Synchronized dynamics of bacterial niche-specific functions during biofilm development in a cold seep brine pool

Handle URI:
http://hdl.handle.net/10754/561085
Title:
Synchronized dynamics of bacterial niche-specific functions during biofilm development in a cold seep brine pool
Authors:
Zhang, Weipeng; Wang, Yong; Bougouffa, Salim ( 0000-0001-9218-6452 ) ; Tian, Renmao; Cao, Huiluo; Li, Yongxin; Cai, Lin; Wong, Yue Him; Zhang, Gen; Zhou, Guowei; Zhang, Xixiang ( 0000-0002-3478-6414 ) ; Bajic, Vladimir B. ( 0000-0001-5435-4750 ) ; Al-Suwailem, Abdulaziz M.; Qian, Pei-Yuan
Abstract:
The biology of biofilm in deep-sea environments is barely being explored. Here, biofilms were developed at the brine pool (characterized by limited carbon sources) and the normal bottom water adjacent to Thuwal cold seeps. Comparative metagenomics based on 50 Gb datasets identified polysaccharide degradation, nitrate reduction, and proteolysis as enriched functional categories for brine biofilms. The genomes of two dominant species: a novel deltaproteobacterium and a novel epsilonproteobacterium in the brine biofilms were reconstructed. Despite rather small genome sizes, the deltaproteobacterium possessed enhanced polysaccharide fermentation pathways, whereas the epsilonproteobacterium was a versatile nitrogen reactor possessing nar, nap and nif gene clusters. These metabolic functions, together with specific regulatory and hypersaline-tolerant genes, made the two bacteria unique compared with their close relatives including those from hydrothermal vents. Moreover, these functions were regulated by biofilm development, as both the abundance and the expression level of key functional genes were higher in later-stage biofilms, and co-occurrences between the two dominant bacteria were demonstrated. Collectively, unique mechanisms were revealed: i) polysaccharides fermentation, proteolysis interacted with nitrogen cycling to form a complex chain for energy generation; ii) remarkably, exploiting and organizing niche-specific functions would be an important strategy for biofilm-dependent adaptation to the extreme conditions.
KAUST Department:
KAUST Global Partnership Program; Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
Citation:
Synchronized dynamics of bacterial niche-specific functions during biofilm development in a cold seep brine pool 2015:n/a Environmental Microbiology
Journal:
Environmental Microbiology
Issue Date:
14-Jul-2015
DOI:
10.1111/1462-2920.12978
Type:
Article
ISSN:
14622912
Additional Links:
http://doi.wiley.com/10.1111/1462-2920.12978
Appears in Collections:
Articles; Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division

Full metadata record

DC FieldValue Language
dc.contributor.authorZhang, Weipengen
dc.contributor.authorWang, Yongen
dc.contributor.authorBougouffa, Salimen
dc.contributor.authorTian, Renmaoen
dc.contributor.authorCao, Huiluoen
dc.contributor.authorLi, Yongxinen
dc.contributor.authorCai, Linen
dc.contributor.authorWong, Yue Himen
dc.contributor.authorZhang, Genen
dc.contributor.authorZhou, Guoweien
dc.contributor.authorZhang, Xixiangen
dc.contributor.authorBajic, Vladimir B.en
dc.contributor.authorAl-Suwailem, Abdulaziz M.en
dc.contributor.authorQian, Pei-Yuanen
dc.date.accessioned2015-07-27T12:28:58Zen
dc.date.available2015-07-27T12:28:58Zen
dc.date.issued2015-07-14en
dc.identifier.citationSynchronized dynamics of bacterial niche-specific functions during biofilm development in a cold seep brine pool 2015:n/a Environmental Microbiologyen
dc.identifier.issn14622912en
dc.identifier.doi10.1111/1462-2920.12978en
dc.identifier.urihttp://hdl.handle.net/10754/561085en
dc.description.abstractThe biology of biofilm in deep-sea environments is barely being explored. Here, biofilms were developed at the brine pool (characterized by limited carbon sources) and the normal bottom water adjacent to Thuwal cold seeps. Comparative metagenomics based on 50 Gb datasets identified polysaccharide degradation, nitrate reduction, and proteolysis as enriched functional categories for brine biofilms. The genomes of two dominant species: a novel deltaproteobacterium and a novel epsilonproteobacterium in the brine biofilms were reconstructed. Despite rather small genome sizes, the deltaproteobacterium possessed enhanced polysaccharide fermentation pathways, whereas the epsilonproteobacterium was a versatile nitrogen reactor possessing nar, nap and nif gene clusters. These metabolic functions, together with specific regulatory and hypersaline-tolerant genes, made the two bacteria unique compared with their close relatives including those from hydrothermal vents. Moreover, these functions were regulated by biofilm development, as both the abundance and the expression level of key functional genes were higher in later-stage biofilms, and co-occurrences between the two dominant bacteria were demonstrated. Collectively, unique mechanisms were revealed: i) polysaccharides fermentation, proteolysis interacted with nitrogen cycling to form a complex chain for energy generation; ii) remarkably, exploiting and organizing niche-specific functions would be an important strategy for biofilm-dependent adaptation to the extreme conditions.en
dc.relation.urlhttp://doi.wiley.com/10.1111/1462-2920.12978en
dc.rightsThis is the peer reviewed version of the following article: Zhang, Weipeng, Yong Wang, Salim Bougouffa, Renmao Tian, Huiluo Cao, Yongxin Li, Lin Cai et al. "Synchronized dynamics of bacterial niche‐specific functions during biofilm development in a cold seep brine pool." Environmental microbiology (2015)., which has been published in final form at http://doi.wiley.com/10.1111/1462-2920.12978. This article may be used for non-commercial purposes in accordance With Wiley Terms and Conditions for self-archiving.en
dc.subjectmicrobial adaptationen
dc.subjectextreme conditionen
dc.subjectinter-species interactionen
dc.subjectgenome binningen
dc.titleSynchronized dynamics of bacterial niche-specific functions during biofilm development in a cold seep brine poolen
dc.typeArticleen
dc.contributor.departmentKAUST Global Partnership Programen
dc.contributor.departmentComputer, Electrical and Mathematical Sciences and Engineering (CEMSE) Divisionen
dc.identifier.journalEnvironmental Microbiologyen
dc.eprint.versionPost-printen
dc.contributor.institutionSanya Institute of Deep Sea Science and Engineering, Chinese Academy of Sciences, San Ya, Hai Nan; Chinaen
dc.contributor.institutionDivision of Life Science, Hong Kong University of Science and Technology, Clear Water Bay; Hong Kongen
kaust.authorBougouffa, Salimen
kaust.authorZhang, Xixiangen
kaust.authorZhang, Weipengen
kaust.authorTian, Renmaoen
kaust.authorCao, Huiluoen
kaust.authorLi, Yongxinen
kaust.authorCai, Linen
kaust.authorWong, Yue Himen
kaust.authorZhang, Genen
kaust.authorZhou, Guoweien
kaust.authorBajic, Vladimir B.en
kaust.authorAl-Suwailem, Abdulaziz M.en
kaust.authorQian, Pei-Yuanen
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