Chloroplast Genome of Myristica fragrans : Assembly, Annotation, and Phylogenetic Relationships

Forest Science and Technology, Journal Year: 2025, Volume and Issue: unknown, P. 1 - 8

Published: March 21, 2025

Myristica fragrans is a native and economically significant species in Indonesia. However, its complete chloroplast genome, particularly from Indonesia, has not been previously reported. In this study, we successfully sequenced assembled the genome of M. using next-generation sequencing technology. The total length 155,868 bp exhibits typical quadripartite structure, consisting large single-copy (LSC) region (87,062 bp), small (SSC) (20,664 pair inverted repeats (IRs) (24,071 each). Genome annotation identified 126 genes, including 83 protein-coding 8 ribosomal RNA 35 transfer genes. A 141 simple sequence (SSRs) were detected, with mononucleotide being most prevalent (90.07%). Phylogenetic analysis six genomes three outgroup confirmed that closely related to argentea, providing new insights into evolutionary relationships within Myristicaceae family.

Language: Английский

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Comparative Analysis of Complete Chloroplast Genomes and Phylogenetic Relationships of 21 Sect. Camellia (Camellia L.) Plants

Genes, Journal Year: 2025, Volume and Issue: 16(1), P. 49 - 49

Published: Jan. 3, 2025

Background: Section Camellia is the most diverse group in genus L., and this of plants has a long history cultivation China as popular ornamental flowers oil plants. Sect. present morphological variations complexity among species, resulting uncertainty classification which resulted degree inconvenience confusion use plant resources research. Methods: Here, We sequenced assembled chloroplast genomes 6 sect. performed comparative genome analysis phylogenetic studies combined with 15 existing Results: The 21 species were quadripartite length 156,587–157,068 bp base pairs (bp), highly conserved moderately differentiated arrangement. similar to those angiosperms, high consistency gene number, content structure. After annotation process, we identified total 132 genes, specifically 87 sequences coding for proteins (CDS), 37 transfer RNA (tRNA) 8 ribosomal (rRNA) genes. ycf1 was only small single-copy/inverted repeat (SSC/IRa) region. Sequence variation greater large single-copy (LSC) region than IR region, majority protein-coding genes presented codon preferences. exhibit relatively SC (single copy region)/IR (inverted region) boundaries. detected 2975 single sequence repeats (SSRs) well 833 dispersed nuclear elements (INEs). Among these SSRs, A/T AT/AT dominated, while INEs, forward palindromic predominated. Codon usage frequencies largely similar, 30 high-frequency codons detected. Comparative revealed five hotspot regions (rps16, psaJ, rpl33, rps8, rpl16) two intervals (atpH-atpI petD-rpoA) cp genome, can be used potential molecular markers. In addition, tree constructed from that oleifera aggregated into branch, further subdivided evolutionarily independent sub-branches. Conclusions: It confirmed C. Abel are closely related genus. These findings will enhance our knowledge plants, deepen understanding their genetic characteristics pathways, provide strong support scientific development rational utilization Camellia.

Language: Английский

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Chloroplast-nuclear genome interaction drives asymmetric inverted repeats in chloroplast genome of Huperzia

Gene, Journal Year: 2025, Volume and Issue: unknown, P. 149324 - 149324

Published: Feb. 1, 2025

Language: Английский

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The complete chloroplast genome sequence of Melothria scabra (Cucurbitaceae)

Mitochondrial DNA Part B, Journal Year: 2024, Volume and Issue: 9(12), P. 1648 - 1652

Published: Dec. 1, 2024

Melothria scabra has gradually become an economically important plant worldwide. The complete chloroplast genome of M. a length 156,744 bp, contains large single-copy (LSC) region (86,387 bp), small (SSC) (18,055 and two inverted repeats (IRs) with the same 26,151 bp. In total, 126 genes were detected, including 83 protein-encoding genes, 35 transfer RNA (tRNA) eight ribosomal (rRNA) genes. For phylogenetic analysis, closer genetic relationship Cucumis sativus Citrullus lanatus. sequence would promote germplasm exploration, relationships, molecular biology researches in Melothria.

Language: Английский

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Comparative chloroplast genome analyses provide new insights into molecular markers for distinguishing Arnebiae Radix and its substitutes (tribe Lithospermeae, Boraginaceae)

Phytomedicine, Journal Year: 2024, Volume and Issue: 136, P. 156338 - 156338

Published: Dec. 20, 2024

Language: Английский

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