Single-molecule Sequencing of an Animal Mitochondrial Genome Reveals Chloroplast-like Architecture and Repeat-mediated Recombination.
Single-molecule Sequencing of an Animal Mitochondrial Genome Reveals Chloroplast-like Architecture and Repeat-mediated Recombination.
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DOI：
10.1093/molbev/msad007
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发表时间：
2023-01-04
影响因子：
10.7
通讯作者：
Boore, Jeffrey L.
中科院分区：
文献类型：
--
作者：
Sharbrough, Joel;Bankers, Laura;Cook, Emily;Fields, Peter D.;Jalinsky, Joseph;McElroy, Kyle E.;Neiman, Maurine;Logsdon, John M.;Boore, Jeffrey L.
关键词：
长读测序技术的最新进展使得整个线粒体基因组的单分子测序成为可能，为线粒体基因组结构和重组的直接研究打开了大门。利用PacBio测序技术对新西兰淡水蜗牛Potamopyrgus antipodarum和Potamopyrgus estuarinus的线粒体基因组进行了重组。这些组装揭示了两个物种线粒体基因组中约1.7 kb的结构，这是以前未被短reads组装检测到的，可能与线粒体基因组中普遍存在的大型非编码区相对应。这些Potamopyrgus线粒体基因组的整体结构与陆地植物的叶绿体基因组相似，包含一个大的单拷贝（LSC）区域和一个小的单拷贝（SSC）区域，由一对反向重复序列（IRa和IRb）分开。跨越Potamopyrgus IRa-SSC-IRb结构的单个测序读数揭示了“触发器”重组的发生。我们还发现了两种不同的IR单倍型和它们之间重组的证据，以及LSC区域单核苷酸多态性之间广泛的分子间重组的证据。我们在这里描述的叶绿体样结构和重复介导的线粒体重组提出了关于细胞质基因组中反向重复序列的起源和共性及其在线粒体基因组进化中的作用的基本问题。
Recent advances in long-read sequencing technology have allowed for single-molecule sequencing of entire mitochondrial genomes, opening the door for direct investigation of the mitochondrial genome architecture and recombination. We used PacBio sequencing to reassemble mitochondrial genomes from two species of New Zealand freshwater snails, Potamopyrgus antipodarum and Potamopyrgus estuarinus. These assemblies revealed a ∼1.7 kb structure within the mitochondrial genomes of both species that was previously undetected by an assembly of short reads and likely corresponding to a large noncoding region commonly present in the mitochondrial genomes. The overall architecture of these Potamopyrgus mitochondrial genomes is reminiscent of the chloroplast genomes of land plants, harboring a large single-copy (LSC) region and a small single-copy (SSC) region separated by a pair of inverted repeats (IRa and IRb). Individual sequencing reads that spanned across the Potamopyrgus IRa-SSC-IRb structure revealed the occurrence of a “flip-flop” recombination. We also detected evidence for two distinct IR haplotypes and recombination between them in wild-caught P. estuarinus, as well as extensive intermolecular recombination between single-nucleotide polymorphisms in the LSC region. The chloroplast-like architecture and repeat-mediated mitochondrial recombination we describe here raise fundamental questions regarding the origins and commonness of inverted repeats in cytoplasmic genomes and their role in mitochondrial genome evolution.
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DOI：
10.1111/evo.13001
发表时间：
2016-09
期刊：
Evolution; international journal of organic evolution
影响因子：
--
作者：
Gibson AK;Xu JY;Lively CM
通讯作者：
Lively CM
影响因子：
3.3
作者：
Ciborowski, Kate L.;Consuegra, Sofia;Jordan, William C.
通讯作者：
Jordan, William C.
影响因子：
3.8
作者：
通讯作者：
--
影响因子：
1.7
作者：
Bankevich, Anton;Nurk, Sergey;Pevzner, Pavel A.
通讯作者：
Pevzner, Pavel A.
影响因子：
3.3
作者：
GABRIEL, W;LYNCH, M;BURGER, R
通讯作者：
BURGER, R