入侵害虫长林小蠹线粒体全基因组的测定与分析

doi:10.11707/j.1001-7488.LYKX20230077

Abstract

Abstract:

Objective: In this study, the complete mitochondrial genome of Hylurgus ligniperda was characterized and analyzed for the first time, and the phylogenetic relationships between H. ligniperda and closely related coleopteran species was reconstructed at mitochondrial genomic level. This study aims to enrich the mitochondrial genome diversity of curculionids, and facilitate molecular identification, population monitoring and control of the invasive pest species H. ligniperda. Method: The mitochondrial genome of H. ligniperda was sequenced using Illumina Novaseq 6000 platform, and was annotated and characterized based on published mitochondrial genomes of other Coleoptera species. The secondary structures of the tRNA genes were predicted using online tRNA Scan-SE 2.0 search server. Phylogenetic relationships between H. ligniperda and close related coleopterans were reconstructed using the maximum likelihood method based on mitochondrial genomes from a total of 23 species. Result: 1) The complete mitochondrial genome of H. ligniperda is a circular structure, which is 15912 bp in size and contains 37 genes, including 13 protein coding genes (PCGs), 22 tRNA genes and 2 rRNA genes, and a control region. The arrangement of all the 37 genes retains the same order and direction as the ancestral insect mitochondrial genome. 2) Nucleotide composition exhibits distinct AT-bias, with A + T content of 74.50%, G + C content of 23.80%; and the AT-skew value is 0.06, and GC-skew value is -0.24. 3) Except for the gene nad5, the other PCGs have the standard start codon ATN; and the stop codon of all PCGs is TAA or T. Except for trnS1, all tRNA genes display the secondary structures as classic clover-leaf shape. 4) Phylogenetic analysis based on mitochondrial genomes support that all the four subfamilies chosen from Curculionidae in present study are monophyletic, and they are branched as (Entiminae + ((Cryptorhynchinae + Molytinae) + Scolytinae)). Conclusion: Mitochondrial genome of H. ligniperda is conserved in structure and codon usage, and shows distinct A + T biased nucleotide composition. Phylogenetic relationships of H. ligniperda and the close relatives yielded by mitochondrial genomes are consistent with previous morphological investigations.

Key words: Curculionidae, Hylurgus ligniperda, invasive pest, mitochondrial genome, phylogenetic analysis

CLC Number:

S718.7

Xinyu Li,Cheng Qian,Jing Tao,Shixiang Zong. Analysis of the Complete Mitochondrial Genome of an Invasive Bark Beetle Species, Hylurgus ligniperda (Coleoptera: Curculionidae, Scolytinae)[J]. Scientia Silvae Sinicae, 2024, 60(8): 164-173.

Figures/Tables 7

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科 Family	亚科 Subfamily	物种名 Species name	GenBank序列号 GenBank accession number
卷象科Attelabidae		芒果切叶象 Deporaus marginatus	MT740322
三锥象甲科 Brentidae		甘薯蚁象 Cylas formicarius	MK421358
天牛科 Cerambycidae		大麻多节天牛 Agapanthia daurica	MN473114
象甲科 Curculionidae	隐喙象亚科 Cryptorhynchinae	芒果果肉象Sternochetus gravis	MW836140
		芒果果核象 Sternochetus mangiferae	NC_068213
		- Trigonopterus carinirostris	MT653608
		- Trigonopterus daun	MT653610
	粗喙象亚科 Entiminae	金足绿象 Chlorophanus auripes	OM112264
		茶丽纹象甲 Myllocerinus aurolineatus	MH197100
		根瘤象属 Sitona obsoletus	MH814932
	魔喙象亚科 Molytinae	萧氏松茎象 Hylobitelus xiaoi	OQ161263
		板栗雪片象 Niphades castanea	MT232762
		白松木蠹象 Pissodes strobi	MW452482
		云南木蠹象 Pissodes yunnanensis	OK135167
	小蠹亚科 Scolytinae	肾点毛小蠹 Dryocoetes autographus	KX035207
		根小蠹属 Hylastes attenuatus	KX035212
		长林小蠹 Hylurgus ligniperda*	OQ469318*
		六齿小蠹 Ips acuminatus	MK988441
		粗齿小蠹 Ips calligraphus	MW589547
		瘤小蠹属 Orthotomicus laricis	KX035213
		星坑小蠹属 Pityogenes bidentatus	KX035211
		细小蠹属 Pityophthorus pubescens	KX035209
		四眼小蠹 Polygraphus poligraphus	OK110248

基因 Gene	长度 Length/bp	位置 Position/bp	起始密码子 Start codon	终止密码子 Stop codon	反密码子 Anticodon	编码链 Coding strand
trnI	65	1－65	—	—	GAT	J
trnQ	69	704－636	—	—	CAA	N
trnM	70	711－780	—	—	ATG	J
nad2	972	802－1773	ATA	TAA	—	J
trnW	65	1790－1854	—	—	TGA	J
trnC	64	1917－1854	—	—	TGC	N
trnY	65	1987－1923	—	—	TAC	N
cox1	1521	1980－3500	ATC	TAA	—	J
trnL2	65	3523－3587	—	—	TTA	J
cox2	657	3609－4265	ATA	TAA	—	J
trnK	67	4279－4345	—	—	AAG	J
trnD	63	4346－4408	—	—	GAC	J
atp8	156	4409－4564	ATT	TAA	—	J
atp6	666	4558－5235	ATG	TAA	—	J
cox3	783	5235－6017	ATG	TAA	—	J
trnG	66	6021－6086	—	—	GGA	J
nad3	345	6087－6431	ATA	TAA	—	J
trnA	63	6440－6502	—	—	GCA	J
trnR	65	6503－6567	—	—	CGA	J
trnN	65	6567－6631	—	—	AAC	J
trnS1	66	6632－6697	—	—	AGA	J
trnE	66	6703－6768	—	—	GAA	J
trnF	64	6832－6769	—	—	TTC	N
nad5	1669	8507－6839	TTG	T	—	N
trnH	64	8607－8544	—	—	CAC	N
nad4	1317	9931－8615	ATA	TAA	—	N
nad4L	268	10213－9946	ATT	T	—	N
trnT	65	10240－10304	—	—	ACA	J
trnP	66	10370－10305	—	—	CCA	N
nad6	507	10373－10879	ATT	TAA	—	J
cob	1129	10879－12007	ATG	T	—	J
trnS2	69	12018－12086	—	—	TCA	J
nad1	886	13036－12151	ATT	T	—	N
trnL1	64	13116－13053	—	—	CTA	N
rrnL	1286	14416－13131	—	—	—	N
trnV	66	14478－14413	—	—	GTA	N
rrnS	770	15246－14477	—	—	—	N

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Analysis of the Complete Mitochondrial Genome of an Invasive Bark Beetle Species, Hylurgus ligniperda (Coleoptera: Curculionidae, Scolytinae)

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