Genome and Ecology of a Novel<i>Alteromonas</i>Podovirus, ZP6, Representing a New Viral Genus,<i>Mareflavirus</i>

Wang, Ziyue; Zhang, Fang; Liang, Yantao; Zheng, Kaiyang; Gu, Chengxiang; Zhang, Wenjing; Liu, Huan; Zhang, Xinran; Jiang, Yong; Guo, Cui; He, Hui; Wang, Hualong; Sung, Yeong Yik; Mok, Wen Jye; Wong, Li Lian; He, Jianfeng; McMinn, Andrew; Wang, Min

doi:10.1128/spectrum.00463-21

Cited by 16 publications

(17 citation statements)

References 106 publications

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“…The number of databases for each ecological environment was normalized before RPKM calculation. The results showed high abundances of Pelagibacter phage, the Puniceispirillum phage HMO-2011 that infects SAR116 clade, and Cyanophages in almost all VEZs, and Alteromonas phages were only abundant in MES, which were similar to some previous studies (Hurwitz and Sullivan, 2013 ; Kang et al, 2013 ; Zhao et al, 2013 ; Wang et al, 2021 ). All Cbk-like phages showed low abundance in detected VEZs, and vB_EliS-L02 were only detected in EPI and MES ( Figure 6 ), indicating that Cbk-like phages had low abundance in the ocean.…”

Section: Resultssupporting

confidence: 90%

“…Then, the genome of phage vB_EliS-L02 was mapped to the Global Ocean Viromes data set (GOV2.0), and five viral ecological zones (VEZs) were defined, including Arctic (ARC), Antarctic (ANT), bathypelagic (BATHY), temperate and tropical epipelagic (EPI), and temperate and tropical mesopelagic (MES), as per a previous study ( Figure 6 ; Wang et al, 2021 ). The number of databases for each ecological environment was normalized before RPKM calculation.…”

Section: Resultsmentioning

confidence: 99%

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The First Cbk-Like Phage Infecting Erythrobacter, Representing a Novel Siphoviral Genus

Guo

Zou

et al. 2022

Front. Microbiol.

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Erythrobacter is an important and widespread bacterial genus in the ocean. However, our knowledge about their phages is still rare. Here, a novel lytic phage vB_EliS-L02, infecting Erythrobacter litoralis DSM 8509, was isolated and purified from Sanggou Bay seawater, China. Morphological observation revealed that the phage belonged to Cbk-like siphovirus, with a long prolate head and a long tail. The host range test showed that phage vB_EliS-L02 could only infect a few strains of Erythrobacter, demonstrating its potential narrow-host range. The genome size of vB_EliS-L02 was 150,063 bp with a G+C content of 59.43%, encoding 231 putative open reading frames (ORFs), but only 47 were predicted to be functional domains. Fourteen auxiliary metabolic genes were identified, including phoH that may confer vB_EliS-L02 the advantage of regulating phosphate uptake and metabolism under a phosphate-limiting condition. Genomic and phylogenetic analyses indicated that vB_EliS-L02 was most closely related to the genus Lacusarxvirus with low similarity (shared genes < 30%, and average nucleotide sequence identity < 70%), distantly from other reported phages, and could be grouped into a novel viral genus cluster, in this study as Eliscbkvirus. Meanwhile, the genus Eliscbkvirus and Lacusarxvirus stand out from other siphoviral genera and could represent a novel subfamily within Siphoviridae, named Dolichocephalovirinae-II. Being a representative of an understudied viral group with manifold adaptations to the host, phage vB_EliS-L02 could improve our understanding of the virus–host interactions and provide reference information for viral metagenomic analysis in the ocean.

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Section: Resultssupporting

confidence: 90%

Section: Resultsmentioning

confidence: 99%

The First Cbk-Like Phage Infecting Erythrobacter, Representing a Novel Siphoviral Genus

Guo

Zou

et al. 2022

Front. Microbiol.

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“…In this study, we report the isolation and complete genome sequence of a filamentous phage designated ϕAFP1 from the South China Sea using the A. abrolhosensis strain JKT1 as the host bacterium. Until now, only ten published reports about bacteriophages isolated from Alteromonas are available, including Corticoviridae phage PM2 (50), five Siphoviridae phages PB15, JH01, P24, XX1924, and R7M (30, 51–53), Myoviridae phage V22 (54), Podoviridiae phages altaD45 P1 to P4 (55), Autographiviridae phages H4/4’ (56) and R8W (57), and Mareflavirus phage ZP6 (58). Different from the above phages, ϕAFP1 consisted of flexible filament (width=10 nm, length=900 nm), suggesting that this phage was a member of the family Inoviridae .…”

Section: Discussionmentioning

confidence: 99%

“…Siphoviridae phages PB15, JH01, P24, XX1924, and R7M (30,(51)(52)(53), Myoviridae phage V22 (54), Podoviridiae phages altaD45 P1 to P4 (55), Autographiviridae phages H4/4' (56) and R8W (57), and Mareflavirus phage ZP6 (58). Different from the above phages, ϕAFP1 consisted of flexible filament (width=10 nm, length=900 nm), suggesting that this phage was a member of the family Inoviridae.…”

Section: Discussionmentioning

confidence: 99%

A novel inovirus reprograms metabolism and motility of marine Alteromonas

Peng

Chen

Jian

et al. 2022

Preprint

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Members from the Inoviridae family with striking features are widespread, highly diverse and ecologically pervasive across multiple hosts and environments; however, very small amount of inoviruses have been isolated and studied. Here, a filamentous phage infecting Alteromonas abrolhosensis, designated ΦAFP1, was isolated from the South China Sea and represented as a novel genus of Inoviridae. ΦAFP1 consisted of a single-stranded DNA genome (5986 bp), encoding eight putative ORFs. Comparative analyses revealed ΦAFP1 could be regarded as genetic mosaics, which especially came from Ralstonia and Stenotrophomonas phages. The temporal transcriptome analysis of A. abrolhosensis to ΦAFP1 infectionreveals that 7.78% of the host genes were differentially expressed. The genes involved in translation processes, ribosome pathways and degradation of multiple amino acid pathways at plateau period were upregulated, while host material catabolic and bacterial motility-related genes were downregulated, indicating that ΦAFP1 might hijack the energy of the host for the synthesis of phage proteins. ΦAFP1 exerted the step-by-step control on host genes through the appropriate level of the utilizing host resources, affirming a new non-standard regulatory strategy of viral temperately control over the host transcriptional profile. Our study provides novel information for a better understanding of filamentous phage characteristics and phage-host interactions.

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“…The currently known alterophages, including seven podophages, five siphophages, one myophage, and one filamentous phage, were isolated from the Mediterranean Sea, the coastal and offshore waters of China, and the North Sea ( 13 – 21 ). The infection strategies and biogeographic patterns of marine phages are closely related to their host range and burst size.…”

Section: Introductionmentioning

confidence: 99%

A Novel Alteromonas Phage Lineage with a Broad Host Range and Small Burst Size

Yang

et al. 2022

Microbiol Spectr

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The marine bacterium Alteromonas is prevalent in the global ocean with crucial ecological significance; however, little is known about the diversity and evolution of its bacteriophages that profoundly affect the bacterial communities. Our study characterized a novel genus of three newly isolated Alteromonas phages that exhibited a distinct infection strategy of broad host spectrum and small burst size.

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Genome and Ecology of a NovelAlteromonasPodovirus, ZP6, Representing a New Viral Genus,Mareflavirus

Cited by 16 publications

References 106 publications

The First Cbk-Like Phage Infecting Erythrobacter, Representing a Novel Siphoviral Genus

The First Cbk-Like Phage Infecting Erythrobacter, Representing a Novel Siphoviral Genus

A novel inovirus reprograms metabolism and motility of marine Alteromonas

A Novel Alteromonas Phage Lineage with a Broad Host Range and Small Burst Size

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