The Genomes of Australian Wild Limes DOI Creative Commons
Upuli Nakandala, Agnelo Furtado, Ardashir Kharabian Masouleh

и другие.

Research Square (Research Square), Год журнала: 2024, Номер unknown

Опубликована: Март 1, 2024

Abstract Australian wild limes occur in highly diverse range of environments and are a unique genetic resource within the genus Citrus. Here we compare haplotype-resolved genome assemblies six native limes, including four new generated using PacBio HiFi Hi-C sequencing data. The size genomes was between 315 391 Mb with contig N50s from 29.5 to 35 Mb. Gene completeness estimated be 98.4–99.3% annotations 97.7–98.9% based upon BUSCO, confirming high contiguity assembled genomes. High collinearity observed among two haplotype for each species. duplication evolutionary analysis demonstrated that citrus have undergone only one ancient whole-genome triplication event during evolution. highest number species-specific expanded gene families were found C. glauca they primarily enriched purine, thiamine metabolism, amino acids aromatic metabolism which might help mitigate drought, salinity, pathogen attacks drier this species is found. Unique genes related terpene biosynthesis, glutathione toll-like receptors australasica, starch sucrose both australis australasica important candidate HLB tolerance these Expanded not lineage specific, however, greater plant-pathogen interactions, predominantly disease resistant protein, australis.

Язык: Английский

Comparative Genomic and Phylogenetic Analysis of Chloroplasts in Citrus paradisi Mac.cv. Cocktail DOI Open Access

Qun Wu,

Yun Zhu,

Shipei Zheng

и другие.

Genes, Год журнала: 2025, Номер 16(5), С. 544 - 544

Опубликована: Апрель 30, 2025

Background: Citrus paradisi Mac. cv. Cocktail is globally valued for its abundant nutrients and bioactive compounds, particularly in tropical subtropical regions. A novel albino phenotype mutant of C. (designated WT) was identified Quzhou subsequently named mosaic (MT). To distinguish from conventional grapefruit cultivars to elucidate genomic differences between WT MT, this study conducted a comprehensive comparison their chloroplast genomes with those previously reported species. Methods: The complete MT were assembled through Illumina PE150 sequencing, enabling detailed comparative evolutionary studies. Results: results revealed that both exhibit conserved quadripartite structure. Each genome measures 160,186 base pairs length, uniform GC content 38.5%. Annotation 138 genes (91 protein-coding, 10 rRNA, 37 tRNA), 82 repeats, A/U-biased codons. Genome boundaries showed identical but divergent other Citrus. 52 protein-coding comparable selection pressures MT. Phylogenetically, are closely related distinguished all the traditional grapefruits. Conclusions: unrelated variations. Chloroplast genomics supports Cocktail’s differentiation This expands resources establishes theoretical framework future research on varieties.

Язык: Английский

Процитировано

0
Natural resources as cancer-treating material DOI
Poonam Kaswan

South African Journal of Botany, Год журнала: 2023, Номер 158, С. 369 - 392

Опубликована: Май 29, 2023

Язык: Английский

Процитировано

7
Complete chloroplast genomes of four Atalantia (Rutaceae) species: insights into comparative analysis, phylogenetic relationships, and divergence time estimation DOI
Wenbo Shi, Weicai Song, Yuqi Zhao

и другие.

Plant Systematics and Evolution, Год журнала: 2023, Номер 309(5)

Опубликована: Авг. 16, 2023

Язык: Английский

Процитировано

7
Phylogenetic relationships among Australian native citrus species based upon complete chloroplast genomes and single copy nuclear genes DOI Creative Commons
Upuli Nakandala, Agnelo Furtado, Malcolm W. Smith

и другие.

Tropical Plants, Год журнала: 2023, Номер 2(1), С. 0 - 0

Опубликована: Янв. 1, 2023

Citrus is widely consumed across the world as a fruit crop. Despite many citrus species being extensively studied around world, phylogenetic relationships among Australian native remain unresolved. Here we present six species, two domesticated cultivars of commercial importance in Australia, and another 13 accessions cultivated internationally based on complete, de novo assembled chloroplast genomes 86 single copy nuclear genes. The phylogenies were topologically different. formed monophyletic clade their phylogeny revealed close relationship between Citrus inodora australasica. These distinct from other four limes that more closely related to each other. australasica had unique which was all limes. Among limes, glauca most genes, however, it similar sequence C. australis. undetermined Citrus sp. garrawayi, indicating form garrawayi. medica, species. However, gene analysis medica Asian This study improves our understanding confirms status within genus since clearly separated non-Australian

Язык: Английский

Процитировано

6
Complete plastid genome structure of 13 Asian Justicia (Acanthaceae) species: comparative genomics and phylogenetic analyses DOI Creative Commons
Zhengyang Niu, Zheli Lin, Yi Tong

и другие.

BMC Plant Biology, Год журнала: 2023, Номер 23(1)

Опубликована: Ноя. 15, 2023

Justicia L. is the largest genus in Acanthaceae Juss. and widely distributed tropical subtropical regions of world. Previous phylogenetic studies have proposed a general framework for based on several molecular markers. However, their were mainly focused resolution issues Africa, Australia South America due to limited sampling from Asia. Additionally, although plants are high medical ornamental values, little research its genetics was reported. Therefore, improve understanding genomic structure relationships among Asian plants, we sequenced complete chloroplast (cp.) genomes 12 combined with previously published cp. genome leptostachya Hemsl. further comparative genomics analyses.All exhibit typical quadripartite without rearrangement gene loss. Their sizes range 148,374 151,739 bp, including large single copy (LSC, 81,434-83,676 bp), small (SSC, 16,833-17,507 bp) two inverted repeats (IR, 24,947-25,549 bp). GC contents 38.1 38.4%. All plastomes contain 114 genes, 80 protein-coding 30 tRNAs 4 rRNAs. IR variation repetitive sequences analyses both indicated that grossa C. B. Clarke different other species because lengths ndhF ycf1 IRs shorter than others it richest SSRs dispersed repeats. The identified as candidate DNA barcode Justicia. Our results showed polyphyletic group, which consistent previous studies. Among them, J. belongs subtribe Tetramerinae tribe Justicieae while members belong Justiciinae. morphological evidence, should be undoubtedly recognized new genus. Interestingly, evolutionary history discovered congruent morphology evolution.Our study not only elucidates basic features whole plastomes, but also sheds light interspecific first time.

Язык: Английский

Процитировано

5
Comparative mineral and biochemical characterization of Citrus reticulata fruits and leaves to citrus canker pathogens, Xanthomonas axonopodis DOI Creative Commons
Rab Nawaz,

Abdul Ghani,

Muhammad Nadeem

и другие.

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

Опубликована: Май 9, 2024

Abstract Pakistan’s economy greatly benefits from citrus production since these fruits are sold and consumed all over the world. Although easy to cultivate, they susceptible diseases caused by bacteria, viruses, fungi. These challenges, as well difficulties in obtaining proper nutrients, might negatively impact fruit yields quality. Citrus canker is another complicated problem germ Xanthomonas axonopodis . This affects many types of study looked closely at how leaves quality places like Sargodha, Bhalwal, Kotmomin, Silanwali, which big areas for growing Sargodha district. What we found was that plants without disease had more chlorophyll their compared sick plants. Also, healthy better amounts important minerals calcium, magnesium, potassium, phosphorus fruits. But with too much sodium, iron levels were a bit different. The also didn’t have something protects them called antioxidants, made likely get sick. helps us understand fruit, so can think ways deal it.

Язык: Английский

Процитировано

1
Reviews on Asian citrus species: Exploring traditional uses, biochemistry, conservation, and disease resistance DOI
Piumi Chathurika Palangasinghe, Wasantha Kumara Liyanage, Manupa Pabasara Wickramasinghe

и другие.

Ecological Genetics and Genomics, Год журнала: 2024, Номер 32, С. 100269 - 100269

Опубликована: Май 29, 2024

Язык: Английский

Процитировано

1
Comparative analysis of complete chloroplast genomes of five Anemone species and phylogenetic analysis within Tribe Anemoneae (Ranunculaceae) DOI
Siqi Hu, Wenbo Shi, Yahui Huang

и другие.

Journal of Plant Biochemistry and Biotechnology, Год журнала: 2024, Номер 33(3), С. 271 - 287

Опубликована: Авг. 3, 2024

Язык: Английский

Процитировано

1
The genomes of Australian wild limes DOI Creative Commons
Upuli Nakandala, Agnelo Furtado, Ardashir Kharabian Masouleh

и другие.

Plant Molecular Biology, Год журнала: 2024, Номер 114(5)

Опубликована: Сен. 24, 2024

Abstract Australian wild limes occur in highly diverse range of environments and are a unique genetic resource within the genus Citrus . Here we compare haplotype-resolved genome assemblies six native limes, including four new generated using PacBio HiFi Hi-C sequencing data. The size genomes was between 315 391 Mb with contig N50s from 29.5 to 35 Mb. Gene completeness estimated be 98.4 99.3% annotations 97.7 98.9% based upon BUSCO, confirming high contiguity assembled genomes. High collinearity observed among two haplotype for each species. duplication evolutionary analysis demonstrated that citrus have undergone only one ancient whole-genome triplication event during evolution. highest number species-specific expanded gene families were found C. glauca they primarily enriched purine, thiamine metabolism, amino acids aromatic metabolism which might help mitigate drought, salinity, pathogen attacks drier this species is found. Unique genes related terpene biosynthesis, glutathione toll-like receptors australasica , starch sucrose both australis important candidate HLB tolerance these Expanded not lineage specific, however, greater plant-pathogen interactions, predominantly disease resistant protein,

Язык: Английский

Процитировано

1
Complete Chloroplast Genomes of Saussurea katochaete, Saussurea superba, and Saussurea stella: Genome Structures and Comparative and Phylogenetic Analyses DOI Open Access
Hui He,

Tao Wang,

Chuyu Tang

и другие.

Genes, Год журнала: 2023, Номер 14(11), С. 2002 - 2002

Опубликована: Окт. 26, 2023

Saussurea plants are widely distributed in Asia and Europe; however, their complex phylogenetic relationships have led to many difficulties studies interspecific identification. In this study, we assembled, annotated, analyzed the chloroplast genomes of three plants: katochaete, superba, stella. The results showed that full-length sequences were 152,561 bp, 151,452 152,293 respectively, which represent typical quadripartite structure, relatively conserved. gene annotation S. stella annotated with 128, 124, 127 unique genes, included 83, 80, 83 protein-coding genes (PCGs), 37, 36, 36 tRNA 8 rRNA genes. Moreover, 46, 45, 43 SSR loci, nine highly variable regions (rpl32-trnL-UAG, rpl32, ndhF-rpl32, ycf1, trnC-GCA-petN, trnC-GCA, rpcL, psbE-petL, rpl16-trnG-UUG) identified could be used as potential molecular markers for population identification study plants. Phylogenetic analyses strongly support sisterhood katochaete superba stella, all clustered depsagensis, inversa, medusa, gossipihora, gossipiphora is most closely related. Additionally, indicate a high frequency differentiation among different species plants, or genera morphologically very from each other, may related certain genetic material chloroplasts. This provides an important reference evolution phylogenetics.

Язык: Английский

Процитировано

3