English
 
User Manual Privacy Policy Disclaimer Contact us
  Advanced SearchBrowse

Item

ITEM ACTIONSEXPORT
  Whole-genome comparison between the type strain of Halobacterium salinarum (DSM 3754(T)) and the laboratory strains R1 and NRC-1

Pfeiffer, F., Losensky, G., Marchfelder, A., Habermann, B., & Dyall-Smith, M. (2020). Whole-genome comparison between the type strain of Halobacterium salinarum (DSM 3754(T)) and the laboratory strains R1 and NRC-1. MICROBIOLOGYOPEN, 9(2): e974. doi:10.1002/mbo3.974.

Item is

Basic

show hide
Item Permalink: http://hdl.handle.net/21.11116/0000-0005-9CE3-B Version Permalink: http://hdl.handle.net/21.11116/0000-0005-9CE6-8
Genre: Journal Article

Files

show Files
hide Files
:
mbo3.974.pdf (Any fulltext), 3MB
Name:
mbo3.974.pdf
Description:
-
Visibility:
Public
MIME-Type / Checksum:
application/pdf / [MD5]
Technical Metadata:
Copyright Date:
-
Copyright Info:
open access article
License:
-

Locators

show

Creators

show
hide
 Creators:
Pfeiffer, Friedhelm1, Author              
Losensky, Gerald2, Author
Marchfelder, Anita2, Author
Habermann, Bianca1, Author              
Dyall-Smith, Mike1, Author              
Affiliations:
1Habermann, Bianca / Computational Biology, Max Planck Institute of Biochemistry, Max Planck Society, ou_1832284              
2external, ou_persistent22              

Content

show
hide
Free keywords: GAS VESICLE GENE; PROPOSED MINIMAL STANDARDS; HALOPHILIC ARCHAEON; HALOBIUM; PLASMID; IDENTIFICATION; MEMBRANE; HALOARCHAEA; RESISTANCE; EVOLUTIONcomparative genomics; genomic variability; haloarchaea; halobacteria; megaplasmid; type strain;
 Abstract: Halobacterium salinarum is an extremely halophilic archaeon that is widely distributed in hypersaline environments and was originally isolated as a spoilage organism of salted fish and hides. The type strain 91-R6 (DSM 3754(T)) has seldom been studied and its genome sequence has only recently been determined by our group. The exact relationship between the type strain and two widely used model strains, NRC-1 and R1, has not been described before. The genome of Hbt. salinarum strain 91-R6 consists of a chromosome (2.17 Mb) and two large plasmids (148 and 102 kb, with 39,230 bp being duplicated). Cytosine residues are methylated (C-m4) within CTAG motifs. The genomes of type and laboratory strains are closely related, their chromosomes sharing average nucleotide identity (ANIb) values of 98% and in silico DNA-DNA hybridization (DDH) values of 95%. The chromosomes are completely colinear, do not show genome rearrangement, and matching segments show <1% sequence difference. Among the strain-specific sequences are three large chromosomal replacement regions (>10 kb). The well-studied AT-rich island (61 kb) of the laboratory strains is replaced by a distinct AT-rich sequence (47 kb) in 91-R6. Another large replacement (91-R6: 78 kb, R1: 44 kb) codes for distinct homologs of proteins involved in motility and N-glycosylation. Most (107 kb) of plasmid pHSAL1 (91-R6) is very closely related to part of plasmid pHS3 (R1) and codes for essential genes (e.g. arginine-tRNA ligase and the pyrimidine biosynthesis enzyme aspartate carbamoyltransferase). Part of pHS3 (42.5 kb total) is closely related to the largest strain-specific sequence (164 kb) in the type strain chromosome. Genome sequencing unraveled the close relationship between the Hbt. salinarum type strain and two well-studied laboratory strains at the DNA and protein levels. Although an independent isolate, the type strain shows a remarkably low evolutionary difference to the laboratory strains.

Details

show
hide
Language(s): eng - English
 Dates: 20192020-02
 Publication Status: Published in print
 Pages: 44
 Publishing info: -
 Table of Contents: -
 Rev. Type: Peer
 Identifiers: ISI: 000500210100001
DOI: 10.1002/mbo3.974
 Degree: -

Event

show

Legal Case

show

Project information

show

Source 1

show
hide
Title: MICROBIOLOGYOPEN
Source Genre: Journal
 Creator(s):
Affiliations:
Publ. Info: 111 RIVER ST, HOBOKEN 07030-5774, NJ USA : WILEY
Pages: - Volume / Issue: 9 (2) Sequence Number: e974 Start / End Page: - Identifier: ISSN: 2045-8827