Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis最新文献

Genetic diversity in snakeskin gourami (Trichopodus pectoralis Regan, 1910): evaluating cultured and wild populations in Southeast Asia for breeding improvement programs. 蛇皮gourami （Trichopodus pectoralis Regan, 1910）的遗传多样性：评估东南亚养殖种群和野生种群的育种改进计划。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-06-13 DOI: 10.1080/24701394.2025.2514279

Liem Thanh Pham, Ngoc-Tran Thi Nguyen, Tam Minh Bui, Long Nhut Duong, Thuy-Yen Duong

{"title":"Genetic diversity in snakeskin gourami (Trichopodus pectoralis Regan, 1910): evaluating cultured and wild populations in Southeast Asia for breeding improvement programs.","authors":"Liem Thanh Pham, Ngoc-Tran Thi Nguyen, Tam Minh Bui, Long Nhut Duong, Thuy-Yen Duong","doi":"10.1080/24701394.2025.2514279","DOIUrl":"https://doi.org/10.1080/24701394.2025.2514279","url":null,"abstract":"Assessing genetic diversity among potential populations provides crucial insights for genetic improvement programs targeting long-domesticated fish species. In this study, we evaluated genetic diversity levels using mitochondrial control region sequences of snakeskin gourami from one cultured and two wild populations (Ca Mau, CM and Kien Giang, KG) in the Mekong Delta, Viet Nam, alongside two other wild populations from Cambodia and Thailand. A total of 128 samples yielded 46 haplotypes, with five populations collectively contributing 42 unique haplotypes. All populations exhibited relatively high levels of genetic diversity, with haplotype diversity ranging from 0.719 to 0.877 and nucleotide diversity from 0.0075 to 0.0107. Statistically significant genetic differences were detected between the cultured and wild populations (FST range: 0.205-0.313), whereas weak genetic structure was observed among wild populations along the Mekong basin. These findings suggest that the cultured population holds potential as a base for genetic improvements, but crossbreeding between genetically distinct cultured and wild stocks should be carefully evaluated before large-scale seed production.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":" ","pages":"1-7"},"PeriodicalIF":0.0,"publicationDate":"2025-06-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144287500","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The complete mitochondrial genome of the 'maze' coral Meandrina meandrites (Scleractinia: Vacatina: Meandrinidae). 迷宫珊瑚Meandrina meandrites的完整线粒体基因组（scactinia: Vacatina: Meandrinidae）。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-06-07 DOI: 10.1080/24701394.2025.2504422

J Antonio Baeza, Stephanie M Rosales

{"title":"The complete mitochondrial genome of the 'maze' coral Meandrina meandrites (Scleractinia: Vacatina: Meandrinidae).","authors":"J Antonio Baeza, Stephanie M Rosales","doi":"10.1080/24701394.2025.2504422","DOIUrl":"https://doi.org/10.1080/24701394.2025.2504422","url":null,"abstract":"The shallow water reef-building 'maze' or 'brain' stony coral Meandrina meandrites (fam. Meandrinidae) is currently experiencing major environmental problems in the Caribbean Sea. In this study, we assembled the mitochondrial genome of M. meandrites to support future conservation of this imperiled coral. We also explored the phylogenetic position of this coral in the Class Scleractinia utilizing the phylogenetic signal provided by translated mitochondrial protein-coding genes (PCGs). A complete mitochondrial genome of M. meandrites, 17,196 bp in length, was assembled using short-reads next-generation sequencing (NGS) sequencing with the target-restricted-assembly pipeline GetOrganelle. The newly assembled mitochondrial genome of M. meandrites encoded 13 PCGs, two ribosomal genes (ribosomal RNA), and two transfer genes (tRNAs). It also contains two relatively long non-coding regions 400 and 1,877 bp long. A group I intron bisected the nad5 PCG. Each of the two tRNAs exhibited a canonical 'cloverleaf' secondary structure. The mitochondrial genome of M. meandrites is identical to that of a conspecific assembled using HiFi PacBio long reads (available in GenBank with accession number OY855917 but without a companion paper) with the exception of four single nucleotide variants. The aforementioned comparison indicates that the mitochondrial genome assembled from a short-read NGS dataset is reliable (complete and accurate). A maximum-likelihood phylomitogenomic analysis based on PCGs (translated) supported the monophyly of the order Scleractinia and placed M. meandrites in a moderately to well-supported clade with Astrangia sp. (family Astrangidae). This newly assembled mitochondrial genome can be used as a reference to support conservation planning, including biomonitoring of this stony coral using environmental DNA.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":" ","pages":"1-8"},"PeriodicalIF":0.0,"publicationDate":"2025-06-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144251188","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A cryptic species of the nemertean egg predator Carcinonemertes conanobrieni (Simpson et al., 2017) detected using a barcoding approach infects the Caribbean spiny lobster Panulirus argus (Latreille, 1804) in the southwestern Caribbean Sea. 使用条形码方法检测到的一种隐种nemertean卵捕食者Carcinonemertes conanobrieni （Simpson et al., 2017）感染了加勒比海西南部的加勒比刺龙虾Panulirus argus （Latreille, 1804）。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-05-04 DOI: 10.1080/24701394.2025.2499461

J Antonio Baeza, Rodolfo Umaña-Castro, Donald C Behringer, Arcadio Castillo

{"title":"A cryptic species of the nemertean egg predator Carcinonemertes conanobrieni (Simpson et al., 2017) detected using a barcoding approach infects the Caribbean spiny lobster Panulirus argus (Latreille, 1804) in the southwestern Caribbean Sea.","authors":"J Antonio Baeza, Rodolfo Umaña-Castro, Donald C Behringer, Arcadio Castillo","doi":"10.1080/24701394.2025.2499461","DOIUrl":"https://doi.org/10.1080/24701394.2025.2499461","url":null,"abstract":"A recently discovered nemertean egg predator, Carcinonemertes conanobrieni, inhabiting Panulirus argus egg masses poses a potential threat to this ecologically and commercially relevant lobster. This study assessed the prevalence of C. conanobrieni in the southwestern Caribbean Sea; Costa Rica and Panama. Brooding females of P. argus were collected by fishermen near Punta Uva beach, Costa Rica (n = 17), and Guna Yala, Panama (n = 19) and examined for the presence of C. conanobrieni. Prevalence of C. conanobrieni in brooding lobsters, determined as the presence/absence of adults, juveniles, encysted juvenile worms, or carcinonemertid egg masses was 47.06% and 31.58% in Costa Rica and Panama, respectively. Moreover, when indirect evidence (empty capsules and/or dead embryos presumably attacked/consumed by worms) of the presence of C. conanobrieni in brooding lobsters is considered in addition to direct evidence, prevalence of C. conanobrieni in brooding lobsters was 64.71% and 47.37% in Costa Rica and Panama, respectively. The observations suggest that this parasitic worm completes its life cycle locally in the southwestern Caribbean. Notably, a Maximum Likelihood phylogenetic analysis based on a fragment of the mitochondrial cox1 gene clustered two specimens collected in Costa Rica together with four other specimens previously collected in Saint Kitts into a single fully supported monophyletic clade that segregated from a second clade containing six specimens of C. conanobrieni collected in Colombia, Florida, and Saint Kitts. The barcoding analysis suggests that there is an undescribed species of Carcinonemertes, anatomically like C. conanobrieni, infecting P. argus in Costa Rica.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":" ","pages":"1-6"},"PeriodicalIF":0.0,"publicationDate":"2025-05-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143999670","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

General features and evolution of mitochondrial genomes in Dictyostelia (Amoebozoa). 双壳类动物（变形虫）线粒体基因组的一般特征和进化。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-04-07 DOI: 10.1080/24701394.2025.2487451

Kamonchat Prommarit, Thanyaporn Chittavichai, Supanut Utthiya, Sukhita Sathitnaitham, Supachai Vuttipongchaikij, Passorn Wonnapinij

{"title":"General features and evolution of mitochondrial genomes in Dictyostelia (Amoebozoa).","authors":"Kamonchat Prommarit, Thanyaporn Chittavichai, Supanut Utthiya, Sukhita Sathitnaitham, Supachai Vuttipongchaikij, Passorn Wonnapinij","doi":"10.1080/24701394.2025.2487451","DOIUrl":"https://doi.org/10.1080/24701394.2025.2487451","url":null,"abstract":"Dictyostelia exhibits high diversity; however, mitochondrial genome data remain scarce for many genera. Although key features of some dictyostelid mitogenomes have been identified, several aspects remain unclear, including core gene content, segmental arrangement, and differences between 18S rRNA and mitochondrial gene phylogenies. To address these gaps, we reconstructed two complete mitogenomes-from Cavenderia subdiscoidea and Dictyostelium sp. (TH18CC)-and analyzed mitochondrial genes from ten genera and six additional complete mitogenomes from public databases. A comparison of eight complete mitogenomes revealed a conserved core of 39 protein-coding genes, 17 tRNA genes, and three rRNA genes. Two distinct segmental arrangements were identified: Dictyostelium (except D. purpureum) exhibits an A-C-B pattern, while other genera display an A-B-C pattern defined by the clusters nad9-atp1, trnC(GCA)-atp9, and rnl-nad3. Phylogenetic analyses based on 18S rDNA and mitochondrial rns suggest the transposition between segments B and C occurred after D. purpureum diverged from other Dictyostelium species, potentially involving tRNA gene displacement. In contrast, the mitochondrial protein-coding gene phylogeny differs from the rRNA trees, indicating that these gene sets may have evolved independently. These findings advance our understanding of dictyostelid mitogenome structure and evolution.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":" ","pages":"1-13"},"PeriodicalIF":0.0,"publicationDate":"2025-04-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143804959","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Genetic diversity, population genetic structure and demographic history of the Ribbontail stingray Taeniura lymma (Fabricius, 1775) (elasmobranchii: myliobatiformes: dasyatidae) along the Tanzanian coastline. 坦桑尼亚海岸线带尾黄貂鱼 Taeniura lymma (Fabricius, 1775) (elasmobranchii: myliobatiformes: dasyatidae) 的遗传多样性、种群遗传结构和人口历史。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-04-01 Epub Date: 2024-11-18 DOI: 10.1080/24701394.2024.2427841

Alex Nehemia

{"title":"Genetic diversity, population genetic structure and demographic history of the Ribbontail stingray Taeniura lymma (Fabricius, 1775) (elasmobranchii: myliobatiformes: dasyatidae) along the Tanzanian coastline.","authors":"Alex Nehemia","doi":"10.1080/24701394.2024.2427841","DOIUrl":"10.1080/24701394.2024.2427841","url":null,"abstract":"The Ribbontail stingray Taeniura lymma is an economically important fish and attractive species for the aquarium trade industry. Overfishing, habitat degradation, and pollution, however, pose a threat to this species. This study used partial mitochondrial cytochrome oxidase subunit I (COI) sequences (603 base pairs long) from 96 samples of T. lymma collected at five fish-landing sites (Deep Sea-Tanga, Malindi-Unguja, Kaole-Bagamoyo, Kivukoni-Dar es Salaam, and Bandarini-Mtwara) located along the coast of Tanzania to determine the species' genetic diversity, population genetic structure, and demographic history. The findings revealed an average nucleotide diversity of 0.24 ± 0.16% and a haplotype diversity of 0.75 ± 0.04. Nucleotide and haplotype diversities were relatively low at Kaole-Bagamoyo compared to the other studied localities. An Analysis of Molecular Variance (AMOVA) indicated limited but statistically significant genetic differences among populations (Overall FST = 0.09, p < 0.01). Pairwise AMOVA revealed genetic difference between the Deep Sea-Tanga population and all other populations studied with exception of Malindi-Unguja. Analyses of mismatch distribution, demographic history, and a haplotype network support a scenario of historical population expansion in the studied species. Immediate effort is required to protect population exhibiting low genetic diversity in this commercially important ray.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":" ","pages":"93-101"},"PeriodicalIF":0.0,"publicationDate":"2025-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142649609","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Description and characterization of the small mitochondrial genome of Trichoderma cerinum (Hypocreales, Hypocreaceae) and its evolutionary perspectives. 陶瓷毛霉（Hypocreales，Hypocreaceae）小线粒体基因组的描述和特征及其进化前景。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-04-01 Epub Date: 2025-03-21 DOI: 10.1080/24701394.2025.2482202

Priscila Martins de Assis, Igor Henrique Rodrigues-Oliveira, Iuri Batista da Silva, Rubens Pasa, Fabiano B Menegidio, Karine Frehner Kavalco

{"title":"Description and characterization of the small mitochondrial genome of Trichoderma cerinum (Hypocreales, Hypocreaceae) and its evolutionary perspectives.","authors":"Priscila Martins de Assis, Igor Henrique Rodrigues-Oliveira, Iuri Batista da Silva, Rubens Pasa, Fabiano B Menegidio, Karine Frehner Kavalco","doi":"10.1080/24701394.2025.2482202","DOIUrl":"10.1080/24701394.2025.2482202","url":null,"abstract":"Trichoderma Persoon (1794) is a genus of fungus found in soils and decaying wood all over the world. We present the assembly and annotation of the mitochondrial genome of Trichoderma cerinum Bissett, Kubicek & Szakacs (2003) and an assessment of the phylogeny of the group, discussing the loss and gain of shared genes in the evolutionary history of fungi. We downloaded the raw data of T. cerinum from the NCBI database and exported it to the Galaxy Europe platform, where we performed the mitogenome assembly using the NOVOplasty tool. We used three tools for annotation. The phylogeny was conducted with 12 Trichoderma species and the T. cerinum. Fusarium oxysporum was used as an outgroup. We got a circularized mitochondrial genome of 26,696 bp, with 15 protein-coding genes, 25 tRNAs, two rRNAs, two endonuclease sequences, and an orf40. This species contains only one intron in the cob gene. In our phylogenetic reconstruction, T. cerinum was recovered as a sister group of a clade containing Trichoderma lixii, Trichoderma afroharzianum, Trichoderma simmonsii, and Trichoderma harzianum.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":" ","pages":"126-134"},"PeriodicalIF":0.0,"publicationDate":"2025-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143674999","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Complete chloroplast genomes of five Aegilops aucheri Boiss. accessions having different geographical origins. 5种紫叶藻叶绿体全基因组的研究。具有不同地理来源的加入。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-04-01 Epub Date: 2025-03-12 DOI: 10.1080/24701394.2025.2476401

Azat R Kuluev, Rustam T Matniyazov, Bulat R Kuluev, Dmitry A Chemeris, Alexey V Chemeris

{"title":"Complete chloroplast genomes of five Aegilops aucheri Boiss. accessions having different geographical origins.","authors":"Azat R Kuluev, Rustam T Matniyazov, Bulat R Kuluev, Dmitry A Chemeris, Alexey V Chemeris","doi":"10.1080/24701394.2025.2476401","DOIUrl":"10.1080/24701394.2025.2476401","url":null,"abstract":"The subject of this study is Aegilops aucheri Boiss. 1844: a member of the section Sitopsis, subsection Truncata. This species is infrequently included in phylogenetic studies and is commonly regarded as a heterotypic synonym of Aegilops speltoides Tausch. The aim of this study was to detect genetic differences between Ae. aucheri and Ae. speltoides using the phylogenetic signal retrieved from chloroplast genomes. Plastomes of five Ae. aucheri accessions from different geographical locations were sequenced, annotated, and subjected to a phylogenetic analysis. Plastome sizes were found to range between 135,666 and 135,668 bp in Ae. aucheri. Comparative analysis of the chloroplast genome sequences from five Ae. aucheri accessions revealed single-nucleotide polymorphisms (SNPs) and insertions/deletions (indels) relative to the Ae. speltoides plastome. To gain a more comprehensive understanding of the genetic divergence within the Truncata subsection, sequencing the nuclear genome of Ae. aucheri and comparing it to that of Ae. speltoides is essential.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":" ","pages":"119-125"},"PeriodicalIF":0.0,"publicationDate":"2025-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143618016","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Large mitochondrial genomes in tenthredinid sawflies (Hymenoptera, Tenthredinidae). 第十缙类锯蝇（膜翅目，第十缙科）的大型线粒体基因组。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-04-01 Epub Date: 2024-11-11 DOI: 10.1080/24701394.2024.2427206

Suvi Olli, Nok Ting Lam, Siri Hiljanen, Taru Kettunen, Laura Haikonen, Heidi-Mari Hyvönen, Angelika Kiebler, Ida Köngäs, Saana Minkkinen, Veera Pöykiö, Ville Sannikka, Ronja Vesa, Gerrit Wehrenberg, Stefan Prost, Marko Prous

{"title":"Large mitochondrial genomes in tenthredinid sawflies (Hymenoptera, Tenthredinidae).","authors":"Suvi Olli, Nok Ting Lam, Siri Hiljanen, Taru Kettunen, Laura Haikonen, Heidi-Mari Hyvönen, Angelika Kiebler, Ida Köngäs, Saana Minkkinen, Veera Pöykiö, Ville Sannikka, Ronja Vesa, Gerrit Wehrenberg, Stefan Prost, Marko Prous","doi":"10.1080/24701394.2024.2427206","DOIUrl":"10.1080/24701394.2024.2427206","url":null,"abstract":"We sequenced and assembled mitochondrial genomes of three tenthredinid sawflies (Euura poecilonota, E. striata, and Dolerus timidus) using Oxford Nanopore Technologies' MinION. The Canu assembler produced circular assemblies (23,000-40,000 bp). Still, errors were found in the highly repetitive non-coding control region because of the fragmented DNA which led to no reads spanning the complete control region, preventing its reliable assembly. Based on the non-repetitive coding region's sequencing coverage, we estimate the lengths of mitochondrial genomes of E. poecilonota, D. timidus, and E. striata to be about 30,000 bp, 31,000 bp, and 37,000 bp and control region to be 15,000 bp, 16,000 bp, and 22,000 bp respectively. All standard bilaterian mitochondrial genes are in the same order and orientation, except trnQ, which is on the minus strand in Euura and the plus strand in Dolerus. Using published tenthredinid genome data, we show that control region lengths are often underestimated.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":" ","pages":"84-92"},"PeriodicalIF":0.0,"publicationDate":"2025-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142633907","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Inferring the origin of new D-loop haplotypes of loggerhead sea turtles (Testudinata: Cheloniidae) from the Southwest Atlantic lineage. 从西南大西洋系推断蠵海龟（Testudinata: Cheloniidae）新 D-环单倍型的起源。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-04-01 Epub Date: 2024-09-27 DOI: 10.1080/24701394.2024.2409067

Sandra Ludwig, Lais Amorim, Ana C Barcelos, Paula R Guimarães, Sarah M Vargas

引用次数: 0

The complete mitochondrial genome of the grasshopper Chorthippus dubius (Zub.) (Orthoptera: Acrididae: Gomphocerinae): detailed characterization and phylogenetic position. 蝗虫Chorthippus dubius （Zub.）线粒体全基因组（直翅目：蝗科：Gomphocerinae）的详细特征和系统发育定位。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-04-01 Epub Date: 2024-12-30 DOI: 10.1080/24701394.2024.2446772

Xiaoli Liu, Yun Fu, Jizhuang Liu, Xinxin Li, Yuan Li, Di Meng, Yang Hu, Tao Sun

{"title":"The complete mitochondrial genome of the grasshopper Chorthippus dubius (Zub.) (Orthoptera: Acrididae: Gomphocerinae): detailed characterization and phylogenetic position.","authors":"Xiaoli Liu, Yun Fu, Jizhuang Liu, Xinxin Li, Yuan Li, Di Meng, Yang Hu, Tao Sun","doi":"10.1080/24701394.2024.2446772","DOIUrl":"https://doi.org/10.1080/24701394.2024.2446772","url":null,"abstract":"Chorthippus dubius (Zub.) is one of the dominant grasshopper species. The limited data on Ch. dubius (Zub.) has impeded further understanding of its genetic characteristics and molecular detection. In this study, we analyzed the mitogenome of Ch. dubius (Zub.), which was 15,561 bp in length and contained 13 protein-coding genes (PCGs), 22 tRNA genes, 2 rRNA genes and an AT-rich region. The entire mtDNA exhibited a strong AT bias, with an overall A+T content of 74.8%. The relative synonymous codon usage (RSCU) analysis revealed UUA (L) as the most frequently used codon. All the PCGs evolved under purifying selection (Ka/Ks <0.5), with ATP8 gene exhibited the highest Ka/Ks ratio. Maximum likelihood (ML) and Bayesian inference (BI) analyses reconstructed two topologically similar phylogenetic trees, and supported the monophly of the six subfamilies in Acrididae. Our results indicated two stable clades of the six subfamilies, with Oedipodinae emerging as the ancestral taxon and being sister group to the remaining taxa. In the alternative phylogenetic lineage, the remaining five subfamilies clustered the following relationship: Gomphocernae + (Acridinae + (Calliptaminae + (Melanoplinae + Oxyinae))). Both phylogenetic trees exhibited a closer relationship between Chorthippus dubius (Zub.) and Chorthippus aethalinus, members from the same genus.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":"35 3-4","pages":"111-118"},"PeriodicalIF":0.0,"publicationDate":"2025-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144055101","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0