Geospiza magnirostris ) mitochondrial genome through comparison">Insight into the characteristics of an important evolutionary model bird ( Geospiza magnirostris ) mitochondrial genome through comparison

Biocell

article

ZHENGGANG XU¹  LIANG WU³  JIAHAO CHEN¹  YUNLIN ZHAO³  CHONGXUAN HAN¹  TIAN HUANG²  GUIYAN YANG¹ 

[1] Key Laboratory of National Forestry and Grassland Administration on Management of Western Forest Bio-Disaster, College of Forestry, Northwest A&F University;Engineering Research Center for Internet of Animals;Key Laboratory of Forestry Remote Sensing Based Big Data & Ecological Security for Hunan Province, Central South University of Forestry and Technology

关键词: Geospiza magnirostris;    Mitochondrial genome;    Comparative analysis;    Evolution analysis;    Phylogenetic relationships;   

DOI  :  10.32604/biocell.2022.015784

学科分类：仪器

来源: Biocell

【 摘 要 】

Darwin’s finches are the most classic case of evolution. Early studies on the evolution of this species were mainly based on morphology. Until now, the mitochondrial genome of Geospiza magnirostris has been sequenced and the study explored the characteristics of the complete genome of G. magnirostris and verified the evolutionary position of it. The 13 PCGs initiated by ATN codons. The stop codons of three PCGs (ND2, COX3 and ND4) were incomplete, with only T- or TA- replacing complete form TAA or TAG. All the tRNA genes expressed a typical cloverleaf secondary structure, except for tRNASer1(AGY), whose dihydrouridine (DHU) arm was lack and instead with a simple loop. In the sequence of the control region of G. magnirostris, we found six simple repeat tandem sequences with a total length of 42 bp. Two characteristic conserved overlapping junction (ATGCTAA) and (CAAGAAAG) were observed as reported for eight selected Passeriformes birds. A special conserved overlapping junction (ATCTTACC) involved in mitochondrial transcription termination was found between tRNATyr and COX1 in G. magnirostris’s control region. Four most frequently used amino acids in G. magnirostris’s PCGs were Leu1 (CUN), Ile, Thr, Ala. The codon usage of G. magnirostris was relatively average, and there was no particular bias. The ratio Ka/Ks results showed that G. magnirostris receives less natural selection pressure. The phylogenetic relationships and cluster analysis of relative codon usage showed that G. magnirostris and Thraupis episcopus clustered in one branch. The phylogenetic position of G. magnirostris was consistent with the traditional taxonomic of Thraupis. The results supported the conclusion that G. magnirostris belongs to the morphological classification of the family Thraupidae.

【 授权许可】

CC BY