous concentration (P), in vitro digestible organic matter (IVDOM), and neutral detergent fiber (NDF) were determined to (i) estimate genetic parameters for NV, (ii) obtain genetic values for the whole population across two harvests, (iii) estimate genotype by harvest interaction (GHI) for NV traits, and (iv) select accessions exhibiting improved NV traits compared to ‘Tifton 850 . The experiment was setup as a row-column design with two replicates and augmented representation of controls: Tifton 85, ‘Jiggs’, and ‘Coastal’. The whole-population was harvested twice, and data were analyzed using linear mixed models with repeated measures. In addition, a selected population of 15 genotypes were evaluated across 11 harvests to determine the extent of GHI. Genetic parameters revealed the presence of significant genetic variability, indicating potential improvements for NV through breeding. Specifically, P and IVDOM presented large variation, while NDF had lower diversity but some accessions exhibited lower NDF than Tifton 85. Low GHI, except for IVDOM, indicated genotypic stability and potential for selecting improved accessions under fewer harvests. Breeding line 240, PI-316510, and PI-3166536 presented superior NV than Tifton 85

Strong Discontinuities in the Complex Photonic Band Structure of Transmission Metallic Gratings

Complex photonic band structures (CPBS) of transmission metallic gratings with rectangular slits are shown to exhibit strong discontinuities that are not evidenced in the usual energetic band structures. These discontinuities are located on Wood's anomalies and reveal unambiguously two different types of resonances, which are identified as horizontal and vertical surface-plasmon resonances. Spectral position and width of peaks in the transmission spectrum can be directly extracted from CPBS for both kinds of resonances.Comment: 4 pages, 4 figures, REVTeX version

Diagnostic procedures for non-small-cell lung cancer (NSCLC): recommendations of the European Expert Group

Background There is currently no Europe-wide consensus on the appropriate preanalytical measures and workflow to optimise procedures for tissue-based molecular testing of non-small-cell lung cancer (NSCLC). To address this, a group of lung cancer experts (see list of authors) convened to discuss and propose standard operating procedures (SOPs) for NSCLC. Methods Based on earlier meetings and scientific expertise on lung cancer, a multidisciplinary group meeting was aligned. The aim was to include all relevant aspects concerning NSCLC diagnosis. After careful consideration, the following topics were selected and each was reviewed by the experts: surgical resection and sampling; biopsy procedures for analysis; preanalytical and other variables affecting quality of tissue; tissue conservation; testing procedures for epidermal growth factor receptor, anaplastic lymphoma kinase and ROS proto-oncogene 1, receptor tyrosine kinase (ROS1) in lung tissue and cytological specimens; as well as standardised reporting and quality control (QC). Finally, an optimal workflow was described. Results Suggested optimal procedures and workflows are discussed in detail. The broad consensus was that the complex workflow presented can only be executed effectively by an interdisciplinary approach using a well-trained team. Conclusions To optimise diagnosis and treatment of patients with NSCLC, it is essential to establish SOPs that are adaptable to the local situation. In addition, a continuous QC system and a local multidisciplinary tumour-type-oriented board are essential

Surface plasmon polaritons on narrow-ridged short-pitch metal gratings

Ian R. Hooper and J. Roy Sambles, Physical Review B, Vol. 66, article 205408 (2002). "Copyright © 2002 by the American Physical Society."The reflectivity of short pitch metal gratings consisting of a series of narrow Gaussian ridges in the classical mount has been modeled as a function of frequency and in-plane wave vector (the plane of incidence containing the grating vector) for various ridge heights. Surface plasmon polaritons (SPP’s) are found to be excited even in the zero-order region of the spectrum. These may result in strong absorption of radiation polarized with its electric field in the plane of incidence (transverse magnetic). For zero in-plane wave vector the SPP modes consist of a symmetric charge distribution on either side of the grating ridges, a family of these modes existing with different numbers of field maxima per grating period. Because of the charge symmetry these modes may only be coupled to at angles away from normal incidence where strong resonant absorption may then occur. The dispersion of these SPP modes as a function of the in-plane wave vector is found to be complex arising from the formation of very large band gaps due to the harmonic content of the grating profile, the creation of a pseudo high-energy mode, and through strong interactions between different SPP bands

SAUL, a single-arm study of atezolizumab for chemotherapy-pretreated locally advanced or metastatic carcinoma of the urinary tract: outcomes by key baseline factors, PD-L1 expression and prior platinum therapy

Background The impact of pretreatment factors on immune checkpoint inhibition in platinum-refractory advanced urothelial cancer (aUC) deserves further evaluation. The aim was to study the association of Bellmunt risk factors, time from last chemotherapy (TFLC), previous therapy and PD-L1 expression with atezolizumab efficacy in platinum-refractory aUC. Patients and methods This was a post-hoc analysis of patients who had received prior cisplatin or carboplatin in the prospective, single-arm, phase IIIb SAUL study (NCT02928406). Patients were treated with 3-weekly atezolizumab 1200 mg intravenously. The primary outcome was overall survival (OS). Relationships were analysed using Cox regression and long-rank test. Results Of 997 patients in SAUL, 969 were eligible for this analysis. The number of Bellmunt risk factors was associated with OS (P 6 months, 7.75 versus 11.6 months for PD-L1 expression on <1% of tumour-infiltrating immune cells (ICs) (IC0)/expression on 1% to <5% of tumour-infiltrating ICs (IC1) versus expression on ≥5% of tumour-infiltrating ICs (IC2/3) and 10.2 versus 7.8 months for prior versus no prior perioperative chemotherapy, respectively. The type of platinum compound and number of previous treatment lines were not associated with outcomes. Conclusions Post-platinum atezolizumab is active in aUC, irrespective of previous platinum compound and lines of therapy. Bellmunt risk stratification, PD-L1 expression, TFLC and perioperative chemotherapy were identified as prognostic factors for OS with second-line atezolizumab, indicating the need for novel prognostic signatures for immunotherapy-treated patients with aUC

Release of a New Forage Bermudagrass Cultivar from the USDA-NPGS Cynodon Collection

Warm-season perennial grasses are the backbone of the pasture-based livestock industry in the southeastern USA. In Florida specifically, bahiagrass (Paspalum notatum Flugge) and bermudagrass (Cynodon spp.) support 1 million head of cattle and 15,000 beef cattle operations. Bermudagrass is the most widely planted forage species in the southeastern USA, planted in approximately 15 million ha and used for grazing, hay and silage. The genus Cynodon is native to southern Africa and germplasm collections have revealed a high degree of genetic variability within the genus. The United States Department of Agriculture National Plant Germplasm System (USDA-NPGS) maintains a collection of bermudagrass plant introduction (PIs) in Griffin, GA, USA and the USDA Georgia Coastal Plains Experiment Station, Tifton, GA, maintains additional forage germplasm. Multi-location trials were established in 2014 in four states (FL, GA, NC and OK) to screen the collection for herbage accumulation (HA) and nutritive value (NV). Due to the large genotype by environment interaction for HA across states, we focused on selecting accessions adapted to South Georgia and Florida. Several PIs showed improved HA and NV compared to ‘Tifton 85’ across several trials and years. Particularly, PI 316510 produced high HA in Citra, FL and Tifton, GA, had improved NV traits, and faster establishment compared to Tifton 85. We confirmed that PI 316510 is tetraploid by chromosome counts and flow cytometry. The PI 316510 has been released by the University of Florida under the name “Newell”

New prognostic model in patients with advanced urothelial carcinoma treated with second-line immune checkpoint inhibitors

Background: Bellmunt Risk Score, based on Eastern Cooperative Oncology Group (ECOG) performance status (PS), hemoglobin levels and presence of liver metastases, is the most established prognostic algorithm for patients with advanced urothelial cancer (aUC) progressing after platinum-based chemotherapy. Nevertheless, existing algorithms may not be sufficient following the introduction of immunotherapy. Our aim was to develop an improved prognostic model in patients receiving second-line atezolizumab for aUC. Methods: Patients with aUC progressing after cisplatin/carboplatin-based chemotherapy and enrolled in the prospective, single-arm, phase IIIb SAUL study were included in this analysis. Patients were treated with 3-weekly atezolizumab 1200 mg intravenously. The development and internal validation of a prognostic model for overall survival (OS) was performed using Cox regression analyses, bootstrapping methods and calibration. Results: In 936 patients, ECOG PS, alkaline phosphatase, hemoglobin, neutrophil-to-lymphocyte ratio, liver metastases, bone metastases and time from last chemotherapy were identified as independent prognostic factors. In a 4-tier model, median OS for patients with 0–1, 2, 3–4 and 5–7 risk factors was 18.6, 10.4, 4.8 and 2.1 months, respectively. Compared with Bellmunt Risk Score, this model provided enhanced prognostic separation, with a c-index of 0.725 vs 0.685 and increment in c-statistic of 0.04 (p<0.001). Inclusion of PD-L1 expression did not improve the model. Conclusions: We developed and internally validated a prognostic model for patients with aUC receiving postplatinum immunotherapy. This model represents an improvement over the Bellmunt algorithm and could aid selection of patients with aUC for second-line immunotherapy. Trial registration number: NCT02928406

The little skate genome and the evolutionary emergence of wing-like fins

Skates are cartilaginous fish whose body plan features enlarged wing-like pectoral fins, enabling them to thrive in benthic environments1,2. However, the molecular underpinnings of this unique trait remain unclear. Here we investigate the origin of this phenotypic innovation by developing the little skate Leucoraja erinacea as a genomically enabled model. Analysis of a high-quality chromosome-scale genome sequence for the little skate shows that it preserves many ancestral jawed vertebrate features compared with other sequenced genomes, including numerous ancient microchromosomes. Combining genome comparisons with extensive regulatory datasets in developing fins—including gene expression, chromatin occupancy and three-dimensional conformation—we find skate-specific genomic rearrangements that alter the three-dimensional regulatory landscape of genes that are involved in the planar cell polarity pathway. Functional inhibition of planar cell polarity signalling resulted in a reduction in anterior fin size, confirming that this pathway is a major contributor to batoid fin morphology. We also identified a fin-specific enhancer that interacts with several hoxa genes, consistent with the redeployment of hox gene expression in anterior pectoral fins, and confirmed its potential to activate transcription in the anterior fin using zebrafish reporter assays. Our findings underscore the central role of genome reorganization and regulatory variation in the evolution of phenotypes, shedding light on the molecular origin of an enigmatic trait