Acquisition and Adaptation of Ultra-small Parasitic Reduced Genome Bacteria to Mammalian Hosts.

Cell Reports
Jeffrey S McLeanXuesong He

Abstract

The first cultivated representative of the enigmatic phylum Saccharibacteria (formerly TM7) was isolated from humans and revealed an ultra-small cell size (200-300 nm), a reduced genome with limited biosynthetic capabilities, and a unique parasitic lifestyle. TM7x was the only cultivated member of the candidate phyla radiation (CPR), estimated to encompass 26% of the domain Bacteria. Here we report on divergent genomes from major lineages across the Saccharibacteria phylum in humans and mammals, as well as from ancient dental calculus. These lineages are present at high prevalence within hosts. Direct imaging reveals that all groups are ultra-small in size, likely feeding off commensal bacteria. Analyses suggest that multiple acquisition events in the past led to the current wide diversity, with convergent evolution of key functions allowing Saccharibacteria from the environment to adapt to mammals. Ultra-small, parasitic CPR bacteria represent a relatively unexplored paradigm of prokaryotic interactions within mammalian microbiomes.

References

Feb 1, 1997·The Biochemical Journal·T A Fields, P J Casey
Mar 28, 2002·Nucleic Acids Research·A J EnrightC A Ouzounis
Mar 7, 2003·Applied and Environmental Microbiology·Mary M BrinigDavid A Relman
Nov 4, 2005·The New England Journal of Medicine·David N FredricksJeanne M Marrazzo
May 19, 2006·Journal of Bacteriology·Vyacheslav Palchevskiy, Steven E Finkel
Mar 21, 2007·Applied and Environmental Microbiology·Mircea PodarMartin Keller
Jul 11, 2007·Proceedings of the National Academy of Sciences of the United States of America·Yann MarcyStephen R Quake
Nov 20, 2008·Journal of Medical Microbiology·Tanja KuehbacherStephan J Ott
Jul 14, 2010·Database : the Journal of Biological Databases and Curation·Tsute ChenFloyd E Dewhirst
Oct 13, 2011·Molecular Systems Biology·Fabian SieversDesmond G Higgins
May 5, 2012·Bioinformatics·Elmar PruesseFrank Oliver Glöckner
Mar 20, 2013·Proceedings of the National Academy of Sciences of the United States of America·James H CampbellMircea Podar
Jun 12, 2013·Proceedings of the National Academy of Sciences of the United States of America·Jeffrey S McLeanRoger S Lasken
Oct 8, 2013·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Sergey NurkPavel A Pevzner
Feb 1, 2014·PeerJ·Aaron E DarlingJonathan A Eisen
Feb 25, 2014·Nature Genetics·Christina WarinnerEnrico Cappellini
Mar 5, 2014·Nucleic Acids Research·Chengwei LuoKonstantinos T Konstantinidis
Mar 20, 2014·Bioinformatics·Torsten Seemann
Jun 27, 2014·Proceedings of the National Academy of Sciences of the United States of America·A Murat ErenJessica L Mark Welch
Sep 15, 2014·Nature Methods·Johannes AlnebergChristopher Quince
Dec 24, 2014·Proceedings of the National Academy of Sciences of the United States of America·Xuesong HeWenyuan Shi
Mar 7, 2015·Nature Communications·Diorge P SouzaChuck S Farah
Mar 15, 2015·Systematic and Applied Microbiology·William B Whitman
Jun 18, 2015·Nature·Christopher T BrownJillian F Banfield
Jul 23, 2015·Bioinformatics·Andrew J PageJulian Parkhill
Nov 21, 2015·Journal of Molecular Biology·Minoru KanehisaKanae Morishima
Nov 29, 2015·Molecular Biology and Evolution·Yun Kit YeohPhilip Hugenholtz
Feb 4, 2016·Nature Communications·David BursteinJillian F Banfield
Jun 24, 2016·Microbiology Spectrum·Christian Gonzalez-RiveraPeter J Christie
Aug 31, 2016·Nature Microbiology·Laura A HugJillian F Banfield
Jan 24, 2017·Nature Reviews. Microbiology·Sergey ShmakovEugene V Koonin
Jul 22, 2017·The ISME Journal·Konstantinos T KonstantinidisRudolf Amann

❮ Previous
Next ❯

Citations

Aug 26, 2020·The ISME Journal·Daniel R UtterBatbileg Bor
Aug 21, 2020·Microbiology Resource Announcements·Eleanor I LamontBatbileg Bor
Nov 12, 2020·Molecular Oral Microbiology·Eleanor I LamontJeffrey S McLean
Apr 28, 2021·Environmental Microbiome·Pedro J Cabello-YevesFrancisco Rodriguez-Valera

❮ Previous
Next ❯

Datasets Mentioned

BETA
PQOA00000000
PRJNA384792

Methods Mentioned

BETA
PCR
PCA

Software Mentioned

EggNOG
PhyloSift
STAR
CONCOCT
RAXML
Roary
- mapper
BBDuk
edge
ClustVis

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.