A5033986553- Rice Cultivation and Yield Improvement
- Plant responses to water stress
- Genetic Mapping and Diversity in Plants and Animals
- GABA and Rice Research
- Soybean genetics and cultivation
- Genetic and phenotypic traits in livestock
- Retinal Diseases and Treatments
- Phytochemicals and Antioxidant Activities
- Retinal Development and Disorders
- Plant Gene Expression Analysis
- Genetic diversity and population structure
- Plant Genetic and Mutation Studies
- Wheat and Barley Genetics and Pathology
- Retinal and Macular Surgery
- Advances in Cucurbitaceae Research
- Coastal wetland ecosystem dynamics
The Ohio State University
2021-2023
International Rice Research Institute
2013-2023
Purdue University West Lafayette
2021
Max Planck Institute for Developmental Biology
2021
Single nucleotide polymorphisms (SNPs) are highly abundant, amendable to high-throughput genotyping, and useful for a number of breeding genetics applications in crops. SNP frequencies vary depending on the species populations under study, therefore target SNPs need be carefully selected informative each application. While multiple genotyping systems available rice (Oryza sativa L. its relatives), they their informativeness, cost, marker density, speed, flexibility, data quality. In this we...
While a multitude of genotyping platforms have been developed for rice, the majority them not optimized breeding where cost, turnaround time, throughput and ease use, relative to density informativeness are critical parameters their utility. With that in mind we report development 1K-Rice Custom Amplicon, or 1k-RiCA, robust custom sequencing-based amplicon panel ~ 1000-SNPs uniformly distributed across rice genome, designed be highly informative within indica pools, tailored genomic...
Anna Mariel U. Toledo, John Carlos I. Ignacio, Casal, Zennia Jean Gonzaga, Merlyn S. Mendioro, and Endang M. Septiningsih. Plant Breeding Biotechnology 2015;3:77-87. https://doi.org/10.9787/PBB.2015.3.2.077
Direct seeding of rice often results in poor crop establishment due to unlevelled fields, unpredicted heavy rains after sowing, and weed pest invasion. Thus, it is important develop varieties able tolerate flooding during germination, also known as anaerobic germination (AG), address these constraints. A study was conducted identify QTLs associated with AG tolerance from an IR64/Kharsu 80A F2:3 mapping population using 190 lines phenotyped for seedling survival under the stress. Genotyping...
Pearl millet is a crucial nutrient-rich staple food in Asia and Africa adapted to the climate of semi-arid topics. Since genomic resources pearl are very limited, we have developed brand-new mid-density 4K SNP panel demonstrated its utility genetic studies. A set SNPs were mined from 925 whole-genome sequences through comprehensive in-silico pipeline. Three hundred seventy-three genetically diverse inbreds genotyped using newly-developed AgriSeq Targeted Genotyping by Sequencing technology....
The wild ancestors of domesticated rice had red seed, white being the result a mutation in domestication gene Rc. Many pigmented landraces are still grown by ethnic communities for their nutritional and cultural value. This study assesses genetic diversity collection accessions from Philippines. We undertook an analysis colour variation 696 held at PhilRice was reduced to 589 genotypes after removal with limited passport data or low SNP marker call rates. Removal duplicate resulted final,...
Abstract Crops with resilience to multiple climatic stresses are essential for increased yield stability. Here, we evaluate the interaction between two loci associated flooding survival in rice ( Oryza sativa L.). ANAEROBIC GERMINATION 1 AG1 ), encoding TREHALOSE 6‐PHOSPHATE PHOSPHATASE 7 TPP7 promotes mobilization of endosperm reserves enhance elongation a hollow coleoptile seeds that seeded directly into shallow paddies. SUBMERGENCE SUB1 ethylene‐responsive transcription factor SUB1A‐1 ,...
Genomic selection has many applications within individual programs. Here, we discuss the benefits of forming a GS-based breeding consortium (GSC) among programs context recently formed GSC soft red winter wheat The will genotype lines from each member program (MBP) and conduct cooperative phenotyping. primary benefit is that MBP can use GS to predict local broad value all germplasm MBPs including in early stages testing, thus increasing effective size without significant new investment. We...
Tolerance of anaerobic germination (AG) is a key trait in the development direct seeded rice. Through rapid and sustained coleoptile elongation, AG tolerance enables robust seedling establishment under flooded conditions. Previous attempts to fine map characterize AG2 (qAG7.1), major centromere-spanning QTL, derived from indica variety Ma-Zhan Red, have failed. Here, novel approach “enriched haplotype” genome-wide association study based on Red haplotype region was successfully used narrow...
While considerable breeding effort has focused on increasing the yields of staple crops such as rice and levels micronutrients iron zinc, to address problems double-burden malnutrition received less attention. Pigmented higher nutritional value greater health benefits compared white rice. However, genetic associations underlying pericarp coloration accumulation nutritionally valuable compounds is still poorly understood. Here we report targeted analysis 364 accessions, assessing relationship...
Direct seeded rice (DSR) is a mainstay for planting in the Americas, and it rapidly becoming more popular Asia. It essential to develop varieties that are suitable this type of production system. ASD1, landrace from India, possesses several traits desirable direct-seeded fields, including tolerance anaerobic germination (AG). To map genetic basis its tolerance, we examined population 200 F2:3 families derived cross between IR64 ASD1 using restriction site-associated DNA sequencing (RAD-seq)...
Abstract Basmati rice is favoured for its grain type and aroma, but production vulnerable due to climate change freshwater accessibility. Discovery refinement of genomic regions conferring drought tolerance are needed develop new tolerant varieties. Using Recombinant Inbred Lines (RILs) derived from a cross between drought‐sensitive elite variety, ‘Super Basmati’, drought‐tolerant japonica cultivar, ‘Azucena’, linkage map was constructed with 862 high‐quality GBS‐based SNP markers....
To assess genetic associations for pentosan polysufate sodium maculopathy.Genetic testing inherited retinal dystrophy genes using exome and 14 age-related macular degeneration-associated single nucleotide polymorphisms (SNPs) panel were performed. In addition, full-field electroretinograms (ffERG) obtained to identify any cone-rod dystrophy.Eleven of 15 patients women, with a mean age 69 (range 46-85). Inherited in five revealed six pathogenic variants, but failed confirm patient...