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

Pfeiffer, Friedhelm ; Losensky, Gerald ; Marchfelder, Anita ; Habermann, Bianca ; Dyall‐Smith, Mike (2020)
Whole‐genome comparison between the type strain of Halobacterium salinarum (DSM 3754T) and the laboratory strains R1 and NRC‐1.
In: MicrobiologyOpen, 9 (2)
doi: 10.1002/mbo3.974
Artikel, Bibliographie

Dies ist die neueste Version dieses Eintrags.

Kurzbeschreibung (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 3754T) 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 (m4C) 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.

Typ des Eintrags:

Artikel

Erschienen:

2020

Autor(en):

Pfeiffer, Friedhelm ; Losensky, Gerald ; Marchfelder, Anita ; Habermann, Bianca ; Dyall‐Smith, Mike

Art des Eintrags:

Bibliographie

Titel:

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

Sprache:

Englisch

Publikationsjahr:

2020

Ort:

Malden

Verlag:

John Wiley & Sons

Titel der Zeitschrift, Zeitung oder Schriftenreihe:

MicrobiologyOpen

Jahrgang/Volume einer Zeitschrift:

(Heft-)Nummer:

Kollation:

44 Seiten

DOI:

10.1002/mbo3.974

Zugehörige Links:

Kurzbeschreibung (Abstract):

Alternatives oder übersetztes Abstract:

Alternatives Abstract	Sprache
The genome of the Halobacterium salinarum type strain (91-R6, DSM 3754) was compared at the DNA and protein levels to the genomes of two well-studied laboratory strains, NRC-1 and R1. The chromosomes and portions of the plasmids were very closely related. However, distinct homologs for proteins involved in motility and N-glycosylation were encountered.	Englisch

Freie Schlagworte:

comparative genomics, genomic variability, haloarchaea, halobacteria, megaplasmid, type strain

ID-Nummer:

e974

Sachgruppe der Dewey Dezimalklassifikatin (DDC):

500 Naturwissenschaften und Mathematik > 570 Biowissenschaften, Biologie

Fachbereich(e)/-gebiet(e):

10 Fachbereich Biologie
10 Fachbereich Biologie > Microbiology and Archaea

Hinterlegungsdatum:

30 Jan 2024 07:16

Letzte Änderung:

30 Jan 2024 07:17