The mitochondrial genome of the semi-slug Omalonyx unguis (Gastropoda: Succineidae) and the phylogenetic relationships within Stylommatophora

Guzmán, Leila B.; Vogler, Roberto E.; Beltramino, Ariel A.

doi:10.1371/journal.pone.0253724

Cited by 8 publications

(9 citation statements)

References 102 publications

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“…The secondary structure of the 12S rRNA of P. reevei ( Figure 6 ) and P. aulanieri ( Figure S3 ) had an identical organization of four structural domains, with Domain III as the most conserved region, allowing its successful PCR across a wide variety of taxa [ 48 ]. Here, we found that the structure of Domain III in P. reevei and P. aulanieri is similar to previous reports in other mollusks [ 27 , 49 , 50 , 51 ]. On the other hand, Domains I and II have been poorly studied and they were difficult to infer in both species.…”

Section: Resultssupporting

confidence: 91%

Comparative Mitogenome Analysis of Two Native Apple Snail Species (Ampullariidae, Pomacea) from Peruvian Amazon

Mendivil,

Ramírez,

Morin

et al. 2023

Genes

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Apple snails of the genus Pomacea Perry, 1810 (Mollusca: Caenogastropoda: Ampullariidae) are native to the Neotropics and exhibit high species diversity, holding cultural and ecological significance as an important protein source in Peru. However, most genetic studies in Pomacea have focused mostly on invasive species, especially in Southeast Asia, where they are considered important pests. In this study, we assembled and annotated the mitochondrial genomes of two Pomacea species native to the Peruvian Amazon: Pomacea reevei Ampuero & Ramírez, 2023 and Pomacea aulanieri (Deville & Hupé, 1850). The mitogenomes of P. reevei and P. aulanieri comprise 15,660 and 16,096 bp, respectively, and contain the typical 37 genes of the animal mitochondria with a large control region of 292 bp in P. reevei and 524 bp in P. aulanieri—which fall within the range of what is currently known in Pomacea. Comparisons with previously published mitogenomes in Pomacea revealed differences in the overlapping of adjacent genes, the size of certain protein-coding genes (PCGs) and the secondary structure of some tRNAs that are consistent with the phylogenetic relationships between these species. These findings provide valuable insights into the systematics and genomics of the genus Pomacea.

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Section: Resultssupporting

confidence: 91%

Comparative Mitogenome Analysis of Two Native Apple Snail Species (Ampullariidae, Pomacea) from Peruvian Amazon

Mendivil,

Ramírez,

Morin

et al. 2023

Genes

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“…Our results are in accordance with that most PCGs use ATN as start codon in metazoan [10]. TTG is usually used as start codon for cox1 in animals [30,31]. Eight PCGs used TA (nad3 and nad6) or T (cox1, cox2, cox3, cytb, nad1, and nad2) as incomplete stop codon.…”

Section: Discussionsupporting

confidence: 91%

Mitogenome of the leaf-footed bug Notobitus montanus (Hemiptera: Coreidae) and a phylogenetic analysis of Coreoidea

Tian

Chen

et al. 2023

PLoS ONE

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Notobitus montanus Hsiao, 1963 is a major pest of bamboos. The mitogenome of N. montanus (ON052831) was decoded using next-generation sequencing. The mitogenome, with 42.26% A, 30.54% T, 16.54% C, and 10.65% G, is 16,209 bp in size. Codon usage analysis indicated that high frequently used codons used either A or T at the third position of the codon. Amino acid usage analysis showed that leucine 2, phenylalanine, isoleucine and tyrosine were the most abundant in 31 Coreoidea species. Thirteen protein-coding genes (PCGs) were evolving under purifying selection, nad5 and cox1 had the lowest and strongest purifying selection stress, respectively. Correlation analysis showed that evolutionary rate had positive correlation with A+T content. No tandem repeat was detected in the non-coding region of N. montanus. The phylogenetic tree showed that Alydidae and Coreidae were not monophyletic. However, the topology of phylogenetic trees, based on 13 PCGs, was in accordance with that of tree based on both mitochondrial and nuclear genes but not ultraconserved element loci or combination of 13 PCGs and two rRNAs. It seems that their relationships are complex, which need revaluation and revision. The mitogenomic information of N. montanus could shed light on the evolution of Coreoidea.

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“…Therefore, the mitochondrial genome is more suitable for distinguishing species with closer genetic relationships and exploring the evolutionary events within a short period of time. It has been widely applied for the study of taxonomy, population genetics, gene flow, interspecific molecular evolution and biogeography (Guzmán et al., 2021; Kong et al., 2020; Xu et al., 2021). In addition, the mitochondrial genome has been found to regulate the fermentation process of microorganisms.…”

Section: Introductionmentioning

confidence: 99%

Comparison of Aspergillus chevalieri and related species in dark tea at different aspects: Morphology, enzyme activity and mitochondrial genome

Liu

Xu³

et al. 2021

Food Processing Preservation

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In this study, the whole mitochondrial genome sequencing of Aspergillus chevalieri, which was isolated from dark tea were analyzed and compared with its two related species (Aspergillus cristatum and Aspergillus pseudoglaucus). Results indicated that the mitochondrial genome of A. chevalieri was 56,139 bp in length, the content of the four bases A, T, C and G are 36.83%, 35.79%, 12.30% and 15.08% respectively, its genome encoded 44 genes. The phylogenetic tree constructed with mitochondrial protein‐encoding genes could effectively clarify the evolutionary relationship between A. chevalieri, A. cristatum, A. pseudoglaucus and other Aspergillus species. The morphological characteristics and extracellular enzyme activities of the 3 Aspergillus were further analyzed. Results showed that there were certain differences in the microstructure and enzymatic characteristics of the three Aspergillus species. This study improves the taxonomy status of Aspergillus and is conducive to the control of the fermentation process of dark tea. Practical applications Aspergillus is a dominant and essential microorganism in several types of fermented foods, especially dark tea. However, Aspergillus species were easy to be confused. Our research compares and analyzes the Aspergillus chevalieri, Aspergillus cristatum, and Aspergillus pseudoglaucus in dark tea from the three aspects of the mitochondrial genome, morphological characteristics, and enzyme activity, which is helpful for identify and control of the key microorganisms in the fermentation of dark tea and stabilize the product quality.

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The mitochondrial genome of the semi-slug Omalonyx unguis (Gastropoda: Succineidae) and the phylogenetic relationships within Stylommatophora

Cited by 8 publications

References 102 publications

Comparative Mitogenome Analysis of Two Native Apple Snail Species (Ampullariidae, Pomacea) from Peruvian Amazon

Comparative Mitogenome Analysis of Two Native Apple Snail Species (Ampullariidae, Pomacea) from Peruvian Amazon

Mitogenome of the leaf-footed bug Notobitus montanus (Hemiptera: Coreidae) and a phylogenetic analysis of Coreoidea

Comparison of Aspergillus chevalieri and related species in dark tea at different aspects: Morphology, enzyme activity and mitochondrial genome

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