A phylogeny of the Passerida (Aves: Passeriformes) based on mitochondrial 12S ribosomal RNA gene

Wu, Lei; Sun, Yanfeng; Li, Juyong; Li, Yaqing; Wu, Yuefeng; Li, Dongming

doi:10.1186/s40657-015-0010-5

Cited by 20 publications

(18 citation statements)

References 41 publications

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“…1). These were based on previously published phylogenies of several theropod clades (Spicer and Dunipace, 2004;Livezey and Zusi, 2007;Hackett et al 2008;Bunce et al 2009;Wink et al 2009;Makovicky et al 2010;Xu et al 2011;Carrano et al 2012;Turner et al 2012;Kimball et al 2013;Wu et al 2015;McFeeters et al 2016;Apesteguía et al 2016a;Lü et al 2017;Tsogtbaatar et al 2017;Xu and Qin, 2017;Xu et al , 2018Gianechini et al 2018;Hartman et al 2019).…”

Section: Materials S and Me Thodsmentioning

confidence: 99%

Differential locomotor and predatory strategies of Gondwanan and derived Laurasian dromaeosaurids (Dinosauria, Theropoda, Paraves): Inferences from morphometric and comparative anatomical studies

2020

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Tetrapod limbs morphology is a reliable proxy of locomotor capacities. Beyond this, other aspects of life habits, such as predation abilities, can also be relevant to determine main morphofunctional appendicular properties, which ultimately reflect a compromise between different factors of the biological role. Dromaeosauridae is a dinosaur clade belonging to Theropoda, a group of bipedal predators. Dromaeosaurids represent an interesting study case, in which the hindlimbs have been proposed to be involved in both locomotion and predation activity. A peculiar feature characterizing all dromaeosaurids is a modified second pedal digit, which is typically related to predation. This theropod group is closely related to birds and diversified during the Cretaceous Period, mainly in the Northern Hemisphere (Laurasia). However, a subclade of dromaeosaurids, the Unenlagiinae, was recently recognized for Gondwana.Nevertheless, there are morphological differences between derived Laurasian dromaeosaurids (eudromaeosaurs) and unenlagiines. Such differences are observed in the proportions between hindlimb bones and in the presence of a subarctometatarsalian condition in unenlagiines, which is mainly characterized by a proximally constricted metatarsal III. To evaluate the function of these divergent morphologies, we conducted morphometric analyses and comparisons of qualitative morphological aspects, encompassing unenlagiines, other dromaeosaurids, as well as taxa from other theropod groups, including extant birds. The former approach consisted of two phylogenetic principal component analyses, one based on the main measurements of the hindlimb, and the other focused on the lengths of the pedal phalanges. The first analysis drew the unenlagiines close to taxa with long tibiae, as well as long and slender metatarsi. Instead, eudromaeosaurs are closer to taxa with shorter tibiae, and shorter and wider metatarsi. The second analysis showed that eudromaeosaurs and unenlagiines have similar phalangeal proportions, including the elongation of distal phalanges. However, the shorter second phalanx of the pedal digit II of eudromaeosaurs could have increased the force generated by this digit, which was the main predatory tool of the autopodium. This, together with a shorter and wider metatarsus, and a marked hinge-like morphology of the articular surfaces of metatarsals | 773 GIANECHINI Et Al.

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Section: Materials S and Me Thodsmentioning

confidence: 99%

Differential locomotor and predatory strategies of Gondwanan and derived Laurasian dromaeosaurids (Dinosauria, Theropoda, Paraves): Inferences from morphometric and comparative anatomical studies

2020

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“…A wide range of molecular evolutionary studies of passerines have been based on mitochondrial DNA, particularly the protein‐coding gene CYTB . It is one of only a few markers that have been sequenced for a large proportion of the passerine species, giving it an important role in whole‐order studies (Barker , Selvatti et al , Wu et al ). Mitochondrial genomes have been able to elucidate a range of passeriform relationships, although they have been less effective in resolving some of the deeper nodes in the avian tree (Barker ).…”

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confidence: 99%

Mitochondrial rate variation among lineages of passerine birds

Nguyen

2016

Journal of Avian Biology

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The order Passeriformes comprises the majority of extant avian species. Analyses of molecular data have provided important insights into the evolution of this diverse order. However, molecular estimates of the evolutionary and demographic timescales of passerine species have been hindered by a lack of reliable calibrations. This has led to a reliance on the application of standard substitution rates to mitochondrial DNA data, particularly rates estimated from analyses of the gene encoding cytochrome b (CYTB). To investigate patterns of rate variation across passerine lineages, we used a Bayesian phylogenetic approach to analyse the protein-coding genes of 183 mitochondrial genomes. We found that the most commonly used mitochondrial marker, CYTB, has low variation in rates across passerine lineages. This lends support to its widespread use as a molecular clock in birds. However, we also found that the patterns of among-lineage rate variation in CYTB are only weakly related to the evolutionary rate of the mitochondrial genome as a whole. Our analyses confirmed the presence of mutational saturation at third codon positions across the protein-coding genes of the mitochondrial genome, reinforcing the view that these sites should be excluded in studies of deep passerine relationships. The results of our analyses have provided information that will be useful for molecular-clock studies of passerine evolution.

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“…Although the whole-genome analyses have achieved rapid advancement and applied in an increasing number of organisms, the popularity of the mitochondrial genome should not be ignored because it is a versatile source of genetic variation for evolutionary study (Wu et al 2015;Zhou et al 2017). There are many evolutionary advantages of mitochondrial genomes, such as freedom from genetic recombination and positive selection, maternal inheritance, and relatively higher mutation rate (Rubtsov and Opaev 2012).…”

Section: Paradoxornis Gularis; Niltava Davidi; Mitochondrial Genome; mentioning

confidence: 99%

“…There are many evolutionary advantages of mitochondrial genomes, such as freedom from genetic recombination and positive selection, maternal inheritance, and relatively higher mutation rate (Rubtsov and Opaev 2012). In recent years, an increasing number of studies have been conducted to expound the molecular phylogenetics in the Passeriformes (Wu et al 2015). To better understand the phylogeny and evolution of the Passeriformes, we determined the complete mitogenomes of P. gularis and N. davidi.…”

Section: Paradoxornis Gularis; Niltava Davidi; Mitochondrial Genome; mentioning

confidence: 99%

Two new complete mitochondrial genomes (Paradoxornis gularis and Niltava davidi) and their phylogenetic and taxonomic implications

Zhou

Jin

Chen

et al. 2019

Mitochondrial DNA Part B

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All the genes of Paradoxornis gularis and Niltava davidi complete mitochondrial genomes encoded on the H-strand, apart from one PCG (ND6) and eight tRNAs (tRNA Gln , tRNA Ala , tRNA Asn , tRNA Cys , tRNA Tyr , tRNA Ser(UCN) , tRNA Pro , and tRNA Glu). Strikingly large tandem repeats were found in the control region (CR) of P. gularis mitogenome. The phylogenetic analysis demonstrated that P. gularis possessed a basal phylogenetic position within the genus Paradoxornis, and N. davidi was more closely related to Cyanoptila cyanomelana than other Muscicapidae species.

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A phylogeny of the Passerida (Aves: Passeriformes) based on mitochondrial 12S ribosomal RNA gene

Cited by 20 publications

References 41 publications

Differential locomotor and predatory strategies of Gondwanan and derived Laurasian dromaeosaurids (Dinosauria, Theropoda, Paraves): Inferences from morphometric and comparative anatomical studies

Differential locomotor and predatory strategies of Gondwanan and derived Laurasian dromaeosaurids (Dinosauria, Theropoda, Paraves): Inferences from morphometric and comparative anatomical studies

Mitochondrial rate variation among lineages of passerine birds

Two new complete mitochondrial genomes (Paradoxornis gularis and Niltava davidi) and their phylogenetic and taxonomic implications

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