Insights into the nuclear-organelle DNA integration in Cicuta virosa (Apiaceae) provided by complete plastid and mitochondrial genomes

BMC Genomics, Год журнала: 2025, Номер 26(1)

Опубликована: Фев. 3, 2025

Abstract Background Gene transfer between the organelles and nucleus plays a central role in shaping plant genome evolution. The identification analysis of nuclear DNA plastid (NUPTs) mitochondrial (NUMTs) origins are important for exploring extent intracellular genomes. Results We report complete genomes (plastome mitogenome) Cicuta virosa (Apiaceae) as well draft using high-fidelity (HiFi) PacBio sequencing technologies. C. plastome (154,449 bp) is highly conserved, with quadripartite structure, whereas mitogenome (406,112 exhibits two chromosomes (352,718 bp 53,394 bp). mitochondrial-encoded genes ( rpl2 , rps14 rps19 sdh3 ) were successfully transferred to genome. Our findings revealed extensive from nucleus, 6,686 NUPTs 6,237 NUMTs detected, covering nearly entire (99.93%) substantial portion (77.04%). These transfers exhibit range sequence identities (80–100%), suggesting multiple events over evolutionary timescales. Recent more frequent mitochondria than that plastids. Conclusions This study contributes understanding ongoing evolution underscores significance organelle-nuclear interplay species. provide valuable insights into processes shape organelle Apiaceae, implications broader

Язык: Английский

---

Comparative analysis of the whole mitochondrial genomes of four species in sect. Chrysantha (Camellia L.), endemic taxa in China

BMC Plant Biology, Год журнала: 2024, Номер 24(1)

Опубликована: Окт. 12, 2024

The sect. Chrysantha Chang of plants with yellow flowers Camellia species as the "Queen Tea Family", most these are narrowly distributed endemics China and currently listed Grde-II in National Key Protected Wild Plant China. They commercially important horticultural medicinal scientific research value. However, study genetics still its infancy, to date, mitochondrial genome has been unexplored.

Язык: Английский

---

Assembly and analysis of stephania japonica mitochondrial genome provides new insights into its identification and energy metabolism

BMC Genomics, Год журнала: 2025, Номер 26(1)

Опубликована: Фев. 24, 2025

Stephania japonica, a popular indoor ornamental and medicinal plant widely found in southern China, contains many natural compounds with potential value. S. japonica is also favored by researchers for its ability to produce catharanthine. Energy metabolism functions development, the composition of mitochondrial genome regarded as foundation understanding energy getting insights into environmental adaptation. In present investigation, whole was assembled from both second- third-generation sequencing data. The size 555,117 bp. It depicted complex polycyclic structure. addition, we conducted an in-depth study cytochrome c oxidase (cox) gene, which expression levels different tissues were measured real-time quantification PCR. Two phylogenetic trees established light sequences concerning 19 conserved protein-coding genes cox respectively. Both show that more closely related Aconitum kusnezoffii. result showed most highly expressed roots. A high-quality exhibits application value progress molecular markers, identification species super DNA barcoding, resolve mechanisms response environment using genomic information. With recognition plants, information has been thoroughly studied comprehensive analysis this investigation can offer valuable breeding new varieties.

Язык: Английский

---

The first complete mitochondrial genome assembly and comparative analysis of the fern Blechnaceae family: Blechnopsis orientalis

Frontiers in Plant Science, Год журнала: 2025, Номер 16

Опубликована: Март 20, 2025

Introduction Blechnopsis orientalis (L.) C. Presl is a medicinal and edible fern species belonging to the Blechnaceae family. Currently, complete mitochondrial genome of B. , as well those other species, remains unreported, studies on are limited. Methods In this study, was sequenced using both Nanopore PromethION Illumina NovaSeq 6000 platforms. Genome annotation performed MITOFY MFANNOT, with structural visualization via OGDRAW. In-depth analyses were conducted, including assessments non-synonymous/synonymous mutation ratios (Ka/Ks), codon usage bias, repeat sequence identification, RNA editing site prediction, collinearity, identification homologous fragments between chloroplast genomes. Finally, we employed maximum likelihood (ML) Bayesian (BI) methods analyze phylogenetic relationships among nine lycophyte species. Results The has complex structure comprising 80 contigs, total length 501,663 bp GC content 48.53%. A 179 genes identified, 40 protein-coding (PCGs), 98 tRNA genes, rRNA one pseudogene ( rps11 ). Phylogenetic analysis based PCGs from aligned described in Pteridophyte Phylogeny Group I (PPG I) system. Further comparison ten reported revealed that these plants highly conserved, despite significant rearrangements genome. Discussion findings study provide valuable insights into evolutionary contribute understanding characteristics ferns lycophytes.

Язык: Английский

---

Mitochondrial Genome Assembly and Structural Characteristics Analysis of Gentiana rigescens

International Journal of Molecular Sciences, Год журнала: 2024, Номер 25(21), С. 11428 - 11428

Опубликована: Окт. 24, 2024

, an alpine plant with significant medicinal value, possesses a complex genetic background. However, comprehensive genomic research on

Язык: Английский

---

Structural and evolutionary analyses of the mitochondrial genome of Spuriopimpinella brachycarpa

Frontiers in Plant Science, Год журнала: 2024, Номер 15

Опубликована: Ноя. 26, 2024

(Kom.) Kitag., a member of the Apiaceae family, is perennial aromatic herb native to Northeast Asia with applications in culinary and traditional medicine. Despite its significance, most studies on

Язык: Английский

---