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...
Published in: | Frontiers in Microbiology |
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Online Access: | http://ir.gig.ac.cn/handle/344008/43925 https://doi.org/10.3389/fmicb.2018.00007 |
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ftchacadscgigcas:oai:ir.gig.ac.cn:344008/43925 2023-05-15T17:51:05+02:00 Community Composition and Transcriptional Activity of Ammonia-Oxidizing Prokaryotes of Seagrass Thalassia hemprichii in Coral Reef Ecosystems Ling, Juan Lin, Xiancheng Zhang, Yanying Zhou, Weiguo Yang, Qingsong Lin, Liyun Zeng, Siquan Zhang, Ying Wang, Cong Ahmad, Manzoor Long, Lijuan Dong, Junde 2018-01-25 http://ir.gig.ac.cn/handle/344008/43925 https://doi.org/10.3389/fmicb.2018.00007 英语 eng FRONTIERS MEDIA SA FRONTIERS IN MICROBIOLOGY http://ir.gig.ac.cn/handle/344008/43925 doi:10.3389/fmicb.2018.00007 Microbiology seagrass ammonia-oxidizing archaea and bacteria ammonia monooxygenase subunit A (amoA) cDNA community structure coral reef ecosystems AMOA-ENCODING ARCHAEA SPATIAL-DISTRIBUTION OCEAN ACIDIFICATION ENVIRONMENTAL GRADIENTS ANAMMOX BACTERIA ZOSTERA-MARINA YANGTZE-RIVER CHINA SEA DIVERSITY ABUNDANCE 期刊论文 2018 ftchacadscgigcas https://doi.org/10.3389/fmicb.2018.00007 2020-12-22T07:21:49Z 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 ecosystems. Report Ocean acidification Guangzhou Institute of Geochemistry: GIG OpenIR (Chinese Academy of Sciences) Frontiers in Microbiology 9 |
institution |
Open Polar |
collection |
Guangzhou Institute of Geochemistry: GIG OpenIR (Chinese Academy of Sciences) |
op_collection_id |
ftchacadscgigcas |
language |
English |
topic |
Microbiology seagrass ammonia-oxidizing archaea and bacteria ammonia monooxygenase subunit A (amoA) cDNA community structure coral reef ecosystems AMOA-ENCODING ARCHAEA SPATIAL-DISTRIBUTION OCEAN ACIDIFICATION ENVIRONMENTAL GRADIENTS ANAMMOX BACTERIA ZOSTERA-MARINA YANGTZE-RIVER CHINA SEA DIVERSITY ABUNDANCE |
spellingShingle |
Microbiology seagrass ammonia-oxidizing archaea and bacteria ammonia monooxygenase subunit A (amoA) cDNA community structure coral reef ecosystems AMOA-ENCODING ARCHAEA SPATIAL-DISTRIBUTION OCEAN ACIDIFICATION ENVIRONMENTAL GRADIENTS ANAMMOX BACTERIA ZOSTERA-MARINA YANGTZE-RIVER CHINA SEA DIVERSITY ABUNDANCE Ling, Juan Lin, Xiancheng Zhang, Yanying Zhou, Weiguo Yang, Qingsong Lin, Liyun Zeng, Siquan Zhang, Ying Wang, Cong Ahmad, Manzoor Long, Lijuan Dong, Junde Community Composition and Transcriptional Activity of Ammonia-Oxidizing Prokaryotes of Seagrass Thalassia hemprichii in Coral Reef Ecosystems |
topic_facet |
Microbiology seagrass ammonia-oxidizing archaea and bacteria ammonia monooxygenase subunit A (amoA) cDNA community structure coral reef ecosystems AMOA-ENCODING ARCHAEA SPATIAL-DISTRIBUTION OCEAN ACIDIFICATION ENVIRONMENTAL GRADIENTS ANAMMOX BACTERIA ZOSTERA-MARINA YANGTZE-RIVER CHINA SEA DIVERSITY ABUNDANCE |
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 ecosystems. |
format |
Report |
author |
Ling, Juan Lin, Xiancheng Zhang, Yanying Zhou, Weiguo Yang, Qingsong Lin, Liyun Zeng, Siquan Zhang, Ying Wang, Cong Ahmad, Manzoor Long, Lijuan Dong, Junde |
author_facet |
Ling, Juan Lin, Xiancheng Zhang, Yanying Zhou, Weiguo Yang, Qingsong Lin, Liyun Zeng, Siquan Zhang, Ying Wang, Cong Ahmad, Manzoor Long, Lijuan Dong, Junde |
author_sort |
Ling, Juan |
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 SA |
publishDate |
2018 |
url |
http://ir.gig.ac.cn/handle/344008/43925 https://doi.org/10.3389/fmicb.2018.00007 |
genre |
Ocean acidification |
genre_facet |
Ocean acidification |
op_relation |
FRONTIERS IN MICROBIOLOGY http://ir.gig.ac.cn/handle/344008/43925 doi:10.3389/fmicb.2018.00007 |
op_doi |
https://doi.org/10.3389/fmicb.2018.00007 |
container_title |
Frontiers in Microbiology |
container_volume |
9 |
_version_ |
1766158092624461824 |