Comprehensive analysis of insertion sequences within rRNA genes of CPR bacteria and biochemical characterization of a homing endonuclease encoded by these sequences DOI Creative Commons
Megumi Tsurumaki, Asako Sato, Motofumi Saito

et al.

Journal of Bacteriology, Journal Year: 2024, Volume and Issue: 206(7)

Published: June 10, 2024

The Candidate Phyla Radiation (CPR) represents an extensive bacterial clade comprising primarily uncultured lineages and is distinguished from other bacteria by a significant prevalence of insertion sequences (ISs) within their rRNA genes. However, our understanding the taxonomic distribution characteristics these ISs remains limited. In this study, we used comprehensive approach to systematically determine nature in CPR bacteria. analysis hundreds gene across 65 phyla revealed that are present 48% 16S genes 82% 23S genes, indicating broad clade, with exceptions

Language: Английский

Nannochloropsis oceanica IMET1 and its bacterial symbionts for carbon capture, utilization, and storage: biomass and calcium carbonate production under high pH and high alkalinity DOI Creative Commons

Lauren Jonas,

Yi‐Ying Lee,

Rita Mroz

et al.

Applied and Environmental Microbiology, Journal Year: 2025, Volume and Issue: unknown

Published: April 17, 2025

ABSTRACT To combat the increasing levels of carbon dioxide (CO 2 ) released from combustion fossil fuels, microalgae have emerged as a promising strategy for biological capture, utilization, and storage. This study used marine microalgal strain, Nannochloropsis oceanica IMET1, which thrives in high CO concentrations. A high-pH, high-alkalinity culture was designed capture through algal biomass production well permanent sequestration calcium carbonate (CaCO 3 precipitation. accomplished by timed pH elevation addition sodium bicarbonate to cultures N. grown at lab scale (1 L) pilot (500 with 10% 5% , respectively. Our data showed that 0.02 M NaHCO promoted growth sparging ambient air after 12 days raised created favorable CaCO formation conditions. At 1 L scale, we reached 1.52 g −1 an extra 9.3% captured form precipitates. 500 60% (Day 40) maximum rate 63.2 m −2 day 35). Bacterial communities associated were dominated two novel Patescibacteria. Functional analysis revealed genes several plant growth-promotion traits (PGPTs) enriched within this group. The microalgal-bacterial coculture system offers advantages enhanced mitigation simultaneous precipitation recalcitrant long-term IMPORTANCE Capturing fuel is utmost importance impacts climate change continue worsen. Microalgae can remove their natural photosynthetic pathways are additionally able convert into stable, ). We demonstrate microalgae-based systems be greatly improved alkalinity providing optimal conditions results microalga, strain show (pilot) scale. optimized provides approach mechanisms: (i) organic (ii) inorganic stored permanently 3.

Language: Английский

Citations

0

Innovative PN/A Process Optimization with Dual Intensification Strategies for Nitrogen Removal from Rare Earth Tailwater DOI
Yu Zhang, Yongxing Chen, Jiayi Li

et al.

ACS ES&T Water, Journal Year: 2025, Volume and Issue: unknown

Published: April 21, 2025

Language: Английский

Citations

0

Biogeography and ecological functions of underestimated CPR and DPANN in acid mine drainage sediments DOI Creative Commons

Shuming Peng,

Shao‐Ming Gao, Zhi-Liang Lin

et al.

mBio, Journal Year: 2025, Volume and Issue: unknown

Published: April 29, 2025

ABSTRACT Recent genomic surveys have uncovered candidate phyla radiation (CPR) bacteria and DPANN archaea as major microbial dark matter lineages in various anoxic habitats. Despite their extraordinary diversity, the biogeographic patterns ecological implications of these ultra-small putatively symbiotic microorganisms remained elusive. Here, we performed metagenomic sequencing on 90 geochemically diverse acid mine drainage sediments sampled across southeast China recovered 282 CPR 189 nonredundant metagenome-assembled genomes, which collectively account for up to 28.6% 31.2% indigenous prokaryotic communities, respectively. We found that, remarkably, geographic distance represents primary factor driving large-scale distribution both organisms, followed by pH Fe. Although groups might be capable iron reduction through a flavin-based extracellular electron transfer mechanism, significant differences are metabolic capabilities (with complex carbon degradation chitin being more prevalent whereas fermentation acetate production enriched DPANN), indicating potential niche differentiation. Predicted hosts mainly Acidobacteriota , Bacteroidota Proteobacteria Thermoplasmatota DPANN, extensive, unbalanced exchanges between symbionts putative displayed. Together, our results provide initial insights into interplays two physicochemical environments host populations at large scale. IMPORTANCE Candidate constitute fraction Earth’s diversity. ubiquity abundance, especially habitats, know little about community drivers ultra-small, episymbiotic ranges. This study is facilitated collection genomes from metagenomes (AMD) China. Our comprehensive analyses allowed first functional differentiation enigmatic AMD model system.

Language: Английский

Citations

0

Widespread but Poorly Understood Bacteria: Candidate Phyla Radiation DOI Creative Commons

Yanhan Ji,

Ping Zhang, Sihan Zhou

et al.

Microorganisms, Journal Year: 2022, Volume and Issue: 10(11), P. 2232 - 2232

Published: Nov. 11, 2022

Candidate Phyla Radiation (CPR) bacteria is a bacterial division composed mainly of candidate phyla with ultra-small cell sizes, streamlined genomes, and limited metabolic capacity, which are generally considered to survive in parasitic or symbiotic manner. Despite their wide distribution rich diversity, CPR have received little attention until recent years, therefore poorly understood. This review systematically summarizes the history research, parasitic/symbiotic lifestyle, ecological unique features bacteria, hoping provide guidance for future physiological research on bacteria.

Language: Английский

Citations

17

Comprehensive analysis of insertion sequences within rRNA genes of CPR bacteria and biochemical characterization of a homing endonuclease encoded by these sequences DOI Creative Commons
Megumi Tsurumaki, Asako Sato, Motofumi Saito

et al.

Journal of Bacteriology, Journal Year: 2024, Volume and Issue: 206(7)

Published: June 10, 2024

The Candidate Phyla Radiation (CPR) represents an extensive bacterial clade comprising primarily uncultured lineages and is distinguished from other bacteria by a significant prevalence of insertion sequences (ISs) within their rRNA genes. However, our understanding the taxonomic distribution characteristics these ISs remains limited. In this study, we used comprehensive approach to systematically determine nature in CPR bacteria. analysis hundreds gene across 65 phyla revealed that are present 48% 16S genes 82% 23S genes, indicating broad clade, with exceptions

Language: Английский

Citations

3