FBIP: Survey of invertebrate and microbial diversity of the Prince Edward Islands system

出現紀錄
最新版本 published by South African National Biodiversity Institute on 三月 31, 2021 South African National Biodiversity Institute
發布日期:
2021年3月31日
授權條款:
CC-BY 4.0

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說明

Environmental metagenomic data generated from sequencing amplicon of in-shore, off-shore and plant-associated soil microbial communities of the sub-Antarctic Prince Edward and Marion Islands

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版本

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如何引用

研究者應依照以下指示引用此資源。:

Dorrington R (2021): FBIP: Survey of invertebrate and microbial diversity of the Prince Edward Islands system. v1.0. South African National Biodiversity Institute. Dataset/Occurrence. http://ipt.sanbi.org.za/iptsanbi/resource?r=fbip111&v=1.0

權利

研究者應尊重以下權利聲明。:

此資料的發布者及權利單位為 South African National Biodiversity Institute。 This work is licensed under a Creative Commons Attribution (CC-BY 4.0) License.

GBIF 註冊

此資源已向GBIF註冊,並指定以下之GBIF UUID: 5c23cc27-be23-48fe-bd70-a0cef232138d。  South African National Biodiversity Institute 發佈此資源,並經由South African Biodiversity Information Facility同意向GBIF註冊成為資料發佈者。

關鍵字

Occurrence; Sagina procumbens; Azorella selago; plant rhizosphere; soil microbial communities; Penicillium; Trichoderma; Ascomycetes; Specimen; Prince Edward Islands (Marion and Prince Edward); polar ecosystems; climate change; biodiversity survey; Invertebrates; microbials; terrestrial habitats

聯絡資訊

Rosemary Dorrington
  • 元數據提供者
  • 出處
  • 連絡人
Professor
Rhodes University
Room 515, Biological Sciences Building, Prince Alfred Road
6140 Grahamstown
Eastern Cape
ZA
+27 46 6038442
Mahlatse Kgatla
  • 散布者
Data Quality Specialist
SANBI
2 Cussonia Avenue
0184 Pretoria
Gauteng
ZA
0128435196

地理涵蓋範圍

Prince Edward and Marion Islands

界定座標範圍 緯度南界 經度西界 [-47.5, 37.3], 緯度北界 經度東界 [-46.5, 38.5]

分類群涵蓋範圍

microbial diversity

Kingdom Bacteria, Archaea, Eukaryota, Fungi

時間涵蓋範圍

起始日期 / 結束日期 2012-04-25 / 2016-05-28

計畫資料

Environmental metagenomic data generated from sequencing amplicon of in-shore, off-shore and plant-associated soil microbial communities of the sub-Antarctic Prince Edward and Marion Islands

計畫名稱 FBIP: Survey of invertebrate and microbial diversity of the Prince Edward Islands system
辨識碼 FBIS150518118100
經費來源 Foundational Biodiversity Information Programme
研究區域描述 Prince Edward and Marion Islands

參與計畫的人員:

Rosemary Dorrington
  • 擁有者

取樣方法

- Soil/root samples were collected from various plants occuring on Marion Island, these samples were stored at -20oC and sent to the laboratory for analysis. Despite being frozen isolations were performed. - Surface seawater (taken from a depth of 5 m) and for the illumina samples (depth was approx 5m) was filtered through 100 µm mesh, followed by polyethersulfone membrane filters (0.22 µm) to collect bacteria. Filtered seawater and the filters were stored separately at -20ºC.

研究範圍 Survey and metabarcoding of microorganism in Prince Edward and Marion Islands
品質控管 No

方法步驟描述:

  1. Standard mycological culturing methods, used standard sequencing methods: - 16S rRNA genes using bacterial targeting and archaea targeting primers and 18S rRNA genes using universal eukaryote primers were amplified via polymerase chain reactions using genomic DNA extracted from biomass which was collected on the polyethersulfone membrane filters. Polymerase chain reaction products were sized on an agarose gel and extracted. The cleaned up extractions were then sequenced via pyrosequencing and Illumina sequencing. Sequence reads were curated using Mothur. - Extraction of genomic DNA from soil samples, followed by polymerase chain reaction (PCR) amplification of 16S rRNA and 18S rRNA gene for selected samples. PCR products were cut out from agarose gels to ensure the correct PCR product was obtain, each correct product was extracted from the gel and then purified, followed by sequencing on the Illumina platform. Raw sequence reads were curated using Mothur and classified according to the Silva v132 database. - Extraction of genomic DNA from root samples, followed by polymerase chain reaction (PCR) amplification of the ITS1 region. PCR products were cut out from agarose gels to ensure the correct PCR product was obtain, each correct product was extracted from the gel and then purified, followed by sequencing on the Illumina platform. - DNA was extracted from the isolated fungal endophytes, the ITS region was PCR amplified and amplicons were sent for sanger sequencing. When sequences were determined individual isolates were identified using BLAST on the NCBI website

額外的詮釋資料