The DOI matches its Crossref record; 14 of the 14 references it cites were found in a registry or an index.
Origin, dynamics, and implications of extracellular DNA pools in marine sediments
Open accessAbstract
In marine sediments, DNA occurs both inside and outside living organisms. DNA not enclosed in living cells may account for the largest fraction of total DNA, and include molecules locked within dead cells, organic and inorganic aggregates, adsorbed onto mineral matrices, and viral DNA. This DNA comprises genetic material released in situ from sediment microbial communities, as well as DNA of pelagic and terrestrial origin deposited to the seafloor. DNA not enclosed in living cells undermines the assumption of a direct link between the overall DNA pool and the local, currently living microbial assemblages, in terms of both microbial cell abundance and diversity. At the same time, the extracellular DNA may provide an integrated view of the biodiversity and ecological processes occurring on land, in marine water columns, and sediments themselves, thereby acting as an archive of genetic information which can be used to reconstruct past changes in source environments. In this review, we identify and discuss DNA pools in marine sediments, with special focus on DNA not enclosed in living cells, its origin, dynamics, and ecological and methodological implications. Achievements in deciphering the genetic information held within each DNA pool are presented along with still-standing challenges and major gaps in current knowledge.
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Citations
Cites
Instability and decay of the primary structure of DNA
Lindahl, T. (1993) · Nature · doi:10.1038/362709a0 · Cited by 5,679
Prokaryotes: The unseen majority
Whitman, W. B., Coleman, D. C., & Wiebe, W. J. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.12.6578 · Cited by 4,871 · cited 2×
“On one hand, sediments host abundant microbial populations (Kallmeyer et al., 2012;Whitman et al., 1998) that represent the source of the autochthonous (i.”
BackgroundLauber, C. L., Hamady, M., Knight, R., & Fierer, N. (2009) · Applied and Environmental Microbiology · doi:10.1128/aem.00335-09 · Cited by 4,063
Insertion of specific bases during DNA synthesis past the oxidation-damaged base 8-oxodG
Shibutani, S., Takeshita, M., & Grollman, A. P. (1991) · Nature · doi:10.1038/349431a0 · Cited by 2,224
mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters
Jónsson, H., Ginolhac, A., Schubert, M., Johnson, P. L. F., & Orlando, L. (2013) · Bioinformatics · doi:10.1093/bioinformatics/btt193 · Cited by 1,669
Global distribution of microbial abundance and biomass in subseafloor sediment
Kallmeyer, J., Pockalny, R., Adhikari, R. R., Smith, D. C., & D’Hondt, S. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1203849109 · Cited by 956 · cited 2×
“On one hand, sediments host abundant microbial populations (Kallmeyer et al., 2012;Whitman et al., 1998) that represent the source of the autochthonous (i.”
BackgroundBlazewicz, S. J., Barnard, R. L., Daly, R. A., & Firestone, M. K. (2013) · The ISME Journal · doi:10.1038/ismej.2013.102 · Cited by 878
Hofreiter, M. (2001) · Nucleic Acids Research · doi:10.1093/nar/29.23.4793 · Cited by 684
Feast and famine–Microbial life in the deep-sea bed
Jørgensen, B. B., & Boetius, A. (2007) · Nature Reviews Microbiology · doi:10.1038/nrmicro1745 · Cited by 671
Self-citationOivanen, M., Kuusela, S., & Lönnberg, H. (1998) · Chemical Reviews · doi:10.1021/cr960425x · Cited by 438
mapDamage: testing for damage patterns in ancient DNA sequences
Ginolhac, A., Rasmussen, M., Gilbert, M. T. P., Willerslev, E., & Orlando, L. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr347 · Cited by 363
Role of extracellular DNA in initial bacterial adhesion and surface aggregation
Das, T., Sharma, P. K., Busscher, H. J., van der Mei, H. C., & Krom, B. P. (2010) · Applied and Environmental Microbiology · doi:10.1128/aem.03119-09 · Cited by 326
Ancient biomolecules: Their origins, fossilization, and role in revealing the history of life
Briggs, D. E. G., & Summons, R. E. (2014) · BioEssays · doi:10.1002/bies.201400010 · Cited by 223
Heyn, P., Stenzel, U., Briggs, A. W., Kircher, M., Hofreiter, M., & Meyer, M. (2010) · Nucleic Acids Research · doi:10.1093/nar/gkq572 · Cited by 56
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Fourth generation biofuel: A review on risks and mitigation strategies.
Abdullah, B., Syed Muhammad, S. A. F., Shokravi, Z., Ismail, S., Kassim, K. A., Mahmood, A. N., & Aziz, M. M. A. (2019) · Renewable and Sustainable Energy Reviews · doi:10.1016/j.rser.2019.02.018 · Cited by 531
Metadata
- Authors
- Torti, A., Lever, M. A., & Jørgensen, B. B.
- Venue
- Marine Genomics
- Publisher
- Elsevier BV
- Published
- 2015-12
- Volume
- 24
- Pages
- 185-196
- ISSN
- 1874-7787 (ISSN-L)
- OpenAlex
- W2189909264
- Cited by
- 349
- References
- 14
- FWCI
- 25.06
- Type
- journal article
- Language
- en
- Open access
- hybrid
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