File Download
 
Links for fulltext
(May Require Subscription)
 
Supplementary

Article: Analysis of the bacterial community in a laboratory-scale nitrification reactor and a wastewater treatment plant by 454-pyrosequencing
  • Basic View
  • Metadata View
  • XML View
TitleAnalysis of the bacterial community in a laboratory-scale nitrification reactor and a wastewater treatment plant by 454-pyrosequencing
 
AuthorsYe, L2
Shao, M
Zhang, T2
Tong, AHY1
Lok, S1
 
Keywords454 high-throughput pyrosequencing
Activated sludge
Bacterial community
Cloning
16s rrna gene
 
Issue Date2011
 
PublisherPergamon. The Journal's web site is located at http://www.elsevier.com/locate/watres
 
CitationWater Research, 2011, v. 45 n. 15, p. 4390-4398 [How to Cite?]
DOI: http://dx.doi.org/10.1016/j.watres.2011.05.028
 
AbstractFor full understanding of the microbial community in the wastewater treatment bioreactors, one of the feasible and effective ways is to investigate the massive genetic information contained in the activated sludge. In this study, high-throughput pyrosequencing was applied to analyze the 16S rRNA gene of bacteria in a laboratory-scale nitrification reactor and a full-scale wastewater treatment plant. In total, 27,458 and 26,906 effective sequence reads of the 16S rRNA gene were obtained from the Reactor and the wastewater treatment plant activated sludge samples respectively. The taxonomic complexities in the two samples were compared at phylum and genus levels. According to the pyrosequencing results, even for a laboratory-scale reactor as simple as that in this study, a small size clone library is far from enough to reflect the whole profile of the bacterial community. In addition, it was found that the commonly used informatics tool ' RDP classifier' may drastically assign Nitrosomonas sequences into a wrong taxonomic unit resulting in underestimation of ammonia-oxidizing bacteria in the bioreactors. In this paper the reasons for this mistakenly assignment were analyzed and correction methods were proposed. © 2011 Elsevier Ltd.
 
ISSN0043-1354
2012 Impact Factor: 4.655
2012 SCImago Journal Rankings: 2.552
 
DOIhttp://dx.doi.org/10.1016/j.watres.2011.05.028
 
ISI Accession Number IDWOS:000294101300007
Funding AgencyGrant Number
HKU
Hong Kong General Research FundHKU7197-08E
Funding Information:

Dr. Ming-Fei Shao thanks HKU for the postdoctoral fellowship. Lin Ye thanks HKU for the postgraduate studentship. We also would like to thank Hong Kong General Research Fund (HKU7197-08E) for financial support of this study and W Chan and CK Wong for technical help in pyrosequencing.

 
ReferencesReferences in Scopus
 
DC FieldValue
dc.contributor.authorYe, L
 
dc.contributor.authorShao, M
 
dc.contributor.authorZhang, T
 
dc.contributor.authorTong, AHY
 
dc.contributor.authorLok, S
 
dc.date.accessioned2012-06-26T06:05:54Z
 
dc.date.available2012-06-26T06:05:54Z
 
dc.date.issued2011
 
dc.description.abstractFor full understanding of the microbial community in the wastewater treatment bioreactors, one of the feasible and effective ways is to investigate the massive genetic information contained in the activated sludge. In this study, high-throughput pyrosequencing was applied to analyze the 16S rRNA gene of bacteria in a laboratory-scale nitrification reactor and a full-scale wastewater treatment plant. In total, 27,458 and 26,906 effective sequence reads of the 16S rRNA gene were obtained from the Reactor and the wastewater treatment plant activated sludge samples respectively. The taxonomic complexities in the two samples were compared at phylum and genus levels. According to the pyrosequencing results, even for a laboratory-scale reactor as simple as that in this study, a small size clone library is far from enough to reflect the whole profile of the bacterial community. In addition, it was found that the commonly used informatics tool ' RDP classifier' may drastically assign Nitrosomonas sequences into a wrong taxonomic unit resulting in underestimation of ammonia-oxidizing bacteria in the bioreactors. In this paper the reasons for this mistakenly assignment were analyzed and correction methods were proposed. © 2011 Elsevier Ltd.
 
dc.description.natureLink_to_subscribed_fulltext
 
dc.identifier.citationWater Research, 2011, v. 45 n. 15, p. 4390-4398 [How to Cite?]
DOI: http://dx.doi.org/10.1016/j.watres.2011.05.028
 
dc.identifier.citeulike9415709
 
dc.identifier.doihttp://dx.doi.org/10.1016/j.watres.2011.05.028
 
dc.identifier.epage4398
 
dc.identifier.hkuros208083
 
dc.identifier.isiWOS:000294101300007
Funding AgencyGrant Number
HKU
Hong Kong General Research FundHKU7197-08E
Funding Information:

Dr. Ming-Fei Shao thanks HKU for the postdoctoral fellowship. Lin Ye thanks HKU for the postgraduate studentship. We also would like to thank Hong Kong General Research Fund (HKU7197-08E) for financial support of this study and W Chan and CK Wong for technical help in pyrosequencing.

 
dc.identifier.issn0043-1354
2012 Impact Factor: 4.655
2012 SCImago Journal Rankings: 2.552
 
dc.identifier.issue15
 
dc.identifier.pmid21705039
 
dc.identifier.scopuseid_2-s2.0-79960558447
 
dc.identifier.spage4390
 
dc.identifier.urihttp://hdl.handle.net/10722/150579
 
dc.identifier.volume45
 
dc.languageeng
 
dc.publisherPergamon. The Journal's web site is located at http://www.elsevier.com/locate/watres
 
dc.publisher.placeUnited Kingdom
 
dc.relation.ispartofWater Research
 
dc.relation.referencesReferences in Scopus
 
dc.subject.meshWater Purification - Methods
 
dc.subject.meshWaste Disposal, Fluid - Methods
 
dc.subject.meshSewage - Microbiology
 
dc.subject.meshSequence Analysis, Dna - Methods
 
dc.subject.meshRna, Ribosomal, 16S - Analysis
 
dc.subject.meshPhylogeny
 
dc.subject.meshNitrosomonas - Genetics
 
dc.subject.meshNitrification
 
dc.subject.meshIndustrial Waste - Prevention & Control
 
dc.subject.meshDna, Bacterial - Analysis - Classification - Genetics
 
dc.subject.meshBioreactors - Microbiology
 
dc.subject.meshBiodegradation, Environmental
 
dc.subject.meshBacteria - Classification - Genetics
 
dc.subject.meshAmmonia - Analysis
 
dc.subject454 high-throughput pyrosequencing
 
dc.subjectActivated sludge
 
dc.subjectBacterial community
 
dc.subjectCloning
 
dc.subject16s rrna gene
 
dc.titleAnalysis of the bacterial community in a laboratory-scale nitrification reactor and a wastewater treatment plant by 454-pyrosequencing
 
dc.typeArticle
 
<?xml encoding="utf-8" version="1.0"?>
<item><contributor.author>Ye, L</contributor.author>
<contributor.author>Shao, M</contributor.author>
<contributor.author>Zhang, T</contributor.author>
<contributor.author>Tong, AHY</contributor.author>
<contributor.author>Lok, S</contributor.author>
<date.accessioned>2012-06-26T06:05:54Z</date.accessioned>
<date.available>2012-06-26T06:05:54Z</date.available>
<date.issued>2011</date.issued>
<identifier.citation>Water Research, 2011, v. 45 n. 15, p. 4390-4398</identifier.citation>
<identifier.issn>0043-1354</identifier.issn>
<identifier.uri>http://hdl.handle.net/10722/150579</identifier.uri>
<description.abstract>For full understanding of the microbial community in the wastewater treatment bioreactors, one of the feasible and effective ways is to investigate the massive genetic information contained in the activated sludge. In this study, high-throughput pyrosequencing was applied to analyze the 16S rRNA gene of bacteria in a laboratory-scale nitrification reactor and a full-scale wastewater treatment plant. In total, 27,458 and 26,906 effective sequence reads of the 16S rRNA gene were obtained from the Reactor and the wastewater treatment plant activated sludge samples respectively. The taxonomic complexities in the two samples were compared at phylum and genus levels. According to the pyrosequencing results, even for a laboratory-scale reactor as simple as that in this study, a small size clone library is far from enough to reflect the whole profile of the bacterial community. In addition, it was found that the commonly used informatics tool &apos; RDP classifier&apos; may drastically assign Nitrosomonas sequences into a wrong taxonomic unit resulting in underestimation of ammonia-oxidizing bacteria in the bioreactors. In this paper the reasons for this mistakenly assignment were analyzed and correction methods were proposed. &#169; 2011 Elsevier Ltd.</description.abstract>
<language>eng</language>
<publisher>Pergamon. The Journal&apos;s web site is located at http://www.elsevier.com/locate/watres</publisher>
<relation.ispartof>Water Research</relation.ispartof>
<subject>454 high-throughput pyrosequencing</subject>
<subject>Activated sludge</subject>
<subject>Bacterial community</subject>
<subject>Cloning</subject>
<subject>16s rrna gene</subject>
<subject.mesh>Water Purification - Methods</subject.mesh>
<subject.mesh>Waste Disposal, Fluid - Methods</subject.mesh>
<subject.mesh>Sewage - Microbiology</subject.mesh>
<subject.mesh>Sequence Analysis, Dna - Methods</subject.mesh>
<subject.mesh>Rna, Ribosomal, 16S - Analysis</subject.mesh>
<subject.mesh>Phylogeny</subject.mesh>
<subject.mesh>Nitrosomonas - Genetics</subject.mesh>
<subject.mesh>Nitrification</subject.mesh>
<subject.mesh>Industrial Waste - Prevention &amp; Control</subject.mesh>
<subject.mesh>Dna, Bacterial - Analysis - Classification - Genetics</subject.mesh>
<subject.mesh>Bioreactors - Microbiology</subject.mesh>
<subject.mesh>Biodegradation, Environmental</subject.mesh>
<subject.mesh>Bacteria - Classification - Genetics</subject.mesh>
<subject.mesh>Ammonia - Analysis</subject.mesh>
<title>Analysis of the bacterial community in a laboratory-scale nitrification reactor and a wastewater treatment plant by 454-pyrosequencing</title>
<type>Article</type>
<description.nature>Link_to_subscribed_fulltext</description.nature>
<identifier.doi>10.1016/j.watres.2011.05.028</identifier.doi>
<identifier.pmid>21705039</identifier.pmid>
<identifier.scopus>eid_2-s2.0-79960558447</identifier.scopus>
<identifier.hkuros>208083</identifier.hkuros>
<relation.references>http://www.scopus.com/mlt/select.url?eid=2-s2.0-79960558447&amp;selection=ref&amp;src=s&amp;origin=recordpage</relation.references>
<identifier.volume>45</identifier.volume>
<identifier.issue>15</identifier.issue>
<identifier.spage>4390</identifier.spage>
<identifier.epage>4398</identifier.epage>
<identifier.isi>WOS:000294101300007</identifier.isi>
<publisher.place>United Kingdom</publisher.place>
<identifier.citeulike>9415709</identifier.citeulike>
</item>
Author Affiliations
  1. The University of Hong Kong Li Ka Shing Faculty of Medicine
  2. The University of Hong Kong