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      Giant sponge grounds of Central Arctic seamounts are associated with extinct seep life

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          Abstract

          The Central Arctic Ocean is one of the most oligotrophic oceans on Earth because of its sea-ice cover and short productive season. Nonetheless, across the peaks of extinct volcanic seamounts of the Langseth Ridge (87°N, 61°E), we observe a surprisingly dense benthic biomass. Bacteriosponges are the most abundant fauna within this community, with a mass of 460 g C m −2 and an estimated carbon demand of around 110 g C m −2 yr −1, despite export fluxes from regional primary productivity only sufficient to provide <1% of this required carbon. Observed sponge distribution, bulk and compound-specific isotope data of fatty acids suggest that the sponge microbiome taps into refractory dissolved and particulate organic matter, including remnants of an extinct seep community. The metabolic profile of bacteriosponge fatty acids and expressed genes indicate that autotrophic symbionts contribute significantly to carbon assimilation. We suggest that this hotspot ecosystem is unique to the Central Arctic and associated with extinct seep biota, once fueled by degassing of the volcanic mounts.

          Abstract

          This study reports the discovery of dense sponge gardens across the peaks of permanently ice-covered, extinct volcanic seamounts of the Langseth Ridge and on the remnants of a now extinct seep ecosystem. Using approaches to sample and infer food and energy sources to this ice-covered community, the authors suggest that the sponges use refractory organic matter trapped in the extinct seep community on which they sit.

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          Trimmomatic: a flexible trimmer for Illumina sequence data

          Motivation: Although many next-generation sequencing (NGS) read preprocessing tools already existed, we could not find any tool or combination of tools that met our requirements in terms of flexibility, correct handling of paired-end data and high performance. We have developed Trimmomatic as a more flexible and efficient preprocessing tool, which could correctly handle paired-end data. Results: The value of NGS read preprocessing is demonstrated for both reference-based and reference-free tasks. Trimmomatic is shown to produce output that is at least competitive with, and in many cases superior to, that produced by other tools, in all scenarios tested. Availability and implementation: Trimmomatic is licensed under GPL V3. It is cross-platform (Java 1.5+ required) and available at http://www.usadellab.org/cms/index.php?page=trimmomatic Contact: usadel@bio1.rwth-aachen.de Supplementary information: Supplementary data are available at Bioinformatics online.
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            Fast gapped-read alignment with Bowtie 2.

            As the rate of sequencing increases, greater throughput is demanded from read aligners. The full-text minute index is often used to make alignment very fast and memory-efficient, but the approach is ill-suited to finding longer, gapped alignments. Bowtie 2 combines the strengths of the full-text minute index with the flexibility and speed of hardware-accelerated dynamic programming algorithms to achieve a combination of high speed, sensitivity and accuracy.
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              DADA2: High resolution sample inference from Illumina amplicon data

              We present DADA2, a software package that models and corrects Illumina-sequenced amplicon errors. DADA2 infers sample sequences exactly, without coarse-graining into OTUs, and resolves differences of as little as one nucleotide. In several mock communities DADA2 identified more real variants and output fewer spurious sequences than other methods. We applied DADA2 to vaginal samples from a cohort of pregnant women, revealing a diversity of previously undetected Lactobacillus crispatus variants.
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                Author and article information

                Contributors
                tmorgant@mpi-bremen.de
                antje.boetius@awi.de
                Journal
                Nat Commun
                Nat Commun
                Nature Communications
                Nature Publishing Group UK (London )
                2041-1723
                8 February 2022
                8 February 2022
                2022
                : 13
                : 638
                Affiliations
                [1 ]GRID grid.419529.2, ISNI 0000 0004 0491 3210, Max Planck Institute for Marine Microbiology, ; Celsiusstr. 1, 28359 Bremen, Germany
                [2 ]GRID grid.15649.3f, ISNI 0000 0000 9056 9663, GEOMAR Helmholtz Centre for Ocean Research Kiel, ; Düsternbrooker Weg 20, 24105 Kiel, Germany
                [3 ]GRID grid.5477.1, ISNI 0000000120346234, Utrecht University, Department of Earth Sciences, ; Princetonlaan 8a, 3584 CB Utrecht, The Netherlands
                [4 ]GRID grid.9764.c, ISNI 0000 0001 2153 9986, Christian-Albrechts University of Kiel, ; Christian-Albrechts-Platz 4, 24118 Kiel, Germany
                [5 ]GRID grid.7704.4, ISNI 0000 0001 2297 4381, MARUM and Department of Geosciences, , University of Bremen, ; 28359 Bremen, Germany
                [6 ]GRID grid.10894.34, ISNI 0000 0001 1033 7684, Alfred Wegener Institute Helmholtz Center for Polar and Marine Research, ; Am Handelshafen 12, 27570 Bremerhaven, Germany
                [7 ]GRID grid.511218.e, Helmholtz Institute for Functional Marine Biodiversity, ; Ammerländer Heerstraße 231, 26129 Oldenburg, Germany
                [8 ]GRID grid.7914.b, ISNI 0000 0004 1936 7443, University of Bergen, Department of Biological Sciences and K.G. Jebsen Centre for Deep-Sea Research, ; PO Box 7803, 5020 Bergen, Norway
                Author information
                http://orcid.org/0000-0001-6928-9496
                http://orcid.org/0000-0002-9480-1460
                http://orcid.org/0000-0001-8288-7466
                http://orcid.org/0000-0001-7621-998X
                http://orcid.org/0000-0003-0596-790X
                http://orcid.org/0000-0003-3601-9072
                http://orcid.org/0000-0003-0207-3767
                http://orcid.org/0000-0001-5138-564X
                http://orcid.org/0000-0002-3737-5872
                http://orcid.org/0000-0001-5427-0151
                http://orcid.org/0000-0003-2117-4176
                Article
                28129
                10.1038/s41467-022-28129-7
                8826442
                35136058
                604744fa-79a9-4f6b-98c2-d05e1110d1a6
                © The Author(s) 2022

                Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

                History
                : 25 May 2021
                : 4 January 2022
                Funding
                Funded by: Helmholtz Association and Max Planck Society
                Funded by: FundRef https://doi.org/10.13039/100010661, EC | Horizon 2020 Framework Programme (EU Framework Programme for Research and Innovation H2020);
                Award ID: 679849
                Award ID: 679849
                Award ID: 679849
                Award Recipient :
                Funded by: FundRef https://doi.org/10.13039/100010663, EC | EU Framework Programme for Research and Innovation H2020 | H2020 Priority Excellent Science | H2020 European Research Council (H2020 Excellent Science - European Research Council);
                Award ID: 49926684
                Award Recipient :
                Categories
                Article
                Custom metadata
                © The Author(s) 2022

                Uncategorized
                phospholipids,ecosystem ecology,macroecology,stable isotope analysis,symbiosis
                Uncategorized
                phospholipids, ecosystem ecology, macroecology, stable isotope analysis, symbiosis

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