Revisiting the Taxonomy of the Genus Arcobacter : Getting Order From the Chaos

Frontiers in Microbiology
A Pérez-CataluñaM J Figueras

Abstract

Since the description of the genus Arcobacter in 1991, a total of 27 species have been described, although some species have shown 16S rRNA similarities below 95%, which is the cut-off that usually separates species that belong to different genera. The objective of the present study was to reassess the taxonomy of the genus Arcobacter using information derived from the core genome (286 genes), a Multilocus Sequence Analysis (MLSA) with 13 housekeeping genes, as well as different genomic indexes like Average Nucleotide Identity (ANI), in silico DNA-DNA hybridization (isDDH), Average Amino-acid Identity (AAI), Percentage of Conserved Proteins (POCPs), and Relative Synonymous Codon Usage (RSCU). The study included a total of 39 strains that represent all the 27 species included in the genus Arcobacter together with 13 strains that are potentially new species, and the analysis of 57 genomes. The different phylogenetic analyses showed that the Arcobacter species grouped into four clusters. In addition, A. lekithochrous and the candidatus species 'A. aquaticus' appeared, as did A. nitrofigilis, the type species of the genus, in separate branches. Furthermore, the genomic indices ANI and isDDH not only confirmed that all the species w...Continue Reading

References

Sep 1, 1992·Molecular Phylogenetics and Evolution·H J Bandelt, A W Dress
Feb 1, 1991·Journal of Clinical Microbiology·J A KiehlbauchI K Wachsmuth
Oct 1, 1994·International Journal of Systematic Bacteriology·J B UrsingR J Owen
Jan 12, 2001·FEMS Microbiology Reviews·R Rosselló-Mora, R Amann
Jan 6, 2004·Nucleic Acids Research·Dean Laslett, Bjorn Canback
Feb 11, 2005·Proceedings of the National Academy of Sciences of the United States of America·Konstantinos T Konstantinidis, James M Tiedje
Mar 19, 2005·International Journal of Systematic and Evolutionary Microbiology·Kurt HoufPeter Vandamme
May 10, 2005·International Journal of Systematic and Evolutionary Microbiology·Stuart P DonachieMaqsudul Alam
Oct 14, 2005·Molecular Biology and Evolution·Daniel H Huson, David Bryant
Apr 25, 2007·Nucleic Acids Research·Karin LagesenDavid W Ussery
Aug 21, 2007·Journal of Bacteriology·Tomoo SawabeFabiano L Thompson
Sep 12, 2007·Bioinformatics·M A LarkinD G Higgins
Dec 7, 2007·Diagnostic Microbiology and Infectious Disease·Maria José FiguerasJosep Guarro
Jan 25, 2008·Environmental Microbiology·Luis ColladoMaria Jose Figueras
Aug 12, 2008·Systematic and Applied Microbiology·Pablo YarzaRamon Rosselló-Móra
Sep 12, 2008·Nature·Tadepalli AdilakshmiSarah A Woodson
Sep 18, 2008·Biology Direct·Pere PuigbòSantiago Garcia-Vallve
Oct 23, 2008·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Haruo SuzukiEva M Top
Jun 9, 2009·International Journal of Systematic and Evolutionary Microbiology·Luis ColladoMaria Jose Figueras
Jun 13, 2009·Journal of Food Protection·Luis ColladoMaria José Figueras
Jul 23, 2009·International Journal of Systematic and Evolutionary Microbiology·Kurt HoufPeter Vandamme
Aug 6, 2009·International Journal of Systematic and Evolutionary Microbiology·Hye Min KimByung Cheol Cho
Aug 25, 2009·International Journal of Systematic and Evolutionary Microbiology·B J TindallP Kämpfer
Oct 27, 2009·Proceedings of the National Academy of Sciences of the United States of America·Michael Richter, Ramon Rosselló-Móra
Mar 10, 2010·BMC Bioinformatics·Doug HyattLoren J Hauser
Mar 23, 2010·International Journal of Systematic and Evolutionary Microbiology·Sarah De SmetKurt Houf
Oct 5, 2010·International Journal of Systematic and Evolutionary Microbiology·Luis ColladoMaria José Figueras
Dec 28, 2010·Systematic and Applied Microbiology·Maria José FiguerasClara Yustes
Jan 15, 2011·Clinical Microbiology Reviews·Luis Collado, Maria José Figueras
Jul 5, 2011·Systematic and Applied Microbiology·Maria José FiguerasClara Yustes
Jan 13, 2012·Journal of Clinical Microbiology·Mette V LarsenOle Lund
Mar 10, 2012·Systematic and Applied Microbiology·Arturo LevicanMaria José Figueras
Nov 1, 2012·Proceedings of the National Academy of Sciences of the United States of America·Kei KitaharaKentaro Miyazaki
Dec 26, 2012·Systematic and Applied Microbiology·Arturo LevicanMaría José Figueras
Feb 26, 2013·BMC Bioinformatics·Jan P Meier-KolthoffMarkus Göker
Aug 7, 2013·International Journal of Systematic and Evolutionary Microbiology·T S Sasi JyothsnaCh V Ramana
Oct 8, 2013·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Sergey NurkPavel A Pevzner
Oct 18, 2013·Molecular Biology and Evolution·Koichiro TamuraSudhir Kumar
Dec 3, 2013·Nucleic Acids Research·Ross OverbeekRick Stevens
Feb 8, 2014·International Journal of Systematic and Evolutionary Microbiology·Jongsik Chun, Fred A Rainey

❮ Previous
Next ❯

Citations

Jan 8, 2019·International Journal of Systematic and Evolutionary Microbiology·Aharon Oren, George M Garrity
Jan 8, 2019·International Journal of Systematic and Evolutionary Microbiology·Aharon Oren, George M Garrity
Jul 31, 2019·International Journal of Systematic and Evolutionary Microbiology·Xiao-Han GuoXiao-Yan Song
Aug 1, 2019·Open Forum Infectious Diseases·Marija VasiljevicKaren C Carroll
Oct 6, 2019·Applied and Environmental Microbiology·Cameron M CallbeckMarcel M M Kuypers
Feb 6, 2020·International Journal of Systematic and Evolutionary Microbiology·Aharon Oren, George M Garrity
May 13, 2020·Proceedings. Biological Sciences·Marlène ChiarelloThierry Bouvier
Jul 1, 2020·International Journal of Systematic and Evolutionary Microbiology·Aharon OrenMartha E Trujillo
Aug 18, 2020·Applied and Environmental Microbiology·Kaidi WangXiaonan Lu
Dec 4, 2020·International Journal of Systematic and Evolutionary Microbiology·Min Ji KimHana Yi
Dec 19, 2020·Comprehensive Reviews in Food Science and Food Safety·Vincenzina FuscoCharles M A P Franz
Dec 19, 2020·Comprehensive Reviews in Food Science and Food Safety·Daniele ChieffiVincenzina Fusco
Jul 28, 2021·Nature Communications·Maggie D JohnsonAndrew H Altieri
Aug 7, 2021·Antibiotics·Cristiana MateusSusana Ferreira
Jun 22, 2021·Antimicrobial Agents and Chemotherapy·Susana FerreiraMónica Oleastro
Nov 20, 2021·International Journal of Systematic and Evolutionary Microbiology·Pieter-Jan KerkhofKurt Houf

❮ Previous
Next ❯

Methods Mentioned

BETA
electrophoresis
Assay
PCA

Software Mentioned

MEGA
VecScreen
Prokka
MegAlign
BLASTn
Traitar
ggplot2
RNammer
CAIcal
ClustalW

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

© 2022 Meta ULC. All rights reserved