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. 2020 Jun 4;5(3):2350–2351. doi: 10.1080/23802359.2020.1773954

The complete mitogenome of Habropoda rodoszkowskii (Hymenoptera: Apidae) and phylogenetic analysis

Huanhuan Lu 1, Dunyuan Huang 1,✉
PMCID: PMC7782002  PMID: 33457787

Abstract

The mitogenome of Habropoda rodoszkowskii, the first complete mitogenome sequence of the genus Habropoda (hymenoptera: Apidae), was sequenced. The mitogenome is 18,497 bp (The proportion of A + T in 80.7%) long, with 37 classic eukaryotic mitochondrial genes (including 13 PCGs, 22 tRNAs, and 2 rRNAs) and an AT-rich region (The proportion of A + T in 78.2%). The Bayesian-inference and Maximum-likelihood phylogenetic relationship was constructed using 15 species from Hymenoptera. According to the phylogenetic tree, Habropoda rodoszkowskii converges with genus Nomada bees (Nomada flava and Nomada flavoguttata) to be supported. In addition, Habropoda rodoszkowskii is more closely related to Apidae than to Megahilidae and Colletidae.

Keywords: Habropoda rodoszkowskii, Hymenoptera, mitogenome, phylogeny

Habropoda rodoszkowskii belongs to the genus Habropoda within the family Apidae. This species is distributed domestically in Zhejiang, Yunnan, Tibet, and abroad in Sikkim, Nepal, India. In 1896, the species was named by Dalla Torre (1896). In 2000, Chinese scientist Wu Yanru made a detailed morphological description of the species (Wu 2000). To date, our research team has sequenced the complete mitogenome of H. rodoszkowskii for the first time, which was collected for the first time in Jinshi Town, Xiangtan City, Hunan Province, China (N 27.990146, E 112.409546). The samples used in the experiment are now stored in the Chongqing Key Laboratory of Vector Insects, Chongqing Normal University (Accession number: LHH-2018-HBHTF-1) and the GenBank accession No. is MT436266.

The complete sequence of H. rodoszkowskii was 18,497 bp, the content of A + T was 80.7%, and it contained 13 protein-coding genes (PCGs), 22 tRNAs, 2 rRNAs, and an AT-rich region (Control region, CR). Compared to other Hymenoptera (Zhao et al. 2017; Zheng et al. 2018), the mitogenome of H. rodoszkowskii has similar gene content, order and orientation. In addition, 20 intergenic regions and 14 overlapping regions are scattered throughout the genome.

The starting codon of 13 PCGs is in the form of ATN (including six ATT, five ATA, and two ATG). They end in three termination codons (including 11 TAA, one TAG and one T––). 22 tRNA genes have a cloverleaf structure except for trnS2, whose dihydrouridine (DHU) arm forms a simple loop and the phenomenon has been reported in other Hymenopteran species (Wei et al. 2010; Huang et al. 2016). The 16S rRNA (rrnL) and 12S rRNA (rrnS) genes are located on the minority stand. At the same time, the two genes are separated by trnV, which is common in the mitogenomes of Hymenoptera (Shi et al. 2015; Wang et al. 2020). The AT-rich region (CR) was 2882 bp long.

To describe the position of H. rodoszkowskii in the hymenoptera phylogenetic network, 15 complete hymenoptera mitogenomes were downloaded from GenBank. Furthermore, Abispa ephippium and Philanthus triangulum were used as the outgroup. Phylogenetic trees were constructed from the 13 PCGs using two methods: Bayesian-inference (BI) phylogenies were inferred using MrBayes 3.2.6 (Ronquist et al. 2012) and maximum-likelihood (ML) phylogenies were inferred using IQ-TREE 1.6.8 (Nguyen et al. 2015).

Two phylogenetic trees have the identical topological structure and each node has high supports (Figure 1). The phylogenetic hierarchy of various organisms in the phylogenetic tree is consistent with previous studies (He et al. 2018). It can be seen from the phylogenetic tree that H. rodoszkowskii converges with genus Nomada bees (Nomada flava and Nomada flavoguttata) to be supported. In addition, H. rodoszkowskii is more closely related to Apidae than to Megahilidae and Colletidae. This mitogenome data can be further applied to DNA barcode technology and the establishment of phylogenetic relationships among other species.

Figure 1.

Figure 1.

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Phylogenetic tree of H. rodoszkowskii was constructed using 13 PCGs of mitogenome from Hymenoptera species and two outgroups. The support values of the corresponding nodes are shown above (left is bootstraps of BI, right is posterior probability of ML).

Funding Statement

This work was supported by the National Natural Science Foundation of Chongqing [grant No. cstc2018jcyjAX0382], the National Natural Science Foundation of China [grant No. 31970484] and the Program of Ministry of Science and Technology of China [grant No. 2018FY100405].

Disclosure statement

No potential conflict of interest was reported by the author(s).

Data availability statement

The mitochondrial genome data of 16 species are used in the article. These data come from the following resources in the public domain: National Center for Biotechnology Information, https://www.ncbi.nlm.nih.gov/, and the GenBank No. of each species has been marked in Figure 1.

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Associated Data

This section collects any data citations, data availability statements, or supplementary materials included in this article.

Data Availability Statement

The mitochondrial genome data of 16 species are used in the article. These data come from the following resources in the public domain: National Center for Biotechnology Information, https://www.ncbi.nlm.nih.gov/, and the GenBank No. of each species has been marked in Figure 1.

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