• 主题
高级搜索  >
历史搜索 清空历史
首页> 外文期刊>Standards in Genomic Sciences >Genome sequence of Shimia str. SK013, a representative of the Roseobacter group isolated from marine sediment
【24h】

Genome sequence of Shimia str. SK013, a representative of the Roseobacter group isolated from marine sediment

机译：Shimia str。的基因组序列。 SK013，从海洋沉积物中分离出的玫瑰杆菌属的代表

获取原文
       
页面导航
  • 摘要
  • 著录项
  • 相似文献
  • 相关主题

摘要

Shimia strain SK013 is an aerobic, Gram-negative, rod shaped alphaproteobacterium affiliated with the Roseobacter group within the family Rhodobacteraceae . The strain was isolated from surface sediment (0–1?cm) of the Skagerrak at 114 m below sea level. The 4,049,808?bp genome of Shimia str. SK013 comprises 3,981 protein-coding genes and 47 RNA genes. It contains one chromosome and no extrachromosomal elements. The genome analysis revealed the presence of genes for a dimethylsulfoniopropionate lyase, demethylase and the trimethylamine methyltransferase ( mttB ) as well as genes for nitrate, nitrite and dimethyl sulfoxide reduction. This indicates that Shimia str. SK013 is able to switch from aerobic to anaerobic metabolism and thus is capable of aerobic and anaerobic sulfur cycling at the seafloor. Among the ability to convert other sulfur compounds it has the genetic capacity to produce climatically active dimethyl sulfide. Growth on glutamate as a sole carbon source results in formation of cell-connecting filaments, a putative phenotypic adaptation of the surface-associated strain to the environmental conditions at the seafloor. Genome analysis revealed the presence of a flagellum ( fla 1) and a type IV pilus biogenesis, which is speculated to be a prerequisite for biofilm formation. This is also related to genes responsible for signalling such as N-acyl homoserine lactones, as well as quip-genes responsible for quorum quenching and antibiotic biosynthesis. Pairwise similarities of 16S rRNA genes (98.56?% sequence similarity to the next relative S. haliotis ) and the in silico DNA-DNA hybridization (21.20?% sequence similarity to S. haliotis ) indicated Shimia str. SK013 to be considered as a new species. The genome analysis of Shimia str. SK013 offered first insights into specific physiological and phenotypic adaptation mechanisms of Roseobacter- affiliated bacteria to the benthic environment.
机译：Shimia菌株SK013是好氧，革兰氏阴性，棒状α变形杆菌，隶属于红细菌科的Roseobacter组。该菌株与海平面以下114 m的Skagerrak的表层沉积物（0-1？cm）隔离。 Shimia str。的4,049,808？bp基因组。 SK013包含3981个蛋白质编码基因和47个RNA基因。它包含一个染色体，没有染色体外元素。基因组分析显示存在二甲基磺基丙酸裂解酶，脱甲基酶和三甲胺甲基转移酶（mttB）的基因，以及硝酸盐，亚硝酸盐和二甲基亚砜还原的基因。这表明希米亚海峡。 SK013能够从有氧代谢转换为厌氧代谢，因此能够在海底进行有氧和厌氧硫循环。在转化其他硫化合物的能力中，它具有生产具有气候活性的二甲基硫的遗传能力。谷氨酸作为唯一碳源的生长导致形成细胞连接细丝，这是表面相关菌株对海底环境条件的推测表型适应。基因组分析显示鞭毛（fla 1）和IV型菌毛的生物发生，这被认为是生物膜形成的前提。这也与负责信号传导的基因（例如N-酰基高丝氨酸内酯）以及负责群体猝灭和抗生素生物合成的quip基因有关。 16S rRNA基因的成对相似性（与下一个相对的S. haliotis有98.56％的序列相似性）和计算机DNA-DNA杂交（与S. haliotis有21.20％的序列相似性）表明Shimia str。 SK013被认为是新物种。 Shimia str。的基因组分析。 SK013对迷迭香属细菌对底栖环境的特定生理和表型适应机制提供了初步见解。

著录项

相似文献

  • 外文文献
  • 中文文献
  • 专利
获取原文

客服邮箱：kefu@zhangqiaokeyan.com

京公网安备：11010802029741号 ICP备案号：京ICP备15016152号-6 六维联合信息科技 (北京) 有限公司©版权所有

  • 客服微信

  • 服务号