DNA barcoding analysis of small mammals in the agricultural area in Nanxiong of Guangdong province based on four mitochondrial gene sequences

JIANG Hong-xue, YAO Dan-dan, LIN Si-liang, FENG Zhi-yong

doi:10.11853/j.issn.1003.8280.2022.01.009

Chinese Journal of Vector Biology and Control >

2022 , Vol. 33 >Issue 1: 48 - 53

DOI: https://doi.org/10.11853/j.issn.1003.8280.2022.01.009

Experimental Study

DNA barcoding analysis of small mammals in the agricultural area in Nanxiong of Guangdong province based on four mitochondrial gene sequences

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Guangdong Provincial Key Laboratory of High Technology for Plant Protection, Plant Protection Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, Guangdong 510640, China

Received date: 2021-05-24

Online published: 2022-02-17

Supported by

Research and Innovation Team Project of Common Key Technologies for Plant Major Disaster Early Warning (No. 2020KJ113); President Funding of Guangdong Academy of Agricultural Sciences (No. 201932)

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Abstract

Objective To investigate the reliability of different DNA barcoding genes in identifying small mammals by using four mitochondrial genes to identify the species of farmland rodent pests in Nanxiong city of Guangdong province, China. Methods A total of 110 samples of mouse-like rodents were captured in the farmland of Zhuji town in Nanxiong city in 2019. Genomic DNA extraction was performed for some of these samples, and universal primers were used for the amplification and sequencing of cytochrome c oxidase subunit Ⅰ (COⅠ), cytochrome B (Cytb), 16S rRNA, and mitochondrial DNA control region (D-loop) gene fragments. Rodent species was identified based on homology alignment, genetic distance analysis, and phylogenetic tree construction, and the identification results were compared with the results of conventional morphological identification. Results The DNA barcoding analysis of the four gene sequences showed that the samples belonged to 6 species in 4 genera, 2 families, and 2 orders. The D-loop gene bands of Suncus murinus were not amplified, and the Cytb gene sequence of S. murinus and the 16S rRNA gene sequence of Rattus losea were not correctly identified by BLAST. Intraspecific genetic distance was smaller than interspecific genetic distance for different rodent species and genes. The phylogenetic tree showed that individuals of the same rodent species were clustered into one branch, with a support rate of >99%. Genetic identification results were different from morphological identification results for the 6 samples. Conclusion The DNA barcoding technique is a powerful supplement to conventional morphological identification. In practical application, suitable DNA barcode genes should be selected according to the integrity and accuracy of database, and multi-gene mutual validation should be used to ensure the accuracy of identification results.

Key words： DNA barcoding; Small mammal; Species identification; Mitochondrial gene

Cite this article

JIANG Hong-xue, YAO Dan-dan, LIN Si-liang, FENG Zhi-yong . DNA barcoding analysis of small mammals in the agricultural area in Nanxiong of Guangdong province based on four mitochondrial gene sequences[J]. Chinese Journal of Vector Biology and Control, 2022 , 33(1) : 48 -53 . DOI: 10.11853/j.issn.1003.8280.2022.01.009

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