Lee, Eun Song, Heo, Jung, Bang, Woo Young, Chougule, Kapeel M, Waminal, Nomar Espinosa, Hong, Nguyen Thi, Kim, Min Ji, Beak, Hong Kwan, Kim, Yong Jun, Priatama, Ryza A, Jang, Ji In, Cha, Kang Il, Son, Seung Han, Rajendran, Sujeevan, Choo, Young-Kug, Bae, Jong Hyang, Kim, Chul Min, Lee, Young Koung, Bae, Sangsu, Jones, Jonathan DG, Sohn, Kee Hoon, Lee, Jiyoung, Kim, Hyun Hee, Hong, Jong Chan, Ware, Doreen, Kim, Keunhwa, Park, Soon Ju (August 2023) Engineering homoeologs provide a fine scale for quantitative traits in polyploid. Plant Biotechnology Journal. pp. 1-15. ISSN 1467-7644 (Public Dataset)
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Abstract
Numerous staple crops exhibit polyploidy and are difficult to genetically modify. However, recent advances in genome sequencing and editing have enabled polyploid genome engineering. The hexaploid black nightshade species Solanum nigrum has immense potential as a beneficial food supplement. We assembled its genome at the scaffold level. After functional annotations, we identified homoeologous gene sets, with similar sequence and expression profiles, based on comparative analyses of orthologous genes with close diploid relatives Solanum americanum and S. lycopersicum. Using CRISPR-Cas9-mediated mutagenesis, we generated various mutation combinations in homoeologous genes. Multiple mutants showed quantitative phenotypic changes based on the genotype, resulting in a broad-spectrum effect on the quantitative traits of hexaploid S. nigrum. Furthermore, we successfully improved the fruit productivity of Boranong, an orphan cultivar of S. nigrum suggesting that engineering homoeologous genes could be useful for agricultural improvement of polyploid crops.
| Item Type: | Paper |
|---|---|
| Subjects: | bioinformatics bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification bioinformatics > genomics and proteomics > genetics & nucleic acid processing bioinformatics > genomics and proteomics bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > mutations organism description > plant |
| CSHL Authors: | |
| Communities: | CSHL labs > Ware lab |
| SWORD Depositor: | CSHL Elements |
| Depositing User: | CSHL Elements |
| Date: | 2 August 2023 |
| Date Deposited: | 21 Sep 2023 18:02 |
| Last Modified: | 10 Jan 2024 20:08 |
| PMCID: | PMC10651150 |
| Related URLs: | |
| Dataset ID: |
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| URI: | https://repository.cshl.edu/id/eprint/40947 |
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