两种极端嗜盐菌——死海嗜盐菌（Haloarcula marismortui）和地中海嗜盐菌（Haloferax mediterranei）的甲基化组
Methylomes of Two Extremely Halophilic Species, Haloarcula marismortui and Haloferax mediterranei.
作者信息
DasSarma Shiladitya, Fomenkov Alexey, DasSarma Satyajit L, Vincze Tamas, DasSarma Priya, Roberts Richard J
机构信息
Institute of Marine and Environmental Technology, Department of Microbiology and Immunology, University of Maryland-Baltimore, Baltimore, Maryland, USA.
New England Biolabs, Ipswich, Massachusetts, USA.
出版信息
Microbiol Resour Announc. 2019 Jul 3;8(27):e00577-19. doi: 10.1128/MRA.00577-19.
Abstract
The genomes of two extremely halophilic species, and , were sequenced using single-molecule real-time sequencing. The ∼4-Mbp genomes are GC rich with multiple large plasmids and two 4-methyl-cytosine patterns. Methyl transferases were incorporated into the Restriction Enzymes Database (REBASE), and gene annotation was incorporated into the Haloarchaeal Genomes Database (HaloWeb).
摘要
使用单分子实时测序技术对两种极端嗜盐菌的基因组进行了测序。这两个约4兆碱基对的基因组富含GC，含有多个大质粒和两种4-甲基胞嘧啶模式。甲基转移酶被纳入限制酶数据库（REBASE），基因注释被纳入嗜盐古菌基因组数据库（HaloWeb）。
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2
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Genes (Basel). 2018 Feb 27;9(3):129. doi: 10.3390/genes9030129.
3
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