Nomadic lifestyle of Lactobacillus plantarum revealed by comparative genomics of 54 strains isolated from different habitats

Environmental Microbiology
Maria Elena MartinoFrançois Leulier

Abstract

The ability of bacteria to adapt to diverse environmental conditions is well-known. The process of bacterial adaptation to a niche has been linked to large changes in the genome content, showing that many bacterial genomes reflect the constraints imposed by their habitat. However, some highly versatile bacteria are found in diverse habitats that almost share nothing in common. Lactobacillus plantarum is a lactic acid bacterium that is found in a large variety of habitat. With the aim of unravelling the link between evolution and ecological versatility of L. plantarum, we analysed the genomes of 54 L. plantarum strains isolated from different environments. Comparative genome analysis identified a high level of genomic diversity and plasticity among the strains analysed. Phylogenomic and functional divergence studies coupled with gene-trait matching analyses revealed a mixed distribution of the strains, which was uncoupled from their environmental origin. Our findings revealed the absence of specific genomic signatures marking adaptations of L. plantarum towards the diverse habitats it is associated with. This suggests fundamentally similar trends of genome evolution in L. plantarum, which occur in a manner that is apparently unc...Continue Reading

References

Mar 9, 2017·Probiotics and Antimicrobial Proteins·Hamza Ait SeddikDjamel Drider
Dec 8, 2017·Calcified Tissue International·Martin SchwarzerFrançois Leulier
Apr 9, 2017·Applied and Environmental Microbiology·Rebbeca M DuarJens Walter
Aug 11, 2018·Environmental Microbiology·Pasquale FilanninoMarco Gobbetti
Oct 14, 2017·Microbial Genomics·Hugh M B HarrisPaul W O'Toole
Jun 20, 2020·FEMS Microbiology Reviews·Francesca De FilippisDanilo Ercolini
Mar 25, 2017·Frontiers in Microbiology·Christelle F IskandarAnne-Marie Revol-Junelles
Jul 5, 2017·FEMS Microbiology Reviews·Rebbeca M DuarJens Walter
Sep 5, 2019·MSystems·Stijn WittouckSarah Lebeer
Aug 25, 2018·The Journal of Microbiology·Yen-Wenn LiuYing-Chieh Tsai
May 17, 2019·International Journal of Genomics·Eliane EvanovichJoão Farias Guerreiro
Jul 24, 2020·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Tülin Yılmaz, Ömer Şimşek
Nov 10, 2020·Microbial Genomics·Dimple DavrayRam Kulkarni

Citations

Nov 15, 1992·Proceedings of the National Academy of Sciences of the United States of America·S Henikoff, J G Henikoff
Oct 5, 1990·Journal of Molecular Biology·S F AltschulD J Lipman
Apr 1, 1996·International Journal of Systematic Bacteriology·Françoise BringelJ C Hubert
Mar 6, 2002·Systematic and Applied Microbiology·S TorrianiK Kersters
Feb 5, 2003·Proceedings of the National Academy of Sciences of the United States of America·Michiel KleerebezemRoland J Siezen
Sep 4, 2003·Genome Research·Li LiDavid S Roos
Sep 15, 2004·International Journal of Food Microbiology·L VermeirenJ Debevere
Sep 17, 2004·Systematic and Applied Microbiology·Olimpia PepeFrancesco Villani
Apr 1, 1996·International Journal of Systematic Bacteriology·M C CurkFrançoise Bringel
Mar 5, 2005·Applied and Environmental Microbiology·Richard van KranenburgMichiel Kleerebezem
Jun 25, 2005·Bioinformatics·Tim J CarverJulian Parkhill
Aug 20, 2005·Journal of Bacteriology·Douwe MolenaarMichiel Kleerebezem
Oct 13, 2006·Proceedings of the National Academy of Sciences of the United States of America·K MakarovaD Mills
Mar 17, 2007·Clinical Infectious Diseases : an Official Publication of the Infectious Diseases Society of America·Cathy A Petti
Feb 12, 2008·BMC Genomics·Ramy K AzizOlga Zagnitko
May 26, 2009·Journal of Bacteriology·Zhuo-Yang ZhangXiao-Kui Guo
Oct 27, 2009·Nucleic Acids Research·Lewis Y GeerStephen H Bryant
Dec 17, 2009·Environmental Microbiology·Roland J SiezenJohan E T van Hylckama Vlieg
Mar 13, 2010·PloS One·Morgan N PriceAdam P Arkin
Nov 3, 2010·Journal of Bacteriology·Yinyu WangBenheng Guo
Nov 3, 2010·Proceedings of the National Academy of Sciences of the United States of America·Gil SharonEugene Rosenberg
Oct 26, 2011·Microbial Cell Factories·Roland J Siezen, Johan E T van Hylckama Vlieg
Oct 28, 2011·Microbial Ecology·Oksana LukjancenkoTrudy M Wassenaar
Dec 14, 2011·Journal of Bacteriology·Roland J SiezenSacha van Hijum
Apr 12, 2012·Journal of Bacteriology·Lars AxelssonRoland J Siezen
Dec 25, 2012·Genome Biology·Sébastien BoisvertJacques Corbeil
Mar 22, 2013·Genome Announcements·Xuan LiYizhen Zhao
Apr 30, 2013·Briefings in Functional Genomics·Bas E DutilhSacha A F T van Hijum
May 25, 2013·Genome Announcements·Saima NazJean-Paul Vernoux
Jul 23, 2013·PLoS Genetics·Alison K HottesSaeed Tavazoie
Jul 28, 2013·Genome Announcements·Victor LaderoMiguel A Alvarez
Dec 10, 2013·Nucleic Acids Research·Tatiana TatusovaIgor Tolstoy

Related Concepts

Study
Genome
Acclimatization
Environment
Array-Based Comparative Genomic Hybridization
Lactic Acid Measurement
Genomics
Matching
Adaptation
Comparative Genomic Analysis

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.

Sexual Dimorphism in Neurodegeneration

There exist sex differences in neurodevelopmental and neurodegenerative disorders. For instance, multiple sclerosis is more common in women, whereas Parkinson’s disease is more common in men. Here is the latest research on sexual dimorphism in neurodegeneration

HLA Genetic Variation

HLA genetic variation has been found to confer risk for a wide variety of diseases. Identifying these associations and understanding their molecular mechanisms is ongoing and holds promise for the development of therapeutics. Find the latest research on HLA genetic variation here.

Super-resolution Microscopy

Super-resolution microscopy is the term commonly given to fluorescence microscopy techniques with resolutions that are not limited by the diffraction of light. Here are the latest discoveries pertaining to super-resolution microscopy.

Genetic Screens in iPSC-derived Brain Cells

Genetic screening is a critical tool that can be employed to define and understand gene function and interaction. This feed focuses on genetic screens conducted using induced pluripotent stem cell (iPSC)-derived brain cells.

Brain Lower Grade Glioma

Low grade gliomas in the brain form from oligodendrocytes and astrocytes and are the slowest-growing glioma in adults. Discover the latest research on these brain tumors here.

CD4/CD8 Signaling

Cluster of differentiation 4 and 8 (CD8 and CD8) are glycoproteins founds on the surface of immune cells. Here is the latest research on their role in cell signaling pathways.

Alignment-free Sequence Analysis Tools

Alignment-free sequence analyses have been applied to problems ranging from whole-genome phylogeny to the classification of protein families, identification of horizontally transferred genes, and detection of recombined sequences. Here is the latest research.

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.