Flexible genomic island conservation across freshwater and marine Methylophilaceae

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F60077344%3A_____%2F24%3A00605298" target="_blank" >RIV/60077344:_____/24:00605298 - isvavai.cz</a>

Alternative codes found

RIV/60076658:12310/24:43908626

Result on the web

<a href="https://doi.org/10.1093/ismejo/wrad036" target="_blank" >https://doi.org/10.1093/ismejo/wrad036</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1093/ismejo/wrad036" target="_blank" >10.1093/ismejo/wrad036</a>

Result language

angličtina

Original language name

Flexible genomic island conservation across freshwater and marine Methylophilaceae

Original language description

The evolutionary trajectory of Methylophilaceae includes habitat transitions from freshwater sediments to freshwater and marine pelagial that resulted in genome reduction (genome-streamlining) of the pelagic taxa. However, the extent of genetic similarities in the genomic structure and microdiversity of the two genome-streamlined pelagic lineages (freshwater 'Ca. Methylopumilus' and the marine OM43 lineage) has so far never been compared. Here, we analyzed complete genomes of 91 'Ca. Methylopumilus' strains isolated from 14 lakes in Central Europe and 12 coastal marine OM43 strains. The two lineages showed a remarkable niche differentiation with clear species-specific differences in habitat preference and seasonal distribution. On the other hand, we observed a synteny preservation in their genomes by having similar locations and types of flexible genomic islands (fGIs). Three main fGIs were identified: a replacement fGI acting as phage defense, an additive fGI harboring metabolic and resistance-related functions, and a tycheposon containing nitrogen-, thiamine-, and heme-related functions. The fGIs differed in relative abundances in metagenomic datasets suggesting different levels of variability ranging from strain-specific to population-level adaptations. Moreover, variations in one gene seemed to be responsible for different growth at low substrate concentrations and a potential biogeographic separation within one species. Our study provides a first insight into genomic microdiversity of closely related taxa within the family Methylophilaceae and revealed remarkably similar dynamics involving mobile genetic elements and recombination between freshwater and marine family members.

Czech name

—

Czech description

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Type

J_imp - Article in a specialist periodical, which is included in the Web of Science database

CEP classification

—

OECD FORD branch

10606 - Microbiology

Project

Result was created during the realization of more than one project. More information in the Projects tab.

Continuities

I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Publication year

2024

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

The ISME Journal

ISSN

1751-7362

e-ISSN

1751-7370

Volume of the periodical

18

Issue of the periodical within the volume

1

Country of publishing house

GB - UNITED KINGDOM

Number of pages

13

Pages from-to

wrad036

UT code for WoS article

001163290400001

EID of the result in the Scopus database

2-s2.0-85195414982