Novel psychropiezophilic oceanospirillales species profundimonas piezophila gen. nov., sp. nov. isolated from the deep-sea environment of the puerto rico trench
Open accessAbstract
The diversity of deep-sea high-pressure-adapted (piezophilic) microbes in isolated monoculture remains low. In this study, a novel obligately psychropiezophilic bacterium was isolated from seawater collected from the Puerto Rico Trench at a depth of ∼6,000 m. This isolate, designated YC-1, grew best in a nutrient-rich marine medium, with an optimal growth hydrostatic pressure of 50 MPa (range, 20 to 70 MPa) at 8°C. Under these conditions, the maximum growth rate was extremely slow, 0.017 h(-1), and the maximum yield was 3.51 × 10(7) cells ml(-1). Cell size and shape changed with pressure, shifting from 4.0 to 5.0 μm in length and 0.5 to 0.8 μm in width at 60 MPa to 0.8- to 1.0-μm diameter coccoid cells under 20 MPa, the minimal pressure required for growth. YC-1 is a Gram-negative, facultatively anaerobic heterotroph. Its predominant cellular fatty acids are the monounsaturated fatty acids (MUFAs) C16:1 and C18:1. Unlike many other psychropiezophiles, YC-1 does not synthesize any polyunsaturated fatty acids (PUFAs). Phylogenetic analysis placed YC-1 within the family of Oceanospirillaceae, closely related to the uncultured symbiont of the deep-sea whale bone-eating worms of the genus Osedax. In common with some other members of the Oceanospirillales, including those enriched during the Deepwater Horizon oil spill, YC-1 is capable of hydrocarbon utilization. On the basis of its characteristics, YC-1 appears to represent both a new genus and a new species, which we name Profundimonas piezophila gen. nov., sp. nov.
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Profundimonas and Marinobacterium are both aerobic Gammaproteobacteria isolated from seawater samples.
“The most abundant genera were Profundimonas and Marinobacterium which are both aerobic Gammaproteobacteria isolated from seawater samples (González et al., 1997; Cao et al., 2014).”
From Potential lineage transmission within the active microbiota of the eggs and the nauplii of the shrimp <i>Litopenaeus stylirostris</i> : possible influence of the rearing water and more (2021) · cites this paper as Cao et al., 2014
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
Basic local alignment search tool
Altschul, S. F., Gish, W., Miller, W., Myers, E. W., & Lipman, D. J. (1990) · Journal of Molecular Biology · doi:10.1006/jmbi.1990.9999 · Cited by 98,669 · see citing works
PHYLIP-Phylogeny inference package (Version 3.2)
Felsenstein, J. (1989) · Cladistics · Cited by 17,848 · see citing works
Nucleic acid techniques in bacterial systematics
Stackebrandt, E., & Goodfellow, M. (1991) · Wiley eBooks · Cited by 9,494 · see citing works
ARB: a software environment for sequence data
Ludwig, W. (2004) · Nucleic Acids Research · doi:10.1093/nar/gkh293 · Cited by 6,649 · see citing works
Identification of bacteria by gas chromatography of cellular fatty acids
Sasser, M. (1990) · Medical Entomology and Zoology · Cited by 6,161 · see citing works
FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix
Price, M. N., Dehal, P. S., & Arkin, A. P. (2009) · Molecular Biology and Evolution · doi:10.1093/molbev/msp077 · Cited by 5,602 · see citing works
(1996) · Institutional Research Information System University of Turin (University of Turin) · doi:10.1111/j · Cited by 5,486 · see citing works
Determination of DNA base composition by reversed-phase high-performance liquid chromatography
Támaoka, J., & Komagata, K. (1984) · FEMS Microbiology Letters · doi:10.1111/j.1574-6968.1984.tb01388.x · Cited by 2,420 · see citing works
Identification of Enterobacteriaceae.
Edwards, P. R., & Ewing, W. H. (1972) · Andalas University Repository (Andalas University) · Cited by 2,019 · see citing works
Preparation of transforming deoxyribonucleic acid by phenol treatment
Saito, H., & Miura, K. (1963) · Biochimica et Biophysica Acta (BBA) - Specialized Section on Nucleic Acids and Related Subjects · doi:10.1016/0926-6550(63)90386-4 · Cited by 1,814 · see citing works
Hugh, R., & Leifson, E. (1953) · Journal of Bacteriology · doi:10.1128/jb.66.1.24-26.1953 · Cited by 1,665 · see citing works
Deep-Sea Oil Plume Enriches Indigenous Oil-Degrading Bacteria
Hazen, T. C., Dubinsky, E. A., DeSantis, T. Z., Andersen, G. L., Piceno, Y. M., Singh, N., Jansson, J. K., Probst, A. J., Borglin, S. E., Fortney, J. L., et al. (2010) · Science · doi:10.1126/science.1195979 · Cited by 1,231 · see citing works
Mason, O. U., Hazen, T. C., Borglin, S. E., Chain, P., Dubinsky, E. A., Fortney, J. L., Han, J., Holman, H. N., Hultman, J., Lamendella, R., et al. (2012) · The ISME Journal · doi:10.1038/ismej.2012.59 · Cited by 577 · see citing works
Pressure effects on in vivo microbial processes
Bartlett, D. H. (2002) · Biochimica et Biophysica Acta (BBA) - Protein Structure and Molecular Enzymology · doi:10.1016/s0167-4838(01)00357-0 · Cited by 464 · see citing works
Self-citationOsedax : Bone-Eating Marine Worms with Dwarf Males
Rouse, G. W., Goffredi, S. K., & Vrijenhoek, R. C. (2004) · Science · doi:10.1126/science.1098650 · Cited by 388 · see citing works
Deep‐sea bacteria enriched by oil and dispersant from the Deepwater Horizon spill
Bælum, J., Borglin, S. E., Chakraborty, R., et al. (2012) · Environmental Microbiology · doi:10.1111/j.1462-2920.2012.02780.x · Cited by 278 · see citing works
Hedlund, B. P., Geiselbrecht, A. D., Bair, T. J., & Staley, J. T. (1999) · Applied and Environmental Microbiology · doi:10.1128/aem.65.1.251-259.1999 · Cited by 277 · see citing works
Allen, E. E., Facciotti, D., & Bartlett, D. H. (1999) · Applied and Environmental Microbiology · doi:10.1128/aem.65.4.1710-1720.1999 · Cited by 240 · see citing works
Self-citationAbe, F. (2007) · Bioscience Biotechnology and Biochemistry · doi:10.1271/bbb.70015 · Cited by 199 · see citing works
Obligately barophilic bacterium from the Mariana trench.
Yayanos, A. A., Dietz, A. S., & Boxtel, R. V. (1981) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.78.8.5212 · Cited by 191 · see citing works
Evolutionary relationships of cultivated psychrophilic and barophilic deep-sea bacteria
DeLong, E. F., Franks, D. G., & Yayanos, A. A. (1997) · Applied and Environmental Microbiology · doi:10.1128/aem.63.5.2105-2108.1997 · Cited by 191 · see citing works
The Unique 16S rRNA Genes of Piezophiles Reflect both Phylogeny and Adaptation
Lauro, F. M., Chastain, R. A., Blankenship, L. E., Yayanos, A. A., & Bartlett, D. H. (2006) · Applied and Environmental Microbiology · doi:10.1128/aem.01726-06 · Cited by 174 · see citing works
Self-citationEvolutionary innovation: a bone‐eating marine symbiosis
Goffredi, S. K., Orphan, V. J., Rouse, G. W., Jahnke, L. L., Embaye, T., Turk, K. A., Lee, R., & Vrijenhoek, R. C. (2005) · Environmental Microbiology · doi:10.1111/j.1462-2920.2005.00824.x · Cited by 166 · see citing works
Goffredi, S. K., Johnson, S. B., & Vrijenhoek, R. C. (2007) · Applied and Environmental Microbiology · doi:10.1128/aem.01986-06 · Cited by 133 · see citing works
High-Pressure Biochemistry and Biophysics
Meersman, F., Daniel, I., Bartlett, D. H., Winter, R., Hazael, R., & McMillan, P. F. (2013) · Reviews in Mineralogy and Geochemistry · doi:10.2138/rmg.2013.75.19 · Cited by 124 · see citing works
Self-citationNogi, Y., Hosoya, S., Kato, C., et al. (2004) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.03049-0 · Cited by 117 · see citing works
Self-citationNogi, Y., & Kato, C. (1999) · Extremophiles · doi:10.1007/s007920050101 · Cited by 115 · see citing works
Self-citationFILAMENT FORMATION BY ESCHERICHIA COLI AT INCREASED HYDROSTATIC PRESSURES
ZoBell, C. E., & Cobet, A. B. (1964) · Journal of Bacteriology · doi:10.1128/jb.87.3.710-719.1964 · Cited by 110 · see citing works
Lauro, F. M., Tran, K. T., Vezzi, A., Vitulo, N., Valle, G., & Bartlett, D. H. (2007) · Journal of Bacteriology · doi:10.1128/jb.01176-07 · Cited by 93 · see citing works
Self-citationDiChristina, T. J., & DeLong, E. F. (1994) · Journal of Bacteriology · doi:10.1128/jb.176.5.1468-1474.1994 · Cited by 74 · see citing works
Usui, K., Hiraki, T., Kawamoto, J., Kurihara, T., Nogi, Y., Kato, C., & Abe, F. (2011) · Biochimica et Biophysica Acta (BBA) - Biomembranes · doi:10.1016/j.bbamem.2011.10.010 · Cited by 74 · see citing works
Self-citationSpawning and development in Osedax boneworms (Siboglinidae, Annelida)
Rouse, G. W., Wilson, N. G., Goffredi, S. K., Johnson, S. B., Smart, T. I., Widmer, C. L., Young, C. M., & Vrijenhoek, R. C. (2008) · Marine Biology · doi:10.1007/s00227-008-1091-z · Cited by 60 · see citing works
Verna, C., Ramette, A., Wiklund, H., Dahlgren, T. G., Glover, A. G., Gaill, F., & Dubilier, N. (2010) · Environmental Microbiology · doi:10.1111/j.1462-2920.2010.02299.x · Cited by 58 · see citing works
How to get into bones: proton pump and carbonic anhydrase inOsedaxboneworms
Tresguerres, M., Katz, S., & Rouse, G. W. (2013) · Proceedings of the Royal Society B Biological Sciences · doi:10.1098/rspb.2013.0625 · Cited by 58 · see citing works
Bartlett, D. H. (2000) · Time to knit · doi:10.1016/0967-0653(95)91656-3 · Cited by 58 · see citing works
Self-citationIsolation and Characterization of a Psychropiezophilic Alphaproteobacterium
Eloe, E. A., Malfatti, F., Gutiérrez, J., et al. (2011) · Applied and Environmental Microbiology · doi:10.1128/aem.05204-11 · Cited by 54 · see citing works
Self-citationSilica gel media for isolating and studying bacteria under hydrostatic pressure
Dietz, A. S., & Yayanos, A. A. (1978) · Applied and Environmental Microbiology · doi:10.1128/aem.36.6.966-968.1978 · Cited by 49 · see citing works
Miyazaki, M., Nogi, Y., Fujiwara, Y., et al. (2008) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.65509-0 · Cited by 39 · see citing works
Self-citationKawamoto, J., Sato, T., Nakasone, K., et al. (2011) · Environmental Microbiology · doi:10.1111/j.1462-2920.2011.02487.x · Cited by 35 · see citing works
The Osedax Trophosome: Organization and Ultrastructure
Katz, S., Klepal, W., & Bright, M. (2011) · Biological Bulletin · doi:10.1086/bblv220n2p128 · Cited by 29 · see citing works
Neptunomonas antarctica sp. nov., isolated from marine sediment
Zhang, X., Zhang, Y., Yu, Y., et al. (2009) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.017756-0 · Cited by 24 · see citing works
Salathé, R. M., & Vrijenhoek, R. C. (2012) · BMC Evolutionary Biology · doi:10.1186/1471-2148-12-189 · Cited by 19 · see citing works
Lee, H., Shin, N., Lee, J., et al. (2011) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.037473-0 · Cited by 16 · see citing works
Barbero (2014) · doi:10.1016/j · Cited by 1 · see citing works
Flagged first, then by citations
Research works printed but not linked: 1
- [25]25. Baumann P, Baumann L. 1979. The marine gram-negative eubacteria: genera Photobacterium , Beneckea , Alteromonas , Pseudomonas and Alcaligenes , p 1302-1331. In Starr MP, Stolp H, Truper HG, Balows A, Schlegel HH(ed), The prokaryotes. Springer-Verlag, New York, NY.
Cited by
Sorted by citations
Giraud, C., Callac, N., Beauvais, M., Mailliez, J.-R., Ansquer, D., Selmaoui-Folcher, N., Pham, D., Wabete, N., & Boulo, V. (2021) · PeerJ · doi:10.7717/peerj.12241 · Cited by 23 · see citing works
- Authors
- Cao, Y., Chastain, R. A., Eloe, E. A., Nogi, Y., Kato, C., & Bartlett, D. H.
- Affiliations
- Scripps Institution of Oceanography (US)
- Japan Agency for Marine-Earth Science and Technology (JP)
- Venue
- Applied and Environmental Microbiology
- Publisher
- American Society for Microbiology
- Published
- 2014-01
- Volume
- 80
- Issue
- 1
- Pages
- 54-60
- ISSN
- 0099-2240 (ISSN-L)
- 1098-5336
- PMC
- PMC3911031
- OpenAlex
- W1974189786
- Cited by
- 43
- References
- 44
- Citations by year
- 2026: 1 · 2025: 3 · 2024: 2 · 2023: 3 · 2022: 1 · 2021: 7 · 2020: 3 · 2019: 5 · 2018: 8 · 2017: 4 · 2016: 3 · 2015: 3
- FWCI
- 1.76
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Applied and Environmental Microbiology (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Institutional Repositories DataBase (IRDB) (submittedVersion, cc-by-nc-nd)
- Funders
- National Science Foundation (0827051, 0801973)
- Topics
- Physical Sciences › Environmental Science › Ecology › Microbial Community Ecology and Physiology
- Physical Sciences › Environmental Science › Ecology › Polar Research and Ecology
- Physical Sciences › Earth and Planetary Sciences › Oceanography › Marine Biology and Ecology Research
- Keywords
- novel bacterial genus, novel bacterial species, deep-sea bacteria, Puerto Rico Trench, monounsaturated fatty acids, hydrocarbon utilization, Deepwater Horizon oil spill
- MeSH terms
- DNA, Bacterial, DNA, Ribosomal, Fatty Acids, Hydrostatic Pressure, Molecular Sequence Data, Phylogeny, Puerto Rico, RNA, Ribosomal, 16S, Seawater, Temperature, Cluster Analysis, Sequence Analysis, DNA, Oceanospirillaceae
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
