Molecular phylogeny of the nutmeg shells (Neogastropoda, Cancellariidae)

Modica, Maria Vittoria; Bouchet, Philippe; Cruaud, Corinne; Utge, José; Oliverio, Marco

doi:10.1016/j.ympev.2011.03.022

Cited by 16 publications

(9 citation statements)

References 42 publications

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“…With more than 12 000 Recent species classified in 40 families, these predatory and scavenging snails are one of the most evolutionary successful taxa of marine molluscs, playing a key role in marine benthic ecosystems at all latitudes and depths. However, although the superfamilies Conoidea (Puillandre et al ., , ) and Buccinoidea (Hayashi, ; Oliverio & Modica, ), and the families Muricidae (Barco et al ., ) and Cancellaridae (Modica et al ., ), have been specifically targeted by recent molecular phylogenies, a not inconsiderable fraction of the Neogastropoda – including some ancient and diverse lineages – has remained essentially outside the sphere of molecular systematics. One such untouched group is the so‐called ‘miters’, a name that refers to members of the two families Mitridae and Costellariidae that together encompass some 800 species (WoRMS, ).…”

Section: Introductionmentioning

confidence: 99%

Phylogeny and systematics of mitriform gastropods (Mollusca: Gastropoda: Neogastropoda)

et al. 2015

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With about 800 Recent species, 'miters' are a widely distributed group of tropical and subtropical gastropods that are most diverse in the Indo-West Pacific. They include the two families Mitridae and Costellariidae, similar in shell morphology and traditionally treated as close relatives. Some genera of deep-water Ptychatractidae and Volutomitridae are close to miters in shell morphology, and the term 'mitriform gastropods' has been introduced to refer to Mitridae, Costellariidae, and this assortment of convergent forms. The present study aimed at the reconstruction of phylogenetic relationships of mitriform gastropods based on representative taxon sampling. Four genetic markers [cytochrome c oxidase subunit I (COI), 16S and 12S rRNA mitochondrial genes, and H3 (Histone 3) nuclear gene] were sequenced for over 90 species in 20 genera, and the molecular data set was supplemented by studies of radula morphology. Our analysis recovered Mitridae as a monophyletic group, whereas the genus Mitra was found to be polyphyletic. Of 42 mitrid species included in the analysis, 37 formed a well-supported 'core Mitridae' consisting of four major clades, three of them consistent with the subfamilies Cylindromitrinae, Imbricariinae, and Mitrinae, and Strigatella paupercula standing out by itself. Basal to the 'core Mitridae' are four minor lineages, with the genus Charitodoron recognized as sister group to all other Mitridae. The deepwater family Pyramimitridae shows a sister relationship to the Mitridae, with high support for a Pyramimitridae + Mitridae clade. Our results recover the monophyly of the Costellariidae, which form a wellsupported clade that also includes Ptychatractidae, Columbariinae, and Volutomitridae, but not Mitridae. Most derived and diverse amongst Costellariidae are species of Vexillum, characterized by a bow-shaped, multicuspidate rachidian tooth. Several previously unrecognized deep-water costellariid lineages are revealed. Their members retain some plesiomorphies -in particular a tricuspidate rachidian tooth -that makes them morphologically intermediate between ptychatractids and Vexillum. The taxa of Ptychatractidae included in the analysis are not monophyletic, but form three well-supported, unrelated groupings, corresponding respectively to Ceratoxancus + Latiromitra, Exilia, and Exiliodea. None of them shows an affinity to Pseudolividae.

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Section: Introductionmentioning

confidence: 99%

Phylogeny and systematics of mitriform gastropods (Mollusca: Gastropoda: Neogastropoda)

et al. 2015

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“…Supertree methods have been broadly applied in phylogenetic studies, aimed at the combination of phylogenetic trees based on different types of data, joining molecular and morphology information (Liu et al, 2001;Creevey and McInerney, 2005;Beck et al, 2006;Bininda-Emonds et al, 2007;Ruta et al, 2007;Nyakatura and Bininda-Emonds, 2012;Chang et al, 2013;Davis and Page, 2014;Sigwart and Lindberg, 2015;Duda and Jan Zrzavý, 2016), or exclusively molecular data (Daubin et al, 2001;Fitzpatrick et al, 2006;Higdon et al, 2007;Campbell and Lapointe, 2010;Swenson et al, 2011;Modica et al, 2011). More specifically, mitochondrial gene datasets were used to construct supertrees (Fitzpatrick et al, 2006;Higdon et al, 2007;Campbell and Lapointe, 2010).…”

Section: Resultsmentioning

confidence: 99%

Research Article Impact of ancient oxygen levels on mitochondrial genome evolution inferred by supertrees, supermatrices, and relaxed molecular clocks

Lopes¹,

Ferreira²,

Antoneli³

et al. 2021

Genet. Mol. Res.

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Evolution of mitochondrial genomes is essential for the adaptation of yeasts to changes in environmental oxygen levels. Although Saccharomyces cerevisiae mitochondrial DNA lacks all complex I genes, respiration is possible because alternative NADH dehydrogenases are encoded by NDE1 and NDI1 nuclear genes. The apparent whole genome duplication (WGD) in the yeast ancestor 100-150 million years ago caused nuclear gene duplications and secondary losses, although its relation to the loss of mitochondrial complex I is unknown. We produced phylogenomic supertrees and a supermatrix tree of 46 mitochondrial genomes, showing that the loss of complex I predates WGD and occurred independently in the S. cerevisiae group and the fission yeast Schizosaccharomyces pombe. The branching patterns did not differ substantially in supertrees and supermatrix phylogenies. We found consistent relations between conserved mitochondrial chromosomal gene order (synteny) in closely related yeasts. Correlation of mitochondrial molecular clock estimates and atmospheric oxygen variation in the Phanerozoic suggests that the Saccharomyces lineage might have lost complex I during hypoxic periods near Permian-Triassic or Triassic-Jurassic mass extinction ©FUNPEC-RP www.funpecrp.com.br Genetics and Molecular Research 20 (2): gmr18485 L.R. Lopes et al. 2events, while the Schizosaccharomyces lineage possibly lost complex I during hypoxic environment periods during the Middle Cambrian until the Lower Devonian. The loss of mitochondrial complex I, as a result of low oxygen levels, might not affect yeast metabolism due to a fermentative switch. The return to increased oxygen periods could have favored adaptations to aerobic metabolism. Additionally, we also show that NDE1 and NDI1 phylogenies indicate evolutionary convergence in yeasts in which mitochondrial complex I is absent.

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“…Supertrees methods have been broadly applied in phylogenetic studies, aimed the combination of phylogenetic trees based on different types of data, joining molecular and morphology (Beck et al, 2006;Bininda-Emonds et al, 2007;Chang et al, 2013;Creevey and McInerney, 2005;Davis and Page, 2014;Duda and Jan Zrzavý, 2016;Liu et al, 2001;Nyakatura and Bininda-Emonds, 2012;Ruta et al, 2007;Sigwart and Lindberg, 2015), or exclusively molecular data (Campbell and Lapointe, 2010;Daubin et al, 2001;Fitzpatrick et al, 2006;Higdon et al, 2007;Modica et al, 2011;Swenson et al, 2011). More specifically, mitochondrial genes datasets were used to construct supertrees (Campbell and Lapointe, 2010;Fitzpatrick et al, 2006;Higdon et al, 2007).…”

Section: Resultsmentioning

confidence: 99%

Evolution of pathogenic and nonpathogenic yeasts mitochondrial genomes inferred by supertrees and supermatrices with divergence estimates based on relaxed molecular clocks

Lopes

Ferreira

Antoneli

et al. 2018

Preprint

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The evolution of mitochondrial genomes is essential for the adaptation of yeasts to the variation of environmental levels of oxygen. Although Saccharomyces cerevisiae mitochondrial DNA lacks all complex I genes, respiration is possible because alternative NADH dehydrogenases are encoded by NDE1 and NDI1 nuclear genes. The proposed whole genome duplication (WGD) in the yeast ancestor at 150-100 million years ago caused nuclear gene duplications and secondary losses, although its relation to the loss of complex I mitocondrial is unknown. Here we present phylogenomic supertrees and supermatrix tree of 46 mitochondrial genomes showing that the loss of complex I predates WGD and occurred independently in the S. cerevisiae group and the fission yeast Schizosaccharomyces pombe. We also show that the branching patterns do not differ dramatically in supertrees and supermatrix phylogenies. Our inferences indicated consistent relations between conserved mitochondrial chromosomal gene order (synteny) in closely related yeasts. Correlation of mitochondrial molecular clock estimates and atmospheric oxygen variation in the Phanerozoic suggests that the Saccharomyces lineage might have lost the complex I during hypoxic periods near Perminian-Triassic or Triassic-Jurassic mass extinction events, while the Schizosaccharomyces lineage possibly lost the complex I during hypoxic environment periods during Middle Cambrian until Lower Devonian. The loss of mitochondrial complex I during low oxygen might not affect yeast metabolism due to fermentative switch. The return to increased oxygen periods might have favored adaptations to aerobic metabolism. Additionally, we also showed that NDE1 and NDI1 phylogenies indicate evolutionary convergence in yeasts where mitochondrial complex I is absent.

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Molecular phylogeny of the nutmeg shells (Neogastropoda, Cancellariidae)

Cited by 16 publications

References 42 publications

Phylogeny and systematics of mitriform gastropods (Mollusca: Gastropoda: Neogastropoda)

Phylogeny and systematics of mitriform gastropods (Mollusca: Gastropoda: Neogastropoda)

Research Article Impact of ancient oxygen levels on mitochondrial genome evolution inferred by supertrees, supermatrices, and relaxed molecular clocks

Evolution of pathogenic and nonpathogenic yeasts mitochondrial genomes inferred by supertrees and supermatrices with divergence estimates based on relaxed molecular clocks

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