primer Concept

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research area of

• Hanotte, Olivier, Principal Scientist - Quantitative Geneticist, ILRI, ILRI
• HE, Zhonghu, Wheat Breeder, CCR, CIMMYT, CIMMYT
• Jianlin, Han, Senior Scientist - Population Geneticist, ILRI, ILRI
• Mahuku, George, Senior Plant Pathologist for Eastern, Southern and Central Afric, IITA, The Alliance of Bioversity and CIAT

subject area of

• A highly specific tool for identification of Xanthomonas vasicola pv. musacearum based on five Xvm-specific coding sequences
• A novel gene, Pi40(t), linked to the DNA markers derived from NBS-LRR motifs confers broad spectrum of blast resistance in rice
• A putative, novel coli surface antigen 8B (CS8B) of enterotoxigenic Escherichia coli.
• A simple extraction method suitable for PCR-based analysis of plant, fungal, and bacterial DNA
• Agroforestry tree domestication: a primer
• Allelic variants in durum wheat (Triticum turgidum L. var. durum) DREB genes conferring tolerance to abiotic stresses.
• An expedited method for isolation of DNA for PCR from Magnaporthe oryzae stored on filter paper
• Analysis of simple sequence repeat markers in homozygous lines of apple
• Application of New World Camelidae microsatellite primers for amplification of polymorphic loci in Old World camelids
• Application of PCR and DNA probes in the characterisation of trypanosomes in the blood of cattle in farms in Morogoro, Tanzania.
• Characterization of Trichoderma isolates from Philippine rice fields by UP-PCR and rDNA-ITS1 analysis: identification of UP-PCR markers
• Characterization of disease resistance gene homologues isolated from finger millet (Eleusine coracana L. Gaertn)
• Cloning and molecular characterization of LMW glutenin subunit genes in Triticum dicoccoides
• Cloning and sequencing of the tnfa genes of three inbred mouse strains.
• Comparative evaluation of three PCR base diagnostic assays for the detection of pathogenic trypanosomes in cattle blood
• Comparative mapping in cattle of genes located on human Chromosome 18
• Conservation of microsatellite flanking sequences in different taxa of Leguminosae
• Conserved DNA-Derived Polymorphism (CDDP): A Simple and Novel Method for Generating DNA Markers in Plants
• Construction and Application of SSR Molecular Markers System for Genetic Diversity Analysis of Chinese Tartary Buckwheat Germplasm Resources
• Cross-amplification of EST-derived markers among 16 grass species
• Cross-species transferability and mapping of genomic and cDNA SSRs in pines
• Detecting and differentiating Acremonium implicatum: developing a PCR‐based method for an endophytic fungus associated with the genus Brachiaria
• Detection and identification of Rift Valley fever virus in mosquito vectors by quantitative real-time PCR
• Detection of Corchorus golden mosaic virus Associated with Yellow Mosaic Disease of Jute (Corchorus capsularis)
• Detection of episomal banana streak badnavirus by IC-PCR.
• Development and characterization of simple sequence repeat markers providing genome-wide coverage and high resolution in maize
• Development of PCR-based markers for thermosensitive genetic male sterility gene tms3(t) in rice (Oryza sativa L.).
• Development of a Genomics-Based LAMP (Loop-Mediated Isothermal Amplification) Assay for Detection of Pseudomonas fuscovaginae from Rice
• Development of a species-specific PCR to detect the cereal cyst nematode, Heterodera latipons
• Development of a specific molecular tool for detecting Xanthomonas campestris pv. musacearum
• Development of an STS marker tightly linked to Yr26 against wheat stripe rust using the resistance gene-analog polymorphism (RGAP) technique
• Development of polymorphic markers from expressed sequence tags of Manihot esculenta Crantz.
• Development of qPCR assays for quantitative detection of Heterodera avenae and H. latipons
• Development of the Automated Primer Design Workflow Uniqprimer and Diagnostic Primers for the Broad-Host-Range Plant Pathogen Dickeya dianthicola.
• EST-SSR development for Digitaria exilis and its relatives D. iburua and D. longiflora from transcriptome sequences
• Efficient Amplification of Insert End Sequences from Bacterial Artificial Chromosome Clones by Thermal Asymmetric Interlaced PCR
• Extended Application of Barley EST Markers for the Analysis of Alien Chromosomes Added to Wheat Genetic Background
• First Report of Banana mild mosaic virus Isolated from Plantains (Musa AAB) in Colombia.
• First Report of Cotton Leafroll Dwarf Virus Affecting Chickpea (Cicer arietinum) in Uzbekistan
• Genetic Diversity and Origin of Gansu Indigenous Sheep Breeds Determined by Mitochondrial DNA D-loop Sequence
• Genetic diversity and PCR-based identification of potential fumonisin-producing Fusarium verticillioides isolates infecting corn in the Philippines
• Genetic stability analysis of chrysanthemum (Chrysanthemum x morifolium Ramat) after different stages of an encapsulation-dehydration cryopreservation protocol.
• Genomic Rearrangement in Genome Segment 12 of Rice Dwarf Phytoreovirus
• Genomic characterization of natural and somaclonal variations in bananas (Musa spp.)
• High Resolution DNA Melting Assays for Detection of Rx1 and Rx2 for High-Throughput Marker-Assisted Selection for Extreme Resistance to Potato virus X in Tetraploid Potato.
• Identification of RAPD markers linked to A and B genome sequences in Musa L.
• Identification of a genetic marker for isometamidium chloride resistance in Trypanosoma congolense.
• Identification of a new isolate of Banana mild mosaic virus by high throughput sequencing triggers the development of a new diagnostic primer
• Identification of maize lethal necrosis disease causal viruses in maize and suspected alternative hosts through small RNA profiling
• Identification of novel serine proteinase gene transcripts in the midguts of two tropical insect pests, Scirpophaga incertulas (Wk.) and Helicoverpa armigera (Hb.).
• Improved Molecular Assay for Sex Identification of the Endangered Crested Ibis (Nipponia nippon) Based on the CHD1 Gene and a Sex-linked Microsatellite Locus
• Isolation and characterization of microsatellite markers in Garcinia gummi-gutta by next-generation sequencing and cross-species amplification.
• Isolation of microsatellite markers for the common Mediterranean shrub Myrtus communis (Myrtaceae)
• KASP Genotyping as a Molecular Tool for Diagnosis of Cassava-Colonizing Bemisia tabaci.
• KASP-Hedgehog: Efficient and routine tool for allele specific primer design using multidisciplinary data types
• Loop-mediated isothermal amplification (LAMP) assays for detection of Theileria parva infections targeting the PIM and p150 genes
• Loop-mediated isothermal amplification (LAMP) for detection of the red ring nematode, Bursaphelenchus cocophilus
• Mapping and characterization of new EST-derived microsatellites for potato (Solanum tuberosum L.)
• Molecular Characterization of Atlas 66-Derived Wheat Near-lsogenic Lines Contrasting in Aluminum （Al） Tolerance
• Molecular Diagnosis of African Swine Fever by a New Real-Time PCR Using Universal Probe Library
• Molecular characterisation of Afghan pistachio accessions by amplified fragment length polymorphisms (AFLPs)
• Molecular tagging of stripe rust resistance gene YrZH84 in Chinese wheat line Zhou 8425B.
• Morphological diversity and genomic DNA fingerprinting of the African rice gall midge Orseolia oryzivora (Diptera: Cecidomyiidae) and of two other species of African Orseolia
• Multi-primer target PCR for rapid identification of bovine DRB3 alleles
• Novel DNA variations to characterize low molecular weight glutenin Glu-D3 genes and develop STS markers in common wheat
• Occurrence, genetic diversity, and recombination of maize lethal necrosis disease-causing viruses in Kenya.
• Phenotypic characterization and validation of provitamin A functional genes in early maturing provitamin A-quality protein maize (Zea mays) inbred lines.
• Polymorphic but highly conserved Bogr-DRA gene in yak (Bos grunniens).
• RAPD analysis of genotypic groups of Trypanosoma congolense and other African trypanosome species
• Resistance Genes and Selection DNA Markers for Blast Disease in Rice (Oryza sativa L.)
• Screening for overlapping bacterial artificial chromosome clones by PCR analysis with an arbitrary primer
• Selection and validation of reference genes for quantitative RT-PCR expression studies of the non-model crop Musa.
• Sensitive and specific detection of Trypanosoma vivax using the polymerase chain reaction.
• Sequencing analysis of 20,000 full-length cDNA clones from cassava reveals lineage specific expansions in gene families related to stress response.
• Specific PCR assay for a tannin-tolerant selenomonas ruminantium isolate, derived from helicase coding sequences.
• Start Codon Targeted (SCoT) Polymorphism: A Simple, Novel DNA Marker Technique for Generating Gene-Targeted Markers in Plants
• Survey sequencing and in-silico development and validation of genomic SSR markers in Indian dill seed
• TaqMan real-time PCR assay for the detection and quantification of Sclerospora graminicola, the causal agent of pearl millet downy mildew
• The complete genome sequences of a Peruvian and a Colombian isolate of Andean potato latent virus and partial sequences of further isolates suggest the existence of two distinct potato-infecting tymovirus species
• The nucleotide sequence of the bovine interleukin-5-encoding cDNA.
• The persistence of Theileria parva infection in cattle immunized using two stocks which differ in their ability to induce a carrier state: analysis using a novel blood spot PCR assay
• Trypanocidal failure suggested by PCR results in cattle field samples.
• Use of a PCR Assay for the Specific and Sensitive Detection of Trypanosoma Spp. in Naturally Infected Dairy Cattle in Peri-urban Kampala, Ugandaa
• Use of random amplified polymorphic DNA markers for mapping the chickpea genome
• Variable Surface Glycoprotein RoTat 1.2 PCR as a specific diagnostic tool for the detection of Trypanosoma evansi infections
• Y-type gene specific markers for enhanced discrimination of high-molecular weight glutenin alleles at the Glu-B1 locus in hexaploid wheat
• cisprimertool: software to implement a comparative genomics strategy for the development of conserved intron scanning (CIS) markers.
• rAmpSeq: Using repetitive sequences for robust genotyping