From comparative gene content and gene order to ancestral contigs, chromosomes and karyotypes DOI Creative Commons
Qiaoji Xu, Lingling Jin, Chunfang Zheng

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2022, Volume and Issue: unknown

Published: Sept. 30, 2022

Abstract To reconstruct the ancestral genome of a set phylogenetically related descendant species, we use Raccroche pipeline for organizing large number generalized gene adjacencies into contigs and then chromosomes. Separate reconstructions are carried out each node phylogenetic tree focal taxa. The monoploids; they contain at most one member family constructed from descendants, ordered along We design implement new computational technique solving problem estimating monoploid chromosomes x . This involves “ g -mer” analysis to resolve bias due long contigs, gap statistics estimate find that all rosid asterid orders is = 9 show this not an artifact our method by deriving ≈ 20 metazoan ancestor.

Language: Английский

Plant genome evolution in the genusEucalyptusis driven by structural rearrangements that promote sequence divergence DOI
Scott Ferguson, Ashley Jones, Kevin Murray

et al.

Genome Research, Journal Year: 2024, Volume and Issue: unknown

Published: April 8, 2024

Genomes have a highly organized architecture (nonrandom organization of functional and nonfunctional genetic elements within chromosomes) that is essential for many biological functions, particularly gene expression reproduction. Despite the need to conserve genome architecture, high level structural variation has been observed species. As species separate diverge, also diverges, becoming increasingly poorly conserved as divergence time increases. However, plant genomes, processes are not well described. Here we use long-read sequencing de novo assembly 33 phylogenetically diverse, wild naturally evolving Eucalyptus species, covering 1–50 million years diverging evolution measure architectural conservation describe divergence. The investigation these genomes revealed following lineage divergence, fragmented by rearrangements. continue accumulation mutations subsequent beyond recognition rearrangements become primary driver loss syntenic regions contribute but at slower pace than We hypothesize duplications translocations potentially greatest contributors

Language: Английский

Citations

8
A high-quality pseudo-phased genome for Melaleuca quinquenervia shows allelic diversity of NLR-type resistance genes DOI Creative Commons
Stephanie H. Chen, Alyssa M Martino, Zhenyan Luo

et al.

GigaScience, Journal Year: 2022, Volume and Issue: 12

Published: Dec. 28, 2022

Abstract Background Melaleuca quinquenervia (broad-leaved paperbark) is a coastal wetland tree species that serves as foundation in eastern Australia, Indonesia, Papua New Guinea, and Caledonia. While extensively cultivated for its ornamental value, it has also become invasive regions like Florida, USA. Long-lived trees face diverse pest pathogen pressures, plant stress responses rely on immune receptors encoded by the nucleotide-binding leucine-rich repeat (NLR) gene family. However, comprehensive annotation of NLR encoding genes been challenging due to their clustering arrangement chromosomes highly repetitive domain structure; expansion family driven largely tandem duplication. Additionally, allelic diversity remains unexplored outcrossing species, many genomes are presented haploid, collapsed state. Results We assembled chromosome-level pseudo-phased genome M. described NLRs using novel FindPlantNLRs pipeline. Analysis reveals variation number each haplotype, distinct patterns, differences types numbers integrated domains. Conclusions The high-quality assembly establishes new framework functional evolutionary studies this significant species. Our findings suggest maintaining within crucial enabling environmental stress, particularly long-lived plants.

Language: Английский

Citations

16
The Potential of Hydrogel Preparations Containing Plant Materials in Supporting the Treatment of Vaginal and Vulvar Infections—Current State of Knowledge DOI Open Access
Aneta Ostróżka-Cieślik, Monika Michalak, Tomasz Krzysztof Bryś

et al.

Polymers, Journal Year: 2025, Volume and Issue: 17(4), P. 470 - 470

Published: Feb. 11, 2025

Vaginal hydrogels are a modern alternative to solid (tablets, globules) and other semi-solid forms of medication (ointments, creams) in the control pathogenic microorganisms diseases female reproductive tract. This review aims summarize current state knowledge regarding efficacy containing plant materials treatment vaginal vulvar infections. New therapies essential address growing antimicrobial resistance crisis. Google Scholar, Web Science, Cochrane, Medline (PubMed) databases were searched. Twenty-five studies included review, including basic, pre-clinical, clinical studies. The results obtained confirmed therapeutic potential raw embedded polymer matrix hydrogels. However, due small number trials conducted, further research this area is needed.

Language: Английский

Citations

0
The terpene synthase genes of Melaleuca alternifolia (tea tree) and comparative gene family analysis among Myrtaceae essential oil crops DOI Creative Commons
Julia Voelker, Ramil Mauleon, Mervyn Shepherd

et al.

Plant Systematics and Evolution, Journal Year: 2023, Volume and Issue: 309(3)

Published: April 6, 2023

Abstract Terpene synthases (TPS) are responsible for the terminal biosynthetic step of terpenoid production. They encoded by a highly diverse gene family believed to evolve tandem duplication in response adaptive pressures. Taxa Myrtaceae renowned their diversity terpenoid-rich essential oils, and among them, tribe Eucalypteae has largest TPS found any plant (> 100 ). In this study, comparative analysis Melaleuca alternifolia (tea tree), from related Melaleuceae, revealed some have smaller families, as total 58 putatively functional full-length genes, 21 pseudogenes were identified manual annotation newly released long-read assembly genome. The TPS-a TPS-b2 subfamilies that synthesise secondary compounds often mediating plant-environment interactions more diminutive than those eucalypts, probably reflecting key differences evolutionary histories two lineages. Of TPS-b1 , 13 clustered into region around 400 kb on one scaffold. organisation these suggested was instrumental evolution terpene chemistry . Four likely catalyse synthesis three monoterpenoid components used classify tea tree chemotypes within single small 87 larger cluster raising possibility coregulation linkage may lead behaviour locus, providing an explanation categorical inheritance complex multiple-component taxon.

Language: Английский

Citations

8
Fabrication and Biological Activities of All-in-One Composite Nanoemulsion Based on Blumea balsamifera Oil-Tea Tree Oil DOI Creative Commons

Yue Zhu,

Teng Chen,

Tingting Feng

et al.

Molecules, Journal Year: 2023, Volume and Issue: 28(15), P. 5889 - 5889

Published: Aug. 5, 2023

Nanoemulsion is a new multi-component drug delivery system; the selection of different oil phases can give it special physiological activity, and play role "medicine pharmaceutical excipients all-in-one". In this paper, we used glycyrrhizic acid as natural surfactant, Blumea balsamifera (BB) tea tree (TTO) mixed phase, to obtain green functional composite nanoemulsion. Using average particle size polydispersion index (PDI) evaluation criteria, effects ratio, content, concentration, ultrasonic time on nanoemulsion were systematically investigated. The stability physicochemical properties biological activities BB-TTO NEs prepared via optimum formulation characterized. optimal prescription was BB: TTO = 1:1, 5% 0.7% acid, 5 min ultrasonication time. mean size, PDI, zeta potential 160.01 nm, 0.125, -50.94 mV, respectively. showed non-significant changes in after centrifugation, dilution, 120 days storage. These nanoemulsions found exhibit antibacterial anti-inflammatory activities. minimal inhibitory concentration (MIC) against Escherichia coli, Staphylococcus aureus, Pseudomonas aeruginosa 2975 μg/mL, 5950 A lower level inflammatory cell infiltration proportion fibrosis synovial tissue AIA rats treated with NEs. findings demonstrate that produced study have significant for usage areas.

Language: Английский

Citations

7
A high-quality draft genome for Melaleuca alternifolia (tea tree): a new platform for evolutionary genomics of myrtaceous terpene-rich species DOI Creative Commons
Julia Voelker, Mervyn Shepherd, Ramil Mauleon

et al.

Gigabyte, Journal Year: 2021, Volume and Issue: 2021, P. 1 - 15

Published: Aug. 9, 2021

The economically important Melaleuca alternifolia (tea tree) is the source of a terpene-rich essential oil with therapeutic and cosmetic uses around world. Tea tree has been cultivated bred in Australia since 1990s. It extensively studied for genetics biochemistry terpene biosynthesis. Here, we report high quality de novo genome assembly using Pacific Biosciences Illumina sequencing. was assembled into 3128 scaffolds total length 362 Mb (N50 = 1.9 Mb), significantly higher contiguity than previous 8.7 Kb). Using homology-based, RNA-seq evidence-based ab initio prediction approach, 37,226 protein-coding genes were predicted. Genome annotation exhibited completeness scores 98.1% 89.4%, respectively. Sequence sufficient to reveal extensive gene order conservation chromosomal rearrangements alignments Eucalyptus grandis Corymbia citriodora genomes. This new advances currently available resources investigate structure family evolution M. alternifolia. will enable further comparative genomic studies Myrtaceae elucidate genetic foundations valuable traits this crop.

Language: Английский

Citations

16
Identification of MYB gene family in medicinal tea tree Melaleuca alternifolia (Maiden and Betche) cheel and analysis of members regulating terpene biosynthesis DOI
Xiaoning Zhang,

Zhanwu Xu,

Buming Liu

et al.

Molecular Biology Reports, Journal Year: 2024, Volume and Issue: 51(1)

Published: Jan. 4, 2024

Language: Английский

Citations

2
Obtaining PCL/tea tree oil particles with antimicrobial capacity and high cytocompatibility DOI
Izabel Jales Ferreira, Lívia Rodrigues de Menezes, Maria Inês Bruno Tavares

et al.

Polymer Bulletin, Journal Year: 2024, Volume and Issue: 81(17), P. 15995 - 16020

Published: Aug. 12, 2024

Language: Английский

Citations

1
The chromosome-level Melaleuca alternifolia genome provides insights into the molecular mechanisms underlying terpenoids biosynthesis DOI
Xuehai Zheng, Siyuan Chen,

Ganghua Lin

et al.

Industrial Crops and Products, Journal Year: 2022, Volume and Issue: 189, P. 115819 - 115819

Published: Oct. 22, 2022

Language: Английский

Citations

6
A terpene synthase supergene locus determines chemotype in Melaleuca alternifolia (tea tree) DOI Creative Commons
Julia Voelker, Ramil Mauleon, Mervyn Shepherd

et al.

New Phytologist, Journal Year: 2023, Volume and Issue: 240(5), P. 1944 - 1960

Published: Sept. 22, 2023

Leaf oil terpenes vary categorically in many plant populations, leading to discrete phenotypes of adaptive and economic significance, but for most species, a genetic explanation the concerted fluctuation terpene chemistry remains unresolved. To uncover architecture underlying multi-component chemotypes Melaleuca alternifolia (tea tree), genome-wide association study was undertaken 148 individuals representing all six recognised chemotypes. A number single nucleotide polymorphisms genomic region c. 400 kb explained large proportions variation key monoterpenes tea tree oil. The contained cluster 10 monoterpene synthase genes, including four genes predicted encode synthases 1,8-cineole, terpinolene, terpinen-4-ol precursor, sabinene hydrate. Chemotype-dependent null alleles at some sites suggested structural variants within this gene cluster, providing possible basis linkage disequilibrium region. Genotyping separate domesticated population revealed that surrounding were fixed after artificial selection chemotype. These observations indicate supergene accounts M. alternifolia. model with three haplotypes, encompassing characterised chemotypes, consistent available biparental cross-segregation data.

Language: Английский

Citations

3