Chloroplast Genome of Native Silene latifolia subsp. alba from Fennoscandia Shows High Level of Differences from Invasive White Campion

Mikhaylova, Yu. V.; Gordon, Mikhail; Maslova, Anna R.; Polev, Dmitrii E.; Punina, E. O.; Rodionov, A. V.

doi:10.1007/s11105-020-01246-7

Cited by 3 publications

(3 citation statements)

References 56 publications

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“…For example, Su et al identified four highly variable regions, including rpl32-trnL -UAG and ccsA-ndhD, in the cp genomes of seventeen Aegilops tauschii individuals [24]. Park et al detected rpl32-trnL -UAG , ycf1-ndhF and trnH -GUG -psbA as highly variable sites in C. album plastomes, and Mikhaylova et al found that trnH -GUG -psbA, ndhC-trnV -UAC , and psbE-petL were highly variable sites in the cp genome of Silene latifolia [40].…”

Section: Intraspecific Nucleotide Mutations and Highly Variable Regionsmentioning

confidence: 99%

Chloroplast Genomic Variation in Euonymus maackii Rupr. and Its Differentiation Time in Euonymus

Wang

Zhou

Liu

2022

Forests

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Euonymus maackii Rupr. is a small deciduous tree belonging to family Celastraceae. It is an important ornamental tree and a potential medicinal plant resource. Here, we assembled and annotated the chloroplast (cp) genome of E. maackii. By combining this genome with seven available cp genomes from Euonymus species, we performed plastome variation analysis of E. maackii and Euonymus. Furthermore, we reconstructed a phylogenetic tree and estimated the differentiation time of E. maackii. The newly assembled cp genome of E. maackii was 157,551 bp in size and had a typical quadripartite structure, which consisted of one large single-copy (LSC 86,524 bp) region, one small single-copy (SSC 18,337 bp) region, and a pair of inverted repeat regions (26,345 bp). A total of 652 single nucleotide polymorphisms (SNPs) and 65 insertions/deletions (indels) were detected between the two cp genomes of E. maackii, with overall genetic variation of 4.1 SNPs per kb or a π value of 0.00443, reflecting a high level of intraspecific variation. Some coding and noncoding regions with higher variation were identified, including trnV-UAC, petN, ycf1-ndhF, trnM-CAU-atpE, rpl2-rpl23, psbZ-trnG-GCC, trnY-GUA-trnE-UUC, trnW-CCA-trnP-UGG, rps16-trnQ-UUG, and psbC-trnS-UGA. The hypervariable coding and noncoding regions in E. maackii were not the same as those in Euonymus. The phylogenetic tree and divergence time based on the whole cp genomes showed that the seven Euonymus species formed a clade, which was sister to that formed with Catha edulis and Maytenus guangxiensis, and they separated 24.74 million years ago. E. maackii and E. hamiltonianus were most closely related, having separated from each other only approximately 2.68 million years ago. Our study provides important genetic information for further studies of E. maackii, such as studies on its phylogeography, population genetics and molecular ecology, and provides new insights into the evolution of the cp genome in Euonymus.

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Section: Intraspecific Nucleotide Mutations and Highly Variable Regionsmentioning

confidence: 99%

Chloroplast Genomic Variation in Euonymus maackii Rupr. and Its Differentiation Time in Euonymus

Wang

Zhou

Liu

2022

Forests

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“…From both the ecophysiological and phytoextraction perspective, more research is required to evaluate the responses of S. latifolia to Tl-enriched substrates at the population level. As S. latifolia has been introduced to regions other than its native habitats in Europe and Western Asia (Mikhaylova et al 2021), phytoextraction applications deserve full assessment of the (ecological) implications of any introduction into non-native areas. Considering the chemical similarity of Tl and K, and the relatively high Tl bioconcentration factors compared to other metals, it is very likely that there are other Tl (hyper)accumulators yet to be discovered.…”

Section: Discussionmentioning

confidence: 99%

“…Silene latifolia is native to Europe and Western Asia and naturalized around the world (Barluenga et al 2011;Castillo et al 2014;Mikhaylova et al 2021). Silene latifolia is well adapted to polluted areas along with other plant species in Southern Italy.…”

Section: Introductionmentioning

confidence: 99%

Thallium accumulation and distribution in Silene latifolia (Caryophyllaceae) grown in hydroponics

et al. 2022

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Purpose Thallium (Tl) is one of the most toxic elements known and its contamination is an emerging environmental issue associated with base metal (zinc-lead) mining wastes. This study investigated the nature of Tl tolerance and accumulation in Silene latifolia, which has so far only been reported from field-collected samples. Methods Silene latifolia was grown in hydroponics at different Tl concentrations (0, 2.5, 5, 30 and 60 μM Tl). Elemental analysis with Inductively coupled plasma atomic emission spectroscopy (ICP-AES) and laboratory-based micro-X-ray fluorescence spectroscopy (μ-XRF) were used to determine Tl accumulation and distribution in hydrated organs and tissues. Results This study revealed unusually high Tl concentrations in the shoots of S. latifolia, reaching up to 35,700 μg Tl g−1 in young leaves. The species proved to have exceptionally high levels of Tl tolerance and had a positive growth response when exposed to Tl dose rates of up to 5 μM. Laboratory-based μXRF analysis revealed that Tl is localized mainly at the base of the midrib and in the veins of leaves. This distribution differs greatly from that in other known Tl hyperaccumulators. Conclusions Our findings show that S. latifolia is among the strongest known Tl hyperaccumulators in the world. The species has ostensibly evolved mechanisms to survive excessive concentrations of Tl accumulated in its leaves, whilst maintaining lower Tl concentrations in the roots. This trait is of fundamental importance for developing future phytoextraction technologies using this species to remediate Tl-contaminated mine wastes.

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Characterization of the organellar genomes of Mazzaella laminarioides and Mazzaella membranacea (Gigartinaceae, Rhodophyta)

Sepúlveda‐Espinoza,

Cofré‐Serrano,

Veloso‐Valeria

et al. 2024

Journal of Phycology

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Mazzaella, a genus with no genomic resources available, has extensive distribution in the cold waters of the Pacific, where they represent ecologically and economically important species. In this study, we aimed to sequence, assemble, and annotate the complete mitochondrial and chloroplast genomes from two Mazzaella spp. and characterize the intraspecific variation among them. We report for the first time seven whole organellar genomes (mitochondria: OR915856, OR947465, OR947466, OR947467, OR947468, OR947469, OR947470; chloroplast: OR881974, OR909680, OR909681, OR909682, OR909683, OR909684, OR909685) obtained through high‐throughput sequencing for six M. laminarioides sampled from three Chilean regions and one M. membranacea. Sequenced Mazzaella mitogenomes have identical gene number, gene order, and genome structure. The same results were observed for assembled plastomes. A total of 52 genes were identified in mitogenomes, and a total of 235 genes were identified in plastomes. Although the M. membranacea plastome included a full‐length pbsA gene, in all M. laminarioides samples, the pbsA gene was split in three open reading frames (ORFs). Within M. laminarioides, we observed important plastome lineage‐specific variations, such as the pseudogenization of the two hypothetical protein‐coding genes, ycf23 and ycf45. Nonsense mutations in the ycf23 and ycf45 genes were only detected in the northern lineage. These results are consistent with phylogenetic reconstructions and divergence time estimation using concatenated coding sequences that not only support the monophyly of M. laminarioides but also underscore that the three M. laminarioides lineages are in an advanced stage of divergence. These new results open the question of the existence of still undisclosed species in M. laminarioides.

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Chloroplast Genome of Native Silene latifolia subsp. alba from Fennoscandia Shows High Level of Differences from Invasive White Campion

Cited by 3 publications

References 56 publications

Chloroplast Genomic Variation in Euonymus maackii Rupr. and Its Differentiation Time in Euonymus

Chloroplast Genomic Variation in Euonymus maackii Rupr. and Its Differentiation Time in Euonymus

Thallium accumulation and distribution in Silene latifolia (Caryophyllaceae) grown in hydroponics

Characterization of the organellar genomes of Mazzaella laminarioides and Mazzaella membranacea (Gigartinaceae, Rhodophyta)

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