A global molecular ecological survey of subseafloor microbial communities

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doi: 10.1180/minmag.2013.077.5.8
Author(s): Hoshino, Tatsuhiko; Tsutsumi, Masazumi; Morono, Yuki; Inagaki, Fumio
Author Affiliation(s): Primary:
Japan Agency for Marine-Earth Science and Technology, Kochi Institute for Core Sample Research, Nankoku, Japan
Volume Title: Goldschmidt abstracts 2013
Source: Mineralogical Magazine, 77(5), p.1324; Goldschmidt 2013, Florence, Italy, Aug. 25-30, 2013. Publisher: Mineralogical Society, London, United Kingdom. ISSN: 0026-461X CODEN: MNLMBB
Note: In English. 3 refs.
Summary: Recent advances of the culture-independent molecular ecological survey such as deep sequencing enable us to provide precise and detailed views of naturally occurring microbial communities [1]. For the deep subseafloor microbial communities, an improved hot-alkaline DNA extraction method have significantly improved the cell-lysis efficiency, providing less-biased DNA pools for the subsequent moleculer ecological analyses [2]. Regarding the molecular quantification, the conventionary used real-time PCR assay is highly sensitive to the PCR inhibitors such as humic acids and polysaccharides in organic-rich ocean margin sediments. However, a new technique using digital PCR and microfluidic devices is free of such an inhibitory effect, providing absolute quantification of the target genes [3]. Using these newly standardized molecular ecological techniques, a new global-scale molecular survery of subseafloor microbial communities has been planed. In this project, we have currently extracted DNA from over 200 deep-frozen samples from 15 drilling sites using a new hot-alkaline method: e.g., off Peru and eastern equatorial Pacific (ODP Leg 201), Juan de Fuca ridge flank (IODP Exp. 301), South Pacific Gyre (IODP Exp. 329), Nankai Trough (IODP Exp. 315 and 316), off Shimokita of Japan (CK0606, IODP Exp. 337), Gulf of Mexico (IODP 308), Porcupine carbonate mound (IODP Exp. 307). These environmental DNA pools provide an unprecedented opportunity to study biogeographical distribution and diversity of bacterial and archaeal 16S rRNA and some other ecologically significant functional genes with a systematic analytical scheme. [1] Hoshino, et al, Front. Microbio., 2, no. 231 (2011). [2] Morono, et al, submitted. [3] Hoshino & Inagaki, Syst. Appl. Microbiol., 35, 390-395 (2012).
Year of Publication: 2013
Research Program: IODP Integrated Ocean Drilling Program
ODP Ocean Drilling Program
Key Words: 02 Geochemistry; 07 Marine Geology and Oceanography; Atlantic Ocean; Bacteria; Biochemistry; Communities; DNA; East Pacific; Ecology; Ecosystems; Equatorial Pacific; Expedition 301; Expedition 307; Expedition 308; Expedition 315; Expedition 316; Genes; Gulf of Mexico; Integrated Ocean Drilling Program; Juan de Fuca Ridge; Leg 201; Microorganisms; Molecular biology; NanTroSEIZE; North Atlantic; North Pacific; Northeast Atlantic; Northeast Pacific; Northwest Pacific; Nucleic acids; Ocean Drilling Program; Ocean floors; Pacific Ocean; Porcupine Seabight; Surveys; West Pacific
Coordinates: N474500 N474600 W1274500 W1274600
N512200 N512700 W0113300 W0114400
N271500 N280600 W0890000 W0942500
N331400 N331800 E1364300 E1363800
N330100 N331400 E1364800 E1364300
S120500 N035000 W0775500 W1103500
Record ID: 2014025327
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