The complete mitochondrial genome of grey plover <i>Pluvialis squatarola</i> (Charadriiformes, charadriidae)

Ding, Jingjing; Qian, Ruen; Tai, Deyun; Yao, Wenjia; Hu, Chaochao; Chang, Qing

doi:10.1080/23802359.2020.1787892

Cited by 2 publications

(3 citation statements)

References 4 publications

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“…Indeed, we found four re-uses of the mitogenome (Ding et al. 2020 ; Gherardi-Fuentes et al. 2020 ; Guo et al.…”

Section: Discussionmentioning

confidence: 97%

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Complete mitochondrial genome MK992912 of Great Knot ( Calidris tenuirostris ) is a chimera with DNA from Pacific Golden Plover Pluvialis fulva (Aves: Charadriiformes)

Sangster,

Luksenburg

2024

Mitochondrial DNA Part B

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A complete mitochondrial genome of Great Knot ( Calidris tenuirostris ), MK992912, was published by He and colleagues in 2020. Here we show that this mitogenome is actually a chimera containing DNA fragments of both C. tenuirostris (15,567 bp, 92.8%) and Pacific Golden Plover ( Pluvialis fulva , 1208 bp, 7.2%). Detecting such errors is possible before publication if each sequenced fragment is separately analyzed phylogenetically before assembling the fragments into a single mitogenome. This mitogenome has been re-used in at least four phylogenies. The error is documented to avoid the perpetuation of erroneous sequence information in the literature.

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“…Indeed, we found four re-uses of the mitogenome (Ding et al. 2020 ; Gherardi-Fuentes et al. 2020 ; Guo et al.…”

Section: Discussionmentioning

confidence: 97%

“… 2016 ), Pluvialis squatarola MT561267 (Ding et al. 2020 ), Scolopax rusticola KM434134 (Yu et al. 2016 ), Tringa erythropus KX230491 (Cheng et al.…”

Section: Methodsmentioning

confidence: 99%

Complete mitochondrial genome MK992912 of Great Knot ( Calidris tenuirostris ) is a chimera with DNA from Pacific Golden Plover Pluvialis fulva (Aves: Charadriiformes)

Sangster,

Luksenburg

2024

Mitochondrial DNA Part B

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“…To date, ten complete mitogenomes of Charadriidae (five species of Charadrius , three of Vanellus, and two of Pluvialis ) are available in GenBank ( http://www.ncbi.nlm.nih.gov ) (Table 1 ) [ 35 - 42 ]. The limited number of Charadriidae complete mitogenomes restricts the exploration of phylogenetic relationships and evolutionary patterns in this family.…”

Section: Introductionmentioning

confidence: 99%

Taxonomic Status and Phylogenetic Relationship of the Charadriidae Family Based on Complete Mitogenomes

Qian,

Liu,

Miao

et al. 2023

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Background: The Charadriiformes provide a good source for researching evolution owing to their diverse distribution, behavior, morphology, and ecology. However, in the Charadrii, family-level relationships remain understudied, and the monophyly of Charadriidae is also a subject of controversy. Methods: In the present study, we generated complete mitogenomes for two species, Charadrius leschenaultii and Charadrius mongolus, which were found to be 16,905 bp and 16,844 bp in length, respectively. Among the 13 protein codon genes, we observed variation in the rate of nonsynonymous substitution rates, with the slowest rate found in COI and the fastest rate observed in ATP8. The Ka/Ks ratio for all Charadriidae species was significantly lower than one, which inferred that the protein-coding genes underwent purifying selection. Results: Phylogenetic analysis based on the genes of Cyt b, 12S and ND2 revealed that the genus Pluvialis is the sister group of three families (Haematopodidae, Ibidorhynchidae, Recurvirostridae). However, the phylogenetic analysis based on complete mitogenomes indicated that the genus Pluvialis is within the Charadriidae family. Conclusion: This study highlights the importance of carefully selecting the number of genes used to obtain accurate estimates of the species tree. It also suggests that relying on partial mtDNA genes with fast-evolving rates may lead to misleading results when resolving the Pluvialis sister group. Future research should focus on sequencing more mitogenomes at different taxonomic levels to gain a better understanding of the features and phylogenetic relationships within the Charadriiformes order.

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The complete mitochondrial genome of grey plover Pluvialis squatarola (Charadriiformes, charadriidae)

Cited by 2 publications

References 4 publications

Complete mitochondrial genome MK992912 of Great Knot ( Calidris tenuirostris ) is a chimera with DNA from Pacific Golden Plover Pluvialis fulva (Aves: Charadriiformes)

Complete mitochondrial genome MK992912 of Great Knot ( Calidris tenuirostris ) is a chimera with DNA from Pacific Golden Plover Pluvialis fulva (Aves: Charadriiformes)

Taxonomic Status and Phylogenetic Relationship of the Charadriidae Family Based on Complete Mitogenomes

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