Phylogenetic analysis of the Prionini (Coleoptera: Cerambycidae: Prioninae) from China based on mitochondrial ribosomal RNA genes and Cytochrome oxidase I gene

Zootaxa ◽  
2010 ◽  
Vol 2487 (1) ◽  
pp. 1 ◽  
Author(s):  
BO FENG ◽  
LI CHEN ◽  
YAN-LI E ◽  
KAI-DI ZHENG
Keyword(s):  
Phylogenetic Relationships ◽  
Phylogenetic Trees ◽  
Phylogenetic Signal ◽  
Mitochondrial Gene ◽  
Single Gene ◽  
Divergence Time ◽  
Mitochondrial Genes ◽  
12S Rrna ◽  
Molecular Systematic ◽  
Close Relationship

This is the first molecular systematic treatment of the Prionini. Here, three mitochondrial genes were partially sequenced from the Chinese Prionini to analyze phylogenetic relationships. Nucleotide compositions of three mitochondrial genes in the Chinese Prionini are biased toward A and T as in other insects. Ratios of transition vs. transversion (Ts/Tv) in 12S rRNA decrease with divergence time. However, ratios in 16S rRNA first increase with divergence time but decrease when divergence time is prolonged. Some nodes have poor bootstrap values or Bayesian posterior probabilities in phylogenetic trees reconstructed from single mitochondrial gene. In addition, some conflicting clades are found among phylogenetic trees based on a different gene. Therefore, a single mitochondrial gene provides limited phylogenetic signal and phylogenetic relationships based on a single gene sequence may be questionable. The Chinese Prionini is a monophyletic group. However, the genus Dorysthenes is paraphyletic. Dorysthenes fossatus should be transferred from Dorysthenes but the true status of D. fossatus is currently unknown. Species of Dorysthenes (excluding D. fossatus) constitute a monophyletic clade and there is close relationship between Dorysthenes paradoxus and Dorysthenes zivetta.

Phylogeny of Dorippoidea (Crustacea : Decapoda : Brachyura) inferred from three mitochondrial genes

2009 ◽  
Vol 23 (3) ◽  
pp. 223 ◽  
Author(s):  
Y. W. Sin ◽  
Joelle C. Y. Lai ◽  
Peter K. L. Ng ◽  
K. H. Chu
Keyword(s):  
Molecular Markers ◽  
Cytochrome C ◽  
16S Rrna ◽  
Cytochrome C Oxidase ◽  
Phylogenetic Relationships ◽  
Phylogenetic Trees ◽  
Mitochondrial Genes ◽  
12S Rrna ◽  
Generic Relationships ◽  
I Gene

The phylogenetic relationships between 10 of 13 genera of crabs from the superfamily Dorippoidea were investigated using mitochondrial 16S rRNA, 12S rRNA and cytochrome c oxidase subunit I gene sequences. The resultant phylogenetic trees based on the three molecular markers support the division of Dorippidae and Ethusidae as monophyletic families within the Dorippoidea. The inferred inter-generic relationships within Dorippidae concur with groupings based on the overall morphology of the carapace and structures of the male first pleopods.

Molecular Phylogenetic Relationships of Different Color Forms within Harmonia axyridis Pallas (Coleoptera: Coccinellidae) Based on Sequences of 12S rRNA and 16S rRNA Gene

2011 ◽  
Vol 183-185 ◽  
pp. 757-767
Author(s):  
Da Bin Yao ◽  
De Fu Chi ◽  
Qing Yu Wu ◽  
Xiao Can Li ◽  
Jia Yu
Keyword(s):  
16S Rrna ◽  
Phylogenetic Relationships ◽  
Phylogenetic Trees ◽  
Harmonia Axyridis ◽  
Coccinella Septempunctata ◽  
Morphological Data ◽  
12S Rrna ◽  
Rrna Gene ◽  
Molecular Systematic ◽  
Different Color

The high level phylogenetic relationships within Harmonia. axyridis Pallas (Coleoptera: Coccinellidae) was investigated based on nucleotide data from two molecular markers (12S rRNA, 16S rRNA), along with those of four species obtained from GenBank, including Adalia bipunctata, Calvia quatuordecimguttata, Coccinella septempunctata, Propylea quattuordecimpunctata as outgroup taxa to construct NJ (Neighbor Joining), MP (Maximum Parsimony) and Bayesian trees using Mega 4.0, PAUP (Version 4.0 b10) and Mrbayes (version 3.1.2) software packages. Nucleotides composition, pairwise distances, ratio of transition / transversion, considerable variable sites of those segments were analyzed. The results from phylogenetic trees indicated that H .axyridis var. spectabilis Fald. and H. axyridis ab. lunata Hem. had very close relationships. H. axyrisdis ab.½123456789-undevigintisignata Fald. and H. axyridis ab. succinea Hope. were closely related. H. axyridis var. axyridis Pallas. was an original group, and it had derived to be a independent forma earlier than the other 11 formas within H. axyridis according to the molecular phylogeny analyzing results. Previous hypotheses on the evolution of different color forms of H. axyridis Pallas based on morphological data was supported by our molecular systematic analyzing results.

scholarly journals A Phylogenetic Analysis of Greek Isolates ofAspergillusSpecies Based on Morphology and Nuclear and Mitochondrial Gene Sequences

2013 ◽  
Vol 2013 ◽  
pp. 1-18 ◽  
Author(s):  
Antonios Krimitzas ◽  
Ioanna Pyrri ◽  
Vassili N. Kouvelis ◽  
Evangelia Kapsanaki-Gotsi ◽  
Milton A. Typas
Keyword(s):  
Rna Polymerase Ii ◽  
Phylogenetic Relationships ◽  
Phylogenetic Trees ◽  
Mitochondrial Gene ◽  
Single Gene ◽  
Morphological Characters ◽  
Nuclear Genes ◽  
Rrna Gene ◽  
Gene Sequences ◽  
Combined Use

Aspergillusspecies originating from Greece were examined by morphological and molecular criteria to explore the diversity of this genus. The phylogenetic relationships of these species were determined using sequences from the ITS and IGS region of the nuclear rRNA gene complex, two nuclear genes (β-tubulin (benA) and RNA polymerase II second largest subunit (rpb2)) and two mitochondrial genes (small rRNA subunit (rns) and cytochrome oxidase subunit I (cox1)) and, where available, related sequences from databases. The morphological characters of the anamorphs and teleomorphs, and the single gene phylogenetic trees, differentiated and placed the species examined in the well-supported sections ofAenei,Aspergillus,Bispori,Candidi,Circumdati,Clavati,Cremei,Flavi,Flavipedes,Fumigati,Nidulantes,Nigri,Restricti,Terrei,Usti, andZonati, with few uncertainties. The combined use of the three commonly employed nuclear genes (benA,rpb2, and ITS), the IGS region, and two less often used mitochondrial gene sequences (rnsandcox1) as a single unit resolved several taxonomic ambiguities. A phylogenetic tree was inferred using Neighbour-Joining, Maximum Parsimony, and Bayesian methods. The strains examined formed seven well-supported clades within the genusAspergillus. Altogether, the concatenated nuclear and mitochondrial sequences offer additional tools for an improved understanding of phylogenetic relationships within this genus.

The complete mitochondrial genome of the Korean endemic millipede Anaulaciulus koreanus (Verhoeff, 1937), with notes on the gene arrangement of millipede orders

Zootaxa ◽  
2017 ◽  
Vol 4329 (6) ◽  
pp. 574
Author(s):  
HYUNG JIK WOO ◽  
ANH D. NGUYEN ◽  
KUEM HEE JANG ◽  
EUN HWA CHOI ◽  
SHI HYUN RYU ◽  
...  
Keyword(s):  
Mitochondrial Genome ◽  
Complete Mitochondrial Genome ◽  
Mitochondrial Gene ◽  
Gene Arrangement ◽  
12S Rrna ◽  
Coding Region ◽  
Protein Coding ◽  
Close Relationship ◽  
Relationship Of ◽  
Rna Genes

The millipede Anaulaciulus koreanus (Verhoeff, 1937), belonging to the family Julidae, is an endemic species of the Korean fauna. In this study, we sequence and annotate the mitochondrial genome of A. koreanus. The complete mitochondrial genome of this species is 14,916 bp in length and contains 13 protein-coding genes, 22 transfer RNA genes, two ribosomal RNA genes (16S and 12S rRNA), and a large non-coding region. The genome has a very high A+T content (71.1%), less than of the species Brachycybe lecontii Wood, 1864 (order Platydesmida; 76.6%) and Sphaerotheriidae sp. (order Sphaerotheriida; 71.2%). In comparison with the mitochondrial gene arrangement of eight other millipede species, the whole mitochondrial gene arrangement of A. koreanus is most similar to the nemasomatid species, Antrokoreana gracilipes Verhoeff, 1938, but differs from those of the other diplopod orders. The absence of tRNACys between the ND2 and COI regions is unique to the order Polydesmida, whereas the translocation of tRNATyr to between ND2 and COI is exclusive to the Sphaerotheriida. It is also shown that the translocation of tRNAThr between ND4L and ND1 may be a synapomorphy to support a close relationship of two orders Spirobolida and Spirostreptida. 

scholarly journals Usnea nipparensis and U. sinensis form a ‘species pair ’ presuming morphological, chemical and molecular phylogenetic data

2020 ◽  
pp. 265-271
Author(s):  
Yoshihito Ohmura
Keyword(s):  
Phylogenetic Relationships ◽  
Phylogenetic Trees ◽  
Its Rdna ◽  
Phylogenetic Position ◽  
Species Pair ◽  
Rdna Sequences ◽  
Phylogenetic Data ◽  
Close Relationship ◽  
Molecular Phylogenetic ◽  
Molecular Phylogenetic Data

Phylogenetic relationships between Usnea nipparensis and U. sinensis, caperatic acid containing Usnea species, were examined based on ITS rDNA, and the phylogenetic position of U. nipparensis was inferred based on multi-locus gene analysis using ITS rDNA, nuLSU, and MCM7. Although U. nipparensis and U. sinensis have a sorediate and an esorediate shrubby thallus, respectively, and in general look quite different, other detailed morphological and chemical features are similar. Analysis of the ITS rDNA sequences suggests their close relationship, but also confirms the independence of both species, and that they most likely form a ‘species pair’ based on morphological, chemical and molecular phylogenetic data. Phylogenetic trees based on both multi-locus gene and ITS rDNA alone strongly support that U. nipparensis and U. angulata belong to the same clade.

scholarly journals Molecular and morphological data support reclassification of the octocoral genus Isidoides

2013 ◽  
Vol 27 (4) ◽  
pp. 365 ◽  
Author(s):  
Eric Pante ◽  
Esprit Heestand Saucier ◽  
Scott C. France
Keyword(s):  
Mitochondrial Gene ◽  
Type Specimen ◽  
Genetic Distances ◽  
Mitochondrial Genes ◽  
Morphological Data ◽  
Gene Rearrangements ◽  
Molecular Variation ◽  
Remarkable Similarity ◽  
Incertae Sedis ◽  
Close Relationship

The rare octocoral genus Isidoides Nutting, 1910 was originally placed in the Gorgonellidae (now the Ellisellidae), even though it showed a remarkable similarity to the Isidae (now the Isididae). Isidoides was not classified in the Isididae mostly because the type specimen lacked skeletal nodes, a defining characteristic of that family. The genus was later assigned to the Chrysogorgiidae based on sclerite morphology. Specimens were recently collected in the south-western Pacific, providing material for genetic analysis and detailed characterisation of the morphology, and allowing us to consider the systematic placement of this taxon within the suborder Calcaxonia. A previously reported phylogeny allowed us to reject monophyly with the Chrysogorgiidae, and infer a close relationship with the Isididae subfamily Keratoisidinae. While scanning for molecular variation across mitochondrial genes, we discovered a novel gene order that is, based on available data, unique among metazoans. Despite these new data, the systematic placement of Isidoides is still unclear, as (1) the phylogenetic relationships among Isididae subfamilies remain poorly resolved, (2) genetic distances between mitochondrial mtMutS sequences from Isidoides and Keratoisidinae are characteristic of intra-familial distances, and (3) mitochondrial gene rearrangements may occur among confamilial genera. For these reasons, and because a revision of the Isididae is beyond the scope of this contribution, we amend the familial placement of Isidoides to incertae sedis.

Assessing the phylogenetic signal of the nuclear β-Fibrinogen intron 7 in salamandrids (Amphibia: Salamandridae)

2006 ◽  
Vol 27 (3) ◽  
pp. 409-418 ◽  
Author(s):  
Fernando Sequeira ◽  
Nuno Ferrand ◽  
D. James Harris
Keyword(s):  
Phylogenetic Relationships ◽  
Phylogenetic Signal ◽  
12S Rrna ◽  
Rrna Gene ◽  
Length Variation ◽  
Β Subunit ◽  
Phylogenetic Studies ◽  
12S Rrna Gene ◽  
Considerable Length ◽  
Mitochondrial 12S Rrna

AbstractThe potential of the seventh intron of the β-subunit of the fibrinogen gene (β-fibint 7) for phylogenetic analysis within the Salamandridae family was explored, comparing the topologies of trees based on this marker to those based on mitochondrial 12S rRNA gene previously published. Using primers designed specifically for amphibians, we amplified 25 sequences of β-fibint 7 corresponding to 15 species of salamandrids and one plethodontid species. There was considerable length variation among the β-fibint 7 sequences examined, ranging from 1123 bp in S. atra to 400 bp in P. waltl. Many aspects of the phylogenetic relationships estimated by the two independent loci were congruent and corroborate current taxonomic hypothesis. Although the number of taxa analysed is small, the data obtained in this work suggested that β-fibint 7 is a useful marker for assessing phylogenetic relationships within the Salamandridae family, and is probably appropriate for phylogenetic studies among closely related salamanders that have diverged over the last 20 Myr.

Phylogeny of Trematomus (Notothenioidei: Nototheniidae) inferred from mitochondrial and nuclear gene sequences

2009 ◽  
Vol 21 (6) ◽  
pp. 565-570 ◽  
Author(s):  
Kristen L. Kuhn ◽  
Thomas J. Near
Keyword(s):  
Dna Sequences ◽  
Phylogenetic Relationships ◽  
Phylogenetic Trees ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Nuclear Gene ◽  
Single Copy ◽  
Morphological Characters ◽  
Mitochondrial Genes ◽  
Phylogenetic Resolution

AbstractThe biota of Antarctica is amazingly rich and highly endemic. The phylogenetics of notothenioid fishes has been extensively investigated through analyses of morphological characters, DNA sequences from mitochondrial genes, and single copy nuclear genes. These phylogenetic analyses have produced reasonably similar phylogenetic trees of notothenioids, however a number of phylogenetic questions remain. The nototheniid clade Trematomus is an example of a group where phylogenetic relationships remain unresolved. In this paper we revisit the phylogenetic relationships of Trematomus using both increased taxon sampling and an expanded dataset which includes DNA sequences from two mitochondrial genes (ND2 and 16S rRNA) and one single-copy nuclear gene (RPS7). The Bayesian phylogeny resulting from the analysis of the combined mitochondrial and nuclear gene datasets was well resolved and contained more interspecific nodes supported with significant Bayesian posteriors than either the mitochondrial or nuclear gene phylogenies alone. This demonstrates that the addition of nuclear gene sequence data to mitochondrial data can enhance phylogenetic resolution and increase node support. Additionally, the results of the combined mitochondrial and nuclear Bayesian analyses provide further support for the inclusion of species previously classified as Pagothenia and Cryothenia in Trematomus.

scholarly journals A new species of Cantellius and a redescription of C. sextus (Hiro, 1938) (Cirripedia, Balanomorpha Pyrgomatidae) from the elephant skin coral, Pachyseris speciosa (Dana, 1846) (Scleractinia, Agariciidae) from Taiwan

Zootaxa ◽  
2009 ◽  
Vol 2022 (1) ◽  
pp. 15-28 ◽  
Author(s):  
YAIR ACHITUV ◽  
LING MING TSANG ◽  
BENNY KWOK KAN CHAN
Keyword(s):  
New Species ◽  
Mitochondrial Gene ◽  
Sequence Divergence ◽  
Sister Group ◽  
Mitochondrial Genes ◽  
12S Rrna ◽  
Similar Species ◽  
Molecular Analyses ◽  
Molecular Phylogenetic ◽  
A New Species

Two species of Cantellius from Taiwan were identified from the elephant skin coral, Pachyseris speciosa Dana, 1846. Cantellius sextus was found on the underside of the coral plate and a new species, C. hoegi sp. nov., on the upper surface. The microdistribution indicates the different requirements of the two species. In the present study, both arthropodal and opercular plate characters of these two species were investigated using SEM techniques. Morphologically, C. hoegi is close to C. pallidus. However, the tergal scutal margins of C. pallidus are curved, whilst those of C. hoegi are straight, and its spur is narrower than that of C. pallidus. The apex of the scutum and tergum of C. hoegi forms a honeycomb-like surface, most probably the ‘imprint’ of the chitinous primordial valves. The separation of C. hoegi from C. pallidus is also supported by molecular analyses of three mitochondrial gene sequences (COI, 16S, and 12S rRNA). Cantellius hoegi differs from C. pallidus and C. sextus by >5% in all three mitochondrial genes (COI, 16S, and 12S rRNA) sequenced. The values of sequence divergence in 12S are comparable to the inter-specific divergence reported for other Cantellius and Savignium species. Interestingly, C. hoegi is not the sister group of C. pallidus, a morphologically similar species, in the present study. Further studies should focus on molecular phylogenetic analysis of Cantellius species.

Description and phylogenetic relationships of a new trans-Andean species of Elachistocleis Parker 1927 (Amphibia, Anura, Microhylidae)

Zootaxa ◽  
2020 ◽  
Vol 4779 (3) ◽  
pp. 323-340
Author(s):  
JUAN C. SÁNCHEZ-NIVICELA ◽  
PEDRO L. V. PELOSO ◽  
VERÓNICA L. URGILES ◽  
MARIO H. YÁNEZ-MUÑOZ ◽  
YERKA SAGREDO ◽  
...  
Keyword(s):  
New Species ◽  
16S Rrna ◽  
South America ◽  
Dna Sequences ◽  
Phylogenetic Relationships ◽  
Mitochondrial Genes ◽  
12S Rrna ◽  
The Andes ◽  
Southern Ecuador ◽  
A New Species

Elachistocleis is a Neotropical genus of microhylid frogs with 18 species, most of which occur east of the Andes in South America. Here, we present a new phylogeny of Gastrophryninae and describe and name a new species of Elachistocleis from southern Ecuador—the first to be found west of the Andes and also the first from Ecuador. Our phylogeny is based on DNA sequences of the mitochondrial genes 12S rRNA, 16S rRNA, COI, and the nuclear genes BDNF, cmyc2, H3A, 28S, SIA1, and Tyr. Elachistocleis araios sp. n., is the sister species of all other Elachistocleis. The finding of this taxon highlights the probability of the existence of more Elachistocleis species west of the Andes. 

Sign in / Sign up

Export Citation Format

Share Document