Data_Sheet_1_Biogeographic distribution of five Antarctic cyanobacteria using large-scale k-mer searching with sourmash branchwater.PDF
Cyanobacteria form diverse communities and are important primary producers in Antarctic freshwater environments, but their geographic distribution patterns in Antarctica and globally are still unresolved. There are however few genomes of cultured cyanobacteria from Antarctica available and therefore...
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ftfrontimediafig:oai:figshare.com:article/25242484 2024-09-15T17:48:48+00:00 Data_Sheet_1_Biogeographic distribution of five Antarctic cyanobacteria using large-scale k-mer searching with sourmash branchwater.PDF Jessica Lumian Dawn Y. Sumner Christen L. Grettenberger Anne D. Jungblut Luiz Irber N. Tessa Pierce-Ward C. Titus Brown 2024-02-19T04:21:53Z https://doi.org/10.3389/fmicb.2024.1328083.s001 https://figshare.com/articles/dataset/Data_Sheet_1_Biogeographic_distribution_of_five_Antarctic_cyanobacteria_using_large-scale_k-mer_searching_with_sourmash_branchwater_PDF/25242484 unknown doi:10.3389/fmicb.2024.1328083.s001 https://figshare.com/articles/dataset/Data_Sheet_1_Biogeographic_distribution_of_five_Antarctic_cyanobacteria_using_large-scale_k-mer_searching_with_sourmash_branchwater_PDF/25242484 CC BY 4.0 Microbiology Microbial Genetics Microbial Ecology Mycology biogeography bioinformatics cyrosphere polar cyanobacteria metagenomics Dataset 2024 ftfrontimediafig https://doi.org/10.3389/fmicb.2024.1328083.s001 2024-08-19T06:19:46Z Cyanobacteria form diverse communities and are important primary producers in Antarctic freshwater environments, but their geographic distribution patterns in Antarctica and globally are still unresolved. There are however few genomes of cultured cyanobacteria from Antarctica available and therefore metagenome-assembled genomes (MAGs) from Antarctic cyanobacteria microbial mats provide an opportunity to explore distribution of uncultured taxa. These MAGs also allow comparison with metagenomes of cyanobacteria enriched communities from a range of habitats, geographic locations, and climates. However, most MAGs do not contain 16S rRNA gene sequences, making a 16S rRNA gene-based biogeography comparison difficult. An alternative technique is to use large-scale k-mer searching to find genomes of interest in public metagenomes. This paper presents the results of k-mer based searches for 5 Antarctic cyanobacteria MAGs from Lake Fryxell and Lake Vanda, assigned the names Phormidium pseudopriestleyi FRX01, Microcoleus sp. MP8IB2.171, Leptolyngbya sp. BulkMat.35, Pseudanabaenaceae cyanobacterium MP8IB2.15, and Leptolyngbyaceae cyanobacterium MP9P1.79 in 498,942 unassembled metagenomes from the National Center for Biotechnology Information (NCBI) Sequence Read Archive (SRA). The Microcoleus sp. MP8IB2.171 MAG was found in a wide variety of environments, the P. pseudopriestleyi MAG was found in environments with challenging conditions, the Leptolyngbyaceae cyanobacterium MP9P1.79 MAG was only found in Antarctica, and the Leptolyngbya sp. BulkMat.35 and Pseudanabaenaceae cyanobacterium MP8IB2.15 MAGs were found in Antarctic and other cold environments. The findings based on metagenome matches and global comparisons suggest that these Antarctic cyanobacteria have distinct distribution patterns ranging from locally restricted to global distribution across the cold biosphere and other climatic zones. Dataset Antarc* Antarctic Antarctica Frontiers: Figshare |
institution |
Open Polar |
collection |
Frontiers: Figshare |
op_collection_id |
ftfrontimediafig |
language |
unknown |
topic |
Microbiology Microbial Genetics Microbial Ecology Mycology biogeography bioinformatics cyrosphere polar cyanobacteria metagenomics |
spellingShingle |
Microbiology Microbial Genetics Microbial Ecology Mycology biogeography bioinformatics cyrosphere polar cyanobacteria metagenomics Jessica Lumian Dawn Y. Sumner Christen L. Grettenberger Anne D. Jungblut Luiz Irber N. Tessa Pierce-Ward C. Titus Brown Data_Sheet_1_Biogeographic distribution of five Antarctic cyanobacteria using large-scale k-mer searching with sourmash branchwater.PDF |
topic_facet |
Microbiology Microbial Genetics Microbial Ecology Mycology biogeography bioinformatics cyrosphere polar cyanobacteria metagenomics |
description |
Cyanobacteria form diverse communities and are important primary producers in Antarctic freshwater environments, but their geographic distribution patterns in Antarctica and globally are still unresolved. There are however few genomes of cultured cyanobacteria from Antarctica available and therefore metagenome-assembled genomes (MAGs) from Antarctic cyanobacteria microbial mats provide an opportunity to explore distribution of uncultured taxa. These MAGs also allow comparison with metagenomes of cyanobacteria enriched communities from a range of habitats, geographic locations, and climates. However, most MAGs do not contain 16S rRNA gene sequences, making a 16S rRNA gene-based biogeography comparison difficult. An alternative technique is to use large-scale k-mer searching to find genomes of interest in public metagenomes. This paper presents the results of k-mer based searches for 5 Antarctic cyanobacteria MAGs from Lake Fryxell and Lake Vanda, assigned the names Phormidium pseudopriestleyi FRX01, Microcoleus sp. MP8IB2.171, Leptolyngbya sp. BulkMat.35, Pseudanabaenaceae cyanobacterium MP8IB2.15, and Leptolyngbyaceae cyanobacterium MP9P1.79 in 498,942 unassembled metagenomes from the National Center for Biotechnology Information (NCBI) Sequence Read Archive (SRA). The Microcoleus sp. MP8IB2.171 MAG was found in a wide variety of environments, the P. pseudopriestleyi MAG was found in environments with challenging conditions, the Leptolyngbyaceae cyanobacterium MP9P1.79 MAG was only found in Antarctica, and the Leptolyngbya sp. BulkMat.35 and Pseudanabaenaceae cyanobacterium MP8IB2.15 MAGs were found in Antarctic and other cold environments. The findings based on metagenome matches and global comparisons suggest that these Antarctic cyanobacteria have distinct distribution patterns ranging from locally restricted to global distribution across the cold biosphere and other climatic zones. |
format |
Dataset |
author |
Jessica Lumian Dawn Y. Sumner Christen L. Grettenberger Anne D. Jungblut Luiz Irber N. Tessa Pierce-Ward C. Titus Brown |
author_facet |
Jessica Lumian Dawn Y. Sumner Christen L. Grettenberger Anne D. Jungblut Luiz Irber N. Tessa Pierce-Ward C. Titus Brown |
author_sort |
Jessica Lumian |
title |
Data_Sheet_1_Biogeographic distribution of five Antarctic cyanobacteria using large-scale k-mer searching with sourmash branchwater.PDF |
title_short |
Data_Sheet_1_Biogeographic distribution of five Antarctic cyanobacteria using large-scale k-mer searching with sourmash branchwater.PDF |
title_full |
Data_Sheet_1_Biogeographic distribution of five Antarctic cyanobacteria using large-scale k-mer searching with sourmash branchwater.PDF |
title_fullStr |
Data_Sheet_1_Biogeographic distribution of five Antarctic cyanobacteria using large-scale k-mer searching with sourmash branchwater.PDF |
title_full_unstemmed |
Data_Sheet_1_Biogeographic distribution of five Antarctic cyanobacteria using large-scale k-mer searching with sourmash branchwater.PDF |
title_sort |
data_sheet_1_biogeographic distribution of five antarctic cyanobacteria using large-scale k-mer searching with sourmash branchwater.pdf |
publishDate |
2024 |
url |
https://doi.org/10.3389/fmicb.2024.1328083.s001 https://figshare.com/articles/dataset/Data_Sheet_1_Biogeographic_distribution_of_five_Antarctic_cyanobacteria_using_large-scale_k-mer_searching_with_sourmash_branchwater_PDF/25242484 |
genre |
Antarc* Antarctic Antarctica |
genre_facet |
Antarc* Antarctic Antarctica |
op_relation |
doi:10.3389/fmicb.2024.1328083.s001 https://figshare.com/articles/dataset/Data_Sheet_1_Biogeographic_distribution_of_five_Antarctic_cyanobacteria_using_large-scale_k-mer_searching_with_sourmash_branchwater_PDF/25242484 |
op_rights |
CC BY 4.0 |
op_doi |
https://doi.org/10.3389/fmicb.2024.1328083.s001 |
_version_ |
1810290319234695168 |