Publications in VIVO

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Shah, Trushar Integrated Breeding Platform (IBP) Hub Manager, IITA

Uganda

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article
- CRISPR/Cas9-mediated editing of DMR6 orthologue in banana (Musa spp.) confers enhanced resistance to bacterial disease. Plant Biotechnology Journal. 2021
- Genetic Diversity and Population Structure of Soybean Lines Adapted to Sub-Saharan Africa Using Single Nucleotide Polymorphism (SNP) Markers. AGRONOMY-BASEL. 11. 2021
- Genetic analysis and QTL mapping for multiple biotic stress resistance in cassava.. PLOS ONE. 15. 2020
- A global overview of cassava genetic diversity. PLOS ONE. 14. 2019
- Open data kit (ODK) in crop farming: mobile data collection for seed yam tracking in Ibadan, Nigeria. Journal of Crop Improvement. 33:605-619. 2019
- Agromorphologic, genetic and methylation profiling of Dioscorea and Musa species multiplied under three micropropagation systems.. PLOS ONE. 14. 2019
- Molecular Basis of Disease Resistance in Banana Progenitor Musa balbisiana against Xanthomonas campestris pv. musacearum.. Scientific Reports. 9:7007. 2019
- Genome-Wide Identification and Analysis of Arabidopsis Sodium Proton Antiporter (NHX) and Human Sodium Proton Exchanger (NHE) Homologs in Sorghum bicolor.. Genes. 9:236. 2018
- Musabase : A Phenotyping and Breeding Database for Banana 2018
- QTL mapping for pest and disease resistance in cassava and coincidence of some QTL with introgression regions derived from Manihot glaziovii. Frontiers in Plant Science. 8:1168-1168. 2017
- Trait Associations in Diversity Panels of the Two Common Bean (Phaseolus vulgaris L.) Gene Pools Grown under Well-watered and Water-Stress Conditions.. Frontiers in Plant Science. 8:733-733. 2017
- Extensive polymorphism of Ra86 genes in field populations of Rhipicephalus appendiculatus from Kenya.. Ticks and Tick-borne Diseases. 7:772-781. 2016
- Functional mechanisms of drought tolerance in subtropical maize (Zea mays L.) identified using genome-wide association mapping.. BMC Genomics. 15:1182-1182. 2014
- An Integrated SNP Mining and Utilization (ISMU) pipeline for next generation sequencing data. PLOS ONE. 9. 2014
- CicArMiSatDB: the chickpea microsatellite database. BMC Bioinformatics. 15:212-212. 2014
- Unraveling the genetic architecture of subtropical maize ( Zea mays L.) lines to assess their utility in breeding programs. BMC Genomics. 14:877-877. 2013
- Cytoplasmic Male Sterility-Associated Chimeric Open Reading Frames Identified by Mitochondrial Genome Sequencing of Four Cajanus Genotypes. DNA Research. 20:485-495. 2013
- Pearl millet [Pennisetum glaucum (L.) R. Br.] consensus linkage map constructed using four RIL mapping populations and newly developed EST-SSRs. BMC Genomics. 14:159-159. 2013
- Population genomic and genome-wide association studies of agroclimatic traits in sorghum. Proceedings of the National Academy of Sciences of the United States of America. 110:453-458. 2013
- The species-specific crop ontology (Generation Challenge Programme): Application and integration into the reference plant trait ontology to enable data mining on phenotypes 2013
- Dissecting tocopherols content in maize (Zea mays L.), using two segregating populations and high-density single nucleotide polymorphism markers. BMC Plant Biology. 12:201-201. 2012
- A Comprehensive Transcriptome Assembly of Pigeonpea (Cajanus cajan L.) using Sanger and Second-Generation Sequencing Platforms. Molecular Plant. 5:1020-1028. 2012
- Large-scale development of cost-effective SNP marker assays for diversity assessment and genetic mapping in chickpea and comparative mapping in legumes. Plant Biotechnology Journal. 10:716-732. 2012
- An International Reference Consensus Genetic Map with 897 Marker Loci Based on 11 Mapping Populations for Tetraploid Groundnut (Arachis hypogaea L.). PLOS ONE. 7. 2012
- Comparative LD mapping using single SNPs and haplotypes identifies QTL for plant height and biomass as secondary traits of drought tolerance in maize. Molecular Breeding. 30:407-418. 2012
- Coverage-based consensus calling (CbCC) of short sequence reads and comparison of CbCC results to identify SNPs in chickpea (Cicer arietinum; Fabaceae), a crop species without a reference genome.. American Journal of Botany. 99:186-192. 2012
- Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers. Nature Biotechnology. 30:83-89. 2012
- Novel SSR Markers from BAC-End Sequences, DArT Arrays and a Comprehensive Genetic Map with 1,291 Marker Loci for Chickpea (Cicer arietinum L.). PLOS ONE. 6. 2011
- Molecular Characterization of a Diverse Maize Inbred Line Collection and its Potential Utilization for Stress Tolerance Improvement. Crop Science. 51:2569-2581. 2011
- Large-scale transcriptome analysis in chickpea (Cicer arietinum L.), an orphan legume crop of the semi-arid tropics of Asia and Africa. Plant Biotechnology Journal. 9:922-931. 2011
- Recombination frequency variation in maize as revealed by genomewide single‐nucleotide polymorphisms. Plant Breeding. 130:533-539. 2011
- Comparative SNP and Haplotype Analysis Reveals a Higher Genetic Diversity and Rapider LD Decay in Tropical than Temperate Germplasm in Maize. PLOS ONE. 6. 2011
- Comparison of SSRs and SNPs in assessment of genetic relatedness in maize. Genetica. 139:1045-1054. 2011
- Defining the transcriptome assembly and its use for genome dynamics and transcriptome profiling studies in pigeonpea (Cajanus cajan L.).. DNA Research. 18:153-164. 2011
- Development and use of genic molecular markers (GMMs) for construction of a transcript map of chickpea (Cicer arietinum L.). Theoretical and Applied Genetics. 122:1577-1589. 2011
- Detection of genetic integrity of conserved maize (Zea mays L.) germplasm in genebanks using SNP markers. Genetic Resources and Crop Evolution. 58:189-207. 2011
- Genetic analysis and characterization of a new maize association mapping panel for quantitative trait loci dissection. Theoretical and Applied Genetics. 121:417-431. 2010
- High-throughput SNP genotyping with the GoldenGate assay in maize. Molecular Breeding. 25:441-451. 2010
- Genetic and molecular analysis of wheat tan spot resistance effective against Pyrenophora tritici-repentis races 2 and 5. Molecular Breeding. 25:369-379. 2010
- Joint linkage-linkage disequilibrium mapping is a powerful approach to detecting quantitative trait loci underlying drought tolerance in maize. Proceedings of the National Academy of Sciences of the United States of America. 107:19585-19590. 2010
- Genetic characterization and linkage disequilibrium estimation of a global maize collection using SNP markers. PLOS ONE. 4. 2009
- Molecular characterization of global maize breeding germplasm based on genome-wide single nucleotide polymorphisms.. Theoretical and Applied Genetics. 120:93-115. 2009
- The Generation Challenge Programme Platform: Semantic Standards and Workbench for Crop Science. International Journal of Plant Genomics. 2008:369601-369601. 2008
- A novel strategy for the identification of antigens that are recognised by bovine MHC class I restricted cytotoxic T cells in a protozoan infection using reverse vaccinology.. Immunome Research. 3:2-2. 2007
- Theileria parva candidate vaccine antigens recognized by immune bovine cytotoxic T lymphocytes. Proceedings of the National Academy of Sciences of the United States of America. 103:3286-3291. 2006
- Using the transcriptome to annotate the genome revisited: application of massively parallel signature sequencing (MPSS).. Gene. 366:104-108. 2006
- On-site and Off-site Impact of Watershed Development: A Case Study of Rajasamadhiyala, Gujarat, India 2006
- Identification of candidate sialome components expressed in ixodid tick salivary glands using secretion signal complementation in mammalian cells.. Insect Molecular Biology. 14:403-414. 2005
- Genome of the host-cell transforming parasite Theileria annulata compared with T. parva.. Science. 309:131-133. 2005
- Genome sequence of Theileria parva, a bovine pathogen that transforms lymphocytes.. Science. 309:134-137. 2005
- Analysis of the transcriptome of the protozoan Theileria parva using MPSS reveals that the majority of genes are transcriptionally active in the schizont stage. Nucleic Acids Research. 33:5503-5511. 2005
- Socio-ecology of groundwater irrigation in South Asia: an overview of issues and evidence 2005
- Genes transcribed in the salivary glands of female Rhipicephalus appendiculatus ticks infected with Theileria parva. Insect Biochemistry and Molecular Biology. 34:1117-1128. 2004
- An assessment of South African prepaid electricity experiment, lessons learned, and their policy implications for developing countries. Energy Policy. 31:911-927. 2003
- Sustaining Asia’s groundwater boom: An overview of issues and evidence. Natural Resources Forum. 27:130-141. 2003
- Governing the groundwater economy: comparative analysis of national institutions and policies in South Asia, China and Mexico 2003
- Reversing groundwater decline 2003
- Wells and welfare in the Ganga Basin: Public policy and private initiative in Eastern Uttar Pradesh 2003
- Integrating research in water, food and environment. Challenge Program on Water and Food background paper 4 2002
- Micro-irrigation and the poor: A marketing challenge in smallholder irrigation development 2002
- Farmer management of irrigation systems: can Africa's smallholder black farmers do it? 2001
- Institutional alternatives in African smallholder irrigation 2001
- Intensive use of groundwater in India 2001
- Limits to leapfrogging: issues in transposing successful river basin management institutions in the developing world 2001
- Wells and welfare in the Ganga Basin: public policy and private initiative in Eastern Uttar Pradesh, India 2001
- Mobilising social energy against environmental challenge: understanding the groundwater recharge movement in western India. Natural Resources Forum. 24:197-209. 2000
- Building and managing knowledge institutions: Lessons of India's experience 2000
- Groundwater markets and agricultural development: A South Asian overview 2000
- Revitalisation of irrigation tanks in Rajasthan 2000
- The global groundwater situation: overview of opportunities and challenges 2000
- Water against poverty: Livelihood-oriented water resources management 2000
- The social science of water stress: An exploratory study of water management institutions in Banskantha District, Gujarat 1995
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