High-quality Momordica balsamina genome elucidates its potential use in improving stress resilience and therapeutic properties of bitter gourd
Authors:
Open Access
- 24 January 2024
- journal article
- research article
- Published by Frontiers Media SA in Frontiers in Plant Science
- Vol. 14, 1258042
Abstract
Introduction: Momordica balsamina is the closest wild species that can be crossed with an important fruit vegetable crop, Momordica charantia, has immense medicinal value, and placed under II subclass of primary gene pool of bitter gourd. M. balsamina is tolerant to major biotic and abiotic stresses. Genome characterization of Momordica balsamina as a wild relative of bitter gourd will contribute to the knowledge of the gene pool available for improvement in bitter gourd. There is potential to transfer gene/s related to biotic resistance and medicinal importance from M. balsamina to M. charantia to produce high-quality, better yielding and stress tolerant bitter gourd genotypes.Methods: The present study provides the first and high-quality chromosome-level genome assembly of M. balsamina with size 384.90 Mb and N50 30.96 Mb using sequence data from 10x Genomics, Nanopore, and Hi-C platforms.Results: A total of 6,32,098 transposons elements; 2,15,379 simple sequence repeats; 5,67,483 transcription factor binding sites; 3,376 noncoding RNA genes; and 41,652 protein-coding genes were identified, and 4,347 disease resistance, 67 heat stress–related, 05 carotenoid-related, 15 salt stress–related, 229 cucurbitacin-related, 19 terpenes-related, 37 antioxidant activity, and 06 sex determination–related genes were characterized.Conclusion: Genome sequencing of M. balsamina will facilitate interspecific introgression of desirable traits. This information is cataloged in the form of webgenomic resource available at http://webtom.cabgrid.res.in/mbger/. Our finding of comparative genome analysis will be useful to get insights into the patterns and processes associated with genome evolution and to uncover functional regions of cucurbit genomes.Keywords
Funding Information
- Indian Council of Agricultural Research
This publication has 134 references indexed in Scilit:
- Infernal 1.1: 100-fold faster RNA homology searchesBioinformatics, 2013
- Use of Heat Stress Responsive Gene Expression Levels for Early Selection of Heat Tolerant Cabbage (Brassica oleracea L.)International Journal of Molecular Sciences, 2013
- Frequent loss of lineages and deficient duplications accounted for low copy number of disease resistance genes in CucurbitaceaeBMC Genomics, 2013
- CD-HIT: accelerated for clustering the next-generation sequencing dataBioinformatics, 2012
- The genome of melon ( Cucumis melo L.)Proceedings of the National Academy of Sciences, 2012
- The tomato genome sequence provides insights into fleshy fruit evolutionNature, 2012
- Heat shock factors in rice (Oryza sativa L.): genome-wide expression analysis during reproductive development and abiotic stressMolecular Genetics and Genomics, 2011
- Generation of transgenic maize with enhanced provitamin A contentJournal of Experimental Botany, 2008
- Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics researchBioinformatics, 2005
- CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choiceNucleic Acids Research, 1994