A thermal cycler or "thermocycler" is a general term for a type of laboratory apparatus, commonly used for performing polymerase chain reaction (PCR), that is capable of repeatedly altering and maintaining specific temperatures for defined periods of time. The device has a thermal block with holes where tubes with the PCR reaction mixtures can be inserted. The cycler then raises and lowers the temperature of the block in discrete, pre-programmed steps. They can also be used to facilitate other temperature-sensitive reactions, including restriction enzyme digestion or rapid diagnostics.
(adapted from http://serc.carleton.edu/microbelife/research_methods/genomics/pcr.html)
Dataset Name | Brief Description |
---|---|
16S rRNA accessions: IODP Site 1244 | 16S rRNA gene amplicon sequence accessions, Hydrate Ridge, offshore Oregon |
16S rRNA gene Amplicon Library | 16S rRNA gene Amplicon Library accession numbers |
16S rRNA Sequences | 16S rRNA sequence data from venting fluids and microbial mats at Axial Seamount, 2011. |
16S V4 rRNA gene tag sequences from reef seawater | 16S V4 rRNA gene tag sequences from reef seawater |
515F-926R 16S rRNA accessions | 515F-926R 16S rRNA accessions, Mariana and Kermadec trenches, 2014 |
5a_field collection | Field collection data for taxa detected in nauplii guts |
5b_nauplii gut taxa | Taxa detected in field caught nauplii guts |
5c_BLAST results | GenBank BLAST results of copepod nauplii gut contents |
5d_molecular id of copepod guts | Identification of copepod gut contents |
Accession numbers (P. carterae viruses and field samples) | Accession numbers for genetic sequences from virus-enriched field samples and P. carterae CCMP 645 culture co-infections |
Acropora cervicornis 16S Sequences Metadata and NCBI SRA accessions associated with Williams et al., 2022 | Acropora cervicornis 16S Sequences Metadata and NCBI SRA accessions associated with Williams et al., 2022 |
Acropora cervicornis bleaching sequences | Acropora cervicornis bleaching sequences |
Acropora palmata genotypes for clonal age | Mutations at microsatellite loci of Acropora palmata |
Acropora palmata mutations | Mutations at microsatellite loci of Acropora palmata |
Amplicon sequencing of ammonia oxidizing archaea amoA gene | Amplicon sequencing of ammonia oxidizing archaea amoA gene from cruise KM1314, Aug. 8 - Sept. 4, 2013 in the northern Pacific |
AMT22 Population Samples | Overview of population samples included in genetic analyses of Pleuromamma xiphias |
Anaerobic Peru Margin 2002 | Sub-seafloor metatranscriptomes from anaerobic Peru Margin sediments collected on JOIDES Resolution, Leg 201. |
Anaerobic Sediment 18S rRNA amplicons | Iberian Margin Anaerobic Sediment 18S rRNA amplicons. |
ARISA relative abundances | ARISA relative abundances (bacterial community structure), San Pedro Channel, 5 depths |
Assembled metagenome sequences > 500 bp | Assembled metagenome sequences > 500 bp from EPR, Lo'ihi, and control |
BATS_Feb_Aug_2012_diversity_rDNA_BLAST | BLAST results from the Bermuda Atlantic Time Series (BATS) site in Feb. and Aug. 2012 |
BATS_Feb_Aug_2012_rDNA_sample_log | sample log for 16S and 18S rDNA amplicons sequenced with 454 technology, BATS site, 2012 |
Bleached octocoral genotypes | Bleached Octocoral Symbiont Cell Counts |
Breviolum antillogorgium microsatellite loci | Microsatellite loci for B. antillogorgium cultures |
Bugula neritina Genotype Distribution | Bugula neritina host genotype and symbiotic status of colonies along the East Coast |
Cannon_2013_T2: NCBI accessions | Hemichordata and Echinodermata NCBI accessions |
Cannon_2014_S2: Hemichordata and Echinodermata sample log and accessions | Hemichordata and Echinodermata transcriptome NCBI accessions |
Caribbean PaV1 survey | Caribbean wide survey of PaV1 prevalence in adult lobsters, 2006-2007 and 2010-2011 |
CARP accession numbers | Sequence accession numbers for coral acid rich proteins (CARPs) from Stylophora pistillata. |
Circovirus DNA Sequence Information | DNA sequences of viruses associated with Copepods |
Community 16S rRNA gene sequences | 16S rRNA accessions |
Coral cDNA Expressed Sequences | cDNA Expressed Sequence Tags for the corals Acropora palmate and Orbicella faveola |
Coral images and accession numbers | Species images and accession numbers for tissue, mucus, and holobionts analyzed. |
coral life stages - Illumina | Illumina sequenced 16S rRNA genes amplified from different life stages of 2 corals |
coral microbe T-RF - biogeography | Hawaiian coral terminal-restriction fragment length polymorphism (T-RFLP) analysis |
coral microbe T-RF - temp stress | Terminal restriction fragments from 16S rRNA genes amplified from coral-associated microbes, response to temperature stress |
Coral-bacterioplankton data from mesocosm experiments | Bacterioplankton data from coral and coral mucus aquaria experiments. |
coral-microbe T-RF - development | Specificity of associations between bacteria and the coral Pocillopora meandrina during early development |
coral-microbe T-RF - spawning | T-RFLP, response of the microbial community to coral spawning, lagoon and reef flats, Oahu, 2006-7 |
Cuvierina SRA | Cuvierina SRA, accessions, collection info |
dataset2_Krug_et_al_2012: Elysia accessions | Elysia spp. accessions for COI, 16S, H3 |
dataset3_Supp1_Krug_et_al_2011: Elysia sequences | Accessions for COI, 16S, H3 for 18 Elysia species |
dataset4_Krug_et_al_2012: Philine sequences | Accessions for 16S for Philine species |
dataset5_Vendetti_et_al_2012: Elysia pusilla sequences | Accessions for COI, 16S, H3 from Elysia pusilla and E. spp. |
dataset6_Krug_et_al_2013: Sequences | Accessions for COI, H3 for three species complexes |
dataset8- Oxynoe sequence data | Species names, sample codes, and collection details for sequenced taxa used in phylogenetic analyses. |
Deep Biosphere Eukaryotic rRNA | Sub-seafloor sediment eukaryotic rRNA collected on JOIDES Resolution Legs 201 and 204, R/V Maria Merian at North Pond, and R/V Meteor at the Benguela Upwelling System. |
Delta Nitrification Study - GenBank Accession Numbers | GenBank accession numbers for ammonia oxidizer genes. |
Delta Nitrification Study - Potential Nitrification Rates | Nitrification rates and ammonia oxidizer gene abundances |
DHAB halocline sediment pyrotags - eukaryotes | 454 pyrotags for Eukaryote taxa in deep hypersaline anoxic basin (DHAB) halocline sediments |
DHAB halocline sediment pyrotags - prokaryotes | 454 pyrotags for Bacterial and Archaeal taxa in deep hypersaline anoxic basin (DHAB) halocline sediments |
Diatom amplicon sequencing variants from Narragansett Bay 2008-2014 | Diatom amplicon sequencing variants from Narragansett Bay 2008-2014 |
Diatom microbiome | Identification of microbiome from different Pseudo-nitzschia species |
DNA microsatellite alleles - Eelgrass ramets | DNA microsatellite alleles for eelgrass ramets from two sites in MA |
DNA microsatellite alleles - Flowering shoots and seeds | DNA microsatellite alleles from flowering shoots and seeds |
Doliolid diet: zooplankton abundance | Zooplankton abundances |
Domel_2017_T1: Pallenopsis patagonica specimen and outgroups with accessions | Pallenopsis patagonica specimen and outgroups with accessions |
Dorado Outcrop basalt DNA sequences | Accession numbers for clone and Illumina amplicon sequence libraries from Dorado Outcrop basalts |
Fe_Vit12_MetaT_Co-Limitation_RossSea_2014 | Iron and vitamin B12 metatranscriptomincs co-limitation in Ross Sea waters, 2014 |
Fossil Seal Bulk Isotopes 14C | Location, weathering, bulk isotope, and 14C data for fossil seals from the western Ross Sea, Antarctica |
Gene Abundance | |
Gnathiid blood meal identification results | |
Goby_Sibship_2018 | Genotype data for E. lori individuals sequenced at 71 microsatellites. |
H. longicornis Population Structure | |
Halanych-Kocot_2014_T1: NCBI accessions | Antarctic invertebrate collection locations and NCBI SRA accessions |
Halanych-Kocot_2014_T3: Best TLR genes from BLASTP search | Best toll-like receptors (TLR) genes from Lophotrochozoa BLASTP search |
Halanych-Kocot_2014_T4: Best other LRR genes from BLASTP search | Best other leucine-rich repeat (LRR) genes from BLASTP search |
Halanych_2013_T1: NCBI accessions | NCBI accessions |
Haloptilus longicornis SRA | H. longicornis SRA, accessions, collection info |
Harder_2016_T1: sea spider Pallenopsis sampling sites and COI NCBI accessions | Sea spider Pallenopsis sampling sites and COI NCBI accessions |
Havird_2015_T1: NCBI accessions: COX and PXDN | NCBI accessions |
Heat priming in Nematostella vectensis: Development of larvae past the planula stage | Heat priming in Nematostella vectensis: Development of larvae past the planula stage |
Heat priming in Nematostella vectensis: Dose-response curves (DRC) quantifying survival after exposure to heat ramps | Heat priming in Nematostella vectensis: Dose-response curves (DRC) quantifying survival after exposure to heat ramps |
Heat priming in Nematostella vectensis: Expression of heat shock protein 70 (HSP70) | Heat priming in Nematostella vectensis: Expression of heat shock protein 70 (HSP70) |
Heat priming in Nematostella vectensis: Heat tolerance (survival) of juveniles | Heat priming in Nematostella vectensis: Heat tolerance (survival) of juveniles |
Heat priming in Nematostella vectensis: Lethal temperature 50s (LT50s) | Heat priming in Nematostella vectensis: Lethal temperature 50s (LT50s) |
Heat priming in Nematostella vectensis: Long-term growth | Heat priming in Nematostella vectensis: Long-term growth |
Heat priming in Nematostella vectensis: Respiration rates and protein content of larvae | Heat priming in Nematostella vectensis: Respiration rates and protein content of larvae |
Heat priming in Nematostella vectensis: Sizes of larvae | Heat priming in Nematostella vectensis: Sizes of larvae |
Host-symbiont reinfections | Symbiont removed and anemone reinfected with one of two strains of Symbiodinium |
Host-Symbiont respiration relationship | Host-symbiont respiration related to symbiont density; anemones from Key Largo |
Illumina Sequences | |
IRN-BRU MV1405 Transect 5 BioGeoChem | |
Isolates | Isolates from Mariana and Kermadec trenches, 2014 |
ITS_sequence_accessions | Diatom ribosomal DNA sequence accession numbers. |
Janosik_2013_T2: outgroup species and accessions | Outgroup species and accessions |
Janosik_2013_T3: matrix of Odontasteridea morphological characters | Matrix of Odontasteridea morphological characters |
JTMD Mytilus population genetics | Population analysis and metagenomics of Japanese tsunami marine debris mussels |
kinetoplastid SSU rRNA seq. | Microbial metatranscriptomics: upper and lower halocline water column |
Krill barcodes | Euphausiid DNA barcode metadata and accession numbers from global oceans |
Long-term PaV1 survey | Long-term PaV1 lobster surveys Florida bayside, 1999-2014 |
MBRS Symbiodinium OTU | Symbiodinium OTU |
McIlroy_2016: Symbionts genotypes in Orbicella faveolata | McIlroy_2016: Genotype of symbionts detected in Orbicella faveolata recruits over time |
McIlroy_2017: Symbionts genotypes in Orbicella faveolata | McIlroy_2017: Genotype of symbionts detected in Orbicella faveolata recruits |
Menidia menidia - Genotyped Offspring | Information about the offspring used in a study of survival of Menidia menidia larvae under high CO2 conditions. |
Menidia menidia - Genotyped Parents | Genotyped parents used in a study of survival of Menidia menidia larvae under high CO2 conditions. |
Metabarcoding zooplankton at station ALOHA: NCBI SRA accession numbers | NCBI Sequence Read Archive (SRA) accession numbers for fastq sequence files for each zooplankton community sample |
Metabarcoding zooplankton at station ALOHA: OTU tables and fasta files | Operational taxonomic unit (OTU) tables and fasta files for representative sequences from each OTU |
Metagenomes - Iberian Margin | Iberian Margin Anaerobic Sediment Metagenomes. |
Metagenomic sequences: IODP Site 1244 | NCBI accession numbers for metagenomic sequences: IODP Site 1244, Hydrate Ridge, offshore Oregon |
metatranscriptomics - upper_lower halocline | Microbial metatranscriptomics: upper and lower halocline water column |
Microbe priority experiment counts | Microbe priority experiment counts (OTU counts) |
Microbes priority annotations (OTU taxonomy) | Microbes priority annotations (OTU taxonomy) |
Microbial 16S rRNA gene amplicon SRA numbers | Microbial 16S rRNA gene amplicon SRA numbers |
Microbial community composition of the Cinder Cones Cold Seep | Microbial community composition of the Cinder Cones Cold Seep |
Microbial eukaryotic diversity: Axial Seamount SRA | Axial seamount SRA |
Microbial eukaryotic diversity: Gorda Ridge SRA | Gorda Ridge SRA |
Microbial incubation diversity and geochemistry | Microbial diversity and geochemistry of marine sediment mesocosm, Cape lookout bight, North Carolina |
Microsatellite primers for Pollicipes elegans | Microsatellite primer sequences from Pollicipes elegans |
MtCOI sequence accessions - Pollicipes elegans | Cytochrome oxidase I DNA sequences from Pollicipes elegans |
MVCO environmental measurements and high throughput sequencing | Links to high throughput sequencing data and associated MVCO environmental measurements |
MVCO Syndiniales amplicon ASV counts | MVCO Syndiniales amplicon ASV counts |
Nematostella ocean acidification experiment: Larval heat tolerance | OA experiment: Nematostella larval heat tolerance |
Nitrite reductase genes sequence accessions | Nitrite reductase genes sequence accessions |
Oyster Cohort Genetics | Database of DNA microsatellite alleles for hatchery-produced oyster cohorts |
Oyster Cohort Traits | Performance traits (e.g., survival, growth, size) for hatchery-produced oyster cohorts |
Oyster genetic identity and parasite community structure | Oyster genetic identity and parasite community structure |
P. xiphias SRA | P. xiphias SRA, accessions, collection info |
Palau lakes: invertebrate barcodes | Palau lakes: invertebrate barcodes |
Palau lakes: voucher summary | Palau lakes: voucher summary |
Peru Margin iTAGs | Fungal iTAG analyses on Peru Margin sediment core samples |
planktonic ciliates: DNA accessions | Planktonic ciliate DNA sequence accession numbers at NCBI GenBank |
Pleurochrysis carterae virus production | Analysis of temporal dynamics of three virus types (ssDNA PcCV, dsDNA PLV, dsDNA PsEV) persistently co-infecting P. carterae CCMP645 |
Pocillopora haplotypes at Moorea by site and depth | Pocillopora haplotypes at Moorea by site and depth |
Poland_2013: Polyp count by symbiont type summary | Polyp count by symbiont type summary |
Poland_2013: Polyp count with multiple symbiont types | Polyp count with multiple symbiont types |
Poland_2013: Symbiont types by site and month | Symbiont types by site and month |
Pollicipes elegans aggregation genotypes | Genotype data for the three adult barnacle aggregations - Pollicipes elegans |
Pollicipes elegans larval genotypes | Larval genotype data for Pollicipes elegans |
poly-A mRNA | The eukaryotic (poly-A) metatranscriptome for Canterbury Basin |
Polychaete DNA sequences | DNA sequence data deposited on GenBank for polychaetes used in the project studying the evolution and mechanics of burrowing. |
Prochlorococcus and Synechococcus nitrite accumulation in batch culture | Prochlorococcus and Synechococcus nitrite accumulation in batch culture |
PRS bacteria identification | Culture-independent identification of bacteria present in the pressure-retaining seawater (PRS) sampler deployed during Leggo drop 1 |
Pxiphias PopStructure mtDNA | Pleuromamma xiphias mitochondrial genetic data (Atlantic; mtDNA) for analyses of population structure across the Atlantic Ocean |
qPCR | Quantitative PCR data from sediment samples |
qPCR | Quantitative PCR data from sediment samples |
qPCR data for archaeal amoA ecotypes | Abundance of ammonia monooxygenase subunit A (amoA) genes determined using TaqMan qPCR. |
qPCR data from the Cariaco Meta-Omics Cruises | qPCR data from the CAR212 and CAR216 cruises. |
Quantitative PCR data | Quantitative PCR targeting Trichodesmium, UCYN-A, UCYN-B, gamma-24774A11, and Het1, based on the nifH gene. |
Raw LC-MS/MS and DNA | Raw LC-MS/MS data, with list of identified peptides, and DNA sequences. |
Red Invasive Seaweed - Raw Genotypes | The genotypes from 9 microsatellites generated on individuals of the red invasive seaweed Gracilaria vermiculophylla. |
RHB_ostracods | Ostracod species from the Ron Brown cruise - Sargasso Sea |
Rockfish microhaplotype sequences | Links to sequence files associated with this project |
Ross Sea sequences | Ross Sea sequences link |
Salp genome and transcriptome | Antarctic salp genome and RNAseq transcriptome |
SBDOM11 mini-remineralization expt. | bacterial abundance, growth rates, and DOC from SBDOM11 cruise |
Sciaenid egg identification | |
SCTLD rapid microbiome characterization | SCTLD microbiome |
Seawater data and site descriptions | Site descriptions and physical environmental conditions of reefs where sampling occurred. |
SEEPC Bivalve DNA Barcoding Results | Bivalve larvae DNA barcode results |
Sequence data accession numbers from mesocosm experiments | Sequence data accession numbers originating from coral and coral mucus experiments. |
Single amplified genomes | Single amplified genomes (SAGs) |
Single-cell genomics of Chloroflexi | Chloroflexi accessions |
Skeletal Organic Matrix Proteins | LC-MS/MS sequenced proteins extracted from Stylophora pistillata skeleton. |
South Atlantic Bight nitro cruises 2014 | Environmental data, nitrifier abundance, ammonia oxidation rates from the South Atlantic Bight |
South Pacific Gyre 16S Amplicons | Accession numbers for raw sequence reads; samples collected on cruise KNOX02RR. |
soxB Sequences | soxB gene sequence data from microbial mats at Axial Seamount, 2011. |
SPOT virus 18S rDNA peak abund | SPOT Microbial Observatory Protist 18S rDNA TRFLP relative peak abundance |
SPOT virus 3H peak abund | SPOT Microbial Observatory Myovirus g23 3' TRFLP relative peak abundance |
SPOT virus 5H peak abund | SPOT Microbial Observatory Myovirus g23 5' TRFLP relative peak abundance |
SPOT virus ARISA | SPOT Microbial Observatory Bacterial ARISA relative peak abundance |
Sulfitobacter phage accessions | Sulfitobacter phage accessions |
Symbiont accession numbers | Accession numbers of symbiotic algae in coral |
Symbiont type in recovering corals | symbiont type in recovering Porites divaricata corals |
T. pseudonana starve-recover experiments: Cell information | |
T. pseudonana starve-recover experiments: Gene information | |
T. rotula Common Garden Experiment | T. rotula Common Garden Experiment |
T. rotula microbiome global sample | T. rotula microbiome global sample |
Temporal genetic patterns in plankton | Temporal genetic patterns in P. xiphias and H. longicornis - Mitochondrial data, station ALOHA |
Trichodesmium AHL metatranscriptomes_AE1409 | GenBank Trichodesmium accessions and associated metadata |
Trichodesmium sequence accessions | GenBank Trichodesmium accessions and associated metadata |
V4 amplicon sequencing of coral tissue | Accession numbers and locations of species analyzed. |
V4 SSU rRNA gene primer validation for reef seawater | Partial SSU rRNA genes of bacteria and archaea from reef seawater samples produced using 515F/806R and 515F/806RB primers |
Whelan_2014_T3: toxin genes identified in Nemertean species | Toxin genes identified in Nemertean species |
Whole community metatranscriptomes | Whole community (3 domain) metatranscriptomes for Peru Margin and Canterbury Basin subsurface sediment core samples |
WS1209 strains | Microbial culture collection, strain IDs, locations and depth from cruise WB1209 |
ZEN 2014 Site Survey Data | Eelgrass 2014 Site Survey Data |
Zostera experiment community biomass | Diversity and biomass of eelgrass inhabitants |