Detecting population structure and recent demographic history in endangered livestock breeds: the case of the Italian autochthonous donkeys

Since its domestication, about 5000 years ago, the donkey (Equus asinus) has been extensively used as a work or draft animal in agricultural activities and for the transportation of people and goods. In the last century, technology improvement and growing mechanization strongly affected agriculture and the management and use of this livestock species in the industrialized countries. Nowadays, the use of donkeys for work or transport has almost disappeared, together with the need for mules or hinny breeding. During the last five decades, Italian autochthonous donkey populations suffered from a severe reduction in population size, which led to the extinction of several breeds. At present, eight breeds remain, all classified by FAO as critically endangered or endangered: Asinara, Pantesco, Grigio Siciliano, Romagnolo, Amiatino, Sardo Grigio, Martina Franca, and Ragusano. To evaluate the extant genetic variability of Italian donkeys, we typed 16 microsatellite loci in 258 individuals from these breeds. The results highlighted moderate levels of inbreeding ( F _IS = 0.127) and a significant partition of genetic variation into breeds, as suggested by fixation index ( F _ST = 0.109) and analysis of molecular variance (10.86% of total variation assigned to the between‐breeds level) analyses. This was confirmed by a Bayesian clustering procedure that also highlighted a further partitioning at lower hierarchical levels corresponding to the farms of origin. This evidence suggests that an effective management strategy for Italian donkey populations should focus on breeds as conservation units. However, this requires a synergic management strategy at the farm level to maintain diversity and avoid inbreeding.     

Bronchial carcinoma and image analysis. Differentiation between poorly differentiated epidermoid carcinoma and small-cell carcinoma

The utility of automated image analysis in the distinction between poorly differentiated epidermoid carcinoma (eight cases) and small-cell carcinoma (ten cases) was studied. Material obtained using the bronchial brushing technique was prepared by a cytocentrifugation technique. In each case, a total of 100 bronchial cell nuclei were selected using the Leitz TAS, which measured eight parameters per cell in order to ascertain the homogeneity or the heterogeneity of the nuclear populations. Except for one sample exhibiting preparation artifacts, the method proved capable of differentiating between these two types of bronchial carcinoma, with heterogeneity of the malignant nuclei indicating an epidermoid carcinoma and homogeneity indicating a small-cell carcinoma. A correlation was observed to exist between the morphologic and the morphometric criteria.     

寨卡病毒检测研究进展

寨卡病毒病是近年来在非洲、亚洲、南美洲等地流行的一种隐性传染病.该病由寨卡病毒(Zika virus,ZIKV)感染导致,虽然患者或携带者的病情并不明显,或在短期内很难察觉.但由于近些年来的突然流行,患者数目的 急剧增加,而且各国间贸易往来愈加繁荣,亦加快了该疾病流行的步伐.疾病的防治离不开确切的诊断,如何快速、准确检测出寨卡病毒不容小觑,是急需解决的世界性难题之一.     

新疆塔里木柯坪地区上奥陶统凯迪阶串管海绵类化石及其滤食选择性探讨北大核心

奥陶纪是串管海绵早期演化的一个关键阶段,记录了该类群的首次大规模辐射演化事件(属级分类单元达15个)。然而,现有大部分奥陶系串管海绵的报道来自澳大利亚东部和北美等地,在中国至今仅发现了两个属,与前述地区相比研究程度偏低。早期研究主要基于形态学特征对串管海绵进行系统分类描述,对其滤食策略知之甚少,因此制约了对此类海绵在奥陶纪底栖生态系统作用的相关探讨。本文系新疆塔里木柯坪地区奥陶纪串管海绵的首次系统古生物学报道,详细描述凯迪阶(上奥陶统)印干组中保存完好的阔室丛花海绵(Corymbospongia amplia)化石的形态学特征,并通过研究标本外壁微孔孔径的大小分布,探讨其滤食选择性。海绵外壁微孔孔径的分析表明:小型和微型浮游生物可能是其食物的主要来源,而多细胞浮游动物因个体尺寸大于海绵外壁微孔,不能被阔室丛花海绵捕获。本研究为奥陶纪串管海绵古生态学及其地球生物学意义的探讨提供了进一步的依据。     

Genomic clues of the evolutionary history of Bos indicus cattle

Together with their sister subspecies Bos taurus, zebu cattle (Bos indicus) have contributed to important socioeconomic changes that have shaped modern civilizations. Zebu cattle were domesticated in the Indus Valley 8000 years before present (YBP). From the domestication site, they expanded to Africa, East Asia, southwestern Asia and Europe between 4000 and 1300 YBP, intercrossing with B. taurus to form clinal variations of zebu ancestry across the landmass of Afro‐Eurasia. In the past 150 years, zebu cattle reached the Americas and Oceania, where they have contributed to the prosperity of emerging economies. The zebu genome is characterized by two mitochondrial haplogroups (I1 and I2), one Y chromosome haplogroup (Y3) and three major autosomal ancestral groups (Indian‐Pakistani, African and Chinese). Phenotypically, zebu animals are recognized by their hump, large ears and excess skin. They are rustic, resilient to parasites and capable of bearing the hot and humid climates of the tropics. Many resources are available to study the zebu genome, including commercial arrays of SNP, reference assemblies and publicly available genotypes and whole‐genome sequences. Nevertheless, many of these resources were initially developed to support research and subsidize industrial applications in B. taurus, and therefore they can produce bias in data analysis. The combination of genomics with precision agriculture holds great promise for the identification of genetic variants affecting economically important traits such as tick resistance and heat tolerance, which were naturally selected for millennia and played a major role in the evolution of B. indicus cattle.     

Automated cytopathologic diagnosis of bronchial carcinoma. II. Preliminary results of classifying cytocentrifuged bronchial brushings

An automated discrimination between healthy and neoplastic bronchial cells was performed on eight bronchial smears prepared by cytocentrifugation. An image analyzer was used to examine 415 cells in these smears. The nuclear surface of each cell was measured, as was the total integrated optical density for 25 programmed thresholds. The results show that it is possible to distinguish healthy from cancerous cells in a given subject using these two measured parameters and two new parameters deduced mathematically. It appears difficult, however, to demonstrate a typical healthy and typical cancerous bronchial cell that could be used as a reference for all subjects. It is thus the presence of cell heterogeneity in a given subject that enables him or her to be characterized as healthy or having cancer.     

A study of the rheological properties of a non-Newtonian fermentation broth

Polysaccharide was synthesized by Aureobasidium pullulans (or Pullularia pullulans) 2552 in a sucrose medium. The field apparent viscosity of the culture medium from shake flask experiments rose to 24,500 cP and then dropped toward its initial value as the fermentation progressed. The magnitude of the maximum apparent viscosity depended on the initial pH of the fermentation broth. The inoculum age influenced the cultivation period before which the maximum viscosity was reached. Rheograms of the fermentation broths showed a change in viscosity behavior from Newtonian to pseudoplastic, and then toward Newtonian characteristics during the fermentation. The calculated non-Newtonian index was found to be a sensitive factor for the indication of the non-Newtonian behavior. Such behavior could not be detected from rheograms. Viscosity profiles of polysaccharide isolated from various stages of the fermentation showed a change from Newtonian to pseudoplastic behavior depending on the concentration (0–2%) of polysaccharide.     

Multilocus genotypic data reveal high genetic diversity and low population genetic structure of Iranian indigenous sheep

Iranian livestock diversity is still largely unexplored, in spite of the interest in the populations historically reared in this country located near the Fertile Crescent, a major livestock domestication centre. In this investigation, the genetic diversity and differentiation of 10 Iranian indigenous fat‐tailed sheep breeds were investigated using 18 microsatellite markers. Iranian breeds were found to host a high level of diversity. This conclusion is substantiated by the large number of alleles observed across loci (average 13.83, range 7–22) and by the high within‐breed expected heterozygosity (average 0.75, range 0.72–0.76). Iranian sheep have a low level of genetic differentiation, as indicated by the analysis of molecular variance, which allocated a very small proportion (1.67%) of total variation to the between‐population component, and by the small fixation index (F_ST = 0.02). Both Bayesian clustering and principal coordinates analysis revealed the absence of a detectable genetic structure. Also, no isolation by distance was observed through comparison of genetic and geographical distances. In spite of high within‐breed variation, signatures of inbreeding were detected by the F_IS indices, which were positive in all and statistically significant in three breeds. Possible factors explaining the patterns observed, such as considerable gene flow and inbreeding probably due to anthropogenic activities in the light of population management and conservation programmes, are discussed.