Community Composition and Transcriptional Activity of Ammonia-Oxidizing Prokaryotes of Seagrass Thalassia hemprichii in Coral Reef Ecosystems
Seagrasses in coral reef ecosystems play important ecological roles by enhancing coral reef resilience under ocean acidification. However, seagrass primary productivity is typically constrained by limited nitrogen availability. Ammonia oxidation is an important process conducted by ammonia-oxidizing...
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ftdoajarticles:oai:doaj.org/article:289ce0e3cc304f649098eeb03503ae53 2023-05-15T17:51:56+02:00 Community Composition and Transcriptional Activity of Ammonia-Oxidizing Prokaryotes of Seagrass Thalassia hemprichii in Coral Reef Ecosystems Juan Ling Xiancheng Lin Yanying Zhang Weiguo Zhou Qingsong Yang Liyun Lin Siquan Zeng Ying Zhang Cong Wang Manzoor Ahmad Lijuan Long Junde Dong 2018-01-01T00:00:00Z https://doi.org/10.3389/fmicb.2018.00007 https://doaj.org/article/289ce0e3cc304f649098eeb03503ae53 EN eng Frontiers Media S.A. http://journal.frontiersin.org/article/10.3389/fmicb.2018.00007/full https://doaj.org/toc/1664-302X 1664-302X doi:10.3389/fmicb.2018.00007 https://doaj.org/article/289ce0e3cc304f649098eeb03503ae53 Frontiers in Microbiology, Vol 9 (2018) seagrass ammonia-oxidizing archaea and bacteria ammonia monooxygenase subunit A (amoA) cDNA community structure coral reef ecosystems Microbiology QR1-502 article 2018 ftdoajarticles https://doi.org/10.3389/fmicb.2018.00007 2022-12-31T01:51:03Z Seagrasses in coral reef ecosystems play important ecological roles by enhancing coral reef resilience under ocean acidification. However, seagrass primary productivity is typically constrained by limited nitrogen availability. Ammonia oxidation is an important process conducted by ammonia-oxidizing archaea (AOA) and bacteria (AOB), yet little information is available concerning the community structure and potential activity of seagrass AOA and AOB. Therefore, this study investigated the variations in the abundance, diversity and transcriptional activity of AOA and AOB at the DNA and transcript level from four sample types: the leaf, root, rhizosphere sediment and bulk sediment of seagrass Thalassia hemprichii in three coral reef ecosystems. DNA and complementary DNA (cDNA) were used to prepare clone libraries and DNA and cDNA quantitative PCR (qPCR) assays, targeting the ammonia monooxygenase-subunit (amoA) genes as biomarkers. Our results indicated that the closest relatives of the obtained archaeal and bacterial amoA gene sequences recovered from DNA and cDNA libraries mainly originated from the marine environment. Moreover, all the obtained AOB sequences belong to the Nitrosomonadales cluster. Nearly all the AOA communities exhibited higher diversity than the AOB communities at the DNA level, but the qPCR data demonstrated that the abundances of AOB communities were higher than that of AOA communities based on both DNA and RNA transcripts. Collectively, most of the samples shared greater community composition similarity with samples from the same location rather than sample type. Furthermore, the abundance of archaeal amoA gene in rhizosphere sediments showed significant relationships with the ammonium concentration of sediments and the nitrogen content of plant tissue (leaf and root) at the DNA level (P < 0.05). Conversely, no such relationships were found for the AOB communities. This work provides new insight into the nitrogen cycle, particularly nitrification of seagrass meadows in coral reef ... Article in Journal/Newspaper Ocean acidification Directory of Open Access Journals: DOAJ Articles Frontiers in Microbiology 9 |
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topic |
seagrass ammonia-oxidizing archaea and bacteria ammonia monooxygenase subunit A (amoA) cDNA community structure coral reef ecosystems Microbiology QR1-502 |
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seagrass ammonia-oxidizing archaea and bacteria ammonia monooxygenase subunit A (amoA) cDNA community structure coral reef ecosystems Microbiology QR1-502 Juan Ling Xiancheng Lin Yanying Zhang Weiguo Zhou Qingsong Yang Liyun Lin Siquan Zeng Ying Zhang Cong Wang Manzoor Ahmad Lijuan Long Junde Dong Community Composition and Transcriptional Activity of Ammonia-Oxidizing Prokaryotes of Seagrass Thalassia hemprichii in Coral Reef Ecosystems |
topic_facet |
seagrass ammonia-oxidizing archaea and bacteria ammonia monooxygenase subunit A (amoA) cDNA community structure coral reef ecosystems Microbiology QR1-502 |
description |
Seagrasses in coral reef ecosystems play important ecological roles by enhancing coral reef resilience under ocean acidification. However, seagrass primary productivity is typically constrained by limited nitrogen availability. Ammonia oxidation is an important process conducted by ammonia-oxidizing archaea (AOA) and bacteria (AOB), yet little information is available concerning the community structure and potential activity of seagrass AOA and AOB. Therefore, this study investigated the variations in the abundance, diversity and transcriptional activity of AOA and AOB at the DNA and transcript level from four sample types: the leaf, root, rhizosphere sediment and bulk sediment of seagrass Thalassia hemprichii in three coral reef ecosystems. DNA and complementary DNA (cDNA) were used to prepare clone libraries and DNA and cDNA quantitative PCR (qPCR) assays, targeting the ammonia monooxygenase-subunit (amoA) genes as biomarkers. Our results indicated that the closest relatives of the obtained archaeal and bacterial amoA gene sequences recovered from DNA and cDNA libraries mainly originated from the marine environment. Moreover, all the obtained AOB sequences belong to the Nitrosomonadales cluster. Nearly all the AOA communities exhibited higher diversity than the AOB communities at the DNA level, but the qPCR data demonstrated that the abundances of AOB communities were higher than that of AOA communities based on both DNA and RNA transcripts. Collectively, most of the samples shared greater community composition similarity with samples from the same location rather than sample type. Furthermore, the abundance of archaeal amoA gene in rhizosphere sediments showed significant relationships with the ammonium concentration of sediments and the nitrogen content of plant tissue (leaf and root) at the DNA level (P < 0.05). Conversely, no such relationships were found for the AOB communities. This work provides new insight into the nitrogen cycle, particularly nitrification of seagrass meadows in coral reef ... |
format |
Article in Journal/Newspaper |
author |
Juan Ling Xiancheng Lin Yanying Zhang Weiguo Zhou Qingsong Yang Liyun Lin Siquan Zeng Ying Zhang Cong Wang Manzoor Ahmad Lijuan Long Junde Dong |
author_facet |
Juan Ling Xiancheng Lin Yanying Zhang Weiguo Zhou Qingsong Yang Liyun Lin Siquan Zeng Ying Zhang Cong Wang Manzoor Ahmad Lijuan Long Junde Dong |
author_sort |
Juan Ling |
title |
Community Composition and Transcriptional Activity of Ammonia-Oxidizing Prokaryotes of Seagrass Thalassia hemprichii in Coral Reef Ecosystems |
title_short |
Community Composition and Transcriptional Activity of Ammonia-Oxidizing Prokaryotes of Seagrass Thalassia hemprichii in Coral Reef Ecosystems |
title_full |
Community Composition and Transcriptional Activity of Ammonia-Oxidizing Prokaryotes of Seagrass Thalassia hemprichii in Coral Reef Ecosystems |
title_fullStr |
Community Composition and Transcriptional Activity of Ammonia-Oxidizing Prokaryotes of Seagrass Thalassia hemprichii in Coral Reef Ecosystems |
title_full_unstemmed |
Community Composition and Transcriptional Activity of Ammonia-Oxidizing Prokaryotes of Seagrass Thalassia hemprichii in Coral Reef Ecosystems |
title_sort |
community composition and transcriptional activity of ammonia-oxidizing prokaryotes of seagrass thalassia hemprichii in coral reef ecosystems |
publisher |
Frontiers Media S.A. |
publishDate |
2018 |
url |
https://doi.org/10.3389/fmicb.2018.00007 https://doaj.org/article/289ce0e3cc304f649098eeb03503ae53 |
genre |
Ocean acidification |
genre_facet |
Ocean acidification |
op_source |
Frontiers in Microbiology, Vol 9 (2018) |
op_relation |
http://journal.frontiersin.org/article/10.3389/fmicb.2018.00007/full https://doaj.org/toc/1664-302X 1664-302X doi:10.3389/fmicb.2018.00007 https://doaj.org/article/289ce0e3cc304f649098eeb03503ae53 |
op_doi |
https://doi.org/10.3389/fmicb.2018.00007 |
container_title |
Frontiers in Microbiology |
container_volume |
9 |
_version_ |
1766159233092419584 |