Draft Genome Sequence of the Putative Marine Pathogen Aquimarina sp. Strain I32.4

Ranson, Hilary J.; LaPorte, Jason; Spinard, Edward; Chistoserdov, Andrei Y.; Gomez‐Chiarri, Marta; Nelson, David R.; Rowley, David C.

doi:10.1128/genomea.00313-18

Cited by 8 publications

(15 citation statements)

References 9 publications

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“…S1). The tree suggests closest affiliation of reported pathogenic strains I32.4 [lobster, (Quinn et al ., ; Ranson et al ., )], AD1 and BL5 [red alga, (Kumar et al ., )] to A. macrocephali , A. latercula/versatilis and A. amphilecti , respectively (Supporting Information Fig. S1).…”

Section: Resultsmentioning

confidence: 99%

“…Strain Aq349 is the source of the recently described trans ‐AT polyketide cuniculene (Helfrich et al ., ). Other notable strains analysed in this study are the above‐mentioned ESD causing agent strain I32.4 (Quinn et al ., ; Ranson et al ., ) and macroalgal bleaching agents Aquimarina sp. AD1 and BL5 (Kumar et al ., ).…”

Section: Methodsmentioning

confidence: 97%

“…This finding indicated possible cytotoxic capacities for an otherwise unsuspected bacterial taxon given its placement in the Bacteroidetes phylum, most renowned for its role in carbon cycling and whose genomes had been considered to present low numbers of PKS and non‐ribosomal peptide synthetase (NRPS)‐encoding genes (Donadio et al ., ). In recent years, the presence of such genes is being consistently detected in different Aquimarina strains via genome sequencing (Keller‐Costa et al ., ; Ranson et al ., ; Hudson et al ., ). Moreover, structure elucidation of cuniculene, the first trans ‐AT polyketide ever reported from Aquimarina , has just been achieved (Helfrich et al ., ).…”

Section: Introductionmentioning

confidence: 97%

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Comparative genomics reveals complex natural product biosynthesis capacities and carbon metabolism across host‐associated and free‐living Aquimarina (Bacteroidetes, Flavobacteriaceae) species

Silva

Blom

Keller‐Costa

et al. 2019

Environmental Microbiology

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Summary This study determines the natural product biosynthesis and full coding potential within the bacterial genus Aquimarina. Using comprehensive phylogenomics and functional genomics, we reveal that phylogeny instead of isolation source [host‐associated (HA) vs. free‐living (FL) habitats] primarily shape the inferred metabolism of Aquimarina species. These can be coherently organized into three major functional clusters, each presenting distinct natural product biosynthesis profiles suggesting that evolutionary trajectories strongly underpin their secondary metabolite repertoire and presumed bioactivities. Aquimarina spp. are highly versatile bacteria equipped to colonize HA and FL microniches, eventually displaying opportunistic behaviour, owing to their shared ability to produce multiple glycoside hydrolases from diverse families. We furthermore uncover previously underestimated, and highly complex secondary metabolism for the genus by detecting 928 biosynthetic gene clusters (BGCs) across all genomes, grouped in 439 BGC families, with polyketide synthases (PKSs), terpene synthases and non‐ribosomal peptide synthetases (NRPSs) ranking as the most frequent BGCs encoding drug‐like candidates. We demonstrate that the recently described cuniculene (trans‐AT PKS) BGC is conserved among, and specific to, the here delineated A. megaterium‐macrocephali‐atlantica phylogenomic clade. Our findings provide a timely and in‐depth perspective of an under‐explored yet emerging keystone taxon in the cycling of organic matter and secondary metabolite production in marine ecosystems.

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Section: Resultsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 97%

Section: Introductionmentioning

confidence: 97%

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Comparative genomics reveals complex natural product biosynthesis capacities and carbon metabolism across host‐associated and free‐living Aquimarina (Bacteroidetes, Flavobacteriaceae) species

Silva

Blom

Keller‐Costa

et al. 2019

Environmental Microbiology

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“…Multiple genes encoding chitinases were detected in Aquimarina sp. TRL1, and this feature is common among members of Aquimarina recovered from S. serrata ( Midorikawa et al, 2020 ), H. americanus ( Ranson et al, 2018 ), and seawater ( Xu et al, 2015 ). Encoded genes for haemolysin, metalloprotease, and iron uptake mechanisms were also described as virulence factors for Aquimarina sp.…”

Section: Discussionmentioning

confidence: 95%

“…Another closely related bacterium, Aquimarina hainanensis was implicated in the mortalities in larvae of Pacific white shrimp Litopenaeus vannamei ( Zheng et al, 2016 ) and mud crab Scylla serrata ( Midorikawa et al, 2020 ). Chitinolytic virulence factors are common to bacteria that cause shell disease, and both A. macrocephali and A. hainanensis have demonstrated capacity for exoskeletal chitin degradation through chitin hydrolysis assays and analysis of genomes for chitinase-encoding genes ( Ranson et al, 2018 ; Midorikawa et al, 2020 ).…”

Section: Introductionmentioning

confidence: 99%

Aquimarina sp. Associated With a Cuticular Disease of Cultured Larval Palinurid and Scyllarid Lobsters

et al. 2020

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Shell (cuticular) disease manifests in various forms and affects many crustaceans, including lobsters. Outbreaks of white leg disease (WLD) with distinct signs of pereiopod tissue whitening and death have been observed in cultured larvae (phyllosomas) of ornate spiny lobster Panulirus ornatus , eastern rock lobster Sagmariasus verreauxi , and slipper lobster Thenus australiensis . This study aimed to characterise and identify the causative agent of WLD through morphological and molecular (16S rRNA gene and whole genome sequencing) analysis, experimental infection of damaged/undamaged P. ornatus and T. australiensis phyllosomas, and bacterial community analysis (16S rRNA gene amplicon sequencing) of P. ornatus phyllosomas presenting with WLD during an outbreak. Bacterial communities of WLD-affected pereiopods showed low bacterial diversity and dominant abundance of Aquimarina spp. compared to healthy pereiopods, which were more diverse and enriched with Sulfitobacter spp. 16S rRNA gene Sanger sequencing of cultures from disease outbreaks identified the dominant bacterial isolate (TRL1) as a Gram-negative, long non-flagellated rod with 100% sequence identity to Aquimarina hainanensis . Aquimarina sp. TRL1 was demonstrated through comparative genome analysis (99.99% OrthoANIu) as the bacterium reisolated from experimentally infected phyllosomas presenting with typical signs of WLD. Pereiopod damage was a major predisposing factor to WLD. Histopathological examination of WLD-affected pereiopods showed masses of internalised bacteria and loss of structural integrity, suggesting that Aquimarina sp. TRL1 could enter the circulatory system and cause death by septicaemia. Aquimarina sp. TRL1 appears to have important genomic traits (e.g., tissue-degrading enzymes, gliding motility, and aggregate-promoting factors) implicated in the pathogenicity of this bacterium. We have shown that Aquimarina sp. TRL1 is the aetiological agent of WLD in cultured Palinurid and Scyllarid phyllosomas and that damaged pereiopods are a predisposing factor to WLD.

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Characterization of a gill-abundant crustin with microbiota modulating function in Litopenaeus vannamei

et al. 2020

Fish & Shellfish Immunology

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Draft Genome Sequence of the Putative Marine Pathogen Aquimarina sp. Strain I32.4

Cited by 8 publications

References 9 publications

Comparative genomics reveals complex natural product biosynthesis capacities and carbon metabolism across host‐associated and free‐living Aquimarina (Bacteroidetes, Flavobacteriaceae) species

Comparative genomics reveals complex natural product biosynthesis capacities and carbon metabolism across host‐associated and free‐living Aquimarina (Bacteroidetes, Flavobacteriaceae) species

Aquimarina sp. Associated With a Cuticular Disease of Cultured Larval Palinurid and Scyllarid Lobsters

Characterization of a gill-abundant crustin with microbiota modulating function in Litopenaeus vannamei

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