Spatiotemporal Dynamics of Coastal Viral Community Structure and Potential Biogeochemical Roles Affected by an Ulva prolifera Green Tide

Han, Meiaoxue; Sun, Jianhua; Yang, Qiaoqiao; Liang, Yantao; Jiang, Yong; Gao, Chen; Gu, Chengxiang; Liu, Qian; Chen, Xuechao; Liu, Gang; Shao, Hongbing; Guo, Cui; He, Hui; Wang, Hualong; Sung, Yeong Yik; Mok, Wen Jye; Wong, Li Lian; Wang, Zongling; McMinn, Andrew; Wang, Min

doi:10.1128/msystems.01211-22

Cited by 3 publications

(5 citation statements)

References 82 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…These results indicated the dynamic relationship between viruses and their hosts in coastal ecosystems. The abundance of phage vB_TgeS_JQ at the outbreak of U. prolifera may be due to the accumulation of a large number of algae-derived polysaccharides after the arrival of algal blooms ( 47 ). Flavobacteriia are the dominant prokaryotic group during this green tide period ( 17 , 65 ), as they can degrade algae-derived polysaccharides ( 66 ).…”

Section: Resultsmentioning

confidence: 99%

“…The relative abundances of vB_TgeS_JQ were calculated using CoverM v0.6.1 ( https://github.com/wwood/CoverM ) and expressed by RPKM (reads per kilobase per million mapped reads) (v0.3.1) with parameters: -m rpkm--min-read-percent-identity 0.95--min-read-aligned-percent 0.75 ( 45 , 46 ). The quality-controlled reads of 154 Global Ocean Viromes (GOV 2.0) and Qingdao coastal virome (QDCV) data sets ( 47 ) were mapped to the vB_TgeS_JQ genome using metagenomics tool minimap2. QDCV data set was selected because the phage was isolated during an outbreak of U. prolifera in coastal Qingdao, during which Flavobacteriia was the dominant strain.…”

Section: Methodsmentioning

confidence: 99%

See 1 more Smart Citation

A novel flavobacterial phage abundant during green tide, representing a new viral family, Zblingviridae

Guo,

Zhang,

Shao

et al. 2024

Appl Environ Microbiol

Self Cite

View full text Add to dashboard Cite

Flavobacteriia are the dominant and active bacteria during algal blooms and play an important role in polysaccharide degradation. However, little is known about phages infecting Flavobacteriia , especially during green tide. In this study, a novel virus, vB_TgeS_JQ, infecting Flavobacteriia was isolated from the surface water of the Golden Beach of Qingdao, China. Transmission electron microscopy demonstrated that vB_TgeS_JQ had the morphology of siphovirus. The experiments showed that it was stable from −20°C to 45°C and pH 5 to pH 8, with latent and burst periods both lasting for 20 min. Genomic analysis showed that the phage vB_TgeS_JQ contained a 40,712-bp dsDNA genome with a GC content of 30.70%, encoding 74 open-reading frames. Four putative auxiliary metabolic genes were identified, encoding electron transfer-flavoprotein dehydrogenase, calcineurin-like phosphoesterase, phosphoribosyl-ATP pyrophosphohydrolase, and TOPRIM nucleotidyl hydrolase. The abundance of phage vB_TgeS_JQ was higher during Ulva prolifera ( U. prolifera ) blooms compared with other marine environments. The phylogenetic and comparative genomic analyses revealed that vB_TgeS_JQ exhibited significant differences from all other phage isolates in the databases and therefore was classified as an undiscovered viral family, named Zblingviridae . In summary, this study expands the knowledge about the genomic, phylogenetic diversity and distribution of flavobacterial phages (flavophages), especially their roles during U. prolifera blooms. IMPORTANCE The phage vB_TgeS_JQ was the first flavobacterial phage isolated during green tide, representing a new family in Caudoviricetes and named Zblingviridae . The abundance of phage vB_TgeS_JQ was higher during the Ulva prolifera blooms. This study provides insights into the genomic, phylogenetic diversity, and distribution of flavophages, especially their roles during U. prolifera blooms.

show abstract

Section: Resultsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

A novel flavobacterial phage abundant during green tide, representing a new viral family, Zblingviridae

Guo,

Zhang,

Shao

et al. 2024

Appl Environ Microbiol

Self Cite

View full text Add to dashboard Cite

show abstract

“…These results demonstrate the dynamic relationship between prokaryotic and eukaryotic components of the coastal ecological system. The abundance of this phage significantly increased might be with the accumulation of high amounts of algal-derived DOM after the bloom arrival (Han et al, 2023). By the end of the bloom termination stage, most of the labile DOM had been utilized by bacteria, it might result the decrease of viral abundance like phage vB_PhoS_XC.…”

Section: Abundance and Ecological Function Of Phage Vb_phos_xcmentioning

confidence: 98%

“…Every year from June to July, a large-scale U. prolifera bloom typically occurs in Qingdao. This bloom rapidly causes a decline in inorganic carbon, increasing the pH of the seawater (Han et al, 2023). When the bloom terminates, pH, DOM, DOC, and nutrients are significantly altered to an extent that disrupts the dynamic balance of bacterial community structure and function (Li H et al, 2016;Zhang and Wang, 2017;Chen et al, 2020;Liang et al, 2021).…”

Section: Abundance and Ecological Function Of Phage Vb_phos_xcmentioning

confidence: 99%

Abundance and ecological footprint of Pseudoalteromonas phage vB_PhoS_XC in the Ulva prolifera green tide

et al. 2023

Self Cite

View full text Add to dashboard Cite

Pseudoalteromonas is a ubiquitous and abundant genus of marine bacteria commonly associated with algae. In this study, a novel siphoviral-morphological bacteriophage, vB_PhoS_XC, was isolated from the coastal seawaters of Qingdao (China) during a bloom of the Ulva prolifera (U. prolifera) green tide. The morphology of this phage (icosahedron head 51 ± 1 nm in diameter; a tail length of 86 ± 1 nm) was characterized through transmission electron microscope. The biological properties of this virus showed a short latent period (45 minutes), a large burst size (241 virions per cell) and a relatively wide range of temperatures/pH level tolerance (-20°C to 45°C and pH 4 to pH 10, respectively). The vB_PhoS_XC has a 46,490-bp double-stranded DNA genome with a G+C content of 40.0%, and encodes 72 open reading frames (ORFs). Thirty-five of these ORFs were assigned into known functions based on BLAST-based algorithm against NR database of GenBank. In addition, eco-genomic analysis provides the evidence of vB_PhoS_XC accompanied by bloom of U. prolifera, and confirmed the high expression of two phosphatase-metabolism-related auxiliary metabolic genes (AMGs). This study provides new insights into the functional and ecological roles of the Pseudoalteromonas phage vB_PhoS_XC, shedding light on the virological study approach combined with traditional isolation and meta-omics data.

show abstract

“…The higher contribution of the mec gene at 1,000 m seems to assist nutrient acquisition in this deep ecosystem, since the gene encodes for a sulfur carrier protein that aids the biosynthesis of cysteine (Hesketh-Best et al, 2022) and possibly the degradation of sulfated organic matter (Han et al, 2023), thus viral particle formation too. Despite the low understanding of the role of mec in the viral genomes, it seems that recent investigations on viral implications on the oceanic sulfur cycling are reinforced and extended by our findings (Kieft et al, 2021); viral genes related to sulfur relay were found at 1,000 m, thus possibly contributing to sulfur's budget manipulation.…”

Section: Same Lysis Rate At All Depths-different Taxa and Amgs Involvedmentioning

confidence: 99%

Depth-driven patterns in lytic viral diversity, auxiliary metabolic gene content, and productivity in offshore oligotrophic waters

Tsiola,

Michoud,

Daffonchio

et al. 2023

Front. Microbiol.

View full text Add to dashboard Cite

IntroductionMarine viruses regulate microbial population dynamics and biogeochemical cycling in the oceans. The ability of viruses to manipulate hosts’ metabolism through the expression of viral auxiliary metabolic genes (AMGs) was recently highlighted, having important implications in energy production and flow in various aquatic environments. Up to now, the presence and diversity of viral AMGs is studied using -omics data, and rarely using quantitative measures of viral activity alongside.MethodsIn the present study, four depth layers (5, 50, 75, and 1,000 m) with discrete hydrographic features were sampled in the Eastern Mediterranean Sea; we studied lytic viral community composition and AMG content through metagenomics, and lytic production rates through the viral reduction approach in the ultra-oligotrophic Levantine basin where knowledge regarding viral actions is rather limited.Results and DiscussionOur results demonstrate depth-dependent patterns in viral diversity and AMG content, related to differences in temperature, nutrients availability, and host bacterial productivity and abundance. Although lytic viral production rates were similar along the water column, the virus-to-bacteria ratio was higher and the particular set of AMGs was more diverse in the bathypelagic (1,000 m) than the shallow epipelagic (5, 50, and 75 m) layers, revealing that the quantitative effect of viruses on their hosts may be the same along the water column through the intervention of different AMGs. In the resource- and energy-limited bathypelagic waters of the Eastern Mediterranean, the detected AMGs could divert hosts’ metabolism toward energy production, through a boost in gluconeogenesis, fatty-acid and glycan biosynthesis and metabolism, and sulfur relay. Near the deep-chlorophyll maximum depth, an exceptionally high percentage of AMGs related to photosynthesis was noticed. Taken together our findings suggest that the roles of viruses in the deep sea might be even more important than previously thought as they seem to orchestrate energy acquisition and microbial community dynamics, and thus, biogeochemical turnover in the oceans.

show abstract

Spatiotemporal Dynamics of Coastal Viral Community Structure and Potential Biogeochemical Roles Affected by an Ulva prolifera Green Tide

Cited by 3 publications

References 82 publications

A novel flavobacterial phage abundant during green tide, representing a new viral family, Zblingviridae

A novel flavobacterial phage abundant during green tide, representing a new viral family, Zblingviridae

Abundance and ecological footprint of Pseudoalteromonas phage vB_PhoS_XC in the Ulva prolifera green tide

Depth-driven patterns in lytic viral diversity, auxiliary metabolic gene content, and productivity in offshore oligotrophic waters

Contact Info

Product

Resources

About