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Journal articles on the topic 'Mitogenomes'

Author: Grafiati

Published: 10 December 2022

Last updated: 19 July 2025

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1

Burzyński, Artur, and Marianna Soroka. "Complete paternally inherited mitogenomes of two freshwater mussels Unio pictorum and Sinanodonta woodiana (Bivalvia: Unionidae)." PeerJ 6 (September 11, 2018): e5573. http://dx.doi.org/10.7717/peerj.5573.

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Freshwater bivalves from the family Unionidae usually have two very divergent mitogenomes, inherited according to the doubly uniparental model. The early divergence of these two mitogenomic lineages gives a unique opportunity to use two mitogenomic data sets in a single phylogenetic context. However, the number of complete sequences of the maternally inherited mitogenomes of these animals available in GenBank greatly exceeds that of the paternally inherited mitogenomes. This is a problem for phylogenetic reconstruction because it limits the use of both mitogenomic data sets. Moreover, since lo

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2

Li, Shu-Yi, Yan-Min Zhao, Bing-Xin Guo, Chen-Hong Li, Bing-Jiao Sun, and Xiao-Long Lin. "Comparative Analysis of Mitogenomes of Chironomus (Diptera: Chironomidae)." Insects 13, no. 12 (2022): 1164. http://dx.doi.org/10.3390/insects13121164.

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(1) Background: Chironomids are biological indicators, playing an important role in monitoring and assessing the changes in water ecosystems. Mitochondrial genomes have been widely applied as a molecular marker to analyze the taxonomy and phylogeny of insects. However, knowledge of the mitogenomes of Chironomus species is scarce at present, which limits our understanding of the evolutionary relationships among Chironomus. (2) Methods: In our study, the mitogenomes and their basic structure of 12 Chironomus species and one Microchironomus species were newly sequenced. Combined with reported mit

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3

Yang, Chao, Xiaojuan Du, Yuxin Liu, et al. "Comparative mitogenomics of the genus Motacilla (Aves, Passeriformes) and its phylogenetic implications." ZooKeys 1109 (July 1, 2022): 49–65. http://dx.doi.org/10.3897/zookeys.1109.81125.

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The genus Motacilla belongs to Motacillidae (Passeriformes), where mitochondrial features are poorly understood and phylogeny is controversial. Whole mitochondrial genome (mitogenome) data and large taxon sampling are considered to be ideal strategies to obtain this information. We generated four complete mitogenomes of M. flava, M. cinerea, M. alba and Dendronanthus indicus, and made comparative analyses of Motacilla species combined with mitogenome data from GenBank, and then reconstructed phylogenetic trees based on 37 mitochondrial genes. The mitogenomes of four mitogenome sequences exhibi

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4

Yang, Chao, Xiaojuan Du, Yuxin Liu, et al. "Comparative mitogenomics of the genus Motacilla (Aves, Passeriformes) and its phylogenetic implications." ZooKeys 1109 (July 1, 2022): 49–65. https://doi.org/10.3897/zookeys.1109.81125.

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The genus Motacilla belongs to Motacillidae (Passeriformes), where mitochondrial features are poorly understood and phylogeny is controversial. Whole mitochondrial genome (mitogenome) data and large taxon sampling are considered to be ideal strategies to obtain this information. We generated four complete mitogenomes of M. flava, M. cinerea, M. alba and Dendronanthus indicus, and made comparative analyses of Motacilla species combined with mitogenome data from GenBank, and then reconstructed phylogenetic trees based on 37 mitochondrial genes. The mitogenomes of four mitogenome sequences exhibi

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5

Wang, Zhengfei, Xinyi Xu, Yuqing Zheng, Zhiwen Xu, Yunjie Li, and Huohuo Chen. "Analysis of the Overlength Main Noncoding Region in Metacarcinus magister (Decapoda: Brachyura) and a Phylogenetic Study of the Cancroidea Species." Genes 15, no. 4 (2024): 437. http://dx.doi.org/10.3390/genes15040437.

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Complete mitochondrial genomes (mitogenomes) can provide important information regarding the molecular evolution and phylogenetic relationships of marine invertebrates, especially in Brachyura. Only one Cancroidea species of mitogenomes has been sequenced before; in this research, the mitogenomic characteristics of Metacarcinus magister (Cancridae: Cancroidea) are newly studied. The length of the M. magister mitogenome was 48,820 bp, and it contained the typical 13 protein-coding genes, 2 ribosomal RNA genes, and 22 transfer RNA genes. We performed a series of analyses on the characteristics o

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6

Ma, Yan, and Ying Miao. "Mitogenomic Comparison of the Mole Crickets Gryllotalpidae with the Phylogenetic Implications (Orthoptera: Ensifera)." Insects 13, no. 10 (2022): 919. http://dx.doi.org/10.3390/insects13100919.

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Owing to limited molecular data, the phylogenetic position of the family Gryllotalpidae is still controversial in the infraorder Gryllidea. Mitochondrial genome (mitogenome) plays a crucial role in reconstructing phylogenetic relationships and revealing the molecular evolution of insects. However, only four mitogenomes have been reported in Gryllotalpidae to date. Herein, we obtained the first mitogenomes of Gryllotalpa henana Cai & Niu, 1998 and the Chinese G. orientalis Burmeister, 1838, made a detailed comparison of all mitogenomes available in Gryllotalpidae and reconstructed the phylo

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7

Yang, Mingsheng, Bingyi Hu, Lin Zhou, et al. "First mitochondrial genome from Yponomeutidae (Lepidoptera, Yponomeutoidea) and the phylogenetic analysis for Lepidoptera." ZooKeys 879 (October 9, 2019): 137–56. http://dx.doi.org/10.3897/zookeys.879.35101.

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The complete mitochondrial genome (mitogenome) of Yponomeuta montanatus is sequenced and compared with other published yponomeutoid mitogenomes. The mitogenome is circular, 15,349 bp long, and includes the typical metazoan mitochondrial genes (13 protein-coding genes, two ribosomal RNA genes, and 22 transfer RNA genes) and an A + T-rich region. All 13 protein-coding genes use a typical start codon ATN, the one exception being cox1, which uses CGA across yponomeutoid mitogenomes. Comparative analyses further show that the secondary structures of tRNAs are conserved, including loss of the Dihydo

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8

Yang, Mingsheng, Bingyi Hu, Lin Zhou, et al. "First mitochondrial genome from Yponomeutidae (Lepidoptera, Yponomeutoidea) and the phylogenetic analysis for Lepidoptera." ZooKeys 879 (October 9, 2019): 137–56. https://doi.org/10.3897/zookeys.879.35101.

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The complete mitochondrial genome (mitogenome) of Yponomeuta montanatus is sequenced and compared with other published yponomeutoid mitogenomes. The mitogenome is circular, 15,349 bp long, and includes the typical metazoan mitochondrial genes (13 protein-coding genes, two ribosomal RNA genes, and 22 transfer RNA genes) and an A + T-rich region. All 13 protein-coding genes use a typical start codon ATN, the one exception being cox1, which uses CGA across yponomeutoid mitogenomes. Comparative analyses further show that the secondary structures of tRNAs are conserved, including loss of the Dihydo

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9

Miao, Yujing, Haimei Chen, Wanqi Xu, Chang Liu, and Linfang Huang. "Cistanche Species Mitogenomes Suggest Diversity and Complexity in Lamiales-Order Mitogenomes." Genes 13, no. 10 (2022): 1791. http://dx.doi.org/10.3390/genes13101791.

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The extreme diversity and complexity of angiosperms is well known. Despite the fact that parasitic plants are angiosperms, little is known about parasitic plant mitogenomic diversity, complexity, and evolution. In this study, we obtained and characterized the mitogenomes of three Cistanche species (holoparasitic plants) from China to compare the repeats, segment duplication and multi-copy protein-coding genes (PCGs), to clarify the phylogenetic and evolution relationship within the Lamiales order, and to identify the mitochondrial plastid insertions (MTPT) in Cistanche mitogenomes. The results

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10

Zhang, Renyi, Tingting Zhu, Hongmei Li, and Lei Deng. "The Mitochondrial Genome of Linichthys laticeps (Cypriniformes: Cyprinidae): Characterization and Phylogeny." Genes 14, no. 10 (2023): 1938. http://dx.doi.org/10.3390/genes14101938.

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Mitochondrial genomes (mitogenomes) have been widely used in phylogenetic analysis and evolutionary biology. The Labeoninae is the largest subfamily of Cypriniformes and has great economic importance and ecological value. In this study, we sequenced, annotated, and characterized the complete mitogenome of Linichthys laticeps and then constructed the phylogenetic tree with previously published Labeoninae mitogenomes. The mitogenome of L. laticeps was 16,593 bp in length, with an A + T content of 57.1%. The mitogenome contained a standard set of 37 genes and a control region with the same order

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11

Sinn, Brandon T., and Craig F. Barrett. "Ancient Mitochondrial Gene Transfer between Fungi and the Orchids." Molecular Biology and Evolution 37, no. 1 (2019): 44–57. http://dx.doi.org/10.1093/molbev/msz198.

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Abstract The mitochondrial genomes (mitogenomes) of plants are known to incorporate and accumulate DNA from intra- and extracellular donors. Despite the intimate relationships formed between flowing plants (angiosperms) and fungi, lengthy fungal-like sequence has not been identified in angiosperm mitogenomes to date. Here, we present multiple lines of evidence documenting horizontal gene transfer (HGT) between the mitogenomes of fungi and the ancestors of the orchids, plants that are obligate parasites of fungi during their early development. We show that the ancestor of the orchids acquired a

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12

Li, Xuejuan, Wenli Dou, and Liliang Lin. "Mitogenomic phylogeny of Tetrigoidea (Insecta, Orthoptera), with a focus on the genus Zhengitettix." PeerJ 13 (June 9, 2025): e19521. https://doi.org/10.7717/peerj.19521.

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The mitochondrial genome (mitogenome) has been widely used to infer the phylogeny, origin and evolution of Orthopteran insects. Although several mitogenomic data have been used to study the phylogenetic relationships of Tetrigoidea (Orthoptera), the phylogenetic status of several subfamilies and tribes was still unclear due to the limited sampling of taxon. To further analyze the mitogenomic features and phylogeny of Tetrigoidea, five mitogenomes (Zhengitettix curvispinus, Z. hainanensis, Scelimena melli, Eucriotettix oculatus and Thoradonta yunnana) were sequenced and analyzed in this study,

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13

Teske, Peter R. "Mitochondrial genome announcements need to consider existing short sequences from closely related species to prevent taxonomic errors." Conservation Genetics Resources 13, no. 3 (2021): 359–65. http://dx.doi.org/10.1007/s12686-021-01214-7.

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AbstractThe reconstruction of complete mitochondrial genomes (mitogenomes) has considerable potential to clarify species relationships in cases where morphological analysis and DNA sequencing of individual genes are inconclusive. However, the trend to use only mitogenomes for the phylogenies presented in mitogenome announcements carries the inherent risk that the study species’ taxonomy is incorrect because no mitogenomes have yet been reconstructed for its sister species. Here, I illustrate this problem using the mitogenomes of two seahorses, Hippocampus capensis and H. queenslandicus. Both s

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14

Wang, Ying, Ruijuan Yang, Xiuxiu Zhu, Chenguang Zheng, and Wenjun Bu. "The Characterization and Phylogenetic Implications of the Mitochondrial Genomes of Antheminia varicornis and Carpocoris purpureipennis (Hemiptera: Pentatomidae)." Diversity 15, no. 12 (2023): 1209. http://dx.doi.org/10.3390/d15121209.

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The mitochondrial genome (mitogenome) has been widely used for structural comparisons and phylogenetic analyses of Hemiptera groups at different taxonomic levels. However, little is known about the mitogenomic characteristics of species from Antheminia and Carpocoris, two morphologically similar genera in the Pentatomidae family, and their phylogenetic relationships need to be further confirmed. In this study, the mitogenomes of Antheminia varicornis (Jakovlev, 1874) and Carpocoris purpureipennis (De Geer, 1773) were sequenced and analyzed. Coupled with previously published mitogenomes of Pent

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15

Xiao, Xiu-Ru, Meng-Han Chen, Shu-Yi Li, et al. "Comparative Mitogenomic Analyses of Tanypodinae (Diptera: Chironomidae)." Insects 16, no. 2 (2025): 203. https://doi.org/10.3390/insects16020203.

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Tanypodinae, a highly diverse subfamily within Chironomidae (Diptera), has been poorly represented in mitochondrial genome (mitogenome) databases, with only a limited number of complete or partial sequences available. To address this gap, we present the first complete mitogenome sequences of 16 Tanypodinae species and 1 Podonominae species. By integrating these novel data with previously published chironomid mitogenomes, we conducted a comprehensive comparative mitogenomic analysis of 21 Tanypodinae species. Our results reveal that Tanypodinae mitogenomes maintain a conserved structural organi

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16

Li, Qiang, Ting Zhang, Lijiao Li, et al. "Comparative Mitogenomic Analysis Reveals Intraspecific, Interspecific Variations and Genetic Diversity of Medical Fungus Ganoderma." Journal of Fungi 8, no. 8 (2022): 781. http://dx.doi.org/10.3390/jof8080781.

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Ganoderma species are widely distributed in the world with high diversity. Some species are considered to be pathogenic fungi while others are used as traditional medicine in Asia. In this study, we sequenced and assembled four Ganoderma complete mitogenomes, including G. subamboinense s118, G. lucidum s37, G. lingzhi s62, and G. lingzhi s74. The sizes of the four mitogenomes ranged from 50,603 to 73,416 bp. All Ganoderma specimens had a full set of core protein-coding genes (PCGs), and the rps3 gene of Ganoderma species was detected to be under positive or relaxed selection. We found that the

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17

Xing, Guoqing, Shunpei Xie, Zhanxiang Qiao, et al. "Characterization and Phylogenetic Analysis of the Complete Mitogenomes of Valsa mali and Valsa pyri." Journal of Fungi 11, no. 5 (2025): 348. https://doi.org/10.3390/jof11050348.

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Apple Valsa canker, caused by Valsa mali and Valsa pyri, is a devastating disease of apple trees and poses a severe threat to the sustainable development of apple production. Although the two species’ whole genomes have been sequenced, their mitochondrial genomes are still uncharacterized. In this study, the complete mitochondrial genomes of V. mali and V. pyri were assembled, annotated, and compared by bioinformatic methods. The results indicate that the mitogenomes are both circular DNA molecules with sizes of 213,406 bp and 128,022 bp, respectively. The AT skew values of the two Valsa speci

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18

Zhang, Dong, Hong Zou, Ivan Jakovlić, et al. "Mitochondrial Genomes of Two Thaparocleidus Species (Platyhelminthes: Monogenea) Reveal the First rRNA Gene Rearrangement among the Neodermata." International Journal of Molecular Sciences 20, no. 17 (2019): 4214. http://dx.doi.org/10.3390/ijms20174214.

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Phylogenetic framework for the closely related Ancylodiscoidinae and Ancyrocephalinae subfamilies remains contentious. As this issue was never studied using a large molecular marker, we sequenced the first two Ancylodiscoidinae mitogenomes: Thaparocleidus asoti and Thaparocleidus varicus. Both mitogenomes had two non-coding regions (NCRs) that contained a number of repetitive hairpin-forming elements (RHE). Due to these, the mitogenome of T. asoti (16,074 bp) is the longest among the Monogenea; especially large is its major NCR, with 3500 bp, approximately 1500 bp of which could not be sequenc

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19

Wang, Shuaibin, Qingwei Song, Shanshan Li, et al. "Assembly of a Complete Mitogenome of Chrysanthemum nankingense Using Oxford Nanopore Long Reads and the Diversity and Evolution of Asteraceae Mitogenomes." Genes 9, no. 11 (2018): 547. http://dx.doi.org/10.3390/genes9110547.

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Diversity in structure and organization is one of the main features of angiosperm mitochondrial genomes (mitogenomes). The ultra-long reads of Oxford Nanopore Technology (ONT) provide an opportunity to obtain a complete mitogenome and investigate the structural variation in unprecedented detail. In this study, we compared mitogenome assembly methods using Illumina and/or ONT sequencing data and obtained the complete mitogenome (208 kb) of Chrysanthemum nankingense based on the hybrid assembly method. The mitogenome encoded 19 transfer RNA genes, three ribosomal RNA genes, and 34 protein-coding

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20

Choi, Nak Jung, Hong Xi, and Jongsun Park. "A Comparative Analyses of the Complete Mitochondrial Genomes of Fungal Endosymbionts in Sogatella furcifera, White-Backed Planthoppers." International Journal of Genomics 2021 (June 8, 2021): 1–20. http://dx.doi.org/10.1155/2021/6652508.

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Sogatella furcifera Horvath, commonly known as the white-backed planthoppers (WBPH), is an important pest in East Asian rice fields. Fungal endosymbiosis is widespread among planthoppers in the infraorder Fulgoromorpha and suborder Auchenorrhyncha. We successfully obtained complete mitogenome of five WBPH fungal endosymbionts, belonging to the Ophiocordycipitaceae family, from next-generation sequencing (NGS) reads obtained from S. furcifera samples. These five mitogenomes range in length from 55,390 bp to 55,406 bp, which is shorter than the mitogenome of the fungal endosymbiont found in Rica

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21

Wang, Jun, Xin-Yi Dai, Xiao-Dong Xu, et al. "The complete mitochondrial genomes of five longicorn beetles (Coleoptera: Cerambycidae) and phylogenetic relationships within Cerambycidae." PeerJ 7 (September 5, 2019): e7633. http://dx.doi.org/10.7717/peerj.7633.

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Cerambycidae is one of the most diversified groups within Coleoptera and includes nearly 35,000 known species. The relationships at the subfamily level within Cerambycidae have not been convincingly demonstrated and the gene rearrangement of mitochondrial genomes in Cerambycidae remains unclear due to the low numbers of sequenced mitogenomes. In the present study, we determined five complete mitogenomes of Cerambycidae and investigated the phylogenetic relationship among the subfamilies of Cerambycidae based on mitogenomes. The mitogenomic arrangement of all five species was identical to the a

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22

Tao, Jiawei, Xianyi Wang, Yaohang Long, et al. "Determining Gene Order Patterns in the Suillus and Boletales through Comparative Analysis of Their Mitogenomes." International Journal of Molecular Sciences 25, no. 17 (2024): 9597. http://dx.doi.org/10.3390/ijms25179597.

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Suillus is one of the most important genera of ectomycorrhizal fungi. As a model for studying host specificity, its molecular fragments and nuclear genome have been analyzed. However, its mitochondrial genome has not yet been reported. In this study, we assembled five mitogenomes of Suillus and analyzed and compared their basic characteristics. Owing to the large number of introns as well as intergenic regions, the mitogenomic lengths of species of Suillus were greater than those of other species of Boletales. We identified two main patterns of gene order arrangement in the members of the orde

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23

Ruiz-Mena, Areli, Pablo Mora, Eugenia E. Montiel, Teresa Palomeque, and Pedro Lorite. "Complete Nucleotide Sequence of the Mitogenome of Tapinoma ibericum (Hymenoptera: Formicidae: Dolichoderinae), Gene Organization and Phylogenetics Implications for the Dolichoderinae Subfamily." Genes 13, no. 8 (2022): 1325. http://dx.doi.org/10.3390/genes13081325.

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The ant Tapinoma ibericum Santschi, 1925 is native to the Iberian Peninsula. This species, as well as other species from the Tapinoma nigerrimum complex, could form supercolonies that make these species potentially invasive and could give rise to pests. Recently a mature colony from this species has been found in the Isle of Wight (United Kingdom). Mitogenomes have been used to study the taxonomy, biogeography and genetics of species, improving the development of strategies against pest invasion. However, the number of available mitogenomes from the subfamily Dolichoderinae is still scarce and

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24

Liu, Qiaoqiao, Jia He, Fan Song, Li Tian, Wanzhi Cai, and Hu Li. "Positive Correlation of the Gene Rearrangements and Evolutionary Rates in the Mitochondrial Genomes of Thrips (Insecta: Thysanoptera)." Insects 13, no. 7 (2022): 585. http://dx.doi.org/10.3390/insects13070585.

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Extensive gene rearrangement is characteristic in the mitogenomes of thrips (Thysanoptera), but the historical process giving rise to the contemporary gene rearrangement pattern remains unclear. To better understand the evolutionary processes of gene rearrangement in the mitogenomes of thrips, we sequenced the mitogenome of the banded thrip species Aeolothrips xinjiangensis. First, we found a novel mitochondrial gene order in this species. This mitogenome is 16,947 bp in length and encodes the typical 37 coding genes (13 protein-coding genes, 22 tRNA genes, and two rRNA genes) of insects. The

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25

Cunha, Regina L., Katy R. Nicastro, Gerardo I. Zardi, et al. "Comparative mitogenomic analyses and gene rearrangements reject the alleged polyphyly of a bivalve genus." PeerJ 10 (September 26, 2022): e13953. http://dx.doi.org/10.7717/peerj.13953.

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Background The order and orientation of genes encoded by animal mitogenomes are typically conserved, although there is increasing evidence of multiple rearrangements among mollusks. The mitogenome from a Brazilian brown mussel (hereafter named B1) classified as Perna perna Linnaeus, 1758 and assembled from Illumina short-length reads revealed an unusual gene order very different from other congeneric species. Previous mitogenomic analyses based on the Brazilian specimen and other Mytilidae suggested the polyphyly of the genus Perna. Methods To confirm the proposed gene rearrangements, we seque

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26

Zhang, Xiaolu, Cailing Li, Liyun Jiang, Gexia Qiao, and Jing Chen. "Characteristics and Comparative Analysis of Mitochondrial Genomes of the Aphid Genus Hyalopterus Koch (Hemiptera: Aphididae: Aphidinae)." Insects 15, no. 6 (2024): 389. http://dx.doi.org/10.3390/insects15060389.

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Using Illumina sequencing technology, we generated complete mitochondrial genomes (mitogenomes) of three constituent species of the aphid genus Hyalopterus Koch, Hyalopterus amygdali (Blanchard), Hyalopterus arundiniformis Ghulamullah, and Hyalopterus pruni (Geoffroy). The sizes of the Hyalopterus mitogenomes range from 15,306 to 15,410 bp, primarily due to variations in the length of non-coding regions. The Hyalopterus mitogenomes consist of 37 coding genes arranged in the order of the ancestral insect mitogenome, a control region, and a repeat region between trnE and trnF. According to the C

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27

Zhang, Fen, Haiqi Kang, and Lizhi Gao. "Complete Mitochondrial Genome Assembly of an Upland Wild Rice Species, Oryza granulata and Comparative Mitochondrial Genomic Analyses of the Genus Oryza." Life 13, no. 11 (2023): 2114. http://dx.doi.org/10.3390/life13112114.

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Wild upland rice species, including Oryza granulata, possess unique characteristics that distinguish them from other Oryza species. For instance, O. granulata characteristically has a GG genome and is accordingly classified as a basal lineage of the genus Oryza. Here, we deployed a versatile hybrid approach by integrating Illumina and PacBio sequencing data to generate a high-quality mitochondrial genome (mitogenome) assembly for O. granulata. The mitogenome of O. granulata was 509,311 base pairs (bp) with sixty-seven genes comprising two circular chromosomes, five ribosomal RNA (rRNA) coding

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Xu, Hui, Ziyi Zhu, Zeyuan Tian, et al. "The Mitogenomic Characterization and Phylogenetic Analysis of the Plant Pathogen Phyllosticta yuccae." Genes 15, no. 1 (2024): 111. http://dx.doi.org/10.3390/genes15010111.

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Phyllosticta yuccae is an important plant pathogen causing leaf spot disease in Yucca gigantea Lem. It is imperative to note that the amount of information available about the mitogenome of this subject is severely limited. This must be addressed immediately, as it is crucial to our understanding and progress in this field. To better understand the mitogenomic characteristics of P. yuccae, we conducted its sequencing by MGISEQ. Afterwards, the mitogenome was assembled and annotated. The mitogenomic characteristics and phylogenetic placement of the P. yuccae strain KUMCC 6213 were analyzed. The

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Wang, Chengxin, Site Luo, Na Yao, Xinyue Wang, Yong Song, and Shengao Chen. "A Comprehensive Analysis of Triplophysa labiata (Kessler, 1874) Mitogenome and Its Phylogenetic Implications within the Triplophysa Genus." Genes 14, no. 7 (2023): 1356. http://dx.doi.org/10.3390/genes14071356.

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In order to resolve the long-standing controversy surrounding the relationships within the Triplophysa genus, we conducted an extensive analysis of the complete mitogenome of Triplophysa labiata using DNBSEQ short reads. Additionally, we reconstructed the phylogeny of the Nemacheilidae family using mitogenome data. By comparing all available mitogenomes within the Triplophysa genus, we gained valuable insights into its evolutionary history. Our findings revealed that the mitogenome sequence of T. labiata is circular, spanning a length of 16,573 bp. It encompasses 13 protein-coding genes (PCGs)

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30

Wang, Hao, Xiaopeng Zhu, Yuepeng Liu, Sulan Luo, and Dongting Zhangsun. "Mitogenome Characterization of Four Conus Species and Comparative Analysis." International Journal of Molecular Sciences 24, no. 11 (2023): 9411. http://dx.doi.org/10.3390/ijms24119411.

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Cone snails, as a type of marine organism, have rich species diversity. Traditionally, classifications of cone snails were based mostly on radula, shell, and anatomical characters. Because of these phenotypic features’ high population variability and propensity for local adaptation and convergence, identifying species can be difficult and occasionally inaccurate. In addition, mitochondrial genomes contain high phylogenetic information, so complete mitogenomes have been increasingly employed for inferring molecular phylogeny. To enrich the mitogenomic database of cone snails (Caenogastropoda: C

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31

Ruiz-Mena, Areli, Pablo Mora, Eugenia Elisabet Montiel, Teresa Palomeque, and Pedro Lorite. "Complete Nucleotide Sequence of the Mitogenome of Tapinoma ibericum (Hymenoptera: Formicidae: Dolichoderinae), Gene Organization and Phylogenetics Implications for the Dolichoderinae Subfamily." Genes 13, no. 8 (2022): 1325. https://doi.org/10.3390/genes13081325.

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The ant <em>Tapinoma ibericum</em> Santschi, 1925 is native to the Iberian Peninsula. This species, as well as other species from the <em>Tapinoma nigerrimum</em> complex, could form supercolonies that make these species potentially invasive and could give rise to pests. Recently, a mature colony from this species has been found in the Isle of Wight (United Kingdom). Mitogenomes have been used to study the taxonomy, biogeography and genetics of species, improving the development of strategies against pest invasion. However, the number of available mitogenomes from the subfamily Dolichoderinae

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32

Zhang, Tengteng, Chao Li, Xue Zhang, Chundi Wang, Andrew J. Roger, and Feng Gao. "Characterization and Comparative Analyses of Mitochondrial Genomes in Single-Celled Eukaryotes to Shed Light on the Diversity and Evolution of Linear Molecular Architecture." International Journal of Molecular Sciences 22, no. 5 (2021): 2546. http://dx.doi.org/10.3390/ijms22052546.

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Determination and comparisons of complete mitochondrial genomes (mitogenomes) are important to understand the origin and evolution of mitochondria. Mitogenomes of unicellular protists are particularly informative in this regard because they are gene-rich and display high structural diversity. Ciliates are a highly diverse assemblage of protists and their mitogenomes (linear structure with high A+T content in general) were amongst the first from protists to be characterized and have provided important insights into mitogenome evolution. Here, we report novel mitogenome sequences from three repr

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Li, Xiaoling, Mengqing Zhe, Yiwei Huang, Weishu Fan, Junbo Yang, and Andan Zhu. "The Evolution of Mitochondrial Genomes between Two Cymbidium Sister Species: Dozens of Circular Chromosomes and the Maintenance and Deterioration of Genome Synteny." Genes 14, no. 4 (2023): 864. http://dx.doi.org/10.3390/genes14040864.

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Plant mitochondrial genomes (mitogenomes) exhibit fluid genome architectures, which could lead to the rapid erosion of genome synteny over a short evolutionary time scale. Among the species-rich orchid family, the leafy Cymbidium lancifolium and leafless Cymbidium macrorhizon are sister species with remarkable differences in morphology and nutritional physiology. Although our understanding of the evolution of mitochondria is incomplete, these sister taxa are ideal for examining this subject. In this study, the complete mitogenomes of C. lancifolium and C. macrorhizon, totaling 704,244 bp and 6

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Xue, Chao, Dan Zhang, Dongkai Liu, Laizheng Jiao, Ran Li, and Xianfeng Yi. "First Record of the Complete Mitochondrial Genome for the Genus Borbo (Lepidoptera, Hesperiidae): Characterization and Comparative Genomic Analysis." Diversity 16, no. 9 (2024): 560. http://dx.doi.org/10.3390/d16090560.

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Butterflies of the genus Borbo are mainly distributed in the Oriental and Australian regions and are considered pests of important crops. However, no mitochondrial genomes have been reported for this genus until now, leaving the evolutionary characteristics and differentiation patterns of their mitogenomes unclear. In this study, we present the first complete mitochondrial genome sequence of the rice swift, Borbo cinnara. The circular double-stranded mitogenome was 15,508 bp in length, comprising 13 protein-coding genes (PCGs), 2 ribosomal RNA genes (rRNAs), 22 transfer RNA genes (tRNAs), and

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Guo, Wenhu, Andan Zhu, Weishu Fan, Robert P. Adams, and Jeffrey P. Mower. "Extensive Shifts from Cis- to Trans-splicing of Gymnosperm Mitochondrial Introns." Molecular Biology and Evolution 37, no. 6 (2020): 1615–20. http://dx.doi.org/10.1093/molbev/msaa029.

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Abstract Hundreds of plant mitogenomes have been sequenced from angiosperms, but relatively few mitogenomes are available from its sister lineage, gymnosperms. To examine mitogenomic diversity among extant gymnosperms, we generated draft mitogenomes from 11 diverse species and compared them with four previously published mitogenomes. Examined mitogenomes from Pinaceae and cycads retained all 41 protein genes and 26 introns present in the common ancestor of seed plants, whereas gnetophyte and cupressophyte mitogenomes experienced extensive gene and intron loss. In Pinaceae and cupressophyte mit

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Zheng, Chen-Guang, Xiu-Xiu Zhu, Li-Ping Yan, et al. "First complete mitogenomes of Diamesinae, Orthocladiinae, Prodiamesinae, Tanypodinae (Diptera: Chironomidae) and their implication in phylogenetics." PeerJ 9 (May 6, 2021): e11294. http://dx.doi.org/10.7717/peerj.11294.

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Background The mitochondrial genome (mitogenome) has been extensively used for phylogenetic and evolutionary analysis in Diptera, but the study of mitogenome is still scarce in the family Chironomidae. Methods Here, the first complete mitochondrial genomes of four Chironomid species representing Diamesinae, Orthocladiinae, Prodiamesinae and Tanypodinae are presented. Coupled with published mitogenomes of two, a comparative mitochondrial genomic analysis between six subfamilies of Chironomidae was carried out. Results Mitogenomes of Chironomidae are conserved in structure, each contains 37 typi

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Ge, Xinyu, Haoming Zang, Xiaoyun Ye, et al. "Comparative Mitogenomic Analyses of Hydropsychidae Revealing the Novel Rearrangement of Protein-Coding Gene and tRNA (Trichoptera: Annulipalpia)." Insects 13, no. 9 (2022): 759. http://dx.doi.org/10.3390/insects13090759.

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Gene rearrangement of the mitochondrial genome of insects, especially the rearrangement of protein-coding genes, has long been a hot topic for entomologists. Although mitochondrial gene rearrangement is common within Annulipalpia, protein-coding gene rearrangement is relatively rare. As the largest family in Annulipalpia, the available mitogenomes from Hydropsychidae Curtis, 1835 are scarce, and thus restrict our interpretation of the mitogenome characteristic. In this study, we obtained 19 novel mitogenomes of Hydropsychidae, of which the mitogenomes of the genus Arctopsyche are published for

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Dong, Jiajia, Yong Liu, Ming Kai Tan, et al. "Museomics allows comparative analyses of mitochondrial genomes in the family Gryllidae (Insecta, Orthoptera) and confirms its phylogenetic relationships." PeerJ 12 (August 8, 2024): e17734. http://dx.doi.org/10.7717/peerj.17734.

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Background Next-generation sequencing technology can now be used to sequence historical specimens from natural history collections, an approach referred to as museomics. The museomics allows obtaining molecular data from old museum-preserved specimens, a resource of biomolecules largely underexploited despite the fact that these specimens are often unique samples of nomenclatural types that can be crucial for resolving scientific questions. Despite recent technical progress, cricket mitogenomes are still scarce in the databases, with only a handful of new ones generated each year from freshly

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Liu, Chao, Wan-Ying Li, Le-Xuan Zheng, Mi Dao, Huan-Huan Chen, and Li-Hong Han. "Comparative mitogenomic analysis reveals variations and evolution of ectomycorrhizal fungal Strobilomyces." IMA Fungus 16, no. () (2025): e141848. https://doi.org/10.3897/imafungus.16.141848.

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The genus <i>Strobilomyces</i>, representing a diverse and widespread group of ectomycorrhizal mushroom-forming fungi, plays a crucial ecological and economical role. However, until now, a comprehensive description of its mitochondrial genome (mitogenome) has been lacking. In our current study, we have successfully assembled and analysed the mitogenomes of five <i>Strobilomyces</i> species. These mitogenomes span a range from 35,618 base pairs (bp) to 42,088 bp, exhibiting a higher nucleotide abundance of AT compared to GC. All five mitogenomes harbour 14 conserved protein-coding genes (PCGs),

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Liu, Dan, Haili Guo, Jingle Zhu, et al. "Complex Physical Structure of Complete Mitochondrial Genome of Quercus acutissima (Fagaceae): A Significant Energy Plant." Genes 13, no. 8 (2022): 1321. http://dx.doi.org/10.3390/genes13081321.

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Quercus acutissima Carruth. is a Chinese important energy plant with high ecological and economic values. While the species chloroplast genome has been reported, its mitochondrial genome (mitogenome) is still unexplored. Here, we assembled and annotated the Q. acutissima mitogenome, and we compared its characteristic differences with several closely related species. The Q. acutissima mitogenome’s main structure is branched with three distinguished contigs (linear molecule 1, circular molecule 2, and circular molecule 3) with 448,982 bp total length and 45.72% GC content. The mitogenome contain

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Márquez, Edna Judith, Daniel Alfredo Gómez-Chavarría, and Juan Fernando Alzate. "Exploring the mitochondrial genomes and phylogenetic relationships of trans-Andean Bryconidae species (Actinopterygii: Ostariophysi: Characiformes)." PLOS ONE 19, no. 8 (2024): e0300830. http://dx.doi.org/10.1371/journal.pone.0300830.

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Comparative mitogenomics and its evolutionary relationships within Bryconidae remains largely unexplored. To bridge this gap, this study assembled 15 mitogenomes from 11 Bryconidae species, including five newly sequenced. Salminus mitogenomes, exceeding 17,700 bp, exhibited the largest size, contrasting with a median size of 16,848 bp in the remaining species (Brycon and Chilobrycon). These mitogenomes encode 37 typical mitochondrial genes, including 13 protein-coding, 2 ribosomal RNA, and 22 transfer RNA genes, and exhibit the conserved gene arrangement found in most fish species. Phylogeneti

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Śmietanka, Beata, Marek Lubośny, Aleksandra Przyłucka, Karin Gérard, and Artur Burzyński. "Mitogenomics of Perumytilus purpuratus (Bivalvia: Mytilidae) and its implications for doubly uniparental inheritance of mitochondria." PeerJ 6 (September 18, 2018): e5593. http://dx.doi.org/10.7717/peerj.5593.

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Animal mitochondria are usually inherited through the maternal lineage. The exceptional system allowing fathers to transmit their mitochondria to the offspring exists in some bivalves. Its taxonomic spread is poorly understood and new mitogenomic data are needed to fill the gap. Here, we present for the first time the two divergent mitogenomes from Chilean mussel Perumytilus purpuratus. The existence of these sex-specific mitogenomes confirms that this species has the doubly uniparental inheritance (DUI) of mitochondria. The genetic distance between the two mitochondrial lineages in P. purpura

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Qi, Xiangying, Kaiqi Wang, Liping Yang, Zhenshan Deng, and Zhihong Sun. "The complete mitogenome sequence of the coral lily (Lilium pumilum) and the Lanzhou lily (Lilium davidii) in China." Open Life Sciences 15, no. 1 (2020): 1060–67. http://dx.doi.org/10.1515/biol-2020-0102.

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AbstractBackgroundThe mitogenomes of higher plants are conserved. This study was performed to complete the mitogenome of two China Lilium species (Lilium pumilum Redouté and Lilium davidii var. unicolor (Hoog) cotton).MethodsGenomic DNA was separately extracted from the leaves of L. pumilum and L. davidii in triplicate and used for sequencing. The mitogenome of Allium cepa was used as a reference. Genome assembly, annotation and phylogenetic tree were analyzed.ResultsThe mitogenome of L. pumilum and L. davidii was 988,986 bp and 924,401 bp in length, respectively. There were 22 core protein-co

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Ye, Fei, Hu Li, and Qiang Xie. "Mitochondrial Genomes from Two Specialized Subfamilies of Reduviidae (Insecta: Hemiptera) Reveal Novel Gene Rearrangements of True Bugs." Genes 12, no. 8 (2021): 1134. http://dx.doi.org/10.3390/genes12081134.

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Reduviidae, a hyper-diverse family, comprise 25 subfamilies with nearly 7000 species and include many natural enemies of crop pests and vectors of human disease. To date, 75 mitochondrial genomes (mitogenomes) of assassin bugs from only 11 subfamilies have been reported. The limited sampling of mitogenome at higher categories hinders a deep understanding of mitogenome evolution and reduviid phylogeny. In this study, the first mitogenomes of Holoptilinae (Ptilocnemus lemur) and Emesinae (Ischnobaenella hainana) were sequenced. Two novel gene orders were detected in the newly sequenced mitogenom

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Zhang, Hui, Congcong Lu, Qian Liu, Tianmin Zou, Gexia Qiao, and Xiaolei Huang. "Insights into the Evolution of Aphid Mitogenome Features from New Data and Comparative Analysis." Animals 12, no. 15 (2022): 1970. http://dx.doi.org/10.3390/ani12151970.

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The complete mitochondrial genomes and their rearrangement patterns can provide useful information for inferring evolutionary history of organisms. Aphids are one of the insect groups with some unique mitogenome features. In this study, to examine whether some features in aphid mitogenomes are independent species-specific evolutionary events or clade-specific events at certain taxonomic levels, we sequenced three new aphid mitogenomes (Hormaphidinae: Ceratovacuna keduensis, Pseudoregma panicola; Lachninae: Nippolachnus piri) and compared them with all known aphid mitogenomes. The three mitogen

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Li, Qiang, Yuanhang Ren, Xiaodong Shi, et al. "Comparative Mitochondrial Genome Analysis of Two Ectomycorrhizal Fungi (Rhizopogon) Reveals Dynamic Changes of Intron and Phylogenetic Relationships of the Subphylum Agaricomycotina." International Journal of Molecular Sciences 20, no. 20 (2019): 5167. http://dx.doi.org/10.3390/ijms20205167.

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In the present study, we assembled and compared two mitogenomes from the Rhizopogon genus. The two mitogenomes of R. salebrosus and R. vinicolor comprised circular DNA molecules, with the sizes of 66,704 bp and 77,109 bp, respectively. Comparative mitogenome analysis indicated that the length and base composition of protein coding genes (PCGs), rRNA genes and tRNA genes varied between the two species. Large fragments aligned between the mitochondrial and nuclear genomes of both R. salebrosus (43.41 kb) and R. vinicolor (12.83 kb) indicated that genetic transfer between mitochondrial and nuclea

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Tao, Yu-Tian, Fang Suo, Sergio Tusso, et al. "Intraspecific Diversity of Fission Yeast Mitochondrial Genomes." Genome Biology and Evolution 11, no. 8 (2019): 2312–29. http://dx.doi.org/10.1093/gbe/evz165.

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Abstract The fission yeast Schizosaccharomyces pombe is an important model organism, but its natural diversity and evolutionary history remain under-studied. In particular, the population genomics of the S. pombe mitochondrial genome (mitogenome) has not been thoroughly investigated. Here, we assembled the complete circular-mapping mitogenomes of 192 S. pombe isolates de novo, and found that these mitogenomes belong to 69 nonidentical sequence types ranging from 17,618 to 26,910 bp in length. Using the assembled mitogenomes, we identified 20 errors in the reference mitogenome and discovered tw

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Zhang, Chulin, Benyong Mao, Hanqiang Wang, et al. "The Complete Mitogenomes of Three Grasshopper Species with Special Notes on the Phylogenetic Positions of Some Related Genera." Insects 14, no. 1 (2023): 85. http://dx.doi.org/10.3390/insects14010085.

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Clarifying phylogenetic position and reconstructing robust phylogeny of groups using various evidences are an eternal theme for taxonomy and systematics. In this study, the complete mitogenomes of Longzhouacris mirabilis, Ranacris albicornis, and Conophyma zhaosuensis were sequenced using next-generation sequencing (NGS), and the characteristics of the mitogenomes are presented briefly. The mitogenomes of the three species are all circular molecules with total lengths of 16,164 bp, 15,720 bp, and 16,190 bp, respectively. The gene structures and orders, as well as the characteristics of the mit

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Wei, Zhonghua, Xuyan Huang, and Aimin Shi. "First mitochondrial genome of subfamily Julodinae (Coleoptera, Buprestidae) with its phylogenetic implications." ZooKeys 1139 (January 13, 2023): 165–82. http://dx.doi.org/10.3897/zookeys.1139.96216.

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Complete mitochondrial genomes of three species of the family Buprestidae were sequenced, annotated, and analyzed in this study. To explore the mitogenome features of the subfamily Julodinae and verify its phylogenetic position, the complete mitogenome of Julodis variolaris was sequenced and annotated. The complete mitogenomes of Ptosima chinensis and Chalcophora japonica were also provided for the phylogenetic analyses within Buprestidae. Compared to the known mitogenomes of Buprestidae species varied from 15,499 bp to 16,771 bp in length, three newly sequenced mitogenomes were medium length

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Wei, Zhonghua, Xuyan Huang, and Aimin Shi. "First mitochondrial genome of subfamily Julodinae (Coleoptera, Buprestidae) with its phylogenetic implications." ZooKeys 1139 (January 13, 2023): 165–82. https://doi.org/10.3897/zookeys.1139.96216.

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Complete mitochondrial genomes of three species of the family Buprestidae were sequenced, annotated, and analyzed in this study. To explore the mitogenome features of the subfamily Julodinae and verify its phylogenetic position, the complete mitogenome of Julodis variolaris was sequenced and annotated. The complete mitogenomes of Ptosima chinensis and Chalcophora japonica were also provided for the phylogenetic analyses within Buprestidae. Compared to the known mitogenomes of Buprestidae species varied from 15,499 bp to 16,771 bp in length, three newly sequenced mitogenomes were medium length

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