Prediction of pine mistletoe infection using remote sensing imaging: A comparison of the artificial neural network model and logistic regression model

In this study, the prediction of pine mistletoe distribution in Scots pine ecosystems was explored using remote sensing variables to compare the multilayer perceptron (MLP) artificial neural network (ANN) and logistic regression (LR) model performances. For this purpose, 109 sample plots were distinguished in pure Scots pine forests (natural) in the Eastern Black Sea Region of Turkey. Distinguishing mistletoe-infected stands (69) and uninfected stands (40) was performed with field observations. The variables acquired from Landsat 8 (Level 1) images were used as independent variables for independent-sample t-test, MLP ANN and LR models. Remote sensing variables indicated that mistletoe-infected stands were in drier areas with a lower vegetation-leaf area index. Based on the performance results of both models, the sensitivity (SEN), specificity (SPE), positive predictive value (PPV), negative predictive value (NPV) and accuracy of the MLP ANN model were superior to those of the LR model. The prediction percentages (SEN, SPE, PPV and NPV) of mistletoe-infected stands were better than the prediction percentages of uninfected stands. The prediction accuracies of LR and MLP ANN models were 74.3% and 89.6%, respectively. However, all remote sensing variables were included in the prediction equation of the MLP ANN model, while the thermal infrared 1 (TIRS1) variable was included in the LR model. In the MLP ANN model, the TIRS1 variable also had the highest normalized importance (100%). The area under the curve (AUC) value for identifying the mistletoe-infected stands of Scots pine forests used by the MLP ANN model (0.892 ± 0.034) was higher than in the LR model (0.838 ± 0.039), explaining the more accurate predictions obtained from the MLP ANN model. The MLP ANN model showed much better performance than the LR model. The results of this study are expected to make important contributions to the identification of potential mistletoe-infected areas.     

Genome-wide association studies of preweaning growth and in vivo carcass composition traits in Esme sheep

Sheep are considered as a major contributor of global food security. Moreover, sheep preweaning growth traits as well as in vivo carcass composition traits such as ultrasonic measurements of Longissimus dorsi muscle depth (UMD) and back-fat thickness (UFD) are crucially important indicators of meat yield and hot carcass composition. Despite their relative importance for productivity and profitability of a sheep production system, detected QTL for these traits are quite scarce. Therefore, we implemented GWAS for these traits using animal mixed model-based association approach provided by GenABEL in Esme sheep. Three genome-wide and 14 individual chromosome-wide associated SNPs were discovered. As a result, ESRP1, LOC105613082, ZNF641, DUSP5, TEAD1, SMOX, PTPRT, RALYL, POM121C, PHIP, LOC101106051, ZIM3, PEG3, TRPC7, FBXL4, LOC105610397, LOC105616489 and DNAAF2 were suggested as candidates. Some of the discovered genes and involved pathways were already annotated to contribute growth and development in various species including human, mice and cattle. All in all, the results of this study are expected to strongly contribute to shed a light on the underlying molecular mechanisms behind growth and carcass composition traits, with potential implications on studies aiming faster genetic improvement, targeted low-resolution SNP panel designs and genome-editing studies.     

Reversible molecular adsorption based on multiple-point interaction by shrinkable gels

A general approach is presented for creating polymer gels that can recognize and capture a target molecule by multiple-point interaction and that can reversibly change their affinity to the target by more than one order of magnitude. The polymers consist of majority monomers that make the gel reversibly swell and shrink and minority monomers that constitute multiple-point adsorption centers for the target molecule. Multiple-point interaction is experimentally proven by power laws found between the affinity and the concentration of the adsorbing monomers within the gels.     

Optimization of a profile extrusion die for flow balance

One of the problems encountered in the extrusion of plastic profiles is unbalanced flow at the die exit. It causes deformation of the extrudates at ambient and precludes the material transition through remaining stages of production process (calibration, cooling sections etc). In this paper, geometric parameters of a profile extrusion die are optimized using several objective function definitions by Simulated Annealing-Kriging Meta-Algorithm. Objective functions are defined based on the uniformity of velocity distribution at the die exit. For this, Computational Fluid Dynamics (CFD) simulations are performed for N=70 die geometries. Appropriate geometric parameters (t and L) of the die are variables for the optimization problem.     

Phylogeny and nomenclature of the genus Talaromyces and taxa accommodated in Penicillium subgenus Biverticillium

The taxonomic history of anamorphic species attributed to Penicillium subgenus Biverticillium is reviewed, along with evidence supporting their relationship with teleomorphic species classified in Talaromyces. To supplement previous conclusions based on ITS, SSU and/or LSU sequencing that Talaromyces and subgenus Biverticillium comprise a monophyletic group that is distinct from Penicillium at the generic level, the phylogenetic relationships of these two groups with other genera of Trichocomaceae was further studied by sequencing a part of the RPB1 (RNA polymerase II largest subunit) gene. Talaromyces species and most species of Penicillium subgenus Biverticilliumsensu Pitt reside in a monophyletic clade distant from species of other subgenera of Penicillium. For detailed phylogenetic analysis of species relationships, the ITS region (incl. 5.8S nrDNA) was sequenced for the available type strains and/or representative isolates of Talaromyces and related biverticillate anamorphic species. Extrolite profiles were compiled for all type strains and many supplementary cultures. All evidence supports our conclusions that Penicillium subgenus Biverticillium is distinct from other subgenera in Penicillium and should be taxonomically unified with the Talaromyces species that reside in the same clade. Following the concepts of nomenclatural priority and single name nomenclature, we transfer all accepted species of Penicillium subgenus Biverticillium to Talaromyces. A holomorphic generic diagnosis for the expanded concept of Talaromyces, including teleomorph and anamorph characters, is provided. A list of accepted Talaromyces names and newly combined Penicillium names is given. Species of biotechnological and medical importance, such as P. funiculosum and P. marneffei, are now combined in Talaromyces. Excluded species and taxa that need further taxonomic study are discussed. An appendix lists other generic names, usually considered synonyms of Penicillium sensu lato that were considered prior to our adoption of the name Talaromyces. TAXONOMIC NOVELTIES: Taxonomic novelties:New species - Talaromyces apiculatus Samson, Yilmaz & Frisvad, sp. nov. New combinationsand names - Talaromyces aculeatus (Raper & Fennell) Samson, Yilmaz, Frisvad & Seifert, T. albobiverticillius (H.-M. Hsieh, Y.-M. Ju & S.-Y. Hsieh) Samson, Yilmaz, Frisvad & Seifert, T. allahabadensis (B.S. Mehrotra & D. Kumar) Samson, Yilmaz & Frisvad, T. aurantiacus (J.H. Mill., Giddens & A.A. Foster) Samson, Yilmaz, & Frisvad, T. boninensis (Yaguchi & Udagawa) Samson, Yilmaz, & Frisvad, T. brunneus (Udagawa) Samson, Yilmaz & Frisvad, T. calidicanius (J.L. Chen) Samson, Yilmaz & Frisvad, T. cecidicola (Seifert, Hoekstra & Frisvad) Samson, Yilmaz, Frisvad & Seifert, T. coalescens (Quintan.) Samson, Yilmaz & Frisvad, T. dendriticus (Pitt) Samson, Yilmaz, Frisvad & Seifert, T. diversus (Raper & Fennell) Samson, Yilmaz & Frisvad, T. duclauxii (Delacr.) Samson, Yilmaz, Frisvad & Seifert, T. echinosporus (Nehira) Samson, Yilmaz & Frisvad, comb. nov. T. erythromellis (A.D. Hocking) Samson, Yilmaz, Frisvad & Seifert, T. funiculosus (Thom) Samson, Yilmaz, Frisvad & Seifert, T. islandicus (Sopp) Samson, Yilmaz, Frisvad & Seifert, T. loliensis (Pitt) Samson, Yilmaz & Frisvad, T. marneffei (Segretain, Capponi & Sureau) Samson, Yilmaz, Frisvad & Seifert, T. minioluteus (Dierckx) Samson, Yilmaz, Frisvad & Seifert, T. palmae (Samson, Stolk & Frisvad) Samson, Yilmaz, Frisvad & Seifert, T. panamensis (Samson, Stolk & Frisvad) Samson, Yilmaz, Frisvad & Seifert, T. paucisporus (Yaguchi, Someya & Udagawa) Samson & Houbraken T. phialosporus (Udagawa) Samson, Yilmaz & Frisvad, T. piceus (Raper & Fennell) Samson, Yilmaz, Frisvad & Seifert, T. pinophilus (Hedgcock) Samson, Yilmaz, Frisvad & Seifert, T. pittii (Quintan.) Samson, Yilmaz, Frisvad & Seifert, T. primulinus (Pitt) Samson, Yilmaz & Frisvad, T. proteolyticus (Kamyschko) Samson, Yilmaz & Frisvad, T. pseudostromaticus (Hodges, G.M. Warner, Rogerson) Samson, Yilmaz, Frisvad & Seifert, T. purpurogenus (Stoll) Samson, Yilmaz, Frisvad & Seifert, T. rademirici (Quintan.) Samson, Yilmaz & Frisvad, T. radicus (A.D. Hocking & Whitelaw) Samson, Yilmaz, Frisvad & Seifert, T. ramulosus (Visagie & K. Jacobs) Samson, Yilmaz, Frisvad & Seifert, T. rubicundus (J.H. Mill., Giddens & A.A. Foster) Samson, Yilmaz, Frisvad & Seifert, T. rugulosus (Thom) Samson, Yilmaz, Frisvad & Seifert, T. sabulosus (Pitt & A.D. Hocking) Samson, Yilmaz & Frisvad, T. siamensis (Manoch & C. Ramírez) Samson, Yilmaz & Frisvad, T. sublevisporus (Yaguchi & Udagawa) Samson, Yilmaz & Frisvad, T. variabilis (Sopp) Samson, Yilmaz, Frisvad & Seifert, T. varians (G. Sm.) Samson, Yilmaz & Frisvad, T. verruculosus (Peyronel) Samson, Yilmaz, Frisvad & Seifert, T. viridulus Samson, Yilmaz & Frisvad.     

Effect of different zinc application methods on grain yield and zinc concentration in wheat cultivars grown on zinc‐deficient calcareous soils

The effect of six different zinc (Zn) application methods on grain yield and concentrations of Zn in whole shoots and grain was studied in wheat cultivars (Triticum aestivum, L. cvs. Gerek‐79, Dagdas‐94 and Bezostaja‐1 and Triticum durum, Desf. cv. Kunduru‐1149) grown on severely Zn‐deficient calcareous soils (DTPA‐extractable Zn: 0.12 mg‐kg^‐1 soil) of Central Anatolia which is the major wheat growing area of Turkey. Zinc application methods tested were: a) control (no Zn application), b) soil, c) seed, d) leaf, e) soil+leaf, and f) seed+leaf applications. Irrespective of the method, application of Zn significantly increased grain yield in all cultivars. Compared to the control, increases in grain yield were about 260% with soil, soil+leaf, and seed+leaf, 204% with seed and 124% with leaf application of Zn. In a similar manner, biomass production (dry weight of above‐ground parts) was increased by Zn treatments. The highest increase (109%) was obtained with the soil application and the lowest increase (40%) with the leaf application. Significant effects of Zn application methods were also found on the yield components, i.e., spike number.m^‐2, grain number‐spike^‐1, and thousand kernel weight. Spike number.m^‐2 was affected most by Zn applications, particularly by soil and soil+leaf applications. Concentrations of Zn in whole shoots and grain were greatly affected by different Zn treatments. In plants without added Zn, concentrations of Zn were about 10 mg‐kg^‐1 both in shoots and grain and increased to 18 mg‐kg^‐1 dry weight (DW) by soil application of Zn, but not affected by seed application of Zn. Soil+leaf application of Zn had the highest increase in concentration of Zn in shoot (82 mg‐kg^‐1 DW) and grain (38 mg‐kg^‐1 DW). Soil application of Zn was economical and had long‐term effects for enhancing grain yield of wheat grown on Zn deficient soils. When high grain yield and high Zn concentration in grains are desired, soil+leaf application of Zn was most effective method of Zn application.