Comparative analysis of the complete chloroplast genomes from six Neotropical species of Myrteae (Myrtaceae)

Rodrigues, Nureyev Ferreira; Balbinott, Natalia; Paim, Igor; Guzmán, Frank; Margis, Rogério

doi:10.1590/1678-4685-gmb-2019-0302

Cited by 12 publications

(9 citation statements)

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“…The regions LSC, SSC, and IR presented 34.8%; 30.8%, and 42.7% of the GC content respectively. These sizes are similar to those already sequenced for other species of tribe Myrteae (Eguiluz et al, 2017a(Eguiluz et al, , 2017bMachado et al, 2017Machado et al, , 2020Rodrigues et al, 2020;Table S1). A total of 112 different genes were identified: 78 protein-coding, 30 tRNA genes, and four rRNA genes (Table 1).…”

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confidence: 85%

“…Patterns of structural conservation and synteny among six plastid genomes of Myrteae species were also reported by Rodrigues et al (2020). Here we show that such preserved patterns were shared with R. tomentosa, an earlier divergent species within Myrtaceae (Vasconcelos et al, 2017).…”

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confidence: 80%

“…Several studies have demonstrated that plastid genome sequences are quite useful tools for phylogenetic inferences (de Santana Lopes et al, 2018a;Machado et al, 2017Machado et al, , 2020Nagel et al, 2020) and investigation of evolutionary events (de Santana Lopes et al, 2018b, Stefenon et al 2019. Plastid genomes of some species of tribe Myrteae (Myrtaceae) have been sequenced (Eguiluz et al, 2017a(Eguiluz et al, , 2017bMachado et al, 2017Machado et al, , 2020Rodrigues et al, 2020) and may assist in understanding the evolution and solving taxonomic uncertainties within this tribe. The taxonomy of Myrteae has been considered particularly difficult (Vasconcelos et al, 2017) due to morphological conservatism, relatively homogeneous flowers, and the rarity of single diagnostic characters for individual clades (Lucas et al, 2019).…”

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Structural and evolutive features of the Plinia phitrantha and P. cauliflora plastid genomes and evolutionary relationships within tribe Myrteae (Myrtaceae)

et al. 2022

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Plinia phitrantha and P. cauliflora are Myrtaceae species with recognized horticultural and pharmacological potential. Nevertheless, studies on molecular genetics and the evolution of these species are absent in the literature. In this study, we report the complete plastid genome sequence of these species and an analysis of structural and evolutive features of the plastid genome within the tribe Myrteae. The two plastid genomes present the conserved quadripartite structure and are similar to already reported plastid genomes of Myrteae species concerning the size, number, and order of the genes. A total of 69-70 SSR loci, 353 single nucleotide polymorphisms, and 574 indels were identified in P. phitrantha and P. caulifora. Observed evolutive features of the plastid genomes support the development of programs for the conservation and breeding of Plinia. The phylogenomic analysis based on the complete plastid genome sequence of 15 Myrteae species presented a robust phylogenetic signal and evolutive traits of the tribe. Ten hotspots of nucleotide diversity were identified, evidence of purifying selection was observed in 27 genes, and relative conservation of the plastid genomes was confirmed for Myrteae. Altogether, the outcomes of the present study provide support for planning conservation, breeding, and biotechnological programs for Plinia species.

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confidence: 80%

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Structural and evolutive features of the Plinia phitrantha and P. cauliflora plastid genomes and evolutionary relationships within tribe Myrteae (Myrtaceae)

et al. 2022

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“…In addition, other chloroplast genomes of Myrtales have been reported recently. Rodrigues et al [ 27 ] compared the structure, gene number and genome size of six chloroplast genomes of Myrtales finding them to be similar to those of other Myrtales species. However, previous studies on chloroplast genomes of Myrtales have not been consistent, with some based on families, genera or species.…”

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Comparative analysis of chloroplast genome structure and molecular dating in Myrtales

et al. 2021

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Background Myrtales is a species rich branch of Rosidae, with many species having important economic, medicinal, and ornamental value. At present, although there are reports on the chloroplast structure of Myrtales, a comprehensive analysis of the chloroplast structure of Myrtales is lacking. Phylogenetic and divergence time estimates of Myrtales are mostly constructed by using chloroplast gene fragments, and the support for relationships is low. A more reliable method to reconstruct the species divergence time and phylogenetic relationships is by using whole chloroplast genomes. In this study, we comprehensively analyzed the structural characteristics of Myrtales chloroplasts, compared variation hotspots, and reconstructed the species differentiation time of Myrtales with four fossils and one secondary calibration point. Results A total of 92 chloroplast sequences of Myrtales, representing six families, 16 subfamilies and 78 genera, were obtained including nine newly sequenced chloroplasts by whole genome sequencing. Structural analyses showed that the chloroplasts range in size between 152,214–171,315 bp and exhibit a typical four part structure. The IR region is between 23,901–36,747 bp, with the large single copy region spanning 83,691–91,249 bp and the small single copy region spanning 11,150–19,703 bp. In total, 123–133 genes are present in the chloroplasts including 77–81 protein coding genes, four rRNA genes and 30–31 tRNA genes. The GC content was 36.9–38.9%, with the average GC content being 37%. The GC content in the LSC, SSC and IR regions was 34.7–37.3%, 30.6–36.8% and 39.7–43.5%, respectively. By analyzing nucleotide polymorphism of the chloroplast, we propose 21 hypervariable regions as potential DNA barcode regions for Myrtales. Phylogenetic analyses showed that Myrtales and its corresponding families are monophyletic, with Combretaceae and the clade of Onagraceae + Lythraceae (BS = 100%, PP = 1) being sister groups. The results of molecular dating showed that the crown of Myrtales was most likely to be 104.90 Ma (95% HPD = 87.88–114.18 Ma), and differentiated from the Geraniales around 111.59 Ma (95% HPD = 95.50–118.62 Ma). Conclusions The chloroplast genome structure of Myrtales is similar to other angiosperms and has a typical four part structure. Due to the expansion and contraction of the IR region, the chloroplast genome sizes in this group are slightly different. The variation of noncoding regions of the chloroplast genome is larger than those of coding regions. Phylogenetic analysis showed that Combretaceae and Onagraceae + Lythraceae were well supported as sister groups. Molecular dating indicates that the Myrtales crown most likely originated during the Albian age of the Lower Cretaceous. These chloroplast genomes contribute to the study of genetic diversity and species evolution of Myrtales, while providing useful information for taxonomic and phylogenetic studies of Myrtales.

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“…The family Myrtaceae stands out (Chrystal et al, 2020;Gatto et al, 2020), found mainly in the southern region of Brazil, which demonstrates the importance of developing research with native fruits (Neri-Numa et al, 2018;Rodrigues et al, 2020), many still little explored (Moreira-Araújo et al, 2019) and with great potential for economic exploration (Lattuada et al, 2019;Neri-Numa et al, 2018). In this family, the Myrcianthes pungens (O. Berg) D. Legrand, popularly known as guabiju, it is a medium to large tree with around 20 m, present simple leaves and considered ornamental plant, its fruits are appreciated due to the pleasant sweet flavor (Assumpção et al, 2017).…”

Section: Introductionmentioning

confidence: 99%

Influence of drying on bioactive compounds and antioxidant activity of fruits of guabiju (Myrcianthes pungens)

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et al. 2021

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The objective of this work was to evaluate the influence of temperature on the content of bioactive compounds of fruits of guabiju (Myrcianthes pungens (O. Berg) D. Legrand). The peel, pulp and seed of fresh guabiju were analyzed in relation to physical-chemical composition, metals, color, phenolic compounds, flavonoids, anthocyanins, vitamin C and antioxidant activity. On the dehydrated samples at temperature of 60 °C, where also determined the moisture and water activity. The fractions of the fruit showed high amounts of metals. After drying, moisture of 1.3, 1.0 and 0.9% were observed for peel, pulp and seed and water activity of 0.44 to 0.54. All the samples darkened, with less variation in the dehydrated peel (∆E 9.2). The samples showed high values of bioactive compounds, and in the fresh peel were observed higher levels of phenolic compounds (8459.8 mg EGA/100g dry extract), anthocyanins (152.0 mg/100 dry extract) and vitamin C (222.9 mg/100g) and on the dehydrated seed higher value of flavonoids (7480.7 mg EQ/100g dry extract). There was 86.3% degradation of anthocyanins in the dehydrated peel. The best values of antioxidant activities were obtained for the dehydrated peel (IC50 1.37 mg/mL), seed (IC50 1.49 mg/mL) and in the fresh peel (IC50 1.41 mg/mL).

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Comparative analysis of the complete chloroplast genomes from six Neotropical species of Myrteae (Myrtaceae)

Cited by 12 publications

References 19 publications

Structural and evolutive features of the Plinia phitrantha and P. cauliflora plastid genomes and evolutionary relationships within tribe Myrteae (Myrtaceae)

Structural and evolutive features of the Plinia phitrantha and P. cauliflora plastid genomes and evolutionary relationships within tribe Myrteae (Myrtaceae)

Comparative analysis of chloroplast genome structure and molecular dating in Myrtales

Influence of drying on bioactive compounds and antioxidant activity of fruits of guabiju (Myrcianthes pungens)

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