Analyses of Twelve New Whole Genome Sequences of Cassava Brown Streak Viruses and Ugandan Cassava Brown Streak Viruses from East Africa: Diversity,Supercomputing and Evidence for Further Speciation

Cassava brown streak disease is caused by two devastating viruses, Cassava brown streak virus (CBSV) and Ugandan cassava brown streak virus (UCBSV) which are frequently found infecting cassava, one of sub-Saharan Africa’s most important staple food crops. Each year these viruses cause losses of up to $100 million USD and can leave entire families without their primary food source, for an entire year. Twelve new whole genomes, including seven of CBSV and five of UCBSV were uncovered in this research, doubling the genomic sequences available in the public domain for these viruses. These new sequences disprove the assumption that the viruses are limited by agro-ecological zones, show that current diagnostic primers are insufficient to provide confident diagnosis of these viruses and give rise to the possibility that there may be as many as four distinct species of virus. Utilizing NGS sequencing technologies and proper phylogenetic practices will rapidly increase the solution to sustainable cassava production.     

A Screening Method for Detecting Resistance Against Cassava Bacterial Blight Disease

Inoculation of the cassava bacterial blight (CBB) pathogen by using a modified pair of tongs on cassava shoots (1-month-old) in the glasshouse and in the field resulted in symptoms within 24-48 h on susceptible cassava lines ‘02864’ and ‘M'pelolongi’. Gum exudates on inoculated young stems and die-back appeared 7-12 and 20-25 days later, respectively. No symptoms of CBB were observed on cv. ‘Kadanga Malombe’. Symptom development and CBB ratings on 3-month-old cassava shoots in the glasshouse and inthe field were not consistent. Inoculation of CBB pathogen on 521 cassava shoots (1-month-old) using the tongs method gave 81 and 82 resistant and moderately resistant plants to CBB, respectively. The tongs method is an excellent field-screening technique for detecting resistance to CBB on 1-month-old cassava shoots.     

小麦品种梭条花叶病抗性基因遗传分析及分子标记筛选

选用3个抗梭条花叶病的小麦品种“仪宁小麦”、“徐87633”和“西风”为抗病亲本、以感病品种“镇9523”为感病亲本配制了3个杂交组合,对4个亲本及其杂种后代(F1及F2代)单株的田间抗病鉴定表明,3个抗病亲本的抗性均由核基因控制,为显性遗传方式。“仪宁小麦”和“西风”的抗性受两对表现互补效应的显性基因控制;“徐87633”的抗性受一对显性基因控制。选取涉及小麦21条染色体上的266对SSR引物在“仪宁小麦”和“镇9523”间进行筛选,其中108对引物在两亲本间表现多态。根据“仪宁小麦”ד镇9523”F2代单株的田间抗病鉴定结果,采用BSA的方法,将已初筛的108对引物在抗、感池间进行扩增,发现引物Xgwm261在抗、感池间表现多态,表明该引物与“仪宁小麦”的抗病基因连锁,并将该抗病位点初步定位于2DS上。用该标记对F2代224个单株进行PCR扩增,根据扩增结果,采用Mapmaker3.0软件计算遗传距离,结果显示,该标记与抗病位点间的遗传距离为22.9cM。     

Stromal Transcriptional Profiles Reveal Hierarchies of Anatomical Site,Serum Response and Disease and Identify Disease Specific Pathways

Synovial fibroblasts in persistent inflammatory arthritis have been suggested to have parallels with cancer growth and wound healing, both of which involve a stereotypical serum response programme. We tested the hypothesis that a serum response programme can be used to classify diseased tissues, and investigated the serum response programme in fibroblasts from multiple anatomical sites and two diseases. To test our hypothesis we utilized a bioinformatics approach to explore a publicly available microarray dataset including rheumatoid arthritis (RA), osteoarthritis (OA) and normal synovial tissue, then extended those findings in a new microarray dataset representing matched synovial, bone marrow and skin fibroblasts cultured from RA and OA patients undergoing arthroplasty. The classical fibroblast serum response programme discretely classified RA, OA and normal synovial tissues. Analysis of low and high serum treated fibroblast microarray data revealed a hierarchy of control, with anatomical site the most powerful classifier followed by response to serum and then disease. In contrast to skin and bone marrow fibroblasts, exposure of synovial fibroblasts to serum led to convergence of RA and OA expression profiles. Pathway analysis revealed three inter-linked gene networks characterising OA synovial fibroblasts: Cell remodelling through insulin-like growth factors, differentiation and angiogenesis through _3 integrin, and regulation of apoptosis through CD44. We have demonstrated that Fibroblast serum response signatures define disease at the tissue level, and that an OA specific, serum dependent repression of genes involved in cell adhesion, extracellular matrix remodelling and apoptosis is a critical discriminator between cultured OA and RA synovial fibroblasts.     

The Relative Resistance of Cassava Cultivars to African Cassava Mosaic Disease (ACMD) as Determined by Two Methods: Rank-Sum and the Area Under the Disease Progress Curve

Twenty-five newly bred improved cassava cultivars, twenty-three improved from the International Institute of Tropical Agriculture and two local cultivars were evaluated for their relative resistance to African cassava mosaic begomovirus disease (ACMD) at Ibadan, in an area of high disease pressure representative of the forest/savanna transition zone of Nigeria. These cultivars were exposed to natural infection by the viruliferous whiteflies ( Bemisia tabaci Gennadius) and the disease incidence (DI) and index of symptom severity (ISS) were assessed for all clones. Results for the Rank-sum (i.e., sum of ranks for DI and ISS for each cultivar) and the area under the disease progress curve (AUDPC) were used to assess the relative resistance of the cassava clones. Those that showed low Rank-sum and AUDPC values were rated 'moderately resistant (MR)', 'resistant ( R )', and 'highly resistant (HR)' to ACMD depending on their respective values and deviation from the mean distribution curve. Clones M94/0121 and 94/0239 were rated HR under the two methods. Clone M94/0583 was rated HR under the AUDPC with a deviation from the mean distribution curve of m 2.00 while it was rated R under the Rank-sum method with a deviation from the mean distribution of m 1.99. Also plants of clones ISU and TMS 30572 were rated highly susceptible (HS) under both methods. Clone TME-1 was intermediate between Moderately resistant (MR) and Moderately susceptible (MS) under the AUDPC method with a deviation from the mean distribution of 0.00 but observed to be MS under the Rank-sum method with a deviation of + 0.2. The two methods of evaluation gave similar results as revealed by Spearman rank correlation ( r equals; 0.99, P <0.01). However, the AUDPC method is less cumbersome compared to the Rank-sum method. None of the clones was observed to be immune to the disease.     

茶树种质资源抗病性鉴定

１９８７～１９９５年开展了茶树种质资源抗病性鉴定研究．经田间和室内鉴定试验,从３４份资源材料中筛选出对茶轮斑病高抗材料１份,抗性材料１１份;从３０份资源材料中筛选出对茶苗根结线虫病高抗材料５份,抗性材料１３份．从而为抗病育种或推广生产提供了抗源材料,同时也为抗性机制及遗传规律研究提供了基础．     

Identification of a Strain of Peanut Chlorotic Streak Virus Causing Chlorotic Vein Banding Disease of Groundnut in India

A virus disease characterized by chlorotic vein banding, chlorotic line pattern along the margins or midrib of mature leaflets and chlorotic spots/rings was observed on commercial groundnut crops in Rayalaseema area of Andhra Pradesh with an incidence from 1% to nearly 60%. The virus was transmitted by mechanical inoculation in extracts prepared with 0.01 M potassium phosphate butter, pH 8.0 to 21 species from the Chenopodiaceae, Cruciferae, Leguminosae and Solanaceae, Chenopodium quinoa was found to be a good local lesion host. The virus was neither seed-transmitted through 1591 groundnut seeds nor aphid-transmitted by Aphis craccivora, Myzus persicae and Rhopalosiphum maidis either in non-persistent or semi-persistent manner. The virus remained infective in buffered tobacco leaf sap at a dilution of 10^?5; in a 10^?1 dilution of buffered sap the virus was infective for 2–3 days at 22–29°C or when heated to 65°C for 10 min but not to 70°C. Clarification treatments with organic solvents with 10% chloroform was least damaging. The virus was purified from Nicotiana rustica leaves. Purified virus contained isometric particles of 51 nm in diameter with an electron dense core of 22 nm and two major polypeptides of 76 kDa and 36 kDa. A polyclonal antiserum to this virus was produced. In agar gel double diffusion, enzyme-linked immunosorbent assay and in electro-blot immunoassay rests the virus was related to peanut chlorotic streak virus and not to cauliflower mosaic, figwort mosaic and soybean chlorotic mottle viruses.     

Identification of Sources of Resistance to Four Species of Root-knot Nematodes in Tobacco

Resistance to the southern root-knot nematode, Meloidogyne incognita races 1 and 3, has been identified, incorporated, and deployed into commercial cultivars of tobacco, Nicotiana tabacum. Cultivars with resistance to other economically important root-knot nematode species attacking tobacco, M. arenaria, M. hapla, M. javanica, and other host-specific races of M. incognita, are not available in the United States. Twenty-eight tobacco genotypes of diverse origin and two standard cultivars, NC 2326 (susceptible) and Speight G 28 (resistant to M. incognita races 1 and 3), were screened for resistance to eight root-knot nematode populations of North Carolina origin. Based on root gall indices at 8 to 12 weeks after inoculation, all genotypes except NC 2326 and Okinawa were resistant to M. arenaria race 1, and races 1 and 3 of M. incognita. Except for slight root galling, genotypes resistant to M. arenaria race 1 responded similarly to races 1 and 3 of M. incognita. All genotypes except NC 2326, Okinawa, and Speight G 28 showed resistance to M. javanica. Okinawa, while supporting lower reproduction of M. javanica than NC 2326, was rated as moderately susceptible. Tobacco breeding lines 81-R-617A, 81-RL- 2K, SA 1213, SA 1214, SA 1223, and SA 1224 were resistant to M. arenaria race 2, and thus may be used as sources of resistance to this pathogen. No resistance to M. hapla and only moderate resistance to races 2 and 4 of M. incognita were found in any of the tobacco genotypes. Under natural field infestations of M. arenaria race 2, nematode development on resistant tobacco breeding lines 81-RL-2K, SA 1214, and SA 1215 was similar to a susceptible cultivar with some nematicide treatments; however, quantity and quality of yield were inferior compared to K 326 plus nematicides.     

The Transcriptional and Functional Properties of Mouse Epiblast Stem Cells Resemble the Anterior Primitive Streak

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Resistance Gene Analogues as a Tool for Rapid Identification and Cloning of Disease Resistance Genes in Plants 3 A Review

Most of the disease resistance genes (R-genes) discovered in plants have conserved functional domains, predominantly among them are nucleotide binding sites (NBS) and leucine rich repeats (LRR). The sequence information of the conserved domains can be invariably used to mine similar sequences from other plant species, using degenerate and specific primers for their amplification in a polymerase chain reaction. Such derived sequences, known as Resistance Gene Analogues (RGAs), can serve as molecular markers for rapid identification and isolation of R-genes. Besides, they can also provide clues about the evolutionary mechanism of resistance genes and the interaction involved in pathogen recognition. In the recent years, this sequence-homology based approach has been used extensively for the cloning and mapping of RGAs in cereals, pulses, oilseeds, coffee, spices, forest trees and horticultural crops. In this article, the current status of cloning of RGAs from different crops has been reviewed. A general method of RGA cloning and its modifications like NBS-profiling and AFLP-NBS have also been discussed along with examples. Further, it has been suggested that the RGAs cloned in various crops would be a useful genomic resource for developing cultivars with durable resistance to diseases in different crop breeding programmes.     

Effect of Heat Shock on the mRNA-Directed Disease Resistance Response of Peas

Pea tissue `heat shocked' for 2 hours at 40°C accumulates mRNAs that code for a series of new proteins called heat shock proteins. A different messenger RNA population, which codes for a high level of 20 or more `resistance proteins,' accumulates in pea tissue as it resists plant pathogenic fungi. Heat shock treatment applied prior to fungal inoculation prevents the high level accumulation of messenger RNA coding for the 20 resistance proteins and blocks disease resistance. If the resistance response is initiated before the heat shock treatment or after heat shock recovery, messenger RNA accumulates for the resistance proteins and disease resistance develops.     

Combined Fluorescent-Antibody and Electron Microscopy Study of Marek''s Disease Virus-Infected Cell Culture

Duck embryo fibroblast (DEF) and chicken embryo fibroblast (CEF) cultures infected with Marek's disease virus were studied by combined fluorescent antibody and electron microscopy techniques. In both DEF and CEF cultures, cells containing immunofluorescent (IF) antigen also contained herpesvirus particles; conversely, cells lacking this antigen lacked herpesvirus particles. Two morphologically distinct IF antigens were detected in the cytoplasm. (i) A granular antigen in the perinuclear region was brightly stained with the conjugated antibody. This antigen was composed of a granular mass of osmiophilic material and did not contain virions. (ii) A diffuse antigen, present throughout the cytoplasm of infected cells, was less brightly stained. The area of the cell with the highest concentration of this antigen contained small vesicles, folded membranes, and fine electron-dense granules. Naked virions were occasionally seen in these areas. A diffuse nuclear IF antigen was occasionally seen in infected cells. This antigen was often separated from the nuclear membrane and the nucleolus by a clear margin. The intranuclear IF antigen was composed of a fine granular aggregate and naked herpesvirus particles which were randomly distributed throughout the nucleus. Viral capsids in antibody-treated cells were coated with fine filamentous material.