Abstract
Liriomyza chinensis is a serious pest of onions in many countries, especially in East Asia. We sequenced the complete mitochondrial genome of this species and compared it with five other Agromyzidae species. The L. chinensis mitogenome is a double-stranded 16,175 bp circular molecule with an A + T content of 78.3%. It contains 37 genes and a control region as do the sequenced Liriomyza species. The mitogenomes of L. chinensis and other Agromyzidae species showed a clear bias in nucleotide composition with a positive AT-skew. Most PCGs used standard ATN as start codons, and TAN as termination codons. The tRNAs exhibited the typical clover-leaf structure, except for tRNASer(AGN) and the two rRNA genes are conserved with those of other Agromyzids. The L. chinensis mitogenome control region included several conserved regions, including a poly-T, two (TA)n and one poly-A stretch, which are considered important replication and transcription. The 13 PCGs were used to study the phylogeny of L. chinensis and five related Agromyzids. Analysis by maximum likelihood, Bayesian inference and genetic distance suggest congruent phylogenetic relationships in Liriomyza spp. and provide a useful supplement to taxonomic classification by morphology.
Highlights
Mitochondria are involved in energy metabolism, apoptosis, aging, disease and oxidative phosphorylation[1,2,3]
We report the complete mitochondrial genome of L. chinensis and provide a thorough description of its structural features
The gene order in the L. chinensis mitochondrial genome is identical to D. melanogaster[26], which is the classic structure for Diptera
Summary
The A + T content of isolated PCGs, tRNAs, rRNAs, and the control region exceeded 75%, and the control region had the highest A + T content (89.4%) (Table 2). This strand bias in nucleotide composition is a universal phenomenon in metazoan mitochondrial genomes and is evident by a comparative analysis of AT- and GC-skews[4,6,27]. The PCGs, tRNAs and rRNAs of the six Agromyzids mtDNAs show a relatively consistent A + T content and AT-skew (Table 3). Feature tRNAIle(I) tRNAGln(Q) tRNAMet(M) ND2 tRNATrp(W) tRNACys(C) tRNATyr(Y) COI tRNALeu(UUR) COII tRNALys(K) tRNAAsp(D) ATP8 ATP6 COIII tRNAGly(G) ND3 tRNAAla(A) tRNAArg(R) tRNAAsn(N) tRNASer(AGN) tRNAGlu(E) tRNAPhe(F) ND5 tRNAHis(H) ND4 ND4L tRNAThr(T) tRNAPro(P) ND6 CYTB tRNASer(UCN) ND1 tRNALeu(CUN) 16 S rRNA tRNAVal(V) 12 S rRNA control region
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