Fulvivirga aurantia sp. nov. and Xanthovirga aplysinae gen. nov., sp. nov., marine bacteria isolated from the sponge Aplysina fistularis, and emended description of the genus Fulvivirga

Goldberg, Stacey R.; Correa, Hebelin; Haltli, Brad; Kerr, Russell G.

doi:10.1099/ijsem.0.004108

Cited by 27 publications

(35 citation statements)

References 89 publications

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“…In contrast, an NCBI BLAST analysis of the ASV that was 88% similar to any culture in the SILVA database (Fig. 3) revealed 99.6% sequence similarity to the recently cultured sponge microbe Xanthovirga aplysinae (Goldberg et al ., 2020) (Table S2). While 10 ASVs shared <95% sequence similarity to cultured strains in the SILVA database, subsequent NCBI BLAST analysis revealed that seven ASVs had >95% similarity to recent isolates from marine sources such as holothurians and corals (Table S2).…”

Section: Resultsmentioning

confidence: 99%

Microbial diversity in tropical marine sediments assessed using culture‐dependent and culture‐independent techniques

Demko

Patin

Jensen

2021

Environmental Microbiology

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Summary The microbial communities associated with marine sediments are critical for ecosystem function yet remain poorly characterized. While culture‐independent (CI) techniques capture the broadest perspective on community composition, culture‐dependent (CD) methods can select for low abundance taxa that are missed using CI approaches. This study aimed to assess microbial diversity in tropical marine sediments at five shallow‐water sites in Belize using both CD and CI techniques. The CD methods captured approximately 3% of the >800 genera detected across all sites using the CI approach. Additionally, 39 genera were only detected in culture, revealing rare taxa that were missed with the CI approach. Significantly different communities were detected across sites, with rare taxa playing an important role in distinguishing among communities. This study provides important baseline data describing shallow‐water sediment microbial communities, evidence that standard cultivation techniques may be more effective than previously recognized, and the first steps towards identifying new taxa that are amenable to agar plate cultivation.

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Section: Resultsmentioning

confidence: 99%

Microbial diversity in tropical marine sediments assessed using culture‐dependent and culture‐independent techniques

Demko

Patin

Jensen

2021

Environmental Microbiology

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“…When that ASV was assessed with the NCBI BLAST database, the most similar sequence was a Muribaculaceae bacterium with ~85% sequence similarity originally isolated from a pig gut. The other ASV from CD samples that was <90% similar to any culture in the SILVA database, matched with a recently cultured sponge microbe called Xanthovirga aplysinae (99.6% similar) (Goldberg et al, 2020). There were also a handful of sequences between 90-95% similar to cultured sequences.…”

Section: Methods Comparisonsmentioning

confidence: 84%

“…Given the recent description of this genus, isolated with traditional methods on MA (Goldberg et al, 2020), it is likely that continued culturing efforts in underexplored environments will yield novel diversity. It is also possible that our threshold for defining culturability was not stringent enough due to differences between sample and control sediments, in which case further efforts should focus on taxa that were detected in relatively higher abundances across multiple cultures.…”

Section: Discussionmentioning

confidence: 99%

Microbial diversity in tropical marine sediments assessed using culture-dependent and culture-independent techniques

Demko

Patin

Jensen

2021

Preprint

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The microbial communities associated with marine sediments are critical for ecosystem function yet remain poorly characterized. While culture-independent (CI) approaches capture the broadest perspective on community composition, culture-dependent (CD) methods can capture low abundance taxa that are missed using CI approaches. The aim of this study was to assess microbial diversity in tropical marine sediments collected from five shallow water sites in Belize using both CD and CI approaches. CD methods captured approximately 3% of the >800 genera detected across the five sites. Additionally, 39 genera were only detected using CD approaches revealing rare taxa that were missed with the CI approach. Significantly different communities were detected across sites, with rare taxa playing an important role in the delineation of sediment communities. This study provides important baseline data describing shallow water sediment microbial communities and evidence that standard cultivation techniques may be more effective than previously recognized.

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“…Growth under anaerobic conditions was tested on MA in an anaerobic chamber at 30 • C using the Anaerocult A system, following the manufacturer's instructions. Motility was determined using the wet mount slide and hanging drop methods [18]. Growth at different temperatures (4,15,20,25,30,37,44 • C) was determined on MA medium.…”

Section: Morphological Cultural and Physiological Characterizationmentioning

confidence: 99%

“…for the second dimension. Various reagents were used for detection of polar lipids with differing functional groups [18]. The first plate was stained with phosphomolybdic acid to detect all polar lipids.…”

Section: Chemotaxonomymentioning

confidence: 99%

Alteriqipengyuania abyssalis sp. nov., a Novel Member of the Class Alphaproteobacteria Isolated from Sponge, and Emended Description of the Genus Alteriqipengyuania

et al. 2021

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A novel Gram-negative, aerobic, motile, lemon-yellow-colored, and non-spore-forming rod-shaped bacterium designated strain NZ-12BT was isolated in February 2021 from a sponge species (Crateromorpha) collected at the southern Kermadec Ridge, Pacific Ocean, New Zealand. Comparative 16S rRNA gene-based analyses indicated that strain NZ-12BT shared 98.58%, 96.44%, 96.23%, and 94.78% 16S rRNA sequence similarity to Alteriqipengyuania lutimaris S-5T, Qipengyuania pelagi UST081027-248T, Qipengyuania citreus RE35F/1T, and Alteriqipengyuania halimionae CPA5T, respectively. The major respiratory quinone was ubiquinone-10(Q-10). The polar lipid profile of NZ-12BT was composed of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidyl-N-methyl-ethanolamine, phosphatidylcholine, sphingoglycolipid, phosphatidylglycerol, one unknown polar lipid, three unknown phospholipids, and three unknown glycolipids. The major fatty acids of strain NZ-12BT were C18:1ω12t, C16:0, C17:1ω6c, and C14:02-OH. Carotenoids were present. Genome mining analysis revealed a biosynthetic gene cluster encoding for the terpene biosynthesis. Pairwise ANI and dDDH values of strain NZ-12BT and closely related phylogenetic neighbors were below the threshold values of 95% and 70%, respectively. The DNA G+C content was 65.4 mol% (by genome). Based on data obtained by a polyphasic approach, type strain NZ-12BT (=DSM 112810T = NCCB 100841T) represents a novel species of the genus Alteriqipengyuania, for which the name Alteriqipengyuania abyssalis sp. nov. is proposed.

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Fulvivirga aurantia sp. nov. and Xanthovirga aplysinae gen. nov., sp. nov., marine bacteria isolated from the sponge Aplysina fistularis, and emended description of the genus Fulvivirga

Cited by 27 publications

References 89 publications

Microbial diversity in tropical marine sediments assessed using culture‐dependent and culture‐independent techniques

Microbial diversity in tropical marine sediments assessed using culture‐dependent and culture‐independent techniques

Microbial diversity in tropical marine sediments assessed using culture-dependent and culture-independent techniques

Alteriqipengyuania abyssalis sp. nov., a Novel Member of the Class Alphaproteobacteria Isolated from Sponge, and Emended Description of the Genus Alteriqipengyuania

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