{"title":"The complete chloroplast genome sequence of <i>Melothria scabra</i> (Cucurbitaceae).","authors":"Chan Deng, Xinbi Jia, Siyue Chen, Jiaqi Guo, Chenghong Zeng, Yuewen Chen, Qianglong Zhu, Yingjin Huang","doi":"10.1080/23802359.2024.2435901","DOIUrl":"10.1080/23802359.2024.2435901","url":null,"abstract":"<p><p><i>Melothria scabra</i> has gradually become an economically important plant worldwide. The complete chloroplast genome of <i>M. scabra</i> has a length of 156,744 bp, contains a large single-copy (LSC) region (86,387 bp), a small single-copy (SSC) region (18,055 bp), and two inverted repeats (IRs) with the same length of 26,151 bp. In total, 126 genes were detected, including 83 protein-encoding genes, 35 transfer RNA (tRNA) genes, and eight ribosomal RNA (rRNA) genes. For phylogenetic analysis, <i>M. scabra</i> has a closer genetic relationship with <i>Cucumis sativus</i> and <i>Citrullus lanatus</i>. The complete chloroplast genome sequence of <i>M. scabra</i> would promote the germplasm exploration, phylogenetic relationships, and molecular biology researches in <i>Melothria</i>.</p>","PeriodicalId":18647,"journal":{"name":"Mitochondrial DNA. Part B, Resources","volume":"9 12","pages":"1648-1652"},"PeriodicalIF":0.5,"publicationDate":"2024-12-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11619021/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142786226","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Thu-Thao Thi Huynh, Minh Trong Quang, Hoang Danh Nguyen
{"title":"The complete chloroplast genome of <i>Syzygium zeylanicum</i> (Myrtaceae, Myrtales) and its phylogenetic analysis.","authors":"Thu-Thao Thi Huynh, Minh Trong Quang, Hoang Danh Nguyen","doi":"10.1080/23802359.2024.2435905","DOIUrl":"10.1080/23802359.2024.2435905","url":null,"abstract":"<p><p>The complete chloroplast genome of <i>Syzygium zeylanicum</i> (L.) DC. 1828 has been sequenced and analyzed for the first time. The <i>S. zeylanicum</i> chloroplast genome is 159,445 bp in length, comprised of a large single-copy region (88,034 bp), a small single-copy region (18,455 bp), and a pair of inverted repeat regions (26,478 bp each). The genome encoded 85 protein-coding genes, 37 tRNA genes, and eight rRNA genes. Phylogenetic analysis indicated that <i>S. zeylanicum</i> is closely related to <i>S. acuminatissimum</i>. This research provides essential genomic data for <i>S. zeylanicum</i>, offering valuable resources for future comparative genomics, phylogenetics, and conservation biology studies.</p>","PeriodicalId":18647,"journal":{"name":"Mitochondrial DNA. Part B, Resources","volume":"9 12","pages":"1642-1647"},"PeriodicalIF":0.5,"publicationDate":"2024-12-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11616748/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142780384","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"The characteristics and analysis of the complete chloroplast genome of <i>Hemerocallis</i> cultivar Small orange lamp 2019 (Asphodelaceae).","authors":"Xiaofei Zhang, Jiaming Yang, Xuwen Shang, Shengyue Chai, Lanling Jiang, Xiaolei Hou, Zhenting Wang, Lixin Lang","doi":"10.1080/23802359.2024.2435904","DOIUrl":"10.1080/23802359.2024.2435904","url":null,"abstract":"<p><p><i>Hemerocallis</i> cultivar Small orange lamp is a hybrid variety. Its whole chloroplast genome was 156,053 bp in size, consisting of 135 genes in total, including 89 mRNA genes, 38 tRNA genes, and 8 rRNA genes. The chloroplast genome contained a large single copy region (LSC 84,805 bp), a small single copy region (SSC 18,510 bp) and a pair of inverted repeats (IRa and IRb 26,369 bp). The overall GC content was 37.34%. Phylogenetic analysis showed that <i>Hemerocallis lilioasphodelus</i> and <i>H</i>. cultivar Small orange lamp are most closely related. This will provide valuable reference for further research on the genetic information of plants in the <i>Hemerocallis.</i></p>","PeriodicalId":18647,"journal":{"name":"Mitochondrial DNA. Part B, Resources","volume":"9 12","pages":"1632-1635"},"PeriodicalIF":0.5,"publicationDate":"2024-12-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11613412/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142780379","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Complete mitochondrial genome of the Satanas beetle, <i>Dynastes satanas</i> Moser, 1909 (Coleoptera: Scarabaeidae).","authors":"Xunuo He, Shuang Wei, Panpan Li, Xianfeng Li","doi":"10.1080/23802359.2024.2432373","DOIUrl":"10.1080/23802359.2024.2432373","url":null,"abstract":"<p><p>In this study, we sequenced and analyzed the mitochondrial genome of the Satanas beetle, <i>Dynastes satanas</i> Moser, 1909, which was intercepted by Chinese Customs during an attempted smuggling operation in 2022. The complete mitochondrial genome is 16,973 bp in length (GenBank accession number: OQ998898) and contains 13 protein-coding genes, 22 tRNAs, 2 rRNAs, and a control region of 2285 bp. The gene order of trnQ-trnI-trnM in the mitochondrial genome of <i>Dynastes satanas</i> is consistent with that of other species in the genus <i>Dynastes</i>. All 13 PCGs are initiated by the ATN start codon. Seven genes terminate with the TAA stop codon, one with TAG, and five with a single T. The nucleotide composition of mitochondrial genome of <i>Dynastes satanas</i> was 38.07% of A, 31.49% of T, 20.52% of C, and 9.92% of G. Phylogenetic analysis indicates that <i>Dynastes satanas</i> and <i>Dynastes neptunus</i> (Quensel, 1805) exhibit a considerable genetic distance, suggesting that they should be classified as two distinct subgenera.</p>","PeriodicalId":18647,"journal":{"name":"Mitochondrial DNA. Part B, Resources","volume":"9 12","pages":"1627-1631"},"PeriodicalIF":0.5,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11613335/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142780429","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"The complete mitochondrial genome of <i>Culex hutchinsoni</i> (Diptera: Culicidae) and its phylogenetic analysis.","authors":"Liming Wang, Ruyue Zhang, Shuo Tian, Zimeng Zhang, Cong Li, Yuyu Wang","doi":"10.1080/23802359.2024.2432350","DOIUrl":"https://doi.org/10.1080/23802359.2024.2432350","url":null,"abstract":"<p><p>The complete mitochondrial genome of <i>Culex hutchinsoni</i> Barraud, 1924 was reported with 15,586 bp long. It contained 37 annotated genes and the control region, which is consistent with other mosquitoes. Most PCGs used typical ATN as start codons, while some special start codons were also used (i.e. TCG for <i>COX1</i>, TTG for <i>ND1</i>, GTG for <i>ND5</i>). Most PCGs terminated with TAA as well as some PCGs (<i>COX1, COX2, COX3, ND3, ND4</i> and <i>CYTB</i>) terminated with TA-tRNA or T-tRNA. Cx. (<i>Lophoceraomyia</i>) was recovered as the sister group to <i>Cx</i>. (<i>Culex</i>), while <i>Cx. hutchinsoni</i> was recovered within the species group of <i>Cx. pipiens</i>.</p>","PeriodicalId":18647,"journal":{"name":"Mitochondrial DNA. Part B, Resources","volume":"9 11","pages":"1615-1619"},"PeriodicalIF":0.5,"publicationDate":"2024-11-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11610350/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142770552","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"The first complete chloroplast genome of <i>Cymodocea rotundata</i> Asch. & Schweinf. 1870 (Cymodoceaceae), an Indo-Pacific seagrass.","authors":"Mingzhong Liu, Jiaxin Wu, Yunfeng Shi, Rongrong Shan","doi":"10.1080/23802359.2024.2432370","DOIUrl":"https://doi.org/10.1080/23802359.2024.2432370","url":null,"abstract":"<p><p><i>Cymodocea rotundata</i> Asch. & Schweinf. 1870 (Cymodoceaceae) is a seagrass found in the tropical and temperate Indo-Pacific coastal waters. Seagrass beds composed of <i>C. rotundata</i> and other seagrasses form ecologically valuable ecosystems. In this study, the complete chloroplast genome of <i>C. rotundata</i> was sequenced and characterized for the first time. It is a circular genome of 158,311 bp in length, consisting of a large single-copy region (88,451 bp), a small single-copy region (18,836 bp), and a pair of inverted repeats (25,512 bp). A total of 130 genes were annotated, including 86 protein-coding genes (PCGs), 36 transfer RNA (tRNA) genes, and 8 ribosomal RNA (rRNA) genes. Seven PCGs and 6 tRNA genes contain 1 intron, and 3 PCGs contain 2 introns. In addition, 7 PCGs, 7 tRNA genes, and all the rRNA genes are multi-copy genes with 2 copies. Phylogenetic analysis shows that <i>C. rotundata</i> clusters with <i>Syringodium isoetifolium</i> in one clade, both belonging to the family Cymodoceaceae. This study provides new information to support further research on the phylogeny of Cymodoceaceae.</p>","PeriodicalId":18647,"journal":{"name":"Mitochondrial DNA. Part B, Resources","volume":"9 11","pages":"1620-1625"},"PeriodicalIF":0.5,"publicationDate":"2024-11-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11610230/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142770591","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"The first complete mitochondrial genome of <i>Loimia arborea</i> (Polychaeta: Terebellidae) and phylogenetic analysis.","authors":"Xiong-Hui Xu, Chao-Yang Luo, Yuan Mu","doi":"10.1080/23802359.2024.2429639","DOIUrl":"10.1080/23802359.2024.2429639","url":null,"abstract":"<p><p>In order to understand the molecular insights within the Terebellida, the complete mitochondrial genome of Loimia arborea was sequenced. The mitochondrial genome is 16,023 bp, with 13 protein-coding genes (PCGs), 23 transfer RNA (tRNA) genes, two ribosomal RNA (rRNA) genes, and a non-coding region (D-loop). Notably, two adjacent copies of methionine tRNA genes (trnMs) were detected. The phylogeny of Terebellida was constructed based on 13 PCGs from 13 species, two main clades were strongly supported, i.e., Cirratuliformia (clade A) and Terebelliformia (clade B). And the monophyly of the Terebellidae was restored.</p>","PeriodicalId":18647,"journal":{"name":"Mitochondrial DNA. Part B, Resources","volume":"9 11","pages":"1606-1610"},"PeriodicalIF":0.5,"publicationDate":"2024-11-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11600547/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142739763","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"The complete chloroplast genome of <i>Lilium paradoxum</i> Stearn (Liliaceae) from southwestern China.","authors":"Li Luan, Yu-Mei Yuan, Yue-Liang Jiang, Yu-Xi Wang, Jian-Hua Ma, Qiao-Ling He, Yun-Dong Gao","doi":"10.1080/23802359.2024.2432367","DOIUrl":"10.1080/23802359.2024.2432367","url":null,"abstract":"<p><p><i>Lilium paradoxum</i>, a herb from southeastern Xizang, China, has its first complete chloroplast genome sequenced using next-generation sequencing. The genome is 151,814 bp, consisting of inverted repeats (IRs; 26,323 bp), small single-copy (SSC; 17,524 bp), and large single-copy regions (LSC; 81,644 bp). It encodes 112 unique genes: 78 protein-coding, 30 tRNA, and 4 rRNA genes. Phylogenetic analysis of 22 genomes shows <i>L. paradoxum</i> is closely related to <i>L. gongshanense, L. apertum,</i> and <i>L. souliei</i>. These findings enhance understanding of <i>Lilium</i>'s phylogenetic relationships and evolution, particularly the Nomocharis clade in the Hengduan Mountains.</p>","PeriodicalId":18647,"journal":{"name":"Mitochondrial DNA. Part B, Resources","volume":"9 11","pages":"1596-1600"},"PeriodicalIF":0.5,"publicationDate":"2024-11-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11587729/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142716480","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"The complete mitochondrial genome of <i>Sicista caudata</i> Thomas, 1907 (Rodentia: Sicistidae) and its phylogenetic analyses.","authors":"Zhu Liu, Fu-Ying Zhang, Zhi-Hui Zhang, Qiu-Ying Guo","doi":"10.1080/23802359.2024.2432349","DOIUrl":"10.1080/23802359.2024.2432349","url":null,"abstract":"<p><p>This study aimed to examine the complete mitogenome sequence of <i>Sicista caudata</i> Thomas, 1907. A circular double-stranded structure made up the mitochondrial genome of <i>S. caudata</i>. The complete length of the mitochondrial genome was 16,629 bp. The mitochondrial genome of <i>S. caudata</i> included 13 protein-coding genes, one control region, 22 tRNA genes, two rRNA genes, and one origin of L-strand replication. <i>S. caudata</i> was supported by bootstrap values of 100%. This study verified the evolutionary status of <i>S. caudata</i> in the Superfamily Dipodoidea at the molecular level.</p>","PeriodicalId":18647,"journal":{"name":"Mitochondrial DNA. Part B, Resources","volume":"9 11","pages":"1611-1614"},"PeriodicalIF":0.5,"publicationDate":"2024-11-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11587713/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142716485","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Nawaz Haider Bashir, Muhammad Naeem, Zijie Wang, Yong Gao
{"title":"The complete chloroplast genome sequence of <i>Michelia xinningia</i> (Magnoliaceae).","authors":"Nawaz Haider Bashir, Muhammad Naeem, Zijie Wang, Yong Gao","doi":"10.1080/23802359.2024.2432378","DOIUrl":"10.1080/23802359.2024.2432378","url":null,"abstract":"<p><p><i>Michelia xinningia</i> is an evergreen garden plant with attractive and fragrant flowers. <i>Michelia</i> exhibits both interspecific and intraspecific phenotypic variability. However, the genetic diversity of <i>M. xinningia</i> has not been thoroughly investigated. This study analyzed the first chloroplast genome of <i>M. xinningia,</i> which was 160,082 bp, including a large single-copy (LSC) region of 88,112 bp, a small single-copy (SSC) region of 18,798 bp, and a pair of inverted repeat (IRs) regions of 26,586 bp. It contained 133 genes, including 87 protein-coding genes, 38 transfer RNA genes, and eight ribosomal RNA genes. Phylogenetic analysis showed that <i>M. xinningia</i> formed a close relationship with <i>M. foveolata</i>. This study will provide an opportunity to investigate genetic variation and could be useful for both species identification and conservation.</p>","PeriodicalId":18647,"journal":{"name":"Mitochondrial DNA. Part B, Resources","volume":"9 11","pages":"1601-1605"},"PeriodicalIF":0.5,"publicationDate":"2024-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11587716/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142716484","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}