Viraj Kamble - Academia.edu (original) (raw)

Papers by Viraj Kamble

Research paper thumbnail of Genomic Design for Biotic Stresses in Soybean

Genomic Designing for Biotic Stress Resistant Oilseed Crops, 2022

Research paper thumbnail of Enhancing productivity of deep rooting soybean genotypes under drought conditions

43rd COSPAR Scientific Assembly. Held 28 January - 4 February, 2021

Research paper thumbnail of Charcoal Rot Resistance in Soybean: Current Understanding and Future Perspectives

Disease Resistance in Crop Plants, 2019

Soybean (Glycine max L.) is a leading oil seed crop in the world. Owing to climate change, its pr... more Soybean (Glycine max L.) is a leading oil seed crop in the world. Owing to climate change, its production is challenged by many forms of biotic and abiotic stresses. Charcoal rot (Macrophomina phaseolina (Tassi) Goid) disease incidence is aggravated with the increase in soil and air temperatures. Charcoal rot disease in soybean is likely to gain its economic importance with the increase in global temperature. Apart from soybean, this pathogen has a wide host range including some economical crops like sorghum and maize. So far, complete resistance to this pathogen has not been identified in any of the crop species. Field screening techniques based on the colony-forming unit index (CFUI) and estimation of root stem severity (RSS) and glasshouse screening technique, such as cut-stem inoculation, are mainly employed in identifying charcoal rot resistance sources in soybean. High-throughput screening can be possible through cut-stem inoculation technique. There are reports indicating the correlation between field screening results and results obtained from this technique, and researchers have used this technique in understanding the genetic architecture of charcoal rot resistance and in identifying candidate genes and QTL governing charcoal rot resistance. Drought conditions are favourable for disease incidence and aggressiveness. Not all drought-tolerant genotypes are resistant to charcoal rot but some drought-tolerant genotypes are found to be moderately resistant to the disease. Significant yield losses are reported due to this disease even under irrigated conditions. Research is gaining momentum in developing high-throughput, reliable and repeatable glasshouse and in vitro screening techniques to identify stable sources of resistance and in understanding the genetic architecture of charcoal rot resistance. Breeding programs are under way for developing high-yielding, charcoal-rot-resistant and drought-tolerant cultivars.

Research paper thumbnail of Breeding and Molecular Approaches for Evolving Drought-Tolerant Soybeans

Plant Stress Biology, 2020

Soybean [Glycine max (L.) Merr] is an agronomically important oilseed crop in the world and an im... more Soybean [Glycine max (L.) Merr] is an agronomically important oilseed crop in the world and an important source of protein and oil for both humans and animals. In addition, soybean is also becoming a major crop for bio-diesel production. Therefore, demand for soybean is increasing continuously worldwide. Soybean enriches the soil by fixing atmospheric nitrogen through symbiotic interaction with Rhizobia. With increasing challenges posed by climate change, it is predicted that incidents of drought will be more frequent and severe and it will further reduce crop yields. Abiotic stresses such as drought cause severe losses to soybean productivity worldwide by adversely affecting the plant growth, development, and yield. Introgression of genes controlling drought adaptive traits, yields related traits and root system architecture traits by breeding and molecular approaches will be very useful for enhancing drought stress tolerance in soybean, leading to cultivar development. Elucidation of function of genes and their integration in soybean genotypes by molecular breeding and genomic approaches and utilizing robust phenotyping tools to evaluate drought adaptive traits will be crucial for understanding response of soybean plants to drought stress. Recent advances in genomics lead identification, functional characterization, and introgression of genes associated with adaptation of soybean plants to drought stress. In order to perform genetic and genomic analysis, molecular markers have been employed on RIL or F2 populations. In addition, the genome typified with single nucleotide polymorphisms (SNPs) and its utilization in molecular breeding applications like QTL mapping, positional cloning, association mapping studies, genomic selection and genome editing is gaining impetus. Thus, the rapid development of soybean genomics and transcriptomics has provided tremendous opportunity for the genetic improvement of soybean for drought tolerance with yield stability.

Research paper thumbnail of Whole Genome Re-sequencing of Soybean Accession EC241780 Providing Genomic Landscape of Candidate Genes Involved in Rust Resistance

Current Genomics, 2020

Background: In this study, whole genome re-sequencing of rust resistant soybean genotype EC241780... more Background: In this study, whole genome re-sequencing of rust resistant soybean genotype EC241780 was performed to understand the genomic landscape involved in the resistance mechanism. Methods: A total of 374 million raw reads were obtained with paired-end sequencing performed with Illumina HiSeq 2500 instrument, out of which 287.3 million high quality reads were mapped to Williams 82 reference genome. Comparative sequence analysis of EC241780 with rust susceptible cultivars Williams 82 and JS 335 was performed to identify sequence variation and to prioritise the candidate genes. Results: Comparative analysis indicates that genotype EC241780 has high sequence similarity with rust resistant genotype PI 200492 and the resistance in EC241780 is conferred by the Rpp1 locus. Based on the sequence variations and functional annotations, three genes Glyma18G51715, Glyma18G51741 and Glyma18G51765 encoding for NBS-LRR family protein were identified as the most prominent candidate for Rpp1 lo...

Research paper thumbnail of Identification of novel genetic sources for agronomic and quality traits in soybean using multi-trait allele specific genic marker assays

Journal of Plant Biochemistry and Biotechnology, 2020

Natural allelic variation among the genes governing various agronomic and quality traits of plant... more Natural allelic variation among the genes governing various agronomic and quality traits of plant provides opportunity to develop desirable plant type in crops. In soybean [Glycine max (L.) Merr.], natural allelic variation is known for many functionally characterized genes conferring superior phenotype for their respective governing trait. Exploring this natural allelic variation in germplasm pool through gene based allele specific multiplex marker genotyping is one way to identify and combine the alleles of multiple traits in desired genetic background. Using known alleles of 15 genes governing 10 different agronomic and quality traits, we have developed two multi-trait allele specific genic marker assays of 22-plex and 7-plex alleles. These two multi-trait allele specific genic marker assays were used to genotype a large set of diverse soybean germplasm accessions, which identified several novel genetic sources of rare alleles conferring superior or desirable phenotype. Selected genetic sources of rare alleles for days to flowering and maturity, hard-seededness, pod shattering and oleic acid content were validated phenotypically. Genotyping and phenotyping in a multi-parent advanced generation intercross population validated the utility of multi-trait allele specific genic marker assays in marker assisted selection of multiple traits from multiple parents. The novel genetic sources identified in this study will help in the selection of parents with multiple desirable traits for hybridization. The multi-trait allele specific genic marker assays developed will speed up selection of multiple traits in routine soybean breeding programmes for cultivar development and improvement. Keywords Functional markers Á Genic Á Allele specific Á MTAMA Á Germplasm Abbreviations FLP Fragment length polymorphism InDel Small insertion deletions MAGIC Multi-parent advanced generation intercross MALDI-TOF Matrix-assisted laser desorption/ ionization-time of flight MTAMA Multi-trait allele specific genic marker assay QTL Quantitative trait loci RILs Recombinant inbred lines SCI Seed-coat impermeability SNP Single nucleotide polymorphism Giriraj Kumawat and Shivakumar Maranna have contributed equally to this research work.

Research paper thumbnail of Genomic Design for Biotic Stresses in Soybean

Genomic Designing for Biotic Stress Resistant Oilseed Crops, 2022

Research paper thumbnail of Enhancing productivity of deep rooting soybean genotypes under drought conditions

43rd COSPAR Scientific Assembly. Held 28 January - 4 February, 2021

Research paper thumbnail of Charcoal Rot Resistance in Soybean: Current Understanding and Future Perspectives

Disease Resistance in Crop Plants, 2019

Soybean (Glycine max L.) is a leading oil seed crop in the world. Owing to climate change, its pr... more Soybean (Glycine max L.) is a leading oil seed crop in the world. Owing to climate change, its production is challenged by many forms of biotic and abiotic stresses. Charcoal rot (Macrophomina phaseolina (Tassi) Goid) disease incidence is aggravated with the increase in soil and air temperatures. Charcoal rot disease in soybean is likely to gain its economic importance with the increase in global temperature. Apart from soybean, this pathogen has a wide host range including some economical crops like sorghum and maize. So far, complete resistance to this pathogen has not been identified in any of the crop species. Field screening techniques based on the colony-forming unit index (CFUI) and estimation of root stem severity (RSS) and glasshouse screening technique, such as cut-stem inoculation, are mainly employed in identifying charcoal rot resistance sources in soybean. High-throughput screening can be possible through cut-stem inoculation technique. There are reports indicating the correlation between field screening results and results obtained from this technique, and researchers have used this technique in understanding the genetic architecture of charcoal rot resistance and in identifying candidate genes and QTL governing charcoal rot resistance. Drought conditions are favourable for disease incidence and aggressiveness. Not all drought-tolerant genotypes are resistant to charcoal rot but some drought-tolerant genotypes are found to be moderately resistant to the disease. Significant yield losses are reported due to this disease even under irrigated conditions. Research is gaining momentum in developing high-throughput, reliable and repeatable glasshouse and in vitro screening techniques to identify stable sources of resistance and in understanding the genetic architecture of charcoal rot resistance. Breeding programs are under way for developing high-yielding, charcoal-rot-resistant and drought-tolerant cultivars.

Research paper thumbnail of Breeding and Molecular Approaches for Evolving Drought-Tolerant Soybeans

Plant Stress Biology, 2020

Soybean [Glycine max (L.) Merr] is an agronomically important oilseed crop in the world and an im... more Soybean [Glycine max (L.) Merr] is an agronomically important oilseed crop in the world and an important source of protein and oil for both humans and animals. In addition, soybean is also becoming a major crop for bio-diesel production. Therefore, demand for soybean is increasing continuously worldwide. Soybean enriches the soil by fixing atmospheric nitrogen through symbiotic interaction with Rhizobia. With increasing challenges posed by climate change, it is predicted that incidents of drought will be more frequent and severe and it will further reduce crop yields. Abiotic stresses such as drought cause severe losses to soybean productivity worldwide by adversely affecting the plant growth, development, and yield. Introgression of genes controlling drought adaptive traits, yields related traits and root system architecture traits by breeding and molecular approaches will be very useful for enhancing drought stress tolerance in soybean, leading to cultivar development. Elucidation of function of genes and their integration in soybean genotypes by molecular breeding and genomic approaches and utilizing robust phenotyping tools to evaluate drought adaptive traits will be crucial for understanding response of soybean plants to drought stress. Recent advances in genomics lead identification, functional characterization, and introgression of genes associated with adaptation of soybean plants to drought stress. In order to perform genetic and genomic analysis, molecular markers have been employed on RIL or F2 populations. In addition, the genome typified with single nucleotide polymorphisms (SNPs) and its utilization in molecular breeding applications like QTL mapping, positional cloning, association mapping studies, genomic selection and genome editing is gaining impetus. Thus, the rapid development of soybean genomics and transcriptomics has provided tremendous opportunity for the genetic improvement of soybean for drought tolerance with yield stability.

Research paper thumbnail of Whole Genome Re-sequencing of Soybean Accession EC241780 Providing Genomic Landscape of Candidate Genes Involved in Rust Resistance

Current Genomics, 2020

Background: In this study, whole genome re-sequencing of rust resistant soybean genotype EC241780... more Background: In this study, whole genome re-sequencing of rust resistant soybean genotype EC241780 was performed to understand the genomic landscape involved in the resistance mechanism. Methods: A total of 374 million raw reads were obtained with paired-end sequencing performed with Illumina HiSeq 2500 instrument, out of which 287.3 million high quality reads were mapped to Williams 82 reference genome. Comparative sequence analysis of EC241780 with rust susceptible cultivars Williams 82 and JS 335 was performed to identify sequence variation and to prioritise the candidate genes. Results: Comparative analysis indicates that genotype EC241780 has high sequence similarity with rust resistant genotype PI 200492 and the resistance in EC241780 is conferred by the Rpp1 locus. Based on the sequence variations and functional annotations, three genes Glyma18G51715, Glyma18G51741 and Glyma18G51765 encoding for NBS-LRR family protein were identified as the most prominent candidate for Rpp1 lo...

Research paper thumbnail of Identification of novel genetic sources for agronomic and quality traits in soybean using multi-trait allele specific genic marker assays

Journal of Plant Biochemistry and Biotechnology, 2020

Natural allelic variation among the genes governing various agronomic and quality traits of plant... more Natural allelic variation among the genes governing various agronomic and quality traits of plant provides opportunity to develop desirable plant type in crops. In soybean [Glycine max (L.) Merr.], natural allelic variation is known for many functionally characterized genes conferring superior phenotype for their respective governing trait. Exploring this natural allelic variation in germplasm pool through gene based allele specific multiplex marker genotyping is one way to identify and combine the alleles of multiple traits in desired genetic background. Using known alleles of 15 genes governing 10 different agronomic and quality traits, we have developed two multi-trait allele specific genic marker assays of 22-plex and 7-plex alleles. These two multi-trait allele specific genic marker assays were used to genotype a large set of diverse soybean germplasm accessions, which identified several novel genetic sources of rare alleles conferring superior or desirable phenotype. Selected genetic sources of rare alleles for days to flowering and maturity, hard-seededness, pod shattering and oleic acid content were validated phenotypically. Genotyping and phenotyping in a multi-parent advanced generation intercross population validated the utility of multi-trait allele specific genic marker assays in marker assisted selection of multiple traits from multiple parents. The novel genetic sources identified in this study will help in the selection of parents with multiple desirable traits for hybridization. The multi-trait allele specific genic marker assays developed will speed up selection of multiple traits in routine soybean breeding programmes for cultivar development and improvement. Keywords Functional markers Á Genic Á Allele specific Á MTAMA Á Germplasm Abbreviations FLP Fragment length polymorphism InDel Small insertion deletions MAGIC Multi-parent advanced generation intercross MALDI-TOF Matrix-assisted laser desorption/ ionization-time of flight MTAMA Multi-trait allele specific genic marker assay QTL Quantitative trait loci RILs Recombinant inbred lines SCI Seed-coat impermeability SNP Single nucleotide polymorphism Giriraj Kumawat and Shivakumar Maranna have contributed equally to this research work.