Shifts in the microbial community structure in different temperatures during sample storage from IODP Hole 325-M0058A
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| Format: | Dataset Open Access |
| Language: | en |
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PANGAEA
2012
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| _version_ | 1867169506877505536 |
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| author | Mills, Heath Reese, B K Peter, Cruz St |
| author_facet | Mills, Heath Reese, B K Peter, Cruz St |
| collection | Datos científicos de ciencias marinas y ambientales |
| contents | The objective of this study was to determine shifts in the microbial community structure and potential function based on standard Integrated Ocean Drilling Program (IODP) storage procedures for sediment cores. Standard long-term storage protocols maintain sediment temperature at 4°C for mineralogy, geochemical, and/or geotechnical analysis whereas standard microbiological sampling immediately preserves sediments at -80°C. Storage at 4°C does not take into account populations may remain active over geologic time scales at temperatures similar to storage conditions. Identification of active populations within the stored core would suggest geochemical and geophysical conditions within the core change over time. To test this potential, the metabolically active fraction of the total microbial community was characterized from IODP Expedition 325 Great Barrier Reef sediment cores prior to and following a 3-month storage period. Total RNA was extracted from complementary 2, 20, and 40 m below sea floor sediment samples, reverse transcribed to complementary DNA and then sequenced using 454 FLX sequencing technology, yielding over 14,800 sequences from the six samples. Interestingly, 97.3% of the sequences detected were associated with lineages that changed in detection frequency during the storage period including key biogeochemically relevant lineages associated with nitrogen, iron, and sulfur cycling. These lineages have the potential to permanently alter the physical and chemical characteristics of the sediment promoting misleading conclusions about the in situ biogeochemical environment. In addition, the detection of new lineages after storage increases the potential for a wider range of viable lineages within the subsurface that may be underestimated during standard community characterizations. |
| format | Dataset Open Access |
| id | pangaea_https___doi_org_10_1594_PANGAEA_788626 |
| institution | PANGAEA |
| language | en |
| publishDate | 2012 |
| publisher | PANGAEA |
| record_format | pangaea |
| spellingShingle | Shifts in the microbial community structure in different temperatures during sample storage from IODP Hole 325-M0058A Mills, Heath Reese, B K Peter, Cruz St 325-M0058A; DRILL; Drilling/drill rig; Exp325; Great Barrier Reef, Australia; Great Barrier Reef Environmental Changes; Greatship Maya; Integrated Ocean Drilling Program / International Ocean Discovery Program; IODP; NOG_01BSite8 The objective of this study was to determine shifts in the microbial community structure and potential function based on standard Integrated Ocean Drilling Program (IODP) storage procedures for sediment cores. Standard long-term storage protocols maintain sediment temperature at 4°C for mineralogy, geochemical, and/or geotechnical analysis whereas standard microbiological sampling immediately preserves sediments at -80°C. Storage at 4°C does not take into account populations may remain active over geologic time scales at temperatures similar to storage conditions. Identification of active populations within the stored core would suggest geochemical and geophysical conditions within the core change over time. To test this potential, the metabolically active fraction of the total microbial community was characterized from IODP Expedition 325 Great Barrier Reef sediment cores prior to and following a 3-month storage period. Total RNA was extracted from complementary 2, 20, and 40 m below sea floor sediment samples, reverse transcribed to complementary DNA and then sequenced using 454 FLX sequencing technology, yielding over 14,800 sequences from the six samples. Interestingly, 97.3% of the sequences detected were associated with lineages that changed in detection frequency during the storage period including key biogeochemically relevant lineages associated with nitrogen, iron, and sulfur cycling. These lineages have the potential to permanently alter the physical and chemical characteristics of the sediment promoting misleading conclusions about the in situ biogeochemical environment. In addition, the detection of new lineages after storage increases the potential for a wider range of viable lineages within the subsurface that may be underestimated during standard community characterizations. |
| title | Shifts in the microbial community structure in different temperatures during sample storage from IODP Hole 325-M0058A |
| topic | 325-M0058A; DRILL; Drilling/drill rig; Exp325; Great Barrier Reef, Australia; Great Barrier Reef Environmental Changes; Greatship Maya; Integrated Ocean Drilling Program / International Ocean Discovery Program; IODP; NOG_01BSite8 |
| url | https://doi.org/10.1594/PANGAEA.788626 |