ArticleBMC plant biology2022
Fifteen complete chloroplast genomes of Trapa species (Trapaceae): insight into genome structure, comparative analysis and phylogenetic relationships.
Article in BMC plant biology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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14 citing papers in PubMed, 29 citations in OpenAlex.
- Comparative Analysis of Chloroplast Genome Between Widely Distributed and Locally DistributedInternational journal of molecular sciences · 2025Article
- Comparative chloroplast genomes and phylogenetic analysis of sixFrontiers in plant science · 2025Article
- Comparative chloroplast genome analysis of Ardisia (Myrsinoideae, Primulaceae) in China and implications for phylogenetic relationships and adaptive evolution.BMC plant biology · 2024Article
- Comparative Analysis of Nutritional Properties, Phytochemical Profile, and Antioxidant Activities between Red and Green Water Chestnut (Foods (Basel, Switzerland) · 2024Article
- Comparative chloroplast genomes of Dactylicapnos species: insights into phylogenetic relationships.BMC plant biology · 2024Article
- Origin of domesticated water chestnuts (Ecology and evolution · 2024Article
- Complete chloroplast genomes of 13 species of sect. Tuberculata Chang (Camellia L.): genomic features, comparative analysis, and phylogenetic relationships.BMC genomics · 2024Article
- Chloroplast genomes in sevenFrontiers in genetics · 2024Article
- Comparative and phylogenetic analysis of chloroplast genomes from ten species inFrontiers in plant science · 2024Article
- A comprehensive genus-level phylogeny and biogeographical history of the Lythraceae based on whole plastome sequences.Annals of botany · 2023Article
- Chromosome-level assemblies of cultivated water chestnut Trapa bicornis and its wild relative Trapa incisa.Scientific data · 2023Article
- The plastid genome of twenty-two species from Ferula, Talassia, and Soranthus: comparative analysis, phylogenetic implications, and adaptive evolution.BMC plant biology · 2023Article
- The chloroplast genome ofMitochondrial DNA. Part B, Resources · 2023Article
- The complete chloroplast genome ofMitochondrial DNA. Part B, Resources · 2022Article
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Authors and funding
6 authors at 4 institutions in 1 country.
Funding
Abstract
backgroundTrapa L. is a floating-leaved aquatic plant with important economic and ecological values. However, the species identification and phylogenetic relationship within Trapa are still controversial, which necessitates the need for plastid genome information of Trapa. In this study, complete chloroplast genomes of 13 Trapa species/taxa were sequenced and annotated. Combined with released sequences, comparative analyses of chloroplast genomes were performed on the 15 Trapa species/taxa for the first time.
resultsThe Trapa chloroplast genomes exhibited typical quadripartite structures with lengths from 155,453 to 155,559 bp. The gene orders and contents within Trapa were conservative, but several changes were found in the microstructure. The intron loss of rpl2, also detected in Lythraceae, was found in all Trapa species/taxa, suggesting close genetic relationship between Lythraceae and Trapaceae. Notably, two small-seed species (T. incisa and T. maximowiczii) showed the smallest genome size with 155,453 and 155,477 bp, respectively. Each cp genome contained the same 130 genes consisting of 85 protein-coding genes, 37 tRNA genes and 8 rRNA genes. Trapa species/taxa showed 37 (T. incisa and T. maximowiczii) to 41 (T. sibirica) long repeats, including forward, palindromic, reversed and complementary repeats. There were 110 (T. quadrispinosa) to 123 (T. incisa and T. maximowiczii) SSR (simple sequence repeat) loci in Trapa chloroplast genomes. Comparative analyses revealed that two hotspot regions (atpA-atpF and rps2-rpoC2) in Trapa chloroplast genomes could be served as potential molecular markers. Three phylogenetic analyses (ML, MP and BI) consistently showed that there were two clusters within Trapa, including large- and small-seed species/taxa, respectively; for the large-seed Trapa, they clustered according to their geographical origin and tubercle morphology on the surface of seeds.
conclusionIn summary, we have acquired the sequences of 13 Trapa chloroplast genomes, and performed the comparative analyses within Trapa for the first time. The results have helped us better identify the Trapa species/taxa and deepen the understanding of genetic basis and phylogenetic relationship of Trapa, which will facilitate the effective management and utilization of the important genetic resources in the future.
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