Small-scale variation of ammonia oxidisers within intertidal sediments dominated by ammonia-oxidising bacteria Nitrosomonas sp. amoA genes and transcripts

Abstract While numerous studies have investigated the abundance of ammonia oxidising bacteria and archaea (AOB/AOA) via the ammonia monooxygenase gene amoA, less is known about their small-scale variation and if amoA gene abundance equates to activity. Here we present a spatial and temporal study of...

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Autores principales:	Aoife M. Duff, Li-Mei Zhang, Cindy J. Smith
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/b27e1f4263694f589a805c0649ebc237
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spelling	oai:doaj.org-article:b27e1f4263694f589a805c0649ebc2372021-12-02T15:06:08ZSmall-scale variation of ammonia oxidisers within intertidal sediments dominated by ammonia-oxidising bacteria Nitrosomonas sp. amoA genes and transcripts10.1038/s41598-017-13583-x2045-2322https://doaj.org/article/b27e1f4263694f589a805c0649ebc2372017-10-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-13583-xhttps://doaj.org/toc/2045-2322Abstract While numerous studies have investigated the abundance of ammonia oxidising bacteria and archaea (AOB/AOA) via the ammonia monooxygenase gene amoA, less is known about their small-scale variation and if amoA gene abundance equates to activity. Here we present a spatial and temporal study of ammonia oxidation in two small intertidal bays, Rusheen and Clew bay, Ireland. Potential Nitrification Rate (PNR) was ten-fold higher in Rusheen bay (Clew: 0.27 ± SD 0.55; Rusheen: 2.46 ± SD 3.4 NO2 − µg−1 g−1 day−1, P < 0.001) than in Clew bay but amoA gene abundances were similar between bays, and comparable to those in other coastal ecosystems. Within bays AOB genes increased towards the muddy sediments and were positively correlated with PNR and pH. Less spatial variation was observed in AOA abundances which nevertheless positively correlated with pH and temperature and negatively with salinity and ammonia. Transcriptionally active AOB and AOA were quantified from all sites in Rusheen bay, February 2014, following the general trends observed at DNA level. AOB phylotypes predominantly from the known Nitrosomonas group were distributed across the bay, while Nitrosomonas group B phylotypes were absent from low salinity sites. AOA genes and transcripts were primarily affiliated with Thaumarchaeota group I.1a.Aoife M. DuffLi-Mei ZhangCindy J. SmithNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-13 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Aoife M. Duff Li-Mei Zhang Cindy J. Smith Small-scale variation of ammonia oxidisers within intertidal sediments dominated by ammonia-oxidising bacteria Nitrosomonas sp. amoA genes and transcripts
description	Abstract While numerous studies have investigated the abundance of ammonia oxidising bacteria and archaea (AOB/AOA) via the ammonia monooxygenase gene amoA, less is known about their small-scale variation and if amoA gene abundance equates to activity. Here we present a spatial and temporal study of ammonia oxidation in two small intertidal bays, Rusheen and Clew bay, Ireland. Potential Nitrification Rate (PNR) was ten-fold higher in Rusheen bay (Clew: 0.27 ± SD 0.55; Rusheen: 2.46 ± SD 3.4 NO2 − µg−1 g−1 day−1, P < 0.001) than in Clew bay but amoA gene abundances were similar between bays, and comparable to those in other coastal ecosystems. Within bays AOB genes increased towards the muddy sediments and were positively correlated with PNR and pH. Less spatial variation was observed in AOA abundances which nevertheless positively correlated with pH and temperature and negatively with salinity and ammonia. Transcriptionally active AOB and AOA were quantified from all sites in Rusheen bay, February 2014, following the general trends observed at DNA level. AOB phylotypes predominantly from the known Nitrosomonas group were distributed across the bay, while Nitrosomonas group B phylotypes were absent from low salinity sites. AOA genes and transcripts were primarily affiliated with Thaumarchaeota group I.1a.
format	article
author	Aoife M. Duff Li-Mei Zhang Cindy J. Smith
author_facet	Aoife M. Duff Li-Mei Zhang Cindy J. Smith
author_sort	Aoife M. Duff
title	Small-scale variation of ammonia oxidisers within intertidal sediments dominated by ammonia-oxidising bacteria Nitrosomonas sp. amoA genes and transcripts
title_short	Small-scale variation of ammonia oxidisers within intertidal sediments dominated by ammonia-oxidising bacteria Nitrosomonas sp. amoA genes and transcripts
title_full	Small-scale variation of ammonia oxidisers within intertidal sediments dominated by ammonia-oxidising bacteria Nitrosomonas sp. amoA genes and transcripts
title_fullStr	Small-scale variation of ammonia oxidisers within intertidal sediments dominated by ammonia-oxidising bacteria Nitrosomonas sp. amoA genes and transcripts
title_full_unstemmed	Small-scale variation of ammonia oxidisers within intertidal sediments dominated by ammonia-oxidising bacteria Nitrosomonas sp. amoA genes and transcripts
title_sort	small-scale variation of ammonia oxidisers within intertidal sediments dominated by ammonia-oxidising bacteria nitrosomonas sp. amoa genes and transcripts
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/b27e1f4263694f589a805c0649ebc237
work_keys_str_mv	AT aoifemduff smallscalevariationofammoniaoxidiserswithinintertidalsedimentsdominatedbyammoniaoxidisingbacterianitrosomonasspamoagenesandtranscripts AT limeizhang smallscalevariationofammoniaoxidiserswithinintertidalsedimentsdominatedbyammoniaoxidisingbacterianitrosomonasspamoagenesandtranscripts AT cindyjsmith smallscalevariationofammoniaoxidiserswithinintertidalsedimentsdominatedbyammoniaoxidisingbacterianitrosomonasspamoagenesandtranscripts
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Small-scale variation of ammonia oxidisers within intertidal sediments dominated by ammonia-oxidising bacteria Nitrosomonas sp. amoA genes and transcripts

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