Specific RubisCO activity of currently uncultured microorganisms inhabiting hydrothermal deep sea vents
In 2014 we described a new activity-based screen suited to seek active recombinant RubisCOs from the environment - independent of the native host's culturability. Within this study we aimed at seeking novel RubisCO active enzymes from the environment. For this purpose we screened six metagenomi...
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ftpangaea:oai:pangaea.de:doi:10.1594/PANGAEA.931785 2024-09-15T18:23:14+00:00 Specific RubisCO activity of currently uncultured microorganisms inhabiting hydrothermal deep sea vents Böhnke-Brandt, Stefanie Perner, Mirjam MEDIAN LATITUDE: -0.844444 * MEDIAN LONGITUDE: -19.737040 * SOUTH-BOUND LATITUDE: -8.300000 * WEST-BOUND LONGITUDE: -44.966670 * NORTH-BOUND LATITUDE: 14.750000 * EAST-BOUND LONGITUDE: -12.366670 * DATE/TIME START: 2009-02-04T12:37:00 * DATE/TIME END: 2009-04-27T09:53:00 * MINIMUM ELEVATION: -3047 m a.s.l. * MAXIMUM ELEVATION: -2915 m a.s.l. 2021 text/tab-separated-values, 279 data points https://doi.pangaea.de/10.1594/PANGAEA.931785 https://doi.org/10.1594/PANGAEA.931785 en eng PANGAEA Böhnke, Stefanie; Perner, Mirjam (2019): Seeking active RubisCOs from the currently uncultured microbial majority colonizing deep-sea hydrothermal vent environments. The ISME Journal, 13(10), 2475-2488, https://doi.org/10.1038/s41396-019-0439-3 https://doi.pangaea.de/10.1594/PANGAEA.931785 https://doi.org/10.1594/PANGAEA.931785 CC-BY-4.0: Creative Commons Attribution 4.0 International Access constraints: unrestricted info:eu-repo/semantics/openAccess Accession number genetics activity-based screen Area/locality autotrophic CO2-fixation DATE/TIME DERIDGE ELEVATION Event label From Mantle to Ocean: Energy- Material- and Life-cycles at Spreading Axes functional metagenomic Gaussian propagation of error heat block High Performance Liquid Chromatography (HPLC) HPLC hydrothermal deep sea vents Identification LATITUDE Linkage between the distribution and biochemical properties of RuBisCO and CODH enzymes and abiotic properties in thermally and chemically distinct deep-sea hydrothermal vent systems LONGITUDE M78/2 M78/2_274 M78/2_314 Maria S. Merian MARSUED5 Meteor (1986) MSM10/3 MSM10/3_300 MSM10/3_313ROV-12 North Atlantic Ocean Remote operated vehicle ROV RuBisCO Sample code/label Sample type Sanger Sequencing modified after Sanger et al. (1977) PacBio Sequencing according to Rhoads and Au (2015) Site Specific ribulose-1,5-bisphosphate carboxylase/oxygenase activity standard deviation specific RubisCO activities Temperature technical Treatment tropical/subtropical North Atlantic dataset 2021 ftpangaea https://doi.org/10.1594/PANGAEA.93178510.1038/s41396-019-0439-3 2024-08-21T00:02:27Z In 2014 we described a new activity-based screen suited to seek active recombinant RubisCOs from the environment - independent of the native host's culturability. Within this study we aimed at seeking novel RubisCO active enzymes from the environment. For this purpose we screened six metagenomic fosmid libraries from hydrothermal vent environments, differing with respect to their (i) geographic origin (north or south Mid Atlantic Ridge) and their (ii) environmental characteristics (basalt vs. ultramafic hosted, temperature, and pH). Overall we screened roughly 12500 metagenomic fosmid clones and identified forty active RubisCOs. Additional sequence-based screening uncovered eight further RubisCOs, which could then also be detected by a modified version of the screen. Seven were active form III RubisCOs from yet uncultured Archaea. This indicates the potential of the activity-based screen to detect RubisCO enzymes even from organisms that would not be expected to be targeted. Dataset North Atlantic PANGAEA - Data Publisher for Earth & Environmental Science ENVELOPE(-44.966670,-12.366670,14.750000,-8.300000) |
institution |
Open Polar |
collection |
PANGAEA - Data Publisher for Earth & Environmental Science |
op_collection_id |
ftpangaea |
language |
English |
topic |
Accession number genetics activity-based screen Area/locality autotrophic CO2-fixation DATE/TIME DERIDGE ELEVATION Event label From Mantle to Ocean: Energy- Material- and Life-cycles at Spreading Axes functional metagenomic Gaussian propagation of error heat block High Performance Liquid Chromatography (HPLC) HPLC hydrothermal deep sea vents Identification LATITUDE Linkage between the distribution and biochemical properties of RuBisCO and CODH enzymes and abiotic properties in thermally and chemically distinct deep-sea hydrothermal vent systems LONGITUDE M78/2 M78/2_274 M78/2_314 Maria S. Merian MARSUED5 Meteor (1986) MSM10/3 MSM10/3_300 MSM10/3_313ROV-12 North Atlantic Ocean Remote operated vehicle ROV RuBisCO Sample code/label Sample type Sanger Sequencing modified after Sanger et al. (1977) PacBio Sequencing according to Rhoads and Au (2015) Site Specific ribulose-1,5-bisphosphate carboxylase/oxygenase activity standard deviation specific RubisCO activities Temperature technical Treatment tropical/subtropical North Atlantic |
spellingShingle |
Accession number genetics activity-based screen Area/locality autotrophic CO2-fixation DATE/TIME DERIDGE ELEVATION Event label From Mantle to Ocean: Energy- Material- and Life-cycles at Spreading Axes functional metagenomic Gaussian propagation of error heat block High Performance Liquid Chromatography (HPLC) HPLC hydrothermal deep sea vents Identification LATITUDE Linkage between the distribution and biochemical properties of RuBisCO and CODH enzymes and abiotic properties in thermally and chemically distinct deep-sea hydrothermal vent systems LONGITUDE M78/2 M78/2_274 M78/2_314 Maria S. Merian MARSUED5 Meteor (1986) MSM10/3 MSM10/3_300 MSM10/3_313ROV-12 North Atlantic Ocean Remote operated vehicle ROV RuBisCO Sample code/label Sample type Sanger Sequencing modified after Sanger et al. (1977) PacBio Sequencing according to Rhoads and Au (2015) Site Specific ribulose-1,5-bisphosphate carboxylase/oxygenase activity standard deviation specific RubisCO activities Temperature technical Treatment tropical/subtropical North Atlantic Böhnke-Brandt, Stefanie Perner, Mirjam Specific RubisCO activity of currently uncultured microorganisms inhabiting hydrothermal deep sea vents |
topic_facet |
Accession number genetics activity-based screen Area/locality autotrophic CO2-fixation DATE/TIME DERIDGE ELEVATION Event label From Mantle to Ocean: Energy- Material- and Life-cycles at Spreading Axes functional metagenomic Gaussian propagation of error heat block High Performance Liquid Chromatography (HPLC) HPLC hydrothermal deep sea vents Identification LATITUDE Linkage between the distribution and biochemical properties of RuBisCO and CODH enzymes and abiotic properties in thermally and chemically distinct deep-sea hydrothermal vent systems LONGITUDE M78/2 M78/2_274 M78/2_314 Maria S. Merian MARSUED5 Meteor (1986) MSM10/3 MSM10/3_300 MSM10/3_313ROV-12 North Atlantic Ocean Remote operated vehicle ROV RuBisCO Sample code/label Sample type Sanger Sequencing modified after Sanger et al. (1977) PacBio Sequencing according to Rhoads and Au (2015) Site Specific ribulose-1,5-bisphosphate carboxylase/oxygenase activity standard deviation specific RubisCO activities Temperature technical Treatment tropical/subtropical North Atlantic |
description |
In 2014 we described a new activity-based screen suited to seek active recombinant RubisCOs from the environment - independent of the native host's culturability. Within this study we aimed at seeking novel RubisCO active enzymes from the environment. For this purpose we screened six metagenomic fosmid libraries from hydrothermal vent environments, differing with respect to their (i) geographic origin (north or south Mid Atlantic Ridge) and their (ii) environmental characteristics (basalt vs. ultramafic hosted, temperature, and pH). Overall we screened roughly 12500 metagenomic fosmid clones and identified forty active RubisCOs. Additional sequence-based screening uncovered eight further RubisCOs, which could then also be detected by a modified version of the screen. Seven were active form III RubisCOs from yet uncultured Archaea. This indicates the potential of the activity-based screen to detect RubisCO enzymes even from organisms that would not be expected to be targeted. |
format |
Dataset |
author |
Böhnke-Brandt, Stefanie Perner, Mirjam |
author_facet |
Böhnke-Brandt, Stefanie Perner, Mirjam |
author_sort |
Böhnke-Brandt, Stefanie |
title |
Specific RubisCO activity of currently uncultured microorganisms inhabiting hydrothermal deep sea vents |
title_short |
Specific RubisCO activity of currently uncultured microorganisms inhabiting hydrothermal deep sea vents |
title_full |
Specific RubisCO activity of currently uncultured microorganisms inhabiting hydrothermal deep sea vents |
title_fullStr |
Specific RubisCO activity of currently uncultured microorganisms inhabiting hydrothermal deep sea vents |
title_full_unstemmed |
Specific RubisCO activity of currently uncultured microorganisms inhabiting hydrothermal deep sea vents |
title_sort |
specific rubisco activity of currently uncultured microorganisms inhabiting hydrothermal deep sea vents |
publisher |
PANGAEA |
publishDate |
2021 |
url |
https://doi.pangaea.de/10.1594/PANGAEA.931785 https://doi.org/10.1594/PANGAEA.931785 |
op_coverage |
MEDIAN LATITUDE: -0.844444 * MEDIAN LONGITUDE: -19.737040 * SOUTH-BOUND LATITUDE: -8.300000 * WEST-BOUND LONGITUDE: -44.966670 * NORTH-BOUND LATITUDE: 14.750000 * EAST-BOUND LONGITUDE: -12.366670 * DATE/TIME START: 2009-02-04T12:37:00 * DATE/TIME END: 2009-04-27T09:53:00 * MINIMUM ELEVATION: -3047 m a.s.l. * MAXIMUM ELEVATION: -2915 m a.s.l. |
long_lat |
ENVELOPE(-44.966670,-12.366670,14.750000,-8.300000) |
genre |
North Atlantic |
genre_facet |
North Atlantic |
op_relation |
Böhnke, Stefanie; Perner, Mirjam (2019): Seeking active RubisCOs from the currently uncultured microbial majority colonizing deep-sea hydrothermal vent environments. The ISME Journal, 13(10), 2475-2488, https://doi.org/10.1038/s41396-019-0439-3 https://doi.pangaea.de/10.1594/PANGAEA.931785 https://doi.org/10.1594/PANGAEA.931785 |
op_rights |
CC-BY-4.0: Creative Commons Attribution 4.0 International Access constraints: unrestricted info:eu-repo/semantics/openAccess |
op_doi |
https://doi.org/10.1594/PANGAEA.93178510.1038/s41396-019-0439-3 |
_version_ |
1810463407323742208 |