Citation:

PANGAEA.818260

Name: Archaeal and bacterial diversity at different sites as determined by 16S rRNA gene analysis
Published: 2013-08-21
License: https://creativecommons.org/licenses/by/3.0/

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Published: 2013-08-21 • DOI registered: 2014-06-18

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Related to:

Ruff, S Emil; Arnds, Julia; Knittel, Katrin; Amann, Rudolf; Wegener, Gunter; Ramette, Alban; Boetius, Antje; Stal, Lucas J (2013): Microbial Communities of Deep-Sea Methane Seeps at Hikurangi Continental Margin (New Zealand). PLoS ONE, 8(9), e72627, https://doi.org/10.1371/journal.pone.0072627.s014

Coverage:

Median Latitude: -40.896448 * Median Longitude: 176.632900 * South-bound Latitude: -41.772500 * West-bound Longitude: 175.428160 * North-bound Latitude: -40.017980 * East-bound Longitude: 177.859550

Date/Time Start: 2007-02-06T07:10:00 * Date/Time End: 2007-03-17T20:37:00

Minimum DEPTH, sediment/rock: 0.025 m * Maximum DEPTH, sediment/rock: 0.025 m

Event(s):

SO191/2_045 * Latitude: -40.017980 * Longitude: 177.859550 * Date/Time: 2007-02-06T07:10:00 * Elevation: -1159.0 m * Location: East of New Zealand, Omakere Ridge * Campaign: (NEW VENTS) * Basis: * Method/Device: Multicorer with television (TVMUC) * Comment: sampled in Pogonophora field

SO191/2_078 * Latitude: -40.023310 * Longitude: 177.815730 * Date/Time: 2007-02-11T04:30:00 * Elevation: -1182.0 m * Location: East of New Zealand, Omakere Ridge * Campaign: (NEW VENTS) * Basis: * Method/Device: Multicorer with television (TVMUC) * Comment: off-site reference core

SO191/3_309-2 * Latitude: -41.772500 * Longitude: 175.428160 * Date/Time: 2007-03-16T10:29:00 * Elevation: -1057.0 m * Location: East of New Zealand, Wairarapa Takahae * Campaign: (NEW VENTS) * Basis: * Method/Device: Multicorer with television (TVMUC)

Parameter(s):

#	Name	Short Name	Unit	Principal Investigator	Method/Device	Comment
1	Event label	Event
2	DEPTH, sediment/rock	Depth sed	m			Geocode
3	Depth, top/min	Depth top	m
4	Depth, bottom/max	Depth bot	m
5	Habitat	Habitat		Knittel, Katrin
6	Number of clones	Clones	#	Knittel, Katrin		Archaea
7	Anaerobic methanotrophic archaea-2-a-2b, relative 16S rRNA clone frequency	ANME-2-a-2b clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
8	Anaerobic methanotrophic archaea-2c, relative 16S rRNA clone frequency	ANME-2c clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
9	Anaerobic methanotrophic archaea-3, relative 16S rRNA clone frequency	ANME-3 clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
10	ANT06-05 archaea, relative 16S rRNA clone frequency	ANT06-05 clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
11	CCA47 archaea, relative 16S rRNA clone frequency	CCA47 clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
12	CCA47 archaea, relative 16S rRNA clone frequency	CCA47 clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
13	Deep Sea Euryarchaeal Group, relative 16S rRNA clone frequency	DSEG clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
14	Marine Benthic Group A, relative 16S rRNA clone frequency	MBG A clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
15	Marine Benthic Group B, relative 16S rRNA clone frequency	MBG B clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
16	Marine Benthic Group B, relative 16S rRNA clone frequency	MBG B clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
17	Marine Benthic Group D, relative 16S rRNA clone frequency	MBG D clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
18	Marine Benthic Group E, relative 16S rRNA clone frequency	MBG E clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
19	Marine group I, relative 16S rRNA clone frequency	MG I clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
20	Methanimicrococcus, relative 16S rRNA clone frequency	Methanimicrococcus clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
21	Methanococcoides, relative 16S rRNA clone frequency	Methanococcoides clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
22	Methanosalsum, relative 16S rRNA clone frequency	Methanosalsum clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
23	Miscellaneous Crenarchaeotic Group, relative 16S rRNA clone frequency	MCG clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
24	Thermoplasmatales, relative 16S rRNA clone frequency	Thermoplasmatales clone freq	%	Knittel, Katrin	PCR using ARCH20Fb (Massana et al., 1997) and Uni1292R (Lane et al., 1985) prime
25	Number of clones	Clones	#	Knittel, Katrin		Bacteria
26	Acidobacteria, relative 16S rRNA clone frequency	Acidobacteria clone freq	%	Knittel, Katrin	PCR using GM3/GM4 primer (Muyzer et al., 1993)
27	Actinobacteria, relative 16S rRNA clone frequency	Actinobacteria clone freq	%	Knittel, Katrin	PCR using GM3/GM4 primer (Muyzer et al., 1993)
28	alpha-Proteobacteria, relative 16S rRNA clone frequency	a-Proteobacteria clone freq	%	Knittel, Katrin	PCR using GM3/GM4 primer (Muyzer et al., 1993)
29	Bacteria, unaffiliated, relative 16S rRNA clone frequency	Bacteria unaffiliated clone freq	%	Knittel, Katrin	PCR using GM3/GM4 primer (Muyzer et al., 1993)
30	Bacteroidetes, relative 16S rRNA clone frequency	Bacteroidetes clone freq	%	Knittel, Katrin	PCR using GM3/GM4 primer (Muyzer et al., 1993)
31	beta-Proteobacteria, relative 16S rRNA clone frequency	b-Proteobacteria clone freq	%	Knittel, Katrin	PCR using GM3/GM4 primer (Muyzer et al., 1993)
32	Chloroflexi, relative 16S rRNA clone frequency	Chloroflexi clone freq	%	Knittel, Katrin	PCR using GM3/GM4 primer (Muyzer et al., 1993)
33	Delta-Proteobacteria, relative 16S rRNA clone frequency	Delta-Proteobacteria clone freq	%	Knittel, Katrin	PCR using GM3/GM4 primer (Muyzer et al., 1993)
34	Epsilon-Proteobacteria, relative 16S rRNA clone frequency	Epsilon-Proteobacteria clone freq	%	Knittel, Katrin	PCR using GM3/GM4 primer (Muyzer et al., 1993)
35	Fibrobacteres, relative 16S rRNA clone frequency	Fibrobacteres clone freq	%	Knittel, Katrin	PCR using GM3/GM4 primer (Muyzer et al., 1993)
36	Gammaproteobacteria, relative 16S rRNA clone frequency	Gamma-Proteobacteria clone freq	%	Knittel, Katrin	PCR using GM3/GM4 primer (Muyzer et al., 1993)
37	Nitrospira, relative 16S rRNA clone frequency	Nitrospira clone freq	%	Knittel, Katrin	PCR using GM3/GM4 primer (Muyzer et al., 1993)
38	Planctomycetes, relative 16S rRNA clone frequency	Planctomycetes clone freq	%	Knittel, Katrin	PCR using GM3/GM4 primer (Muyzer et al., 1993)

License:

Creative Commons Attribution 3.0 Unported (CC-BY-3.0)

Size:

93 data points

Data

Download dataset as tab-delimited text — use the following character encoding:

1 Event	2 Depth sed [m]	4 Depth bot [m]	5 Habitat	6 Clones [#] (Archaea)	7 ANME-2-a-2b clone freq [%] (PCR using ARCH20Fb (Massana e...)	8 ANME-2c clone freq [%] (PCR using ARCH20Fb (Massana e...)	9 ANME-3 clone freq [%] (PCR using ARCH20Fb (Massana e...)	10 ANT06-05 clone freq [%] (PCR using ARCH20Fb (Massana e...)	11 CCA47 clone freq [%] (PCR using ARCH20Fb (Massana e...)	12 CCA47 clone freq [%] (PCR using ARCH20Fb (Massana e...)	13 DSEG clone freq [%] (PCR using ARCH20Fb (Massana e...)	14 MBG A clone freq [%] (PCR using ARCH20Fb (Massana e...)	15 MBG B clone freq [%] (PCR using ARCH20Fb (Massana e...)	16 MBG B clone freq [%] (PCR using ARCH20Fb (Massana e...)	17 MBG D clone freq [%] (PCR using ARCH20Fb (Massana e...)	18 MBG E clone freq [%] (PCR using ARCH20Fb (Massana e...)	19 MG I clone freq [%] (PCR using ARCH20Fb (Massana e...)	20 Methanimicrococcus clone freq [%] (PCR using ARCH20Fb (Massana e...)	21 Methanococcoides clone freq [%] (PCR using ARCH20Fb (Massana e...)	22 Methanosalsum clone freq [%] (PCR using ARCH20Fb (Massana e...)	23 MCG clone freq [%] (PCR using ARCH20Fb (Massana e...)	24 Thermoplasmatales clone freq [%] (PCR using ARCH20Fb (Massana e...)	25 Clones [#] (Bacteria)	26 Acidobacteria clone freq [%] (PCR using GM3/GM4 primer (Muy...)	27 Actinobacteria clone freq [%] (PCR using GM3/GM4 primer (Muy...)	28 a-Proteobacteria clone freq [%] (PCR using GM3/GM4 primer (Muy...)	29 Bacteria unaffiliated clone freq [%] (PCR using GM3/GM4 primer (Muy...)	30 Bacteroidetes clone freq [%] (PCR using GM3/GM4 primer (Muy...)	31 b-Proteobacteria clone freq [%] (PCR using GM3/GM4 primer (Muy...)	32 Chloroflexi clone freq [%] (PCR using GM3/GM4 primer (Muy...)	33 Delta-Proteobacteria clone freq [%] (PCR using GM3/GM4 primer (Muy...)	34 Epsilon-Proteobacteria clone freq [%] (PCR using GM3/GM4 primer (Muy...)	35 Fibrobacteres clone freq [%] (PCR using GM3/GM4 primer (Muy...)	36 Gamma-Proteobacteria clone freq [%] (PCR using GM3/GM4 primer (Muy...)	37 Nitrospira clone freq [%] (PCR using GM3/GM4 primer (Muy...)	38 Planctomycetes clone freq [%] (PCR using GM3/GM4 primer (Muy...)
SO191/2_045	0.025	0.05	Frenulata site	42	21.4		14.3		7.1				2.4		2.4		47.6	2.4	2.4				83	8.4	2.4	1.2	8.4	6.0	1.2	1.2	34.9	1.2	1.2	18.1	3.6	12.0
SO191/2_078	0.025	0.05	Reference site	82				1.2	2.4	1.2	1.2	1.2	2.4		2.4	1.2	85.4				1.2		86	14.0	3.5	7.0	8.1		1.2	3.5	36.0			17.4	1.2	8.1
SO191/3_309-2	0.025	0.05	Ampharetidae site	90	35.6	4.4	30.0		1.1		3.3		1.1				15.6	8.9					78	1.3	2.6	1.3	6.4	9.0			39.7	2.6		33.3		3.8
SO191/3_315	0.025	0.05	Ampharetidae site	90	68.1		14.3				6.6			3.3			2.2			1.1		4.40	108	0.9		0.9	16.7	10.2			41.7	10.2		14.8		4.6