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

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

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 : 2025-03-21 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":"https://doi.org/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":"1-9"},"PeriodicalIF":0.0,"publicationDate":"2025-03-21","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.

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub 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":"https://doi.org/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":"1-7"},"PeriodicalIF":0.0,"publicationDate":"2025-03-12","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

New mitochondrial gene order arrangements and evolutionary implications in the class Octocorallia. 八带目新的线粒体基因顺序排列及其对进化的影响。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-01-01 Epub Date: 2024-10-21 DOI: 10.1080/24701394.2024.2416173

Angelo Poliseno, Andrea M Quattrini, Yee Wah Lau, Stacy Pirro, James D Reimer, Catherine S McFadden

{"title":"New mitochondrial gene order arrangements and evolutionary implications in the class Octocorallia.","authors":"Angelo Poliseno, Andrea M Quattrini, Yee Wah Lau, Stacy Pirro, James D Reimer, Catherine S McFadden","doi":"10.1080/24701394.2024.2416173","DOIUrl":"10.1080/24701394.2024.2416173","url":null,"abstract":"The complete mitochondrial genomes of octocorals typically range from 18.5 kb to 20.5 kb in length and include 14 protein-coding genes (PCGs), two ribosomal RNA genes and one tRNA. To date, seven different gene orders (A-G) have been described, yet comprehensive investigations of the actual number of arrangements, as well as comparative analyses and evolutionary reconstructions of mitochondrial genome evolution within the whole class Octocorallia, have been often overlooked. Here, we considered the complete mitochondrial genomes available for octocorals and explored their structure and gene order variability. Our results updated the actual number of mitochondrial gene order arrangements so far known for octocorals from 7 to 14 and allowed us to explore and preliminarily discuss the role of some of the structural and functional factors in the mitogenomes. We performed comparative mitogenomic analyses on the existing and novel octocoral gene orders, considering different mitogenomic structural features such as genome size, GC percentage, AT and GC skewness. The mitochondrial gene order history mapped on a recently published nuclear loci phylogeny showed that the most common rearrangement events in octocorals are inversions, inverted transpositions and transpositions. Furthermore, gene order rearrangement events were restricted only to some regions of the tree. Overall, different rearrangement events arose independently and from the ancestral and most common gene order, instead of being derived from other rearranged orders. Finally, our data demonstrate how the study of mitochondrial gene orders can be used to explore the evolution of octocorals and in some cases can be used to assess the phylogenetic placement of certain taxa.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":" ","pages":"23-33"},"PeriodicalIF":0.0,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142482508","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

DNA barcoding reveals cryptic species in the sea slater Ligia italica (Crustacea, Isopoda) from Tunisia. DNA 条形码揭示了突尼斯海蛞蝓 Ligia italica（甲壳纲，等足目）中的隐秘物种。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-01-01 Epub Date: 2024-06-20 DOI: 10.1080/24701394.2024.2363350

Nermine Laifi-Necibi, Nabil Amor, Paolo Merella, Osama Badri Mohammed, Lamia Medini

{"title":"DNA barcoding reveals cryptic species in the sea slater Ligia italica (Crustacea, Isopoda) from Tunisia.","authors":"Nermine Laifi-Necibi, Nabil Amor, Paolo Merella, Osama Badri Mohammed, Lamia Medini","doi":"10.1080/24701394.2024.2363350","DOIUrl":"10.1080/24701394.2024.2363350","url":null,"abstract":"Barcoding studies have provided significant insights into phylogenetic relationships among species belonging to the genus Ligia (Crustacea, Isopoda). Herein the diversity of the Italian sea slater Ligia italica from Tunisia is studied for the first time. Samples were collected from 18 localities in Tunisia, and the analysis included previously published sequences from Italy and Greece available in GenBank. Bayesian and Maximum Likelihood phylogenetic analyses were carried out using a fragment of the mitochondrial COI gene. Putative cryptic species were explored using the 'barcode gap' approach in the software ASAP. A genetic landscape shape analysis was carried out using the program Alleles in Space. The analyses revealed highly divergent and well-supported clades of L. italica dispersed across Tunisia (Clades A1 and A2), Greece (Clade B) and Italy (Clades C1 and C2). High genetic dissimilarity among clades suggested that L. italica constitute a cryptic species complex. Divergence among different L. italica lineages (Clades A, B and C) occurred around 7-4.5 Ma. The detected high genetic distances among clades did not result from atypical mitochondrial DNAs or intracellular infection by Wolbachia bacteria. The complex history of the Mediterranean Sea appears to have played a significant role in shaping the phylogeographic pattern of Ligia italica. Additional morphological and molecular studies are needed to confirm the existence of cryptic species in Ligia italica in Mediterranean.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":" ","pages":"1-11"},"PeriodicalIF":0.0,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141428491","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

Population genetic structure and demographic history of short mackerel, Rastrelliger brachysoma, in the Gulf of Thailand. 泰国湾短鲭鱼的种群遗传结构和人口历史。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-01-01 Epub Date: 2024-06-21 DOI: 10.1080/24701394.2024.2368570

Amnuay Jondeung, Nuntachai Boonjorn

{"title":"Population genetic structure and demographic history of short mackerel, Rastrelliger brachysoma, in the Gulf of Thailand.","authors":"Amnuay Jondeung, Nuntachai Boonjorn","doi":"10.1080/24701394.2024.2368570","DOIUrl":"10.1080/24701394.2024.2368570","url":null,"abstract":"The short mackerel Rastrelliger brachysoma (Bleeker 1851) is an important fish in the Gulf of Thailand (GoT). The biology of this species has been intensively studied, but its genetic diversity is little known. The genetic diversity, population genetic structure, and demographic history of this species in the GoT were studied using complete mt control region sequences. The CR sequences of 455 mackerel samples collected from 23 localities at four fishing grounds revealed 333 haplotypes with haplotype diversity (h) per population, ranging between 0.8933 and 1.000, with an average of 0.9781. In turn, the nucleotide diversity (µ) ranged between 0.0119 ± 0.0060 and 0.0333 ± 0.0174, with an average of 0.0220 ± 0.00059.A haplotype network analysis showed that all sequences segregated into two subgroups named, clade I and clade II. Two clades were separated by 26 mutational steps. Each clade formed star-like clusters with many haplotypes derived from a common haplotype. Moreover, an analysis of molecular variance (AMOVA) revealed no significant differences among the studied localities, suggesting the presence of a single population in the GoT. Pairwise differences between samples from different fishing regions also indicated no population structure. Both Tajima's D and Fu's FS statistics were highly significant for the two clades but nonsignificant for the entire population according to a mismatch distribution analysis. These results confirmed that both clades experienced demographic expansion. The estimated expansion times for clade I and clade II were 1,542.307 years (1.5423 ka BP) and 7,602.541 (7.6025 ka BP) years, respectively.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":" ","pages":"12-22"},"PeriodicalIF":0.0,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141441209","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

Population genetic structure of the bottlenose dolphin in the Turkish waters based on mtDNA sequences with implications for the Black Sea subspecies Tursiops truncatus ponticus. 基于 mtDNA 序列的土耳其水域瓶鼻海豚种群遗传结构及其对黑海亚种 Tursiops truncatus ponticus 的影响。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-01-01 Epub Date: 2024-11-13 DOI: 10.1080/24701394.2024.2427216

Arda M Tonay, Begüm Uzun, Ayhan Dede, Erdem Danyer, Işıl Aytemiz Danyer, Ayaka Amaha Öztürk, Frederick I Archer, Bayram Öztürk, Raşit Bilgin

{"title":"Population genetic structure of the bottlenose dolphin in the Turkish waters based on mtDNA sequences with implications for the Black Sea subspecies Tursiops truncatus ponticus.","authors":"Arda M Tonay, Begüm Uzun, Ayhan Dede, Erdem Danyer, Işıl Aytemiz Danyer, Ayaka Amaha Öztürk, Frederick I Archer, Bayram Öztürk, Raşit Bilgin","doi":"10.1080/24701394.2024.2427216","DOIUrl":"10.1080/24701394.2024.2427216","url":null,"abstract":"The bottlenose dolphin is a widely distributed species found in temperate waters, including the Mediterranean and Black Seas. The Black Sea population is recognized as a distinct subspecies, Tursiops truncatus ponticus, due to genetic and morphological differences. This study analyzed mitochondrial DNA (mtDNA) sequences of 73 bottlenose dolphin samples collected between 1999 and 2016 along the Turkish Black Sea coast, Turkish Straits System (TSS), Aegean, and Mediterranean Seas revealing 14 haplotypes, eight of which are reported here for the first time.The haplotype network shows two main nodes with star-like sub-networks, but no apparent geographic pattern. The lack of geographical groupings of haplotypes indicates the high mobility of the species within the sampled area. The northern Black Sea bottlenose dolphins (NBS) appear to be genetically differentiated from those in the southwestern Black Sea (SBS), Mediterranean, and Atlantic Ocean, but not from the TSS and Aegean Sea populations. Besides, SBS bottlenose dolphins were differentiated only from those in the western Mediterranean (WM) and the Atlantic. Therefore, NBS and SBS bottlenose dolphins should at least be categorized as different populations. However, contrary to some previous studies there was no evidence supporting the classification of Black Sea bottlenose dolphins as a separate subspecies.The TSS differs only from the Atlantic and the Aegean, and functions like a migratory 'melting pot' for surrounding populations. Despite the largest sample size, NBS bottlenose dolphins exhibited the lowest haplotype and nucleotide diversity. This low genetic diversity and potential isolation from adjacent populations highlight the need for prioritizing the conservation of NBS bottlenose dolphins.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":" ","pages":"34-43"},"PeriodicalIF":0.0,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142633923","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

Detection of single nucleotide variants in the mitochondrial genome of healthy mice and humans. 健康小鼠和人类线粒体基因组单核苷酸变异的检测。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-01-01 Epub Date: 2024-12-12 DOI: 10.1080/24701394.2024.2439421

Alfredo Varela-Echavarría, Kenya L Contreras-Ramírez, Carlos Lozano-Flores, Maribel Hernández-Rosales

引用次数: 0

Characterization, comparative phylogenetic, and gene transfer studies of Rosa chinensis var. spontanea organelle genomes.

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2025-01-01 Epub Date: 2025-02-20 DOI: 10.1080/24701394.2025.2460826

Zhe Hou, Zhengzhi Jiang, Jincui Wu, Ping Shen, Changbing Huang

{"title":"Characterization, comparative phylogenetic, and gene transfer studies of Rosa chinensis var. spontanea organelle genomes.","authors":"Zhe Hou, Zhengzhi Jiang, Jincui Wu, Ping Shen, Changbing Huang","doi":"10.1080/24701394.2025.2460826","DOIUrl":"10.1080/24701394.2025.2460826","url":null,"abstract":"Rosa chinensis var. spontanea, an important horticultural species, holds high ornamental value. To investigate the phylogenetic relationships and organelle genome data of R. chinensis var. spontanea and its related species, the organelle genomes were constructed and sequenced in this study. The complete mitochondrial genome consists of a linear DNA molecule with a length of 270,143 base pairs and contains 55 genes. The whole chloroplast genome harbors 131 annotated genes. There are 39 and 54 simple sequence repeats (SSRs) in the mitochondrial and chloroplast genomes of R. chinensis var. spontanea, respectively. The phylogenetic tree of the mitochondrial genome indicates that R. chinensis var. spontanea is related to R. chinensis. The codon usage biases of one mitochondrial gene and nine chloroplast genes in Rosaceae were affected by mutation, while those of other genes have undergone selection. Overall, our findings suggest that the information within the organelle genomes can be utilized for constructing molecular markers, conducting genetic evolution research, and interpreting the phylogenetics of plants. The results of this study will contribute to a more in - depth investigation of the population genetics and evolution of Rosaceae.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":" ","pages":"54-65"},"PeriodicalIF":0.0,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143460999","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

When paleontology meets genomics: complete mitochondrial genomes of two saber-toothed cats' species (Felidae: Machairodontinae). 当古生物学与基因组学相遇：两种剑齿猫物种（Felidae: macharodontinae）的完整线粒体基因组。

Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis Pub Date : 2024-12-07 DOI: 10.1080/24701394.2024.2439433

Igor Henrique Rodrigues-Oliveira, Iuri Batista da Silva, Renan Rodrigues Rocha, Rafael Augusto Silva Soares, Fabiano Bezerra Menegidio, Caroline Garcia, Rubens Pasa, Karine Frehner Kavalco

{"title":"When paleontology meets genomics: complete mitochondrial genomes of two saber-toothed cats' species (Felidae: Machairodontinae).","authors":"Igor Henrique Rodrigues-Oliveira, Iuri Batista da Silva, Renan Rodrigues Rocha, Rafael Augusto Silva Soares, Fabiano Bezerra Menegidio, Caroline Garcia, Rubens Pasa, Karine Frehner Kavalco","doi":"10.1080/24701394.2024.2439433","DOIUrl":"https://doi.org/10.1080/24701394.2024.2439433","url":null,"abstract":"Within the Machairodontinae subfamily, commonly referred to as saber-toothed cats, it is worth noting that only two species, namely Homotherium latidens, recognized as the scimitar-toothed cat, and Smilodon populator, renowned as the saber-toothed tiger, possess partial mitochondrial genomes accessible in the NCBI database. These sequences, however, do not include the mitogenome control region (mtDNA control region) and have several gaps in their genes, including protein-coding genes (PCGs) that are widely used in phylogenetic analysis. In this study, we aimed to obtain a complete assembly of the mitogenomes of these two species from next-generation sequencing data available at NCBI's SRA. The de novo assemblies showed complete mitogenomes with 17,323bp (H. latidens) and 16,769 bp (S. populator), both with 13 PCGs, 22tRNAs, two rRNAs and the mtDNA control region, with all genes following the standard order and position of most vertebrate mitogenomes. Despite being generally very similar to previous studies, our phylogeny and molecular dating reveals an earliest divergence between North American and North Sea H. latidens specimens which may be related to an Early Pleistocene migration across Beringia.","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":" ","pages":"1-9"},"PeriodicalIF":0.0,"publicationDate":"2024-12-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142792884","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