Antarctic Peninsula Bacterioplankton 16S rRNA gene surveys and metagenomes from Winter 2002 and Summer 2006.

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Последняя версия опубликовано SCAR - Microbial Antarctic Resource System мар. 19, 2019 SCAR - Microbial Antarctic Resource System
Домой:
http://genex2.dri.edu/index.php
Дата публикации:
19 марта 2019 г.
Опубликовано:
SCAR - Microbial Antarctic Resource System
Лицензия:
CC-BY 4.0

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Описание

Antarctic surface oceans are well-studied during summer when irradiance levels are high, sea ice is melting and primary productivity is at a maximum. Coincident with this timing, the bacterioplankton respond with significant increases in secondary productivity. Little is known about bacterioplankton in winter when darkness and sea-ice cover inhibit photoautotrophic primary production. We report here an environmental genomic and small subunit ribosomal RNA (SSU rRNA) analysis of winter and summer Antarctic Peninsula coastal seawater bacterioplankton. Intense inter-seasonal differences were reflected through shifts in community composition and functional capacities encoded in winter and summer environmental genomes with significantly higher phylogenetic and functional diversity in winter. In general, inferred metabolisms of summer bacterioplankton were characterized by chemoheterotrophy, photoheterotrophy and aerobic anoxygenic photosynthesis while the winter community included the capacity for bacterial and archaeal chemolithoautotrophy. Chemolithoautotrophic pathways were dominant in winter and were similar to those recently reported in global‘dark ocean’ mesopelagic waters. If chemolithoautotrophy is widespread in the Southern Ocean in winter, this process may be a previously unaccounted carbon sink and may help account for the unexplained anomalies in surface inorganic nitrogen content.

Версии

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Как оформить ссылку

Исследователи должны дать ссылку на эту работу следующим образом:

Murray, AE and JJ Grzymski. 2007. Diversity and genomics of Antarctic marine microorganisms. Phil. Trans. Roy. Soc. Ser. B. 362:2259-2271.

Права

Исследователи должны соблюдать следующие права:

Публикующей организацией и владельцем прав на данную работу является SCAR - Microbial Antarctic Resource System. Эта работа находится под лицензией Creative Commons Attribution (CC-BY 4.0).

Регистрация в GBIF

Этот ресурс был зарегистрирован в GBIF, ему был присвоен следующий UUID: 2cc6227c-a416-4928-bd1f-8458741b8377.  SCAR - Microbial Antarctic Resource System отвечает за публикацию этого ресурса, и зарегистрирован в GBIF как издатель данных при оподдержке Scientific Committee on Antarctic Research.

Ключевые слова

Bacterioplankton; Antarctic Peninsula; 16S rRNA; metagenome; marine; archaea; bacteria; summer; winter; Other

Контакты

Alison Murray
  • Metadata Provider ●
  • Originator ●
  • Point Of Contact ●
  • Principal Investigator
  • Associate Research Professor
DRI
  • 2215 Raggio Parkway
89512 Reno
NV
US
  • 775 673 7361
Joseph Grzymski
  • Principal Investigator
  • Assistant Research Professor
DRI
  • 2215 Raggio Parkway
89512 Reno
NV
US
  • 775 673 7478

Географический охват

Samples were collected in the nearshore region of Anvers Island, near Palmer Station.

Ограничивающие координаты Юг Запад [-64,78, -64,07], Север Восток [-64,77, -64,05]

Таксономический охват

Plankton surveys of community structure were conducted of those organisms passing through a 1.6 micron glass fiber filter.

Domain Archaea, Bacteria

Временной охват

Дата начала 2002-08-20
Дата начала 2006-02-28
Дата начала 2002-01-17
Дата начала 2002-07-17

Данные проекта

Описание отсутсвует

Название IPY Antarctic Peninsula Bacterioplankton
Финансирование NSF ANT 0632278 supported the researchers and Antarctic expeditions and DOE JGI Community Sequencing Program supported the metagenome and Sanger sequencing of 16S rRNA gene libraries; Pyrosequencing was provided by the International Census of Marine Microbes (ICoMM) with financial support from a W. M. Keck foundation award to the Marine Biological Laboratory in Woods Hole.
Описание района исследования Seawater (1.6 - 0.2 micron fraction) sampled off of Anvers Island, Antarctic Peninsula.
Описание плана выполнения исследований Samples were collected from surface waters on 12 occasions over the annual cycle in 2002 and in late February in 2006. The samples from 2002 were all analyzed by PCR-DGGE (Murray and Grzymski, 2007) and 3 samples were selected for Roche 454 tag sequencing targeting bacteria. In addition, the sample from 20 August 2002 was selected for (i) 16S rRNA gene clone library sequencing for bacteria and archaea; and (ii) for metagenome sequencing in which a large insert (40 kb) library was prepared and end sequences were determined for ~ 20K clones. Selected clones (~ 96) were then fully sequenced. In 2006 samples were collected at the end of February, in which we selected a sample from 28 February 2006 for 16S rRNA gene clone library sequencing for bacteria and archaea; in addition a metagenome sequencing effort was conducted in which a large insert (40 kb) library was prepared and end sequences were determined for ~ 20K clones. Selected clones (~ 96) were then fully sequenced.

Исполнители проекта:

Alison Murray
  • Principal Investigator

Методы сбора

Seawater was collected by submersible pump and filtered at the Station, see Grzymski et al. 2012 for details.

Охват исследования See Geographic coverage
Контроль качества Sanger sequence data was automatically assembled and chimera checked; metagenome sequence data was automatically annotated at the Joint Genome Institute (see Grzymski et al. 2012).

Описание этапа методики:

  1. A MICROBIAL_SEQUENCE_SET Description file describing 9 data sets was uploaded to the IPT. 9 MIMARKS data files were uploaded to the IPT.

Библиографические ссылки

  1. Grzymski, JJ, CS Riesenfeld , TJ Williams, AM Dussaq, H Ducklow, M Erickson, R Cavicchioli, & AE Murray. 2012. A metagenomic assessment of winter and summer bacterioplankton from Antarctic Peninsula coastal surface waters. ISME Journal. DOI:10.1038/ismej.2012.31
  2. Ghiglione, JF, and AE Murray. 2012. Pronounced summer to winter differences and higher wintertime richness in coastal Antarctic marine bacterioplankton. Environ. Microbiol. 14(3): 617-629. DOI:10.1111/j.1462-2920.2011.02601.x
  3. Williams, TJ, E Long, F Evans, MZ DeMaere, FM Lauro, MJ Raftery, H Ducklow, JJ Grzymski, AE Murray, R Cavicchioli. 2012. A metaproteomic assessment of summer and winter bacterioplankton from Antarctic Peninsula coastal surface waters. ISME Journal 6:1883-1900. doi: 10.1038/ismej.2012.28

Дополнительные метаданные