Cholet, Fabien and Agogué, Hélène and Ijaz, Umer Z. and Lachaussée, Nicolas and Pineau, Philippe and Smith, Cindy J. (2024) Low-abundant but highly transcriptionally active uncharacterised Nitrosomonas drive ammonia-oxidation in the Brouage mudflat, France. Science of the Total Environment, 946: 174312. ISSN 0048-9697
AI Summary:
We quantified Potential Nitrification Rates PNR alongside amoA genes and transcripts. Our results show that low abundant but highly active AOB could be responsible for the nitrification globally.AI Topics:
Exploring differences in nitrification within adjacent sedimentary structures of ridges and runnels on the Brouage mudflat, France, we quantified Potential Nitrification Rates (PNR) alongside amoA genes and transcripts. PNR was lower in ridges (≈1.7 fold-lower) than runnels, despite higher (≈1.8 fold-higher) ammonia-oxidizing bacteria (AOB) abundance. However, AOB were more transcriptionally active in runnels (≈1.9 fold-higher). Sequencing of amoA genes and transcripts revealed starkly contrasting profiles with transcripts from ridges and runnels dominated (≈91 % in ridges and ≈98 % in runnels) by low abundant (≈4.6 % of the DNA community in runnels and ≈0.8 % in ridges) but highly active phylotypes. The higher PNR in runnels was explained by higher abundance of this group, an uncharacterised Nitrosomonas sp. cluster. This cluster is phylogenetically similar to other active ammonia-oxidizers with worldwide distribution in coastal environments indicating its potential, but previously overlooked, contribution to ammonia oxidation globally. In contrast DNA profiles were dominated by highly abundant but low-activity clusters phylogenetically distinct from known Nitrosomonas (Nm) and Nitrosospira (Ns). This cluster is also globally distributed in coastal sediments, primarily detected as DNA, and often classified as Nitrosospira or Nitrosomonas. We therefore propose to classify this cluster as Ns/Nm. Our work indicates that low abundant but highly active AOB could be responsible for the nitrification globally, while the abundant AOB Ns/Nm may not be transcriptionally active, and as such account for the lack of correlation between rate processes and gene abundances often reported in the literature. It also raises the question as to what this seemingly inactive group is doing?
Cholet, Fabien
Author
Cholet, Fabien and Vignola, Marta and Quinn, Dominic and Ijaz, Umer Z. and Sloan, William T. and Smith, Cindy J. (2025) Microbial ecology of drinking water biofiltration based on 16S rRNA sequencing: a meta-analysis. Water Research, 281: 123684. ISSN 0043-1354
Cholet, Fabien and Agogué, Hélène and Ijaz, Umer Z. and Lachaussée, Nicolas and Pineau, Philippe and Smith, Cindy J. (2024) Low-abundant but highly transcriptionally active uncharacterised Nitrosomonas drive ammonia-oxidation in the Brouage mudflat, France. Science of the Total Environment, 946: 174312. ISSN 0048-9697
Shi, Xiang and Pereira, Ryan and Uzma and Savage, Laurie and Poursat, Baptiste and Quinn, Dominic and Kostrytsia, Anastasiia and Cholet, Fabien and Smith, Cindy J. and Gauchotte-Lindsay, Caroline and Sloan, William T. and Ijaz, Umer and Vignola, Marta (2024) Microbial stratification and DOM removal in drinking water biofilters: implications for enhanced performance. Water Research, 262: 122053. ISSN 0043-1354
See full publications listAgogué, Hélène
Author
Cholet, Fabien and Agogué, Hélène and Ijaz, Umer Z. and Lachaussée, Nicolas and Pineau, Philippe and Smith, Cindy J. (2024) Low-abundant but highly transcriptionally active uncharacterised Nitrosomonas drive ammonia-oxidation in the Brouage mudflat, France. Science of the Total Environment, 946: 174312. ISSN 0048-9697
See full publications listIjaz, Umer
Author
Cholet, Fabien and Vignola, Marta and Quinn, Dominic and Ijaz, Umer Z. and Sloan, William T. and Smith, Cindy J. (2025) Microbial ecology of drinking water biofiltration based on 16S rRNA sequencing: a meta-analysis. Water Research, 281: 123684. ISSN 0043-1354
Saleem, Farrukh and Ameer, Aqsa and Afzal, Farhan and Usman, Muhammad and Irshad, Hamid and Sattar, Sadia and Ijaz, Umer Zeeshan and Javed, Sundus (2025) A cross-sectional survey of poultry management systems, practices and antimicrobial use in relation to disease outbreak in Pakistan. BMC Research Notes, 18: 144. ISSN 1756-0500
Badar, Ayesha and Aqueel, Rhea and Nawaz, Ali and Ijaz, Umer Zeeshan and Malik, Kauser Abdulla (2025) Microbiota transplantation for Cotton Leaf Curl Disease suppression - core microbiome and transcriptome dynamics. Communications Biology, 8 (1): 380. ISSN 2399-3642
See full publications listLachaussée, Nicolas
Author
Cholet, Fabien and Agogué, Hélène and Ijaz, Umer Z. and Lachaussée, Nicolas and Pineau, Philippe and Smith, Cindy J. (2024) Low-abundant but highly transcriptionally active uncharacterised Nitrosomonas drive ammonia-oxidation in the Brouage mudflat, France. Science of the Total Environment, 946: 174312. ISSN 0048-9697
See full publications listPineau, Philippe
Author
Cholet, Fabien and Agogué, Hélène and Ijaz, Umer Z. and Lachaussée, Nicolas and Pineau, Philippe and Smith, Cindy J. (2024) Low-abundant but highly transcriptionally active uncharacterised Nitrosomonas drive ammonia-oxidation in the Brouage mudflat, France. Science of the Total Environment, 946: 174312. ISSN 0048-9697
See full publications listSmith, Cindy
Author
Cholet, Fabien and Vignola, Marta and Quinn, Dominic and Ijaz, Umer Z. and Sloan, William T. and Smith, Cindy J. (2025) Microbial ecology of drinking water biofiltration based on 16S rRNA sequencing: a meta-analysis. Water Research, 281: 123684. ISSN 0043-1354
Fantinelli Franco, Fabiane and Malik, Muhammad and Manjakkal, Libu and Roshanghias, Ali and Smith, Cindy and Gauchotte-Lindsay, Caroline (2024) Optimising carbon structures in laser-induced graphene electrodes using design of experiments for enhanced electrochemical sensing characteristics. ACS Applied Materials and Interfaces, 16 (47). pp. 65489-65502. ISSN 1944-8244
Fantinelli Franco, Fabiane and Malik, Muhammad Hassan and Manjakkal, Libu and Roshanghias, Ali and Smith, Cindy J. and Gauchotte-Lindsay, Caroline (2024) Optimizing carbon structures in laser-induced graphene electrodes using design of experiments for enhanced electrochemical sensing characteristics. ACS Applied Materials and Interfaces, 16 (47). pp. 65489-65502. ISSN 1944-8244
See full publications listAvailable under License Creative Commons Attribution.
Download (4MB) | Preview
 |