ArticleBMC genomics2020
Comparative population genomics reveals genetic divergence and selection in lotus, Nelumbo nucifera.
Article in BMC genomics, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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13 citing papers in PubMed, 25 citations in OpenAlex.
- From fragmentation to resolution: high-fidelity genome assembly of zancudomyces culisetae through comparative insights from PacBio, Nanopore, and Illumina sequencing.G3 (Bethesda, Md.) · 2025Article
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- Integrated metabolomic and transcriptomic analysis reveals the biosynthesis mechanism of dihydrochalcones in sweet tea (Frontiers in plant science · 2025Article
- Identification and characterization of two APETALA2 homolog genes in lotus (Nelumbo nucifera) involved in sepal and petal development.BMC plant biology · 2024Article
- Identification of QTLs and Putative Candidate Genes for Plant Architecture of Lotus Revealed by Regional Association Mapping.Plants (Basel, Switzerland) · 2023Article
- Exploring domestication pattern in lotus: insights from dispensable genome assembly.Frontiers in plant science · 2023Article
- Middle Miocene lotus (Nelumbonaceae,Biology · 2022Article
- Genome-Wide Identification and Expression Analysis of Dof Transcription Factors in Lotus (Plants (Basel, Switzerland) · 2022Article
- Studies on Lotus Genomics and the Contribution to Its Breeding.International journal of molecular sciences · 2022Review
- Limited genetic diversity and high differentiation in Angelica dahurica resulted from domestication: insights to breeding and conservation.BMC plant biology · 2022Article
- Lotus seeds (Food science & nutrition · 2021Review
- Nelumbo genome database, an integrative resource for gene expression and variants of Nelumbo nucifera.Scientific data · 2021Article
- The Distribution and Origins ofFrontiers in plant science · 2021Article
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Authors and funding
9 authors at 3 institutions in 1 country.
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Abstract
backgroundLotus (Nelumbo nucifera) is an aquatic plant with important agronomic, horticulture, art and religion values. It was the basal eudicot species occupying a critical phylogenetic position in flowering plants. After the domestication for thousands of years, lotus has differentiated into three cultivated types -flower lotus, seed lotus and rhizome lotus. Although the phenotypic and genetic differentiations based on molecular markers have been reported, the variation on whole-genome level among the different lotus types is still ambiguous.
resultsIn order to reveal the evolution and domestication characteristics of lotus, a total of 69 lotus accessions were selected, including 45 cultivated accessions, 22 wild sacred lotus accessions, and 2 wild American lotus accessions. With Illumina technology, the genomes of these lotus accessions were resequenced to > 13× raw data coverage. On the basis of these genomic data, 25 million single-nucleotide polymorphisms (SNPs) were identified in lotus. Population analysis showed that the rhizome and seed lotus were monophyletic and genetically homogeneous, whereas the flower lotus was biphyletic and genetically heterogeneous. Using population SNP data, we identified 1214 selected regions in seed lotus, 95 in rhizome lotus, and 37 in flower lotus. Some of the genes in these regions contributed to the essential domestication traits of lotus. The selected genes of seed lotus mainly affected lotus seed weight, size and nutritional quality. While the selected genes were responsible for insect resistance, antibacterial immunity and freezing and heat stress resistance in flower lotus, and improved the size of rhizome in rhizome lotus, respectively.
conclusionsThe genome differentiation and a set of domestication genes were identified from three types of cultivated lotus- flower lotus, seed lotus and rhizome lotus, respectively. Among cultivated lotus, flower lotus showed the greatest variation. The domestication genes may show agronomic importance via enhancing insect resistance, improving seed weight and size, or regulating lotus rhizome size. The domestication history of lotus enhances our knowledge of perennial aquatic crop evolution, and the obtained dataset provides a basis for future genomics-enabled breeding.
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