Comprehensive Analyses of the Complete Mitochondrial Genome of Figulus binodulus (Coleoptera: Lucanidae)

Abstract

Figulus binodulus Waterhouse is a small stag beetle distributed in East Asia. We determined the first mitochondrial genome of F. binodulus of which is 16,261-bp long including 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNAs, and a single large noncoding region of 1,717 bp. Gene order of F. binodulus is identical to the ancestral insect mitochondrial gene order as in most other stag beetle species. All of 22 tRNAs could be shaped into typical clover-leaf structure except trnSer1. Comparative analyses of 21 Lucanidae mitochondrial genomes was conducted in aspect of their length and AT-GC ratio. Nucleotide diversities analyses provide that cox1 and cox2 in Lucanidae are less diverse than those of Scarabaeoidea. Fifty simple sequence repeats (SSRs) were identified on F. binodulus mitochondrial genome. Comparative analysis of SSRs among five mitochondrial genomes displayed similar trend along with SSR types. Figulus binodulus was sister to all other available family Lucanidae species in the phylogenetic tree.

The complete mitochondrial genome of Aphis gossypii Glover, 1877 (Hemiptera: Aphididae) isolated from Leonurus japonicus in Korea

“…Similar to the previous studies in which complete genomes were rescued from the sample containing multiple organisms (Bae et al. 2020 ; Park, Xi, Park, Lee 2020 ; Park, Xi, Park, Nam, et al. 2020 ; Oh et al.…”

“…Largest INDEL of which length is 170 bp is located in the control region, which is the most variable region in mitogenomes (Lee J et al. 2020 ; Zhang and Hewitt 1997 ). In addition, 35 SNPs and 4 INDELs (174 bp in total), 40 SNPs and 3 INDELs (3 bp) are identified against those isolated in H. syriacus (MN102349) and P. asiatica (MT430940), respectively.…”

The Comparative Analyses of Six Complete Chloroplast Genomes of Morphologically Diverse Chenopodium album L. (Amaranthaceae) Collected in Korea

“…SSRs identified from seven C. album chloroplast genomes were compared based on their flanking sequences under the environment of the SSRDB ( http://ssrdb.infoboss.co.kr/; Park et al, in preparation). The pipeline of the SSR comparison implemented in the SSRDB used in various organelle genome studies [ 53 , 55 ] was used with the following conditions: a cut-off e value of 1 e − 10 and a maximum flanking sequence for the comparison of 60 bp.…”

A Comparative Analyses of the Complete Mitochondrial Genomes of Fungal Endosymbionts in Sogatella furcifera, White-Backed Planthoppers

“…Based on the conventional definition of an SSR on an organelle genome, monoSSR (1 bp) to hexaSSR (6 bp), the total length of SSRs on the mitogenome exceeds 10 bp. Owing to the different criteria of SSRs on organelle genomes [95][96][97][98][99][100][101], we adopted the criteria used in various organelle genome analyses [21,44,[102][103][104], as follows: the monoSSR (unit sequence length of 1 bp) to hexaSSR (6 bp) are used as normal SSRs, and hep-taSSR (7 bp) to decaSSR (10 bp) are defined as extended SSRs. Among the normal SSRs, pentaSSRs and hexaSSRs for which the number of unit sequences is 2 are classified as potential SSRs.…”