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Draft genome sequence of bitter gourd (Momordica charantia), a vegetable and medicinal plant in tropical and subtropical regions.

ABSTRACT: Bitter gourd (Momordica charantia) is an important vegetable and medicinal plant in tropical and subtropical regions globally. In this study, the draft genome sequence of a monoecious bitter gourd inbred line, OHB3-1, was analyzed. Through Illumina sequencing and de novo assembly, scaffolds of 285.5 Mb in length were generated, corresponding to ∼84% of the estimated genome size of bitter gourd (339 Mb). In this draft genome sequence, 45,859 protein-coding gene loci were identified, and transposable elements accounted for 15.3% of the whole genome. According to synteny mapping and phylogenetic analysis of conserved genes, bitter gourd was more related to watermelon (Citrullus lanatus) than to cucumber (Cucumis sativus) or melon (C. melo). Using RAD-seq analysis, 1507 marker loci were genotyped in an F2 progeny of two bitter gourd lines, resulting in an improved linkage map, comprising 11 linkage groups. By anchoring RAD tag markers, 255 scaffolds were assigned to the linkage map. Comparative analysis of genome sequences and predicted genes determined that putative trypsin-inhibitor and ribosome-inactivating genes were distinctive in the bitter gourd genome. These genes could characterize the bitter gourd as a medicinal plant.

SUBMITTER: Urasaki N

PROVIDER: S-EPMC5381343 | biostudies-literature |

REPOSITORIES: biostudies-literature

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Genome-Wide Analysis of Simple Sequence Repeats in Bitter Gourd (Momordica charantia).

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Effect of seed hydro-priming durations on germination and seedling growth of bitter gourd (Momordica charantia).

Project description:The yield and quality of an annual crop are highly dependent on uniform and rapid germination of the seeds. In case of bitter gourd (Momordica charantia), the germination and field emergence is always a problem as seeds have thick and hard seed coat. Pre-sowing hydro-priming is one of the most suitable, affordable, easily available, and cost-effective techniques in breaking down seed dormancy to enhance germination. Hence, a field experiment was conducted in Surkhet district of Nepal 2020 to assess the effect of different hydro-priming duration on germination and seedling growth of bitter gourd. The experiment was laid out in single factor Randomized Complete Block Design (RCBD) with four replications and seven treatments including different hydro-priming durations (T0: control, T1: 6 hours, T2: 12 hours, T3: 18 hours, T4: 24 hours, T5: 36 hours and T6: 48 hours) of bitter gourd seeds of Palee variety, the most popular variety among the farmers. The highest water uptake and germination were found in 48 hours of seed hydro-primed seeds whereas the lowest water uptake and germination were observed on non-primed seeds. Similarly, the tallest seedling, most vigorous seedling in terms of seedling vigour index I and II was observed in 48 hours hydro-primed seeds followed by 36 hours of seed hydro-priming and shortest seedling and the least vigorous seedling in control. Thus 48 hours of seed hydro-priming was found to be effective for increasing germination and seedling growth in bitter gourd, which needs to be further investigated under large, open-field conditions with different varieties.

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Map-based cloning of the APRR2 gene controlling green stigma in bitter gourd (<i>Momordica charantia</i>).

Project description:Bitter gourd is an economically important vegetable and medicinal crop distinguished by its bitter fruits. Its stigma color is widely used to assess the distinctiveness, uniformity, and stability of bitter gourd varieties. However, limited researches have been dedicated to genetic basis of its stigma color. In this study, we employed bulked segregant analysis (BSA) sequencing to identify a single dominant locus McSTC1 located on pseudochromosome 6 through genetic mapping of an F2 population (n =241) derived from the cross between green and yellow stigma parental lines. An F2-derived F3 segregation population (n = 847) was further adopted for fine mapping, which delimited the McSTC1 locus to a 13.87 kb region containing one predicted gene McAPRR2 (Mc06g1638), a homolog of the Arabidopsis two-component response regulator-like gene AtAPRR2. Sequence alignment analysis of McAPRR2 revealed that a 15 bp insertion at exon 9 results in a truncated GLK domain of its encoded protein, which existed in 19 bitter gourd varieties with yellow stigma. A genome-wide synteny search of the bitter gourd McAPRR2 genes in Cucurbitaceae family revealed its close relationship with other cucurbits APRR2 genes that are corresponding to white or light green fruit skin. Our findings provide insights into the molecular marker-assisted breeding of bitter gourd stigma color and the mechanism of gene regulation for stigma color.

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