ArticleBMC genomics2014
Differential genome evolution and speciation of Coix lacryma-jobi L. and Coix aquatica Roxb. hybrid guangxi revealed by repetitive sequence analysis and fine karyotyping.
Article in BMC genomics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
27 citing papers in PubMed, 59 citations in OpenAlex.
- Metal(loid) uptake and physiological response of Coix lacryma-jobi L. to soil potentially toxic elements in a polluted metal-mining area.Scientific reports · 2024Article
- Omics-driven utilization of wild relatives for empowering pre-breeding in pearl millet.Planta · 2024Review
- Construction of a high-density genetic map based on large-scale marker development in Coix lacryma-jobi L. using specific-locus amplified fragment sequencing (slaf-seq).Scientific reports · 2024Article
- Cyto-molecular characterization of rDNA and chromatin composition in the NOR-associated satellite in Chestnut (Castanea spp.).Scientific reports · 2024Article
- Article
- Genome-wide identification and expression analysis of VQ gene family under abiotic stress in Coix lacryma-jobi L.BMC plant biology · 2023Article
- The Differences of Nutrient Components in Edible and Feeding Coix Seed at Different Developmental Stages Based on a Combined Analysis of Metabolomics.Molecules (Basel, Switzerland) · 2023Article
- Efficient Anchoring of Erianthus arundinaceus Chromatin Introgressed into Sugarcane by Specific Molecular MarkersInternational journal of molecular sciences · 2022Article
- Beyond a reference genome: pangenomes and population genomics of underutilized and orphan crops for future food and nutrition security.The New phytologist · 2022Review
- Complete chloroplast genome sequencing of Job's tears (Mitochondrial DNA. Part B, Resources · 2021Article
- Genome evolution during bread wheat formation unveiled by the distribution dynamics of SSR sequences on chromosomes using FISH.BMC genomics · 2021Article
- Comparative Repeat Profiling of Two Closely Related Conifers (Frontiers in genetics · 2021Article
- New evidence confirming the CD genomic constitutions of the tetraploid Avena species in the section Pachycarpa Baum.PloS one · 2021Article
- Genome Assembly and Annotation of Soft-Shelled Adlay (Frontiers in plant science · 2020Article
- Integrated Karyotypes of Diploid and Tetraploid Carrizo Citrange (Frontiers in plant science · 2020Article
- In silico mining and FISH mapping of a chromosome-specific satellite DNA in Capsicum annuum L.Genes & genomics · 2019Article
- The repetitive DNA landscape in Avena (Poaceae): chromosome and genome evolution defined by major repeat classes in whole-genome sequence reads.BMC plant biology · 2019Article
- Molecular cytogenetic analysis of genome-specific repetitive elements in Citrus clementina Hort. Ex Tan. and its taxonomic implications.BMC plant biology · 2019Article
- Karyotype Analysis of Diploid and Spontaneously Occurring Tetraploid Blood Orange [Frontiers in plant science · 2019Article
- De novo transcriptome assembly of the Chinese pearl barley, adlay, by full-length isoform and short-read RNA sequencing.PloS one · 2018Article
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Authors and funding
8 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundCoix, Sorghum and Zea are closely related plant genera in the subtribe Maydeae. Coix comprises 9-11 species with different ploidy levels (2n = 10, 20, 30, and 40). The exclusively cultivated C. lacryma-jobi L. (2n = 20) is widely used in East and Southeast Asia for food and medicinal applications. Three fertile cytotypes (2n = 10, 20, and 40) have been reported for C. aquatica Roxb. One sterile cytotype (2n = 30) closely related to C. aquatica has been recently found in Guangxi of China. This putative hybrid has been named C. aquatica HG (Hybrid Guangxi). The genome composition and the evolutionary history of C. lacryma-jobi and C. aquatica HG are largely unclear.
resultsAbout 76% of the genome of C. lacryma-jobi and 73% of the genome of C. aquatica HG are repetitive DNA sequences as shown by low coverage genome sequencing followed by similarity-based cluster analysis. In addition, long terminal repeat (LTR) retrotransposable elements are dominant repetitive sequences in these two genomes, and the proportions of many repetitive sequences in whole genome varied greatly between the two species, indicating evolutionary divergence of them. We also found that a novel 102 bp variant of centromeric satellite repeat CentX and two other satellites only appeared in C. aquatica HG. The results from FISH analysis with repeat probe cocktails and the data from chromosomes pairing in meiosis metaphase showed that C. lacryma-jobi is likely a diploidized paleotetraploid species and C. aquatica HG is possibly a recently formed hybrid. Furthermore, C. lacryma-jobi and C. aquatica HG shared more co-existing repeat families and higher sequence similarity with Sorghum than with Zea.
conclusionsThe composition and abundance of repetitive sequences are divergent between the genomes of C. lacryma-jobi and C. aquatica HG. The results from fine karyotyping analysis and chromosome pairing suggested diploidization of C. lacryma-jobi during evolution and C. aquatica HG is a recently formed hybrid. The genome-wide comparison of repetitive sequences indicated that the repeats in Coix were more similar to those in Sorghum than to those in Zea, which is consistent with the phylogenetic relationship reported by previous work.
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