References

Evolutionary and molecular foundations of multiple contemporary functions of the nitroreductase superfamily

10.1073/pnas.1706849114 · 2017 · External reference

Tropical dead zones and mass mortalities on coral reefs

10.1073/pnas.1621517114 · 2017 · External reference

Microbial Strategies for Survival in the Glass Sponge <span class="italique">Vazella pourtalesii</span>

10.1128/msystems.00473-20 · 2020 · External reference

Sponges to Be Winners under Near-Future Climate Scenarios

10.1093/biosci/biy142 · 2018 · External reference

The distribution and prevalence of sponges in relation to environmental gradients within a temperate sea lough: inclined cliff surfaces

10.1046/j.1472-4642.2000.00092.x · 2000 · External reference

Interactive effects of temperature and &lt;scp&gt;<span class="italique">p</span>CO&lt;/scp&gt;₂ on sponges: from the cradle to the grave

10.1111/gcb.13474 · 2016 · External reference

The marine fauna of new zealand: porifera, demospongiae, part 1 (tetractinomorpha and lithistida)

1968 · External reference

10.1086/physzool.55.3.30157888

10.1086/physzool.55.3.30157888 · 1802 · External reference

On the anatomy and physiology of the spongiadae. part i. on the spicula

1858 · External reference

Unresolved reference

1864 · External reference

Declining oxygen in the global ocean and coastal waters

10.1126/science.aam7240 · 2018 · External reference

Reaction of Oxygen with the Respiratory Chain in Cells and Tissues

10.1085/jgp.49.1.163 · 1965 · External reference

Cellular oxygen sensing by mitochondria: old questions, new insight

10.1152/jappl.2000.88.5.1880 · 2000 · External reference

Report on the sponges collected by Professor Herdman, at Ceylon, in 1902

1905 · External reference

Spreading Dead Zones and Consequences for Marine Ecosystems

10.1126/science.1156401 · 2008 · External reference

Genomic determinants of coral heat tolerance across latitudes

10.1126/science.1261224 · 2015 · External reference

Dating early animal evolution using phylogenomic data

10.1038/s41598-017-03791-w · 2017 · External reference

Mitochondrial transcription and translation: overview

10.1042/ebc20170102 · 2018 · External reference

raxmlGUI 2.0: A graphical interface and toolkit for phylogenetic analyses using RAxML

10.1111/2041-210x.13512 · 2020 · External reference

Heat shock protein Hsp70 expression and DNA damage in Baikalian sponges exposed to model pollutants and wastewater from Baikalsk Pulp and Paper Plant

10.1016/s0166-445x(01)00209-0 · 2002 · External reference

Metabolic Responses of the Sea Anemone <span class="italique">Bunodosoma cavernata</span> (Bosc) to Declining Oxygen Tensions and Anoxia

10.1086/physzool.55.3.30157888 · 1982 · External reference

Improved Modeling of Compositional Heterogeneity Supports Sponges as Sister to All Other Animals

10.1016/j.cub.2017.11.008 · 2017 · External reference

Make interactive plot of contigs in genomes or metagenomes

2020 · External reference

General sequence processing scripts

2020 · External reference

Global Transcriptome Analysis of Orange Wheat Blossom Midge, <span class="italique">Sitodiplosis mosellana</span> (Gehin) (Diptera: Cecidomyiidae) to Identify Candidate Transcripts Regulating Diapause

10.1371/journal.pone.0071564 · 2013 · External reference

Reactive oxygen species, nutrition, hypoxia and diseases: Problems solved?

10.1016/j.redox.2015.08.016 · 2015 · External reference

Full-length transcriptome assembly from RNA-Seq data without a reference genome

10.1038/nbt.1883 · 2011 · External reference

Notice of a new zoophyte (Cliona celata Gr.) from the Firth of Forth

1826 · External reference

Animal Kingdom

1836 · External reference

10.1002/9783527613984

10.1002/9783527613984 · 1999 · External reference

Effects of dissolved oxygen levels on survival and growth in vitro of <span class="italique">Haliclona pigmentifera</span> (Demospongiae)

10.1007/s00441-009-0843-5 · 2009 · External reference

Gene Expression Dynamics Accompanying the Sponge Thermal Stress Response

10.1371/journal.pone.0165368 · 2016 · External reference

Mechanism, origin, and evolution of anoxia tolerance in animals☆

10.1016/s1096-4959(01)00408-0 · 2001 · External reference

An Anaerobic World in Sponges

10.1080/01490450590922505 · 2005 · External reference

Complex nitrogen cycling in the sponge <span class="italique">Geodia barretti</span>

10.1111/j.1462-2920.2009.01944.x · 2009 · External reference

eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences

10.1093/nar/gkv1248 · 2015 · External reference

Coral reef survival under accelerating ocean deoxygenation

10.1038/s41558-020-0737-9 · 2020 · External reference

ReportingTools: an automated result processing and presentation toolkit for high-throughput genomic analyses

10.1093/bioinformatics/btt551 · 2013 · External reference

Unresolved reference

1842 · External reference

Formate dehydrogenase – a versatile enzyme in changing environments

10.1016/s0959-440x(03)00098-8 · 2003 · External reference

MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform

10.1093/nar/gkf436 · 2002 · External reference

Ocean Deoxygenation in a Warming World

10.1146/annurev.marine.010908.163855 · 2010 · External reference

Revision of Southwest Pacific Polymastiidae (Porifera: Demospongiae: Hadromerida) with descriptions of new species of <span class="italique">Polymastia</span> Bowerbank,<span class="italique">Tylexocladus </span>Topsent, and <span class="italique">Acanthopolymastia</span> gen. nov. from New Zealand and the Norfolk Ridge, New Caledonia

10.1080/00288330.1997.9516772 · 1997 · External reference

10.1093/oso/9780197520376.001.0001

10.1093/oso/9780197520376.001.0001 · 2021 · External reference

Pheatmap: Pretty Heatmaps. R-package

2013 · External reference

Oxygen and nitrogen production by an ammonia-oxidizing archaeon

10.1126/science.abe6733 · External reference

Oxygen production by an ammonia-oxidizing archaeon

10.1101/2021.04.01.436977 · External reference

Spatial and temporal anoxia in single-osculum Halichondria panicea demosponge explants studied with planar optodes

10.1007/s00227-021-03980-2 · 2021 · External reference

Fast gapped-read alignment with Bowtie 2

10.1038/nmeth.1923 · 2012 · External reference

Living without Oxygen: Anoxia-Responsive Gene Expression and Regulation

10.2174/138920209787847032 · 2009 · External reference

Transcription Regulators in Archaea: Homologies and Differences with Bacterial Regulators

10.1016/j.jmb.2019.05.045 · 2019 · External reference

Sur une nouvelle classification des Démosponges

1953 · External reference

Manifestation, Drivers, and Emergence of Open Ocean Deoxygenation

10.1146/annurev-marine-121916-063359 · 2018 · External reference

Oxygen and the Energetic Requirements of the First Multicellular Animals

10.1093/icb/icy051 · 2018 · External reference

MEGAHIT v1.0: A fast and scalable metagenome assembler driven by advanced methodologies and community practices

10.1016/j.ymeth.2016.02.020 · 2016 · External reference

Heat‐Shock Proteins

10.1002/0471142735.ima01ts58 · 2003 · External reference

Respiration rate of rat-liver cells at low oxygen concentrations

10.1042/bj0650378 · 1957 · External reference

Bleaching and stress in coral reef ecosystems: <span class="italique">hsp70</span> expression by the giant barrel sponge <span class="italique">Xestospongia muta</span>

10.1111/j.1365-294x.2008.03667.x · 2008 · External reference

Production of oceanic nitrous oxide by ammonia-oxidizing archaea

10.5194/bg-9-2419-2012 · 2012 · External reference

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

10.1186/s13059-014-0550-8 · 2014 · External reference

The bioenergetic costs of a gene

10.1073/pnas.1514974112 · 2015 · External reference

Gene expression, metabolic regulation and stress tolerance during diapause

10.1007/s00018-010-0311-0 · 2010 · External reference

Identification of the&lt;scp&gt;l,d&lt;/scp&gt;-Transpeptidases for Peptidoglycan Cross-Linking in<span class="italique">Escherichia coli</span>

10.1128/jb.00025-08 · 2008 · External reference

Assembly and annotation of transcriptomes de novo

2015 · External reference

Mitochondrial gene expression in single cells shape pancreatic beta cells' sub-populations and explain variation in insulin pathway

10.1038/s41598-020-80334-w · 2021 · External reference

A collection of scripts for analyzing transcriptome assemblies.

2016 · External reference

Vulnerability of Temperate Mesophotic Ecosystems (TMEs) to environmental impacts: Rapid ecosystem changes at Lough Hyne Marine Nature Reserve, Ireland

10.1016/j.scitotenv.2021.147708 · 2021 · External reference

Adaptive strategies of sponges to deoxygenated oceans

10.1111/gcb.16013 · 2021 · External reference

Future oceanic conditions could leave sponge holobionts breathless – but they won’t let that stop them

10.24072/pci.zool.100211 · 2023 · External reference

The last common ancestor of animals lacked the HIF pathway and respired in low-oxygen environments

10.7554/elife.31176 · 2018 · External reference

Oxygen requirements of the earliest animals

10.1073/pnas.1400547111 · 2014 · External reference

Characterization of a thaumarchaeal symbiont that drives incomplete nitrification in the tropical sponge<span class="italique">Ianthella basta</span>

10.1111/1462-2920.14732 · 2019 · External reference

Integrated metabolism in sponge–microbe symbiosis revealed by genome-centered metatranscriptomics

10.1038/ismej.2017.25 · 2017 · External reference

Six major steps in animal evolution: are we derived sponge larvae?

10.1111/j.1525-142x.2008.00231.x · 2008 · External reference

10.5962/bhl.title.6595

10.5962/bhl.title.6595 · 1766 · External reference

A Vicious Circle? Altered Carbon and Nutrient Cycling May Explain the Low Resilience of Caribbean Coral Reefs

10.1093/biosci/biw047 · 2016 · External reference

Trimitomics: An efficient pipeline for mitochondrial assembly from transcriptomic reads in nonmodel species

10.1111/1755-0998.13033 · 2019 · External reference

R: A Language and Environment for Statistical Computing.

2016 · External reference

Mitochondrial respiratory gene expression is suppressed in many cancers

10.7554/elife.21592 · 2017 · External reference

The Analysis of Eight Transcriptomes from All Poriferan Classes Reveals Surprising Genetic Complexity in Sponges

10.1093/molbev/msu057 · 2014 · External reference

RStudio: integrated development for R

2020 · External reference

Adaptations to environmental oxygen levels in infaunal and epifaunal sea anemones

10.2307/1540189 · 1972 · External reference

Unresolved reference

1870 · External reference

Stress response in Baikalian sponges exposed to pollutants

10.1007/s10750-006-0302-1 · 2006 · External reference

How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?

10.1261/rna.053959.115 · 2016 · External reference

Effects of Seasonal Anoxia on the Microbial Community Structure in Demosponges in a Marine Lake in Lough Hyne, Ireland

10.1128/msphere.00991-20 · 2021 · External reference

Life with Oxygen

10.1126/science.1147949 · 2007 · External reference

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

10.1093/bioinformatics/btv351 · 2015 · External reference

Divergent gene expression in the conserved dauer stage of the nematodes <span class="italique">Pristionchus pacificus</span> and <span class="italique">Caenorhabditis elegans</span>

10.1186/1471-2164-13-254 · 2012 · External reference

A combined lipidomic and 16S &lt;scp&gt;rRNA&lt;/scp&gt; gene amplicon sequencing approach reveals archaeal sources of intact polar lipids in the stratified Black Sea water column

10.1111/gbi.12316 · 2018 · External reference

Mass Mortality in the Gulf of Trieste: The Course of Community Destruction

10.1111/j.1439-0485.1984.tb00124.x · 1984 · External reference

Red fluorescence in coral larvae is associated with a diapause‐like state

10.1111/mec.13488 · 2016 · External reference

Expanding oxygen-minimum zones in the tropical oceans, Science

10.1126/science.1153847 · 2008 · External reference

Novel reference transcriptomes for the sponges <span class="italique">Carteriospongia foliascens</span> and <span class="italique">Cliona orientalis</span> and associated algal symbiont <span class="italique">Gerakladium endoclionum</span>

10.1101/2020.06.26.156463 · External reference

Supplemental: Transcriptomic responses of sponge holobionts to in situ, seasonal anoxia and hypoxia

10.5281/zenodo.10926575 · 2024 · External reference

bstrehlow/Sponge-transcriptomic-responses-to-seasonal-anoxia: v1 (Version v1)

10.5281/zenodo.7418964 · 2022 · External reference

Unresolved reference

1997 · External reference

Spongiaires de l'Atlantique et de la Méditerranée provenant des croisières du Prince Albert ler de Monaco

10.5962/bhl.title.2169 · 1928 · External reference

Temperature effects on oxygen thresholds for hypoxia in marine benthic organisms

10.1111/j.1365-2486.2010.02343.x · 2010 · External reference

Slime away: a simple {CTAB-based} high molecular weight {DNA} and {RNA} extraction protocol for “difficult” invertebrates

10.17504/protocols.io.bwcwpaxe · 2021 · External reference

A complex life cycle in a warming planet: gene expression in thermally stressed sponges

10.1111/mec.12213 · 2013 · External reference

Marine sponges and their microbial symbionts: love and other relationships

10.1111/j.1462-2920.2011.02460.x · 2011 · External reference

Cytochrome <span class="italique">c</span>, a hub linking energy, redox, stress and signaling pathways in mitochondria and other cell compartments

10.1111/ppl.12449 · 2016 · External reference

Microbial associations in sponges. II. Numerical analysis of sponge and water bacterial populations

10.1007/bf00387116 · 1978 · External reference

The oxygen dependence of cellular energy metabolism

10.1016/0003-9861(79)90375-8 · 1979 · External reference

Gene expression associated with white syndromes in a reef building coral, Acropora hyacinthus

10.1186/s12864-015-1540-2 · 2015 · External reference