Click here to close
Hello! We notice that you are using Internet Explorer, which is not supported by Xenbase and may cause the site to display incorrectly.
We suggest using a current version of Chrome,
FireFox, or Safari.
???displayArticle.abstract???
To search the evidence of molecular evolution mechanism for aquatic and cave habitat in Andrias davidianus, the evolution analysis was carried out among several species transcriptome data. The transcriptome data of Notophthalmus viridescens, Xenopus tropicalis, Cynops pyrrhogaster, Hynobius chinensis and A. davidianus were obtained from the Genbank and reassembled except Xenopus tropicalis. The BLAST search of transcriptome data obtained 1244 single-copy orthologous genes among five species. A phylogenetic tree showed A. davidianus to have the closest relationship to H. chinensis. Fourteen positively selected genes were detected in A. davidianus and N. vridescens group and fifteen in A. davidianus and H. chinensis group. Five genes were shared in the both groups which involved in the immune system, suggesting that A. davidianus adaptation to an aquatic and cave environment required rapid evolution of the immune system compared to N. viridescens and H. chinensis.
Fig. 1. Venn diagrams showing the unigenes for comparative transcriptomes. The superscript indicates the protein family and the subscript indicates the unigenes
Fig. 2. Ka/Ks ratio of 1244 single-copy orthologous genes. a. Ka/Ks distribution in Andrias davidianus and Hynobius chinensis, b. Ka/Ks distribution in Andrias davidianus and Notophthalmus viridescens. The solid line shows the threshold of Ka/Ks = 1, the dashed line marked the weak positive selection threshold of Ka/Ks = 0.5, and the short dashed line represented threshold of Ka/Ks = 0.1
Cai,
Transcriptomic analysis of the differentiating ovary of the protogynous ricefield eel Monopterus albus.
2017, Pubmed
Cai,
Transcriptomic analysis of the differentiating ovary of the protogynous ricefield eel Monopterus albus.
2017,
Pubmed Cardona,
A perl package and an alignment tool for phylogenetic networks.
2008,
Pubmed Che,
Transcriptomic analysis of endangered Chinese salamander: identification of immune, sex and reproduction-related genes and genetic markers.
2014,
Pubmed Chen,
VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R.
2011,
Pubmed Clark,
Evolution of genes and genomes on the Drosophila phylogeny.
2007,
Pubmed Edgar,
MUSCLE: multiple sequence alignment with high accuracy and high throughput.
2004,
Pubmed Fraser,
Sequencing and characterization of the guppy (Poecilia reticulata) transcriptome.
2011,
Pubmed Gao,
Earliest known crown-group salamanders.
2003,
Pubmed He,
Combined evaluation of centromere protein H and Ki-67 as prognostic biomarker for patients with gastric carcinoma.
2013,
Pubmed Hiremath,
Large-scale transcriptome analysis in chickpea (Cicer arietinum L.), an orphan legume crop of the semi-arid tropics of Asia and Africa.
2011,
Pubmed Kutuk,
Aven blocks DNA damage-induced apoptosis by stabilising Bcl-xL.
2010,
Pubmed Larrea,
Characterization of the CD40L/Oncostatin M/Oncostatin M receptor axis as an antiviral and immunostimulatory system disrupted in chronic HCV infection.
2014,
Pubmed Li,
Identification and characterization of a Cystatin gene from Chinese mitten crab Eriocheir sinensis.
2010,
Pubmed Li,
OrthoMCL: identification of ortholog groups for eukaryotic genomes.
2003,
Pubmed Liu,
The draft genome of blunt snout bream (Megalobrama amblycephala) reveals the development of intermuscular bone and adaptation to herbivorous diet.
2017,
Pubmed Meusemann,
A phylogenomic approach to resolve the arthropod tree of life.
2010,
Pubmed Niu,
Transcriptome characterisation of Pinus tabuliformis and evolution of genes in the Pinus phylogeny.
2013,
Pubmed Ren,
Transcriptome analysis reveals positive selection on the divergent between topmouth culter and zebrafish.
2014,
Pubmed Roeding,
A 454 sequencing approach for large scale phylogenomic analysis of the common emperor scorpion (Pandinus imperator).
2009,
Pubmed Shao,
The genome and transcriptome of Japanese flounder provide insights into flatfish asymmetry.
2017,
Pubmed Swanson,
Evolutionary expressed sequence tag analysis of Drosophila female reproductive tracts identifies genes subjected to positive selection.
2004,
Pubmed Tine,
European sea bass genome and its variation provide insights into adaptation to euryhalinity and speciation.
2014,
Pubmed Wu,
Combining bioinformatics and phylogenetics to identify large sets of single-copy orthologous genes (COSII) for comparative, evolutionary and systematic studies: a test case in the euasterid plant clade.
2006,
Pubmed Yang,
Statistical methods for detecting molecular adaptation.
2000,
Pubmed Yang,
PAML 4: phylogenetic analysis by maximum likelihood.
2007,
Pubmed Zhang,
Comparative transcriptome analysis and marker development of two closely related Primrose species (Primula poissonii and Primula wilsonii).
2013,
Pubmed Zhang,
A greedy algorithm for aligning DNA sequences.
2000,
Pubmed Zhang,
Phylogeny, evolution, and biogeography of Asiatic Salamanders (Hynobiidae).
2006,
Pubmed
