{"title":"Isoetes baodongii(Isoetaceae)的完整叶绿体基因组序列。","authors":"Lin Guo, Junwen Zhai, Yufeng Gu","doi":"10.1080/23802359.2024.2356128","DOIUrl":null,"url":null,"abstract":"<p><p><i>Isoetes baodongii</i> is a diploid species of Isoetaceae distributed in low altitude area, its megaspore ornamentation is similar to tetraploid species <i>I. sinensis</i>. We collected leaf material of <i>I. baodongii</i> and sequenced it for low depth whole genome sequence, then, a complete chloroplast genome of <i>I. baodongii</i> was assembled and annotated. This chloroplast genome has a circular structure of 145,494 bp in length with a GC content of 38.0%, comprising a large single copy (LSC) region of 91,860 bp, a pair of inverted repeat (IR) regions of 13,207 bp each, and a small single copy (SSC) region of 27,220 bp. 136 genes were annotated, including 84 protein-coding genes, 38 tRNA genes, and 8 rRNA genes. A maximum likelihood phylogeny tree was reconstructed after the sequences alignment, the result showed that <i>I. baodongii</i> formed a sister clade to the one clustered by <i>I. sinensis</i>, <i>I. taiwanensis</i> and <i>I. orientalis</i>. Although the chloroplast genome structure of <i>I. baodongii</i> is extremely similar to other species distributed in China, a well-supported phylogenetic relationship was reconstructed here, these results may provide new messages for further studies on phylogeny and evolution of vascular plant on the earth.</p>","PeriodicalId":18647,"journal":{"name":"Mitochondrial DNA. Part B, Resources","volume":null,"pages":null},"PeriodicalIF":0.5000,"publicationDate":"2024-05-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11107852/pdf/","citationCount":"0","resultStr":"{\"title\":\"The complete chloroplast genome sequence of <i>Isoetes baodongii</i> (Isoetaceae).\",\"authors\":\"Lin Guo, Junwen Zhai, Yufeng Gu\",\"doi\":\"10.1080/23802359.2024.2356128\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p><i>Isoetes baodongii</i> is a diploid species of Isoetaceae distributed in low altitude area, its megaspore ornamentation is similar to tetraploid species <i>I. sinensis</i>. We collected leaf material of <i>I. baodongii</i> and sequenced it for low depth whole genome sequence, then, a complete chloroplast genome of <i>I. baodongii</i> was assembled and annotated. This chloroplast genome has a circular structure of 145,494 bp in length with a GC content of 38.0%, comprising a large single copy (LSC) region of 91,860 bp, a pair of inverted repeat (IR) regions of 13,207 bp each, and a small single copy (SSC) region of 27,220 bp. 136 genes were annotated, including 84 protein-coding genes, 38 tRNA genes, and 8 rRNA genes. A maximum likelihood phylogeny tree was reconstructed after the sequences alignment, the result showed that <i>I. baodongii</i> formed a sister clade to the one clustered by <i>I. sinensis</i>, <i>I. taiwanensis</i> and <i>I. orientalis</i>. Although the chloroplast genome structure of <i>I. baodongii</i> is extremely similar to other species distributed in China, a well-supported phylogenetic relationship was reconstructed here, these results may provide new messages for further studies on phylogeny and evolution of vascular plant on the earth.</p>\",\"PeriodicalId\":18647,\"journal\":{\"name\":\"Mitochondrial DNA. Part B, Resources\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":0.5000,\"publicationDate\":\"2024-05-19\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11107852/pdf/\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Mitochondrial DNA. Part B, Resources\",\"FirstCategoryId\":\"99\",\"ListUrlMain\":\"https://doi.org/10.1080/23802359.2024.2356128\",\"RegionNum\":4,\"RegionCategory\":\"生物学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"2024/1/1 0:00:00\",\"PubModel\":\"eCollection\",\"JCR\":\"Q4\",\"JCRName\":\"GENETICS & HEREDITY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Mitochondrial DNA. Part B, Resources","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.1080/23802359.2024.2356128","RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2024/1/1 0:00:00","PubModel":"eCollection","JCR":"Q4","JCRName":"GENETICS & HEREDITY","Score":null,"Total":0}
引用次数: 0
摘要
Isoetes baodongii是一种分布于低海拔地区的二倍体菘蓝科植物,其巨型孢子纹饰与四倍体的中华菘蓝相似。我们采集了I. baodongii的叶片材料,并对其进行了低深度全基因组测序,然后组装和注释了I. baodongii的完整叶绿体基因组。该叶绿体基因组为环状结构,全长 145,494 bp,GC 含量为 38.0%,包括一个 91,860 bp 的大型单拷贝(LSC)区、一对各 13,207 bp 的倒位重复(IR)区和一个 27,220 bp 的小型单拷贝(SSC)区。对 136 个基因进行了注释,包括 84 个蛋白质编码基因、38 个 tRNA 基因和 8 个 rRNA 基因。序列比对后重建了最大似然系统发生树,结果表明,宝岛杉与中华杉、台湾杉和东方杉为姊妹支系。虽然宝岛榕的叶绿体基因组结构与中国分布的其他物种极为相似,但在此重建的系统发育关系得到了很好的支持,这些结果可能为进一步研究地球上维管植物的系统发育和进化提供新的信息。
The complete chloroplast genome sequence of Isoetes baodongii (Isoetaceae).
Isoetes baodongii is a diploid species of Isoetaceae distributed in low altitude area, its megaspore ornamentation is similar to tetraploid species I. sinensis. We collected leaf material of I. baodongii and sequenced it for low depth whole genome sequence, then, a complete chloroplast genome of I. baodongii was assembled and annotated. This chloroplast genome has a circular structure of 145,494 bp in length with a GC content of 38.0%, comprising a large single copy (LSC) region of 91,860 bp, a pair of inverted repeat (IR) regions of 13,207 bp each, and a small single copy (SSC) region of 27,220 bp. 136 genes were annotated, including 84 protein-coding genes, 38 tRNA genes, and 8 rRNA genes. A maximum likelihood phylogeny tree was reconstructed after the sequences alignment, the result showed that I. baodongii formed a sister clade to the one clustered by I. sinensis, I. taiwanensis and I. orientalis. Although the chloroplast genome structure of I. baodongii is extremely similar to other species distributed in China, a well-supported phylogenetic relationship was reconstructed here, these results may provide new messages for further studies on phylogeny and evolution of vascular plant on the earth.
期刊介绍:
This open access journal publishes high-quality and concise research articles reporting the sequence of full mitochondrial genomes, and short communications focusing on the physical, chemical, and biochemical aspects of mtDNA and proteins involved in mtDNA metabolism and interactions.