FN Archimer Export Format
PT J
TI "Candidatus Desulfobulbus rimicarensis," an Uncultivated Deltaproteobacterial Epibiont from the Deep-Sea Hydrothermal Vent Shrimp Rimicaris exoculata
BT 
AF JIANG, Lijing
   LIU, Xuewen
   DONG, Chunming
   HUANG, Zhaobin
   CAMBON-BONAVITA, Marie-Anne
   ALAIN, Karine
   GU, Li
   WANG, Shasha
   SHAO, Zongze
AS 1:1,2,3,4;2:1,2,3,4;3:1,2,3,4;4:1,2,3,4;5:4,5;6:4,6;7:1,2,3,4;8:1,2,3,4;9:1,2,3,4;
FF 1:;2:;3:;4:;5:PDG-REM-EEP-LMEE;6:;7:;8:;9:;
C1 Minist Nat Resources, Key Lab Marine Genet Resources, Inst Oceanog 3, Xiamen, Peoples R China.
   State Key Lab Breeding Base Marine Genet Resource, Xiamen, Peoples R China.
   Fujian Key Lab Marine Genet Resources, Xiamen, Peoples R China.
   Sino French Lab Deep Sea Microbiol MICROBSEA, LIA1211, Xiamen, Peoples R China.
   Univ Brest, LM2E, CNRS, IFREMER, Plouzane, France.
   Univ Brest, LM2E, CNRS, IFREMER, Plouzane, France.
C2 SOA, CHINA
   SOA, CHINA
   FUJIAN KEY LAB MARINE GENET RESOURCES, CHINA
   MICROBSEA, CHINA
   IFREMER, FRANCE
   CNRS, FRANCE
SI BREST
SE PDG-REM-EEP-LMEE
UM BEEP-LM2E
IN WOS Ifremer UMR
   WOS Cotutelle UMR
   copubli-france
   copubli-int-hors-europe
   copubli-sud
IF 4.792
TC 16
UR https://archimer.ifremer.fr/doc/00624/73600/76007.pdf
LA English
DT Article
DE ;Deltaproteobacteria;Rimicaris exoculata;Wood-Ljungdahl pathway;epibiont;sulfur disproportionation
AB The deep-sea hydrothermal vent shrimp Rimicaris exoculata largely depends on a dense epibiotic chemoautotrophic bacterial community within its enlarged cephalothoracic chamber. However, our understanding of shrimp-bacterium interactions is limited. In this report, we focused on the deltaproteobacterial epibiont of R. exoculata from the relatively unexplored South Mid-Atlantic Ridge. A nearly complete genome of a Deltaproteobacteria epibiont was binned from the assembled metagenome. Whole-genome phylogenetic analysis reveals that it is affiliated with the genus Desulfobulbus, representing a potential novel species for which the name "Candidatus Desulfobulbus rimicarensis" is proposed. Genomic and transcriptomic analyses reveal that this bacterium utilizes the Wood-Ljungdahl pathway for carbon assimilation and harvests energy via sulfur disproportionation, which is significantly different from other shrimp epibionts. Additionally, this epibiont has putative nitrogen fixation activity, but it is extremely active in directly taking up ammonia and urea from the host or vent environments. Moreover, the epibiont could be distinguished from its free-living relatives by various features, such as the lack of chemotaxis and motility traits, a dramatic reduction in biosynthesis genes for capsular and extracellular polysaccharides, enrichment of genes required for carbon fixation and sulfur metabolism, and resistance to environmental toxins. Our study highlights the unique role and symbiotic adaptation of Deltaproteobacteria in deep-sea hydrothermal vent shrimps. IMPORTANCE The shrimp Rimicaris exoculata represents the dominant faunal biomass at many deep-sea hydrothermal vent ecosystems along the Mid-Atlantic Ridge. This organism harbors dense bacterial epibiont communities in its enlarged cephalothoracic chamber that play an important nutritional role. Deltaproteobacteria are ubiquitous in epibiotic communities of R. exoculata, and their functional roles as epibionts are based solely on the presence of functional genes. Here, we describe "Candidatus Desulfobulbus rimicarensis," an uncultivated deltaproteobacterial epibiont. Compared to campylobacterial and gammaproteobacterial epibionts of R. exoculata, this bacterium possessed unique metabolic pathways, such as the Wood-Ljungdahl pathway, as well as sulfur disproportionation and nitrogen fixation pathways. Furthermore, this epibiont can be distinguished from closely related free-living Desulfobulbus strains by its reduced genetic content and potential loss of functions, suggesting unique adaptations to the shrimp host. This study is a genomic and transcriptomic analysis of a deltaproteobacterial epibiont and largely expands the understanding of its metabolism and adaptation to the R. exoculata host.
PY 2020
PD APR
SO Applied And Environmental Microbiology
SN 0099-2240
PU Amer Soc Microbiology
VL 86
IS 8
UT 000524180100008
DI 10.1128/AEM.02549-19
ID 73600
ER

EF