The mitochondrial genome of Homoneura picta (Diptera: Lauxaniidae) and its phylogenetic analysis

Figures & data

Figure 1. The specimen map of H. picta. This species reference image was taken by Yao.

Figure 2. Mitochondrial genome map of Homoneura picta. Arrows indicate the orientation of gene transcription. Protein coding (CDS), tRNA, and rRNA genes are marked with different colors. The tRNAs are labeled according to the IUPAC-IUB single-letter amino acid codes. A GC-skew plot was created based on the deviation from the average GC-skew of the entire sequence. The GC content was plotted using a black sliding window, as the deviation from the average GC content of the entire sequence.

Table 1. Organization of the mitogenome of Homoneura picta.

Gene	Direction	Location	Size(bp)	IGN^a
tRNA^Ile	F	377–441	65
tRNA^Gln	R	439–507	69	−3
tRNA^Met	F	507–575	69	−1
ND2	F	576–1601	1026	0
tRNA^Trp	F	1600–1667	68	−2
tRNA^Cys	R	1682–1743	62	14
tRNA^Tyr	R	1744–1809	66	0
CO1	F	1825–3366	1542	15
tRNA^Leu(UUR)	F	3362–3426	65	−5
CO2	F	3431–4118	688	4
tRNA^Lys	F	4119–4188	70	0
tRNA^a^sp	F	4189–4255	67	0
ATP8	F	4256–4417	162	0
ATP6	F	4411–5088	678	−7
CO3	F	5088–5876	789	−1
tRNA^Gly	F	5885–5948	64	8
ND3	F	5949–6302	354	0
tRNA^a^la	F	6328–6391	64	25
tRNA^a^rg	F	6408–6470	63	16
tRNA^a^sn	F	6471–6536	66	0
tRNA^Ser(AGN)	F	6537–6604	68	0
tRNA^Glu	F	6608–6672	65	3
tRNA^Phe	R	6706–6771	66	33
ND5	R	6772–8493	1722	0
tRNA^His	R	8509–8573	65	15
ND4	R	8574–9912	1339	0
ND4L	R	9906–10,202	297	−7
tRNA^Thr	F	10,205–10,269	65	2
tRNA^Pro	R	10,270–10,335	66	0
ND6	F	10,338–10,862	525	2
CYTB	F	10,866–12,002	1137	3
tRNA^Ser(UCN)	F	12,005–12,071	67	2
ND1	R	12,088–13,074	987	16
tRNA^Leu(CUN)	R	13,076–13,139	64	1
lrRNA	R	13,096–14,463	1368	−44
tRNA^Val	R	14,462–14,533	72	−2
srRNA	R	14,533–15,319	787	−1

^aIGN: Intergenic nucleotide, minus indicates overlapping between genes.

Figure 3. The phylogenetic tree was developed using the maximum-likelihood method, based on 13 PCGs and 2 ribosomal genes in the mitochondrial genome; the third locus of the mitochondrial genes was removed through nucleotide sequencing. The following sequences were used: NC060541 (unpublished), NC070163 (this study), NC034922, NC034923, KX372558, NC034924 (Li et al. 2017), KT272847 (Junqueira et al. 2016), NC014611 (Nardi et al. 2010), NC026866 (Li et al. 2015), NC001709 (Lewis et al. 1995), NC024855 (Li et al. 2016), NC017605 (Nelson et al. 2012), KX372560 (Li et al. 2017), NC023794 (Zhong et al. 2016), NC016713 (Yang et al. 2013), NC008754 (Cameron et al. 2007).

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Data availability statement

The genome sequence data that support the findings of this study are openly available in GenBank of NCBI at https://www.ncbi.nlm.nih.gov, reference number NC070163. The associated BioProject, SRA, and Bio-Sample numbers are PRJNA983226, SRR24922755, and SAMN35722764, respectively.