Phasome analysis of pathogenic and commensal Neisseria species expands the known repertoire of phase variable genes, and highlights common adaptive strategies

PloS One
Joseph J WanfordChristopher D Bayliss

Abstract

Pathogenic Neisseria are responsible for significantly higher levels of morbidity and mortality than their commensal relatives despite having similar genetic contents. Neisseria possess a disparate arsenal of surface determinants that facilitate host colonisation and evasion of the immune response during persistent carriage. Adaptation to rapid changes in these hostile host environments is enabled by phase variation (PV) involving high frequency, stochastic switches in expression of surface determinants. In this study, we analysed 89 complete and 79 partial genomes, from the NCBI and Neisseria PubMLST databases, representative of multiple pathogenic and commensal species of Neisseria using PhasomeIt, a new program that identifies putatively phase-variable genes and homology groups by the presence of simple sequence repeats (SSR). We detected a repertoire of 884 putative PV loci with maxima of 54 and 47 per genome in gonococcal and meningococcal isolates, respectively. Most commensal species encoded a lower number of PV genes (between 5 and 30) except N. lactamica wherein the potential for PV (36-82 loci) was higher, implying that PV is an adaptive mechanism for persistence in this species. We also characterised the repeat types...Continue Reading

References

Mar 1, 1991·Reviews of Infectious Diseases·D W Denning, S S Gill
Apr 1, 1981·The Journal of Infectious Diseases·D S Stephens, Z A McGee
May 7, 1998·Molecular Microbiology·N J SaundersE R Moxon
Mar 27, 1999·Journal of Bacteriology·A R Richardson, I Stojiljkovic
May 6, 1999·Cellular and Molecular Life Sciences : CMLS·S F Göthel, M A Marahiel
May 13, 1999·Molecular Microbiology·J PorankiewiczA K Clarke
Jun 9, 2000·Molecular Microbiology·S D CarsonP F Sparling
May 22, 2001·Molecular Microbiology·A R Richardson, I Stojiljkovic
Oct 6, 2001·Current Opinion in Microbiology·B Hallet
May 2, 2002·Proceedings of the National Academy of Sciences of the United States of America·Anthony R RichardsonIgor Stojiljkovic
Nov 13, 2003·BMC Microbiology·Philip JordanNigel J Saunders
Nov 19, 2003·Molecular and Cellular Biochemistry·Asesh Banerjee, Salil K Ghosh
Feb 14, 2004·Molecular Biology and Evolution·You-Chun LiEviatar Nevo
Jul 3, 2004·BMC Bioinformatics·Keith A JolleyMartin C J Maiden
Mar 24, 2005·Infection and Immunity·Julia S BennettMartin C J Maiden
Apr 2, 2005·Proceedings of the National Academy of Sciences of the United States of America·Yogitha N SrikhantaMichael P Jennings
Oct 16, 2007·Applied and Environmental Microbiology·Marianne Thorup CohnLone Brøndsted
Jul 1, 2008·Journal of Bacteriology·Gyung Tae ChungCheon Kwon Yoo
Dec 3, 2010·Journal of Clinical Microbiology·Fadil A BidmosChristopher D Bayliss
Jan 6, 2011·FEMS Microbiology Reviews·Manish SadaranganiScott D Gray-Owen

❮ Previous
Next ❯

Citations

Nov 11, 2019·Nature Reviews. Microbiology·Dominique A Caugant, Ola B Brynildsrud
May 8, 2020·Microbial Genomics·Joseph J WanfordLuke R Green
Jul 26, 2019·Biochemical Society Transactions·Zachary N PhillipsJohn M Atack
Aug 17, 2021·Frontiers in Microbiology·Caroline CayrouChristopher D Bayliss
Oct 28, 2021·Microbial Genomics·Christopher A MullallyCharlene M Kahler

❮ Previous
Next ❯

Methods Mentioned

BETA
Illumina sequencing
restriction modification
glycosylation

Software Mentioned

BIGSdb
BLASTn
Phasome It
It
PubMLST
ClustalOmega
Multi Locus Sequence
PROKKA
BLAST
Phasome

Related Concepts

Related Feeds

Bacterial Meningitis

Bacterial meningitis continues to be an important cause of mortality and morbidity throughout the world. Here is the latest research.

Bacteriophage: Phage Therapy

Phage therapy uses bacterial viruses (bacteriophages) to treat bacterial infections and is widely being recognized as an alternative to antibiotics. Here is the latest research.

ApoE, Lipids & Cholesterol

Serum cholesterol, triglycerides, apolipoprotein B (APOB)-containing lipoproteins (very low-density lipoprotein (VLDL), immediate-density lipoprotein (IDL), and low-density lipoprotein (LDL), lipoprotein A (LPA)) and the total cholesterol/high-density lipoprotein (HDL) cholesterol ratio are all connected in diseases. Here is the latest research.

Bacterial Protein Structures

Bacterial protein structures can expedite the development of novel antibiotics. Here is the latest research on bacterial proteins and the resolution of their structures.

Bacterial Meningitis (ASM)

Bacterial meningitis continues to be an important cause of mortality and morbidity throughout the world. Here is the latest research.

Cancer Epigenetics & Metabolism (Keystone)

Epigenetic changes are present and dysregulated in many cancers, including DNA methylation, non-coding RNA segments and post-translational protein modifications. The epigenetic changes may or may not provide advantages for the cancer cells. This feed focuses on the relationship between cell metabolism, epigenetics and tumor differentiation.