Patient10 saliva 16S_full-length
BioSample: SAMN47766362 · Study: PRJNA1243403 · Body site: Saliva
Interactive report · NCBI SRA · ENA
Relative abundance is normalized among reported taxa. No reported taxa does not establish absence of organisms.
| Species | Genus | Phylum | Abundance |
|---|---|---|---|
| Lactobacillus helveticus | Lactobacillus | Bacillota | 7.40297% |
| Prevotella intermedia | Prevotella | Bacteroidota | 7.04906% |
| Lactobacillus psittaci | Lactobacillus | Bacillota | 5.72565% |
| Prevotella denticola | Prevotella | Bacteroidota | 4.03386% |
| Veillonella parvula | Veillonella | Bacillota | 3.94735% |
| Streptococcus salivarius | Streptococcus | Bacillota | 3.83712% |
| Limosilactobacillus vaginalis | Limosilactobacillus | Bacillota | 3.57263% |
| Prevotella melaninogenica | Prevotella | Bacteroidota | 3.16987% |
| Dialister hominis | Dialister | Bacillota | 2.54883% |
| Prevotella nigrescens | Prevotella | Bacteroidota | 2.39375% |
| Streptococcus anginosus | Streptococcus | Bacillota | 2.27503% |
| Megasphaera elsdenii | Megasphaera | Bacillota | 1.83133% |
| Lactobacillus delbrueckii | Lactobacillus | Bacillota | 1.78110% |
| Selenomonas sputigena | Selenomonas | Bacillota | 1.53151% |
| Fusobacterium nucleatum | Fusobacterium | Fusobacteriota | 1.39318% |
| Campylobacter sputorum | Campylobacter | Pseudomonadota | 1.31288% |
| Prevotella jejuni | Prevotella | Bacteroidota | 1.25277% |
| Megasphaera stantonii | Megasphaera | Bacillota | 1.25252% |
| Limosilactobacillus reuteri | Limosilactobacillus | Bacillota | 1.20961% |
| Streptococcus downei | Streptococcus | Bacillota | 1.18232% |
| Prevotella ruminicola | Prevotella | Bacteroidota | 1.17704% |
| Selenomonas ruminantium | Selenomonas | Bacillota | 1.14830% |
| Leptotrichia hongkongensis | Leptotrichia | Fusobacteriota | 1.12765% |
| Prevotella corporis | Prevotella | Bacteroidota | 1.08397% |
| Limosilactobacillus fermentum | Limosilactobacillus | Bacillota | 1.07142% |
| Prevotella oris | Prevotella | Bacteroidota | 0.97432% |
| Megasphaera sueciensis | Megasphaera | Bacillota | 0.95278% |
| Campylobacter gracilis | Campylobacter | Pseudomonadota | 0.91446% |
| Dialister invisus | Dialister | Bacillota | 0.87219% |
| Veillonella rodentium | Veillonella | Bacillota | 0.84448% |
| Lancefieldella parvula | Lancefieldella | Actinomycetota | 0.83446% |
| Leptotrichia wadei | Leptotrichia | Fusobacteriota | 0.81268% |
| Streptococcus gordonii | Streptococcus | Bacillota | 0.76951% |
| Limosilactobacillus frumenti | Limosilactobacillus | Bacillota | 0.75915% |
| Veillonella dispar | Veillonella | Bacillota | 0.75762% |
| Lactobacillus crispatus | Lactobacillus | Bacillota | 0.73665% |
| Capnocytophaga gingivalis | Capnocytophaga | Bacteroidota | 0.73541% |
| Haemophilus parainfluenzae | Haemophilus | Pseudomonadota | 0.70202% |
| Lactobacillus amylovorus | Lactobacillus | Bacillota | 0.70122% |
| Lactobacillus gasseri | Lactobacillus | Bacillota | 0.69011% |
| Megasphaera paucivorans | Megasphaera | Bacillota | 0.68165% |
| Leptotrichia shahii | Leptotrichia | Fusobacteriota | 0.65540% |
| Ligilactobacillus salivarius | Ligilactobacillus | Bacillota | 0.62301% |
| Prevotella veroralis | Prevotella | Bacteroidota | 0.61259% |
| Streptococcus pneumoniae | Streptococcus | Bacillota | 0.59911% |
| Limosilactobacillus mucosae | Limosilactobacillus | Bacillota | 0.57751% |
| Lactobacillus johnsonii | Lactobacillus | Bacillota | 0.56528% |
| Lactobacillus acetotolerans | Lactobacillus | Bacillota | 0.56313% |
| Prevotella heparinolytica | Prevotella | Bacteroidota | 0.54914% |
| Capnocytophaga sputigena | Capnocytophaga | Bacteroidota | 0.52854% |
| Limosilactobacillus oris | Limosilactobacillus | Bacillota | 0.51773% |
| Megasphaera hexanoica | Megasphaera | Bacillota | 0.49733% |
| Leptotrichia buccalis | Leptotrichia | Fusobacteriota | 0.49479% |
| Selenomonas flueggei | Selenomonas | Bacillota | 0.49053% |
| Dialister propionicifaciens | Dialister | Bacillota | 0.48537% |
| Streptococcus mitis | Streptococcus | Bacillota | 0.46629% |
| Fusobacterium periodonticum | Fusobacterium | Fusobacteriota | 0.46602% |
| Prevotella bryantii | Prevotella | Bacteroidota | 0.45520% |
| Streptococcus mutans | Streptococcus | Bacillota | 0.45057% |
| Capnocytophaga canis | Capnocytophaga | Bacteroidota | 0.43233% |
| Campylobacter showae | Campylobacter | Pseudomonadota | 0.42054% |
| Campylobacter curvus | Campylobacter | Pseudomonadota | 0.41289% |
| Neisseria meningitidis | Neisseria | Pseudomonadota | 0.41232% |
| Parvimonas micra | Parvimonas | Bacillota | 0.40720% |
| Capnocytophaga leadbetteri | Capnocytophaga | Bacteroidota | 0.38990% |
| Neisseria elongata | Neisseria | Pseudomonadota | 0.37045% |
| Dialister pneumosintes | Dialister | Bacillota | 0.37012% |
| Lancefieldella rimae | Lancefieldella | Actinomycetota | 0.36677% |
| Streptococcus pyogenes | Streptococcus | Bacillota | 0.35404% |
| Streptococcus sanguinis | Streptococcus | Bacillota | 0.34136% |
| Megasphaera cerevisiae | Megasphaera | Bacillota | 0.33840% |
| Prevotella copri | Prevotella | Bacteroidota | 0.31618% |
| Prevotella fusca | Prevotella | Bacteroidota | 0.31594% |
| Selenomonas noxia | Selenomonas | Bacillota | 0.31368% |
| Lautropia mirabilis | Lautropia | Pseudomonadota | 0.29798% |
| Neisseria gonorrhoeae | Neisseria | Pseudomonadota | 0.29677% |
| Limosilactobacillus antri | Limosilactobacillus | Bacillota | 0.26884% |
| Gemella palaticanis | Gemella | Bacillota | 0.24736% |
| Gemella haemolysans | Gemella | Bacillota | 0.24432% |
| Granulicatella balaenopterae | Granulicatella | Bacillota | 0.23177% |
| Lautropia dentalis | Lautropia | Pseudomonadota | 0.22731% |
| Lactobacillus ultunensis | Lactobacillus | Bacillota | 0.21744% |
| Veillonella infantium | Veillonella | Bacillota | 0.20364% |
| Streptococcus oralis | Streptococcus | Bacillota | 0.19486% |
| Neisseria lactamica | Neisseria | Pseudomonadota | 0.18894% |
| Streptococcus intermedius | Streptococcus | Bacillota | 0.18566% |
| Veillonella seminalis | Veillonella | Bacillota | 0.18237% |
| Neisseria flavescens | Neisseria | Pseudomonadota | 0.18218% |
| Ottowia pentelensis | Ottowia | Pseudomonadota | 0.17916% |
| Prevotella brevis | Prevotella | Bacteroidota | 0.17651% |
| Lactobacillus kefiranofaciens | Lactobacillus | Bacillota | 0.17541% |
| Neisseria dentiae | Neisseria | Pseudomonadota | 0.17511% |
| Lachnoanaerobaculum orale | Lachnoanaerobaculum | Bacillota | 0.17510% |
| Haemophilus influenzae | Haemophilus | Pseudomonadota | 0.17346% |
| Lachnoanaerobaculum umeaense | Lachnoanaerobaculum | Bacillota | 0.15881% |
| Capnocytophaga ochracea | Capnocytophaga | Bacteroidota | 0.15362% |
| Prevotella oryzae | Prevotella | Bacteroidota | 0.15236% |
| Capnocytophaga haemolytica | Capnocytophaga | Bacteroidota | 0.14739% |
| Neisseria polysaccharea | Neisseria | Pseudomonadota | 0.14515% |
| Leptotrichia hofstadii | Leptotrichia | Fusobacteriota | 0.14512% |
| Prevotella dentasini | Prevotella | Bacteroidota | 0.14261% |
| Campylobacter concisus | Campylobacter | Pseudomonadota | 0.13664% |
| Ottowia oryzae | Ottowia | Pseudomonadota | 0.13438% |
| Capnocytophaga canimorsus | Capnocytophaga | Bacteroidota | 0.13337% |
| Selenomonas infelix | Selenomonas | Bacillota | 0.13197% |
| Neisseria canis | Neisseria | Pseudomonadota | 0.12834% |
| Gemella parahaemolysans | Gemella | Bacillota | 0.12726% |
| Prevotella dentalis | Prevotella | Bacteroidota | 0.12291% |
| Granulicatella adiacens | Granulicatella | Bacillota | 0.12249% |
| Prevotella enoeca | Prevotella | Bacteroidota | 0.12122% |
| Neisseria animaloris | Neisseria | Pseudomonadota | 0.12045% |
| Megasphaera coli | Megasphaera | Bacillota | 0.11785% |
| Campylobacter hyointestinalis | Campylobacter | Pseudomonadota | 0.11719% |
| Prevotella multiformis | Prevotella | Bacteroidota | 0.11685% |
| Leptotrichia trevisanii | Leptotrichia | Fusobacteriota | 0.11560% |
| Actinomyces pacaensis | Actinomyces | Actinomycetota | 0.11402% |
| Selenomonas dianae | Selenomonas | Bacillota | 0.10660% |
| Limosilactobacillus gorillae | Limosilactobacillus | Bacillota | 0.09504% |
| Lactobacillus gallinarum | Lactobacillus | Bacillota | 0.09414% |
| Rothia aeria | Rothia | Actinomycetota | 0.09366% |
| Fusobacterium simiae | Fusobacterium | Fusobacteriota | 0.09091% |
| Fusobacterium necrophorum | Fusobacterium | Fusobacteriota | 0.08995% |
| Megasphaera massiliensis | Megasphaera | Bacillota | 0.08978% |
122 of 123 reported species have an eligible reference. MAFFT alignment and FastTree GTR+CAT tree, pruned to this sample. This is not a phylogeny inferred from sample reads or ASVs. Root placement is arbitrary; branch lengths are substitutions per site.
Files contain the original full run. Downloads are hosted by ENA.
| File | Type / bytes | MD5 |
|---|---|---|
| SRR33005057_1.fastq.gz | FASTQ / 136836893 | 044ed791d7c43be7e531cd60ac3a4551 |
| marker | 16S |
|---|---|
| pipeline | Archaions v18.8 |
| read_sampling | First available reads, not random subsampling |
| input_sha256 | 16accf73e62b0aa025e169132c429948b1269e408dc80b604525e630f33609a1 |
| median_read_length | 1574.0 |
| reads_in_length_window | 28146 |
| length_window_bp | [1200, 2000] |
| quality_scores | Unavailable in fetched FASTA; no measured quality filtering |
| classifier_stats | {"marker": "16s", "pipeline": "v18.8", "gpu": "RTX-PRO-6000", "input_path": "volume-fastq-gz", "reads_in": 30000, "reads_skipped": 5102, "elapsed_seconds": 2.934464987999945, "reads_submitted": 30000, "reads_after_filter": 30000, "adapter_scan": {"sampled": 200, "matched": 15, "fraction": 0.075, "adapters_found": {"27F": 15}, "should_trim": true}, "porechop_ran": false, "porechop_reason": "fast-path: no adapter trimming required"} |
All retrieved values are included. Blank source values are displayed as “Not reported”. Expand the sections below to inspect the full record.
| run_accession | SRR33005057 |
|---|---|
| age | Not reported |
| aligned | Not reported |
| altitude | Not reported |
| assembly_quality | Not reported |
| assembly_software | Not reported |
| bam_aspera | Not reported |
| bam_bytes | Not reported |
| bam_file_role | Not reported |
| bam_ftp | Not reported |
| bam_galaxy | Not reported |
| bam_md5 | Not reported |
| base_count | 147491746 |
| binning_software | Not reported |
| bio_material | Not reported |
| bisulfite_protocol | Not reported |
| broad_scale_environmental_context | Human unstimulated saliva patient10 |
| broker_name | Not reported |
| cage_protocol | Not reported |
| cell_line | Not reported |
| cell_type | Not reported |
| center_name | SUB15232072 |
| checklist | Not reported |
| chip_ab_provider | Not reported |
| chip_protocol | Not reported |
| chip_target | Not reported |
| collected_by | Not reported |
| collection_date | 2021 |
| collection_date_end | 2021-12-31 |
| collection_date_start | 2021-01-01 |
| completeness_score | Not reported |
| contamination_score | Not reported |
| control_experiment | Not reported |
| country | Germany: Dsseldorf |
| cultivar | Not reported |
| culture_collection | Not reported |
| datahub | dcc_metagenome |
| depth | Not reported |
| description | MinION sequencing: Full-Length 16S sequencing of saliva from Alzheimer patients and healthy controls |
| dev_stage | Not reported |
| disease | Not reported |
| dnase_protocol | Not reported |
| ecotype | Not reported |
| elevation | Not reported |
| environment_biome | Human unstimulated saliva patient10 |
| environment_feature | Department of Psychiatry of the LVR-Klinikum Dsseldorf |
| environment_material | Unstimulated saliva |
| environmental_medium | Unstimulated saliva |
| environmental_sample | Not reported |
| experiment_accession | SRX28271067 |
| experiment_alias | pt10 sa 16S full-length |
| experiment_target | Not reported |
| experiment_title | MinION sequencing: Full-Length 16S sequencing of saliva from Alzheimer patients and healthy controls |
| experimental_factor | Not reported |
| experimental_protocol | Not reported |
| extraction_protocol | Not reported |
| faang_library_selection | Not reported |
| fastq_aspera | fasp.sra.ebi.ac.uk:/vol1/fastq/SRR330/057/SRR33005057/SRR33005057_1.fastq.gz |
| fastq_bytes | 136836893 |
| fastq_file_role | GENERATED_FILE |
| fastq_ftp | ftp.sra.ebi.ac.uk/vol1/fastq/SRR330/057/SRR33005057/SRR33005057_1.fastq.gz |
| fastq_galaxy | ftp.sra.ebi.ac.uk/vol1/fastq/SRR330/057/SRR33005057/SRR33005057_1.fastq.gz |
| fastq_md5 | 044ed791d7c43be7e531cd60ac3a4551 |
| file_location | Not reported |
| first_created | 2025-04-08 |
| first_public | 2025-04-08 |
| germline | Not reported |
| hi_c_protocol | Not reported |
| host | Homo sapiens |
| host_body_site | Not reported |
| host_genotype | Not reported |
| host_gravidity | Not reported |
| host_growth_conditions | Not reported |
| host_phenotype | Not reported |
| host_scientific_name | Homo sapiens |
| host_sex | Not reported |
| host_status | Not reported |
| host_tax_id | 9606 |
| identified_by | Not reported |
| instrument_model | MinION |
| instrument_platform | OXFORD_NANOPORE |
| investigation_type | Not reported |
| isolate | Not reported |
| isolation_source | Not reported |
| last_updated | 2025-04-08 |
| lat | 51.2277 |
| library_construction_protocol | Not reported |
| library_gen_protocol | Not reported |
| library_layout | SINGLE |
| library_max_fragment_size | Not reported |
| library_min_fragment_size | Not reported |
| library_name | pt10 sa 16S full-length |
| library_pcr_isolation_protocol | Not reported |
| library_prep_date | Not reported |
| library_prep_date_format | Not reported |
| library_prep_latitude | Not reported |
| library_prep_location | Not reported |
| library_prep_longitude | Not reported |
| library_selection | PCR |
| library_source | GENOMIC |
| library_strategy | AMPLICON |
| local_environmental_context | Department of Psychiatry of the LVR-Klinikum Dsseldorf |
| location | 51.2277 N 6.7735 E |
| location_end | 51.2277 N 6.7735 E |
| location_start | 51.2277 N 6.7735 E |
| lon | 6.7735 |
| marine_region | Not reported |
| mating_type | Not reported |
| ncbi_reporting_standard | MIMARKS.survey;MIGS/MIMS/MIMARKS.human-oral |
| nominal_length | Not reported |
| nominal_sdev | Not reported |
| pcr_isolation_protocol | Not reported |
| ph | Not reported |
| project_name | Not reported |
| protocol_label | Not reported |
| read_count | 96664 |
| read_strand | Not reported |
| restriction_enzyme | Not reported |
| restriction_enzyme_target_sequence | Not reported |
| restriction_site | Not reported |
| rna_integrity_num | Not reported |
| rna_prep_3_protocol | Not reported |
| rna_prep_5_protocol | Not reported |
| rna_purity_230_ratio | Not reported |
| rna_purity_280_ratio | Not reported |
| rt_prep_protocol | Not reported |
| run_alias | patient10.fastq.gz |
| run_date | Not reported |
| salinity | Not reported |
| sample_accession | SAMN47766362 |
| sample_alias | Patient10 saliva 16S_full-length |
| sample_capture_status | Not reported |
| sample_collection | Not reported |
| sample_description | Not reported |
| sample_material | Not reported |
| sample_prep_interval | Not reported |
| sample_prep_interval_units | Not reported |
| sample_storage | Not reported |
| sample_storage_processing | Not reported |
| sample_title | Not reported |
| sampling_campaign | Not reported |
| sampling_platform | Not reported |
| sampling_site | Not reported |
| scientific_name | human oral metagenome |
| secondary_project | Not reported |
| secondary_sample_accession | SRS24617197 |
| secondary_study_accession | SRP573912 |
| sequencing_date | Not reported |
| sequencing_date_format | Not reported |
| sequencing_location | Not reported |
| sequencing_longitude | Not reported |
| sequencing_method | Not reported |
| sequencing_primer_catalog | Not reported |
| sequencing_primer_lot | Not reported |
| sequencing_primer_provider | Not reported |
| serotype | Not reported |
| serovar | Not reported |
| sex | Not reported |
| specimen_voucher | Not reported |
| sra_aspera | Not reported |
| sra_bytes | Not reported |
| sra_file_role | Not reported |
| sra_ftp | Not reported |
| sra_galaxy | Not reported |
| sra_md5 | Not reported |
| status | public |
| strain | Not reported |
| study_accession | PRJNA1243403 |
| study_alias | PRJNA1243403 |
| study_title | Oral microbiota of patients with Alzheimer's disease and healthy controls |
| sub_species | Not reported |
| sub_strain | Not reported |
| submission_accession | SRA2107592 |
| submission_tool | Not reported |
| submitted_aspera | Not reported |
| submitted_bytes | Not reported |
| submitted_file_role | Not reported |
| submitted_format | Not reported |
| submitted_ftp | Not reported |
| submitted_galaxy | Not reported |
| submitted_host_sex | Not reported |
| submitted_md5 | Not reported |
| submitted_read_type | Not reported |
| surveillance_target | Not reported |
| tag | env_geo;env_geo:terrestrial |
| target_gene | Not reported |
| tax_id | 447426 |
| tax_lineage | 1;2787823;12908;408169;410656;447426 |
| taxonomic_classification | Not reported |
| taxonomic_identity_marker | Not reported |
| temperature | Not reported |
| tissue_lib | Not reported |
| tissue_type | Not reported |
| transposase_protocol | Not reported |
| variety | Not reported |
| alias | Patient10 saliva 16S_full-length |
|---|---|
| title | Not reported |
| description | Not reported |
| collection_date | 2021 |
|---|---|
| ENA-FIRST-PUBLIC | 2025-04-08 |
| organism | human oral metagenome |
| ENA-LAST-UPDATE | 2025-04-08 |
| env_broad_scale | Human unstimulated saliva patient10 |
| host | Homo sapiens |
| BioSampleModel | MIGS/MIMS/MIMARKS.human-oral |
| geo_loc_name | Germany: Dsseldorf |
| scientific_name | human oral metagenome |
| env_medium | Unstimulated saliva |
| lat_lon | 51.227700 N 6.77350 E |
| env_local_scale | Department of Psychiatry of the LVR-Klinikum Dsseldorf |
| run | SRR33005057 |
|---|---|
| sample | SAMN47766362 |
| study | PRJNA1243403 |
| title | Not reported |
| alias | Patient10 saliva 16S_full-length |
| site | Saliva |
| subject | Patient10 |
| phenotype | Patient |
| sex | Not reported |
| smoking | Not reported |
| periodontitis | Not reported |
| time_point | Not reported |
| negative_control | False |
| lab_model | False |
| state | complete |
| reads_input | 30000 |
| species_reported | 123 |
| human_primary | True |
Model-based taxonomy; research use. This report does not provide a diagnosis or a validated health score.